Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 93 of 125
Found at i:18158283 original size:18 final size:18
Alignment explanation
Indices: 18158250--18158284 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18158240 ATTAAGAAAT
* *
18158250 ATTAAAATATTTATATTA
1 ATTAAAATAATCATATTA
18158268 ATTAAAATAATCATATT
1 ATTAAAATAATCATATT
18158285 GTTATATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAAAATAATCATATTA
Found at i:18158993 original size:18 final size:18
Alignment explanation
Indices: 18158966--18159004 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
18158956 TCAAGGGTAT
* *
18158966 TTTCAGCCTTTCTTCATA
1 TTTCAACCTTTATTCATA
18158984 TTTCAACCTTTATTCATA
1 TTTCAACCTTTATTCATA
18159002 TTT
1 TTT
18159005 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTCAACCTTTATTCATA
Found at i:18159201 original size:118 final size:117
Alignment explanation
Indices: 18158989--18159216 Score: 341
Period size: 118 Copynumber: 1.9 Consensus size: 117
18158979 TCATATTTCA
* * *
18158989 ACCTTTATTCATATTTATTTATTTTTAATTAAGATAATTTTAAAAATGCATTTTTTAAATAAATT
1 ACCTTTAATCATATTTATTTATTTTTAATTAAGATAATTTTAAAAATACATTTTTAAAATAAATT
* * *
18159054 TGATACATTTAAGATTTTACGTATGAAGTATCTTTTATAAGGTTCCAACTTG
66 TAATACATTCAAGATTTTACGTATAAAGTATCTTTTATAAGGTTCCAACTTG
** *
18159106 ACCTTTAATCATATTTATTTAGTTTTTTGTTAAGATAA-TTTAAAATATATATTTTTAAAATAAA
1 ACCTTTAATCATATTTATTTA-TTTTTAATTAAGATAATTTTAAAA-ATACATTTTTAAAATAAA
*
18159170 TTTAATACATTCAAGATTTTACTTATAAAGTATCTTTTATAAGGTTC
64 TTTAATACATTCAAGATTTTACGTATAAAGTATCTTTTATAAGGTTC
18159217 AAACCCACAT
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
117 27 0.27
118 72 0.73
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.48
Consensus pattern (117 bp):
ACCTTTAATCATATTTATTTATTTTTAATTAAGATAATTTTAAAAATACATTTTTAAAATAAATT
TAATACATTCAAGATTTTACGTATAAAGTATCTTTTATAAGGTTCCAACTTG
Found at i:18159825 original size:23 final size:21
Alignment explanation
Indices: 18159799--18159843 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
18159789 TAGACTTGAT
18159799 TTTATTGATTATTTATTATAAAA
1 TTTATT-ATTATTT-TTATAAAA
* *
18159822 TTTATTTTTATTTTTTTAAAA
1 TTTATTATTATTTTTATAAAA
18159843 T
1 T
18159844 AGAAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 6 0.30
23 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTATTATTATTTTTATAAAA
Found at i:18172298 original size:17 final size:18
Alignment explanation
Indices: 18172270--18172303 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
18172260 CAAAATTGAT
18172270 TTTTATAAAAATATTTTA
1 TTTTATAAAAATATTTTA
18172288 TTTTA-AAAAATATTTT
1 TTTTATAAAAATATTTT
18172304 CTAATATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATAAAAATATTTTA
Found at i:18172848 original size:24 final size:23
Alignment explanation
Indices: 18172802--18172846 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18172792 ATGCCACTTA
18172802 AAAATAAACAAATAGATAAAAAT
1 AAAATAAACAAATAGATAAAAAT
*
18172825 AAAATTAACAAATTA-ATAAAAA
1 AAAATAAACAAA-TAGATAAAAA
18172847 ATGAACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAATAAACAAATAGATAAAAAT
Found at i:18173342 original size:20 final size:20
Alignment explanation
Indices: 18173317--18173362 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
18173307 CCAGAAACTA
18173317 GGAAATGGTCGTCAGATTTT
1 GGAAATGGTCGTCAGATTTT
18173337 GGAAATGGTCGTCAGATTTT
1 GGAAATGGTCGTCAGATTTT
*
18173357 GAAAAT
1 GGAAAT
18173363 AGTCATTGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (20 bp):
GGAAATGGTCGTCAGATTTT
Found at i:18174024 original size:21 final size:20
Alignment explanation
Indices: 18173998--18174043 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
18173988 TTCAATAAAG
18173998 GTAAAAATCATGAAATAAAAT
1 GTAAAAATCATGAAA-AAAAT
* *
18174019 GTAAAAATTATTAAAAAAAT
1 GTAAAAATCATGAAAAAAAT
18174039 -TAAAA
1 GTAAAA
18174044 TCCTACAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 5 0.22
21 13 0.57
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (20 bp):
GTAAAAATCATGAAAAAAAT
Found at i:18177230 original size:23 final size:25
Alignment explanation
Indices: 18177195--18177240 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
18177185 TTTTTATTAA
18177195 ATTAATATAAATT-AT-TATTTTAG
1 ATTAATATAAATTAATATATTTTAG
18177218 ATTAAT-TAGAATTAATATATTTT
1 ATTAATATA-AATTAATATATTTT
18177241 TATTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.10
23 10 0.50
24 2 0.10
25 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTAATATAAATTAATATATTTTAG
Found at i:18184582 original size:17 final size:18
Alignment explanation
Indices: 18184554--18184587 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
18184544 CAAAATTGAT
18184554 TTTTATAAAAATATTTTA
1 TTTTATAAAAATATTTTA
18184572 TTTTA-AAAAATATTTT
1 TTTTATAAAAATATTTT
18184588 CTAATATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATAAAAATATTTTA
Found at i:18193233 original size:57 final size:58
Alignment explanation
Indices: 18193119--18193234 Score: 143
Period size: 57 Copynumber: 2.1 Consensus size: 58
18193109 ATTTATTTTA
* *
18193119 ATTTAATATAAATATATAAAGATTATTTTAAACTTTTAATTATAATACATAATTATAT
1 ATTTAATATAAATATATAAAGAATATTTTAAACTTTTAATTATAATACACAATTATAT
* *
18193177 ATTTAATAT-AATCATATAAA-AATATTTTAAA-TATTTATTTATCATACAC-A-TATAT
1 ATTTAATATAAAT-ATATAAAGAATATTTTAAACT-TTTAATTATAATACACAATTATAT
18193232 ATT
1 ATT
18193235 AACAATATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
55 8 0.15
56 2 0.04
57 26 0.50
58 16 0.31
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (58 bp):
ATTTAATATAAATATATAAAGAATATTTTAAACTTTTAATTATAATACACAATTATAT
Found at i:18193494 original size:57 final size:55
Alignment explanation
Indices: 18193418--18193552 Score: 150
Period size: 57 Copynumber: 2.4 Consensus size: 55
18193408 ATTATTTGTT
* **
18193418 TTATATATTTTATTTTAAATCATACAATAAT-T-GATACCCGTGTATAATTATAAAAGA
1 TTATATAATTTATTTTAAATCATACAATAATATCGATACCAATG-ATAA-T-TAAAA-A
* * * *
18193475 TTATATAATTTATTCTAAATGATACATTAATATCTATACCAATGATAATTAAAAA
1 TTATATAATTTATTTTAAATCATACAATAATATCGATACCAATGATAATTAAAAA
18193530 -TATATAATTTATTTTAAATCATA
1 TTATATAATTTATTTTAAATCATA
18193553 TTATAAATTA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
54 21 0.31
55 1 0.01
56 5 0.07
57 28 0.42
58 5 0.07
59 7 0.10
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.43
Consensus pattern (55 bp):
TTATATAATTTATTTTAAATCATACAATAATATCGATACCAATGATAATTAAAAA
Found at i:18193535 original size:23 final size:23
Alignment explanation
Indices: 18193492--18193535 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
18193482 ATTTATTCTA
* *
18193492 AATGATACATTAATATCTATACC
1 AATGATACATTAAAATATATACC
18193515 AATGATA-ATTAAAAATATATA
1 AATGATACATT-AAAATATATA
18193536 ATTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (23 bp):
AATGATACATTAAAATATATACC
Found at i:18193764 original size:16 final size:16
Alignment explanation
Indices: 18193743--18193780 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18193733 TAATTTCTAG
18193743 ATCATTTTGAGTTCAA
1 ATCATTTTGAGTTCAA
* *
18193759 ATCATTTTGATTTTAA
1 ATCATTTTGAGTTCAA
18193775 ATCATT
1 ATCATT
18193781 ATAAATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (16 bp):
ATCATTTTGAGTTCAA
Found at i:18198114 original size:19 final size:19
Alignment explanation
Indices: 18198090--18198126 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18198080 ACAATTGTTC
18198090 TTTCAACTTGCAAACCATT
1 TTTCAACTTGCAAACCATT
*
18198109 TTTCAACTTGCGAACCAT
1 TTTCAACTTGCAAACCAT
18198127 ACCAGCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (19 bp):
TTTCAACTTGCAAACCATT
Found at i:18204037 original size:15 final size:14
Alignment explanation
Indices: 18204006--18204039 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
18203996 AAATGTTTGG
18204006 AGGAA-CTAAAATT
1 AGGAACCTAAAATT
18204019 AGGAACCTAAAAGTT
1 AGGAACCTAAAA-TT
18204034 AGGAAC
1 AGGAAC
18204040 TAGATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 6 0.32
15 8 0.42
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (14 bp):
AGGAACCTAAAATT
Found at i:18212863 original size:23 final size:24
Alignment explanation
Indices: 18212833--18212879 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
18212823 AGGATAATAG
18212833 CATAATATTTAAAAATA-AAAAAT
1 CATAATATTTAAAAATAGAAAAAT
18212856 CATAATATTTAAAAATAGAAAAAT
1 CATAATATTTAAAAATAGAAAAAT
18212880 AAAAGGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (24 bp):
CATAATATTTAAAAATAGAAAAAT
Found at i:18214134 original size:184 final size:185
Alignment explanation
Indices: 18213803--18214165 Score: 459
Period size: 184 Copynumber: 2.0 Consensus size: 185
18213793 AGTTTTTTAA
*
18213803 TATTCCTTGATTTGAGTTTTTAATTTTAAGTTAAATATTAATTTGTTGTTAATAGAGATTGAAAG
1 TATTCATTGATTTGAGTTTTTAATTTTAAGTTAAATATTAATTTGTTGTTAATAGAGATTGAAAG
* * * ** *
18213868 GTTTCTCAAGGTTTGCAAAGACAAAGAAAAAAGATGAAAAAGTGCTTGATATGTGATAAGTAGGC
66 GTTGCTCAAGCTTTGCAAAGACAAAGAAAAAAGATGAAAAAGTGCTTAATATGCAATAAGTAAGC
* *
18213933 TCTTTATAGCATATATGCTTGCCATTTAATTTTGATTTTGTATCTTTTAAGAGAT
131 TCTTTATAGCATATATGCTTGCCATTTAATTTTGATTTTATATATTTTAAGAGAT
* **
18213988 TATTCATTGATTTG-GATTTTTAATTTTGAGTTAAATATTAGA-TTGTTGTTGGTAGAGA-TGAA
1 TATTCATTGATTTGAG-TTTTTAATTTTAAGTTAAATATTA-ATTTGTTGTTAATAGAGATTGAA
* * * * * *
18214050 AGGTTGCTCATA-CTTTGCAAGGATAGATAAAAAAGATGAGAAGGCT-CTTAATATGCAATCAA-
64 AGGTTGCTCA-AGCTTTGCAAAGACAAAGAAAAAAGATGAAAAAG-TGCTTAATATGCAAT-AAG
* *
18214112 TAAGCTCTTTATAGTATATATGCTTGCCATTTAGTTTTGATTTTATATATTTTA
126 TAAGCTCTTTATAGCATATATGCTTGCCATTTAATTTTGATTTTATATATTTTA
18214166 TGAAATTTTT
Statistics
Matches: 153, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
184 98 0.64
185 54 0.35
186 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.42
Consensus pattern (185 bp):
TATTCATTGATTTGAGTTTTTAATTTTAAGTTAAATATTAATTTGTTGTTAATAGAGATTGAAAG
GTTGCTCAAGCTTTGCAAAGACAAAGAAAAAAGATGAAAAAGTGCTTAATATGCAATAAGTAAGC
TCTTTATAGCATATATGCTTGCCATTTAATTTTGATTTTATATATTTTAAGAGAT
Found at i:18215053 original size:17 final size:17
Alignment explanation
Indices: 18215033--18215075 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
18215023 CTTTTTTCTT
*
18215033 TTATTTTTTTATTATTA
1 TTATTTTTTTACTATTA
** *
18215050 TTATCATTTTACTATTT
1 TTATTTTTTTACTATTA
18215067 TTATTTTTT
1 TTATTTTTT
18215076 GCTTTATTAG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTTTTTACTATTA
Found at i:18217868 original size:16 final size:16
Alignment explanation
Indices: 18217849--18217880 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18217839 AAATACGAAA
*
18217849 TAATTCAAATTTAAAT
1 TAATTCAAATTCAAAT
18217865 TAATTCAAATTCAAAT
1 TAATTCAAATTCAAAT
18217881 GACCTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTCAAATTCAAAT
Found at i:18218739 original size:2 final size:2
Alignment explanation
Indices: 18218726--18218769 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
18218716 AGTTCTAGGT
*
18218726 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18218768 AG
1 AG
18218770 GGGAAATGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18218877 original size:20 final size:21
Alignment explanation
Indices: 18218848--18218892 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
18218838 ATATGGTTAG
*
18218848 TTTTTCCTTTTCCTTTTCTT-
1 TTTTTCCTTTTCATTTTCTTA
* *
18218868 TTTTTTCTTTTTATTTTCTTA
1 TTTTTCCTTTTCATTTTCTTA
18218889 TTTT
1 TTTT
18218893 GTTTATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTCCTTTTCATTTTCTTA
Found at i:18218938 original size:14 final size:15
Alignment explanation
Indices: 18218919--18218952 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18218909 TTGATTTTAT
18218919 TTATTTTTATGA-TA
1 TTATTTTTATGACTA
*
18218933 TTATTTTTATTACTA
1 TTATTTTTATGACTA
18218948 TTATT
1 TTATT
18218953 ATTTTGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATTTTTATGACTA
Found at i:18218966 original size:19 final size:18
Alignment explanation
Indices: 18218931--18218974 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
18218921 ATTTTTATGA
18218931 TATTATTTTTATTACTAT
1 TATTATTTTTATTACTAT
*
18218949 TATTATTTTGTGTTACTAT
1 TATTATTTT-TATTACTAT
*
18218968 TAATATT
1 TATTATT
18218975 CATCCTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (18 bp):
TATTATTTTTATTACTAT
Found at i:18219162 original size:8 final size:8
Alignment explanation
Indices: 18219149--18219181 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
18219139 AATTTTTGCT
18219149 AAAAAATA
1 AAAAAATA
18219157 AAAAAATA
1 AAAAAATA
*
18219165 AACAAATA
1 AAAAAATA
18219173 AAAAAATA
1 AAAAAATA
18219181 A
1 A
18219182 TTAATTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:18227463 original size:21 final size:21
Alignment explanation
Indices: 18227438--18227504 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 21
18227428 TATTAATTTA
18227438 ATATAATAAATAATTTATATT
1 ATATAATAAATAATTTATATT
*
18227459 ATATAATACATAAATTTTATTATT
1 ATATAATAAAT-AA-TTTA-TATT
*
18227483 ATATAGTAAATAATATT-TATT
1 ATATAATAAATAAT-TTATATT
18227504 A
1 A
18227505 ATATTTTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 15 0.38
22 3 0.08
23 8 0.21
24 13 0.33
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (21 bp):
ATATAATAAATAATTTATATT
Found at i:18227487 original size:24 final size:23
Alignment explanation
Indices: 18227438--18227504 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
18227428 TATTAATTTA
18227438 ATATAATAAATAA-TTTA-TATT
1 ATATAATAAATAATTTTATTATT
*
18227459 ATATAATACATAAATTTTATTATT
1 ATATAATAAAT-AATTTTATTATT
*
18227483 ATATAGTAAATAATATTTATTA
1 ATATAATAAATAAT-TTTATTA
18227505 ATATTTTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 10 0.26
22 2 0.05
23 7 0.18
24 20 0.51
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
ATATAATAAATAATTTTATTATT
Found at i:18227561 original size:19 final size:21
Alignment explanation
Indices: 18227520--18227575 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 21
18227510 TTGATAATAA
*
18227520 AAATAAAATTATAAATATCAT
1 AAATAATATTATAAATATCAT
18227541 AAATAATATTA-AAATAT-AT
1 AAATAATATTATAAATATCAT
*
18227560 AAATAAT-TTATGAATA
1 AAATAATATTATAAATA
18227576 CACTTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 6 0.19
21 10 0.31
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATAATATTATAAATATCAT
Found at i:18242821 original size:3 final size:3
Alignment explanation
Indices: 18242813--18242840 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18242803 AAAATCAATT
18242813 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18242841 AAACTTCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18244643 original size:20 final size:20
Alignment explanation
Indices: 18244615--18244663 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
18244605 TGATTAGATT
18244615 AAGTATTTAAAAATATCATG
1 AAGTATTTAAAAATATCATG
*
18244635 AAGTGTTTAAAAATATCATG
1 AAGTATTTAAAAATATCATG
*
18244655 AAGAATTTA
1 AAGTATTTA
18244664 TGATATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (20 bp):
AAGTATTTAAAAATATCATG
Found at i:18244693 original size:21 final size:21
Alignment explanation
Indices: 18244669--18244709 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18244659 ATTTATGATA
*
18244669 TTATTTCTTCTACTTTTAAAC
1 TTATTTATTCTACTTTTAAAC
* *
18244690 TTATTTATTTTATTTTTAAA
1 TTATTTATTCTACTTTTAAA
18244710 GATATTACAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTTATTCTACTTTTAAAC
Found at i:18246413 original size:18 final size:18
Alignment explanation
Indices: 18246378--18246413 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18246368 TTTTCAAATT
*
18246378 TTTTAAAAAATTCTAAAA
1 TTTTAAAAAATTCCAAAA
*
18246396 TTTTAAAAATTTCCAAAA
1 TTTTAAAAAATTCCAAAA
18246414 AAAATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTTAAAAAATTCCAAAA
Found at i:18246434 original size:21 final size:21
Alignment explanation
Indices: 18246392--18246434 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18246382 AAAAAATTCT
* * *
18246392 AAAATTTTAAAAATTTCCAAA
1 AAAAATTTAAAAACTTCAAAA
*
18246413 AAAAATTTAAAAACTTGAAAA
1 AAAAATTTAAAAACTTCAAAA
18246434 A
1 A
18246435 TATTTCTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATTTAAAAACTTCAAAA
Found at i:18246744 original size:20 final size:20
Alignment explanation
Indices: 18246719--18246761 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
18246709 AAACAATTTC
18246719 AAAATTTTGAAACATTTCTT
1 AAAATTTTGAAACATTTCTT
*
18246739 AAAATTTTGAAACATTTTTT
1 AAAATTTTGAAACATTTCTT
18246759 AAA
1 AAA
18246762 TTTAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAATTTTGAAACATTTCTT
Found at i:18247157 original size:20 final size:20
Alignment explanation
Indices: 18247134--18247213 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
18247124 AGTTTTTAGG
*
18247134 ATTTTTTTCGATTTTTTTAA
1 ATTTTTTTCGAATTTTTTAA
* * *
18247154 ATTTTATCCTAATTTTTTAA
1 ATTTTTTTCGAATTTTTTAA
* * *
18247174 TTTTTTTTTGAATTTTTAAA
1 ATTTTTTTCGAATTTTTTAA
*
18247194 AGTTTTTTT-GAAATTTTTAA
1 A-TTTTTTTCGAATTTTTTAA
18247214 CAATTTTTAG
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
20 39 0.85
21 7 0.15
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (20 bp):
ATTTTTTTCGAATTTTTTAA
Found at i:18247199 original size:21 final size:22
Alignment explanation
Indices: 18247175--18247221 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
18247165 ATTTTTTAAT
18247175 TTTTTTTTG-AATTTTTAA-AA
1 TTTTTTTTGAAATTTTTAACAA
*
18247195 GTTTTTTTGAAATTTTTAACAA
1 TTTTTTTTGAAATTTTTAACAA
18247217 TTTTT
1 TTTTT
18247222 AGAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (22 bp):
TTTTTTTTGAAATTTTTAACAA
Found at i:18247201 original size:52 final size:52
Alignment explanation
Indices: 18247144--18247263 Score: 149
Period size: 52 Copynumber: 2.3 Consensus size: 52
18247134 ATTTTTTTCG
* * * *
18247144 ATTTTTTT-AAATTTTAT-CCTAATTTTT-TAATTTTTTTTTGAATTTTTAAA
1 ATTTTTTTGAAATTTTATAAC-AATTTTTAGAATTTTTATTTGAATTTTCAAA
18247194 AGTTTTTTTGAAATTTT-TAACAATTTTTAGAATTTTTATTTGAATTTTCAAA
1 A-TTTTTTTGAAATTTTATAACAATTTTTAGAATTTTTATTTGAATTTTCAAA
*
18247246 ATCTTTTTGAAATTTTAT
1 ATTTTTTTGAAATTTTAT
18247264 TTTAGAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
50 1 0.02
51 29 0.48
52 30 0.50
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (52 bp):
ATTTTTTTGAAATTTTATAACAATTTTTAGAATTTTTATTTGAATTTTCAAA
Found at i:18247220 original size:20 final size:19
Alignment explanation
Indices: 18247177--18247231 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
18247167 TTTTTAATTT
18247177 TTTTTTGAATTTTTAAAAG
1 TTTTTTGAATTTTTAAAAG
18247196 TTTTTTTGAAATTTTTAACAA-
1 -TTTTTTG-AATTTTTAA-AAG
*
18247217 TTTTTAGAATTTTTA
1 TTTTTTGAATTTTTA
18247232 TTTGAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.25
20 13 0.41
21 9 0.28
22 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTTTGAATTTTTAAAAG
Found at i:18247262 original size:31 final size:31
Alignment explanation
Indices: 18247186--18247274 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 31
18247176 TTTTTTTGAA
* *
18247186 TTTTTAAAAGTTTT-TTTGAAATTTTTAACAAT
1 TTTTTGAAA-TTTTATTTG-AATTTTCAACAAT
* *
18247218 TTTTAGAATTTTTATTTGAATTTTCAA-AAT
1 TTTTTGAAATTTTATTTGAATTTTCAACAAT
18247248 CTTTTTGAAATTTTATTTTAGAATTTT
1 -TTTTTGAAATTTTA-TTT-GAATTTT
18247275 TAGAAAATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
30 3 0.06
31 24 0.51
32 13 0.28
33 7 0.15
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.58
Consensus pattern (31 bp):
TTTTTGAAATTTTATTTGAATTTTCAACAAT
Found at i:18247300 original size:10 final size:9
Alignment explanation
Indices: 18247263--18247391 Score: 55
Period size: 10 Copynumber: 13.4 Consensus size: 9
18247253 TGAAATTTTA
18247263 TTTTAGAAT
1 TTTTAGAAT
18247272 TTTTAGAAAAT
1 TTTTAG--AAT
*
18247283 GTTTAGAAT
1 TTTTAGAAT
18247292 TTATTAGAACT
1 TT-TTAGAA-T
18247303 TTTTA-AAT
1 TTTTAGAAT
***
18247311 TTTTTTTAT
1 TTTTAGAAT
* *
18247320 GTTTTATATTT
1 -TTTTAGA-AT
*
18247331 TTTTTGAACT
1 TTTTAGAA-T
* *
18247341 TTTGAAAAT
1 TTTTAGAAT
18247350 TTTT-GAATT
1 TTTTAGAA-T
*
18247359 TTTTATAAT
1 TTTTAGAAT
*
18247368 TTTTCAAAAT
1 TTTT-AGAAT
18247378 CTTTTAGAAT
1 -TTTTAGAAT
18247388 TTTT
1 TTTT
18247392 TAAAACTTTA
Statistics
Matches: 90, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
8 7 0.08
9 32 0.36
10 35 0.39
11 16 0.18
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (9 bp):
TTTTAGAAT
Found at i:18247307 original size:20 final size:20
Alignment explanation
Indices: 18247263--18247314 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
18247253 TGAAATTTTA
18247263 TTTTAGAATTTTTAGAAAAT
1 TTTTAGAATTTTTAGAAAAT
* *
18247283 GTTTAGAATTTATTAG-AACT
1 TTTTAGAATTT-TTAGAAAAT
18247303 TTTTA-AATTTTT
1 TTTTAGAATTTTT
18247315 TTTATGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 2 0.07
19 5 0.18
20 17 0.61
21 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTTAGAATTTTTAGAAAAT
Found at i:18247352 original size:18 final size:18
Alignment explanation
Indices: 18247331--18247371 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
18247321 TTTTATATTT
18247331 TTTTTGAACTTTTGAAAA
1 TTTTTGAACTTTTGAAAA
* * *
18247349 TTTTTGAATTTTTTATAA
1 TTTTTGAACTTTTGAAAA
18247367 TTTTT
1 TTTTT
18247372 CAAAATCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (18 bp):
TTTTTGAACTTTTGAAAA
Found at i:18247353 original size:38 final size:38
Alignment explanation
Indices: 18247280--18247371 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 38
18247270 ATTTTTAGAA
* * * * * *
18247280 AATG-TTTAGAATTTATTAGAACTTTTTAAATTTTTTT
1 AATGTTTTATAATTTTTTTGAACTTTTGAAAATTTTTG
* *
18247317 TATGTTTTATATTTTTTTTGAACTTTTGAAAATTTTTG
1 AATGTTTTATAATTTTTTTGAACTTTTGAAAATTTTTG
*
18247355 AATTTTTTATAATTTTT
1 AATGTTTTATAATTTTT
18247372 CAAAATCTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
37 3 0.07
38 40 0.93
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (38 bp):
AATGTTTTATAATTTTTTTGAACTTTTGAAAATTTTTG
Found at i:18247388 original size:20 final size:19
Alignment explanation
Indices: 18247359--18247400 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
18247349 TTTTTGAATT
*
18247359 TTTTATAATTTTTCAAAATC
1 TTTTAGAATTTTTCAAAA-C
*
18247379 TTTTAGAATTTTTTAAAAC
1 TTTTAGAATTTTTCAAAAC
18247398 TTT
1 TTT
18247401 ATTTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTAGAATTTTTCAAAAC
Found at i:18248291 original size:29 final size:30
Alignment explanation
Indices: 18248227--18248312 Score: 75
Period size: 29 Copynumber: 2.8 Consensus size: 30
18248217 AATAGTTTTT
* * *
18248227 AAATTATAATAAAATATTTAATATGATATTC
1 AAATTAT-TTAAAATAATTAATATGACATTC
* *
18248258 AAATT-TTTAAAATAATTAATATTACATTT
1 AAATTATTTAAAATAATTAATATGACATTC
* *
18248287 GAATTATTTAATCATTAATTAATATG
1 AAATTATTTAA--AATAATTAATATG
18248313 GTACCAGAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
29 22 0.50
30 6 0.14
31 5 0.11
32 11 0.25
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (30 bp):
AAATTATTTAAAATAATTAATATGACATTC
Found at i:18249328 original size:19 final size:19
Alignment explanation
Indices: 18249274--18249407 Score: 66
Period size: 19 Copynumber: 7.2 Consensus size: 19
18249264 TGGTTAGGTT
* *
18249274 TTTGGTTTAGGGTTTGGGG
1 TTTGATTTAGGGTTTAGGG
* * *
18249293 CTTGGTTTAGGGCTTAGGG
1 TTTGATTTAGGGTTTAGGG
* *
18249312 TTTGATTTATGGTTTAGGA
1 TTTGATTTAGGGTTTAGGG
* *
18249331 TTAT-ATTT--TGTTTAAGG
1 TT-TGATTTAGGGTTTAGGG
**
18249348 TTTGATTTAACGTTTAGGG
1 TTTGATTTAGGGTTTAGGG
18249367 TTTGGGA-TTAGGGTTT--GG
1 TTT--GATTTAGGGTTTAGGG
*
18249385 TTTAGGATTTAAGG-TTAGGG
1 TTT--GATTTAGGGTTTAGGG
18249405 TTT
1 TTT
18249408 AGGGTTTAGT
Statistics
Matches: 89, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
16 1 0.01
17 12 0.13
18 10 0.11
19 51 0.57
20 13 0.15
21 2 0.02
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (19 bp):
TTTGATTTAGGGTTTAGGG
Found at i:18249369 original size:7 final size:7
Alignment explanation
Indices: 18249359--18249692 Score: 149
Period size: 7 Copynumber: 49.6 Consensus size: 7
18249349 TTGATTTAAC
18249359 GTTTAGG
1 GTTTAGG
18249366 GTTT-GG
1 GTTTAGG
*
18249372 GATTAGG
1 GTTTAGG
18249379 GTTT--G
1 GTTTAGG
18249384 GTTTAGG
1 GTTTAGG
* *
18249391 ATTTAAG
1 GTTTAGG
18249398 G-TTAGG
1 GTTTAGG
18249404 GTTTAGG
1 GTTTAGG
18249411 GTTTA--
1 GTTTAGG
*
18249416 GTTTAGA
1 GTTTAGG
18249423 GTTTAGG
1 GTTTAGG
18249430 AG-TTA-G
1 -GTTTAGG
*
18249436 GATTAGG
1 GTTTAGG
18249443 GTTT--G
1 GTTTAGG
18249448 GTTT-GG
1 GTTTAGG
18249454 G-TTAGG
1 GTTTAGG
*
18249460 GTTTTGAG
1 GTTTAG-G
*
18249468 CTTTAAGG
1 GTTT-AGG
*
18249476 TTTATAGG
1 GTT-TAGG
18249484 GTTCTAGG
1 GTT-TAGG
18249492 GTTTAGG
1 GTTTAGG
* *
18249499 ATTTTAGA
1 -GTTTAGG
18249507 GTTTA-G
1 GTTTAGG
*
18249513 GTTTAAG
1 GTTTAGG
18249520 GTTT-GG
1 GTTTAGG
*
18249526 GATTAGG
1 GTTTAGG
*
18249533 ATTT--G
1 GTTTAGG
*
18249538 GTTTAAG
1 GTTTAGG
18249545 GTTTAGG
1 GTTTAGG
* *
18249552 GGTAAGG
1 GTTTAGG
**
18249559 G-TTAAA
1 GTTTAGG
*
18249565 GTTTAAG
1 GTTTAGG
18249572 GTTT--G
1 GTTTAGG
*
18249577 GTTTAGA
1 GTTTAGG
*
18249584 GTTTAGA
1 GTTTAGG
*
18249591 GTTTAGA
1 GTTTAGG
*
18249598 GTTTAAG
1 GTTTAGG
18249605 GTTTAGG
1 GTTTAGG
*
18249612 GTTTAGA
1 GTTTAGG
*
18249619 GTTTAAG
1 GTTTAGG
18249626 GTTTAGG
1 GTTTAGG
18249633 GTTT-GG
1 GTTTAGG
*
18249639 CTAAGTTTAGA
1 ----GTTTAGG
18249650 GTTT-GG
1 GTTTAGG
18249656 AG-TTAGG
1 -GTTTAGG
18249663 G-TTAGG
1 GTTTAGG
18249669 GTTTAGG
1 GTTTAGG
18249676 GTTT-GG
1 GTTTAGG
* *
18249682 GATTAGA
1 GTTTAGG
18249689 GTTT
1 GTTT
18249693 GATTTAAGGT
Statistics
Matches: 252, Mismatches: 43, Indels: 64
0.70 0.12 0.18
Matches are distributed among these distances:
5 27 0.11
6 48 0.19
7 145 0.58
8 25 0.10
9 2 0.01
10 4 0.02
11 1 0.00
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:18249410 original size:32 final size:32
Alignment explanation
Indices: 18249346--18249451 Score: 119
Period size: 32 Copynumber: 3.3 Consensus size: 32
18249336 TTTTGTTTAA
* *
18249346 GGTTTGATTTA-ACGTTTAGGGTTTGGGATTAG
1 GGTTTGGTTTAGA-GTTTAGGGTTAGGGATTAG
* *
18249378 GGTTTGGTTTAG-GATTTAAGGTTAGGGTTTAG
1 GGTTTGGTTTAGAG-TTTAGGGTTAGGGATTAG
*
18249410 GGTTTAGTTTAGAGTTTAGGAGTTA-GGATTAG
1 GGTTTGGTTTAGAGTTTAGG-GTTAGGGATTAG
18249442 GGTTTGGTTT
1 GGTTTGGTTT
18249452 GGGTTAGGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
31 1 0.02
32 56 0.90
33 5 0.08
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (32 bp):
GGTTTGGTTTAGAGTTTAGGGTTAGGGATTAG
Found at i:18249426 original size:19 final size:20
Alignment explanation
Indices: 18249384--18249430 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
18249374 TTAGGGTTTG
*
18249384 GTTTAGGATTTAAGGTTAGG
1 GTTTAGGATTTAAGGTTAGA
* *
18249404 GTTTAGGGTTT-AGTTTAGA
1 GTTTAGGATTTAAGGTTAGA
18249423 GTTTAGGA
1 GTTTAGGA
18249431 GTTAGGATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (20 bp):
GTTTAGGATTTAAGGTTAGA
Found at i:18249427 original size:39 final size:39
Alignment explanation
Indices: 18249351--18249617 Score: 140
Period size: 39 Copynumber: 6.7 Consensus size: 39
18249341 TTTAAGGTTT
* *
18249351 GATTTAACGTTTAGGGTTT-GGGATTAGGGTTT-G-GTTTAG
1 GATTTAA-GGTTAGGGTTTAGGGTTTA--GTTTAGAGTTTAG
18249390 GATTTAAGGTTAGGGTTTAGGGTTTAGTTTAGAGTTTAG
1 GATTTAAGGTTAGGGTTTAGGGTTTAGTTTAGAGTTTAG
* * * * *
18249429 GAGTT-AGGATTAGGGTTT--GGTTTGGGTTAGGGTTTTG
1 GATTTAAGG-TTAGGGTTTAGGGTTTAGTTTAGAGTTTAG
*
18249466 AGCTTTAAGGTTTATAGGGTTCTAGGGTTTAGGATTTTAGAGTTTAG
1 -GATTTAAGG--T-TAGGGTT-TAGGGTTTA-G--TTTAGAGTTTAG
* * * *
18249513 G-TTTAAGGTTTGGGATTAGGATTTGGTTTA-AGGTTTAG
1 GATTTAAGGTTAGGGTTTAGGGTTTAGTTTAGA-GTTTAG
** ** * *
18249551 G-GGTAAGGGTTAAAGTTTAAGGTTTGGTTTAGAGTTTA-
1 GATTTAA-GGTTAGGGTTTAGGGTTTAGTTTAGAGTTTAG
* *
18249589 GAGTTTAGAGTTTAAGGTTTAGGGTTTAG
1 GA-TTTA-AGGTTAGGGTTTAGGGTTTAG
18249618 AGTTTAAGGT
Statistics
Matches: 176, Mismatches: 32, Indels: 39
0.71 0.13 0.16
Matches are distributed among these distances:
37 20 0.11
38 32 0.18
39 58 0.33
40 21 0.12
41 15 0.09
42 6 0.03
43 1 0.01
44 5 0.03
45 8 0.05
46 1 0.01
47 9 0.05
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (39 bp):
GATTTAAGGTTAGGGTTTAGGGTTTAGTTTAGAGTTTAG
Found at i:18249435 original size:19 final size:19
Alignment explanation
Indices: 18249384--18249446 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
18249374 TTAGGGTTTG
* *
18249384 GTTTAGGATTTAAGGTTAGG
1 GTTTAGGAGTT-AGGTTAGA
*
18249404 GTTTAGG-GTTTAGTTTAGA
1 GTTTAGGAG-TTAGGTTAGA
*
18249423 GTTTAGGAGTTAGGATTAGG
1 GTTTAGGAGTTAGG-TTAGA
18249443 GTTT
1 GTTT
18249447 GGTTTGGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (19 bp):
GTTTAGGAGTTAGGTTAGA
Found at i:18249478 original size:64 final size:65
Alignment explanation
Indices: 18249341--18249479 Score: 146
Period size: 64 Copynumber: 2.2 Consensus size: 65
18249331 TTATATTTTG
* * *
18249341 TTTAAGGTTT-GATTTAACGTTTAGGGTTTGGGATTAGGGTTTGGTTTAGGATTTAAGGTTAGGG
1 TTTAAGGTTTAGATTTAACGTTTAGGGTTTAGGATTAGGGTTTGGTTTAGGAGTTAAGGTTAGGC
* * *
18249405 TTTAGGGTTTAG-TTTAGA-GTTTAGGAG-TTAGGATTAGGGTTTGGTTT-GG-GTTAGGGTTTT
1 TTTAAGGTTTAGATTTA-ACGTTTAGG-GTTTAGGATTAGGGTTTGGTTTAGGAGTTAAGG-TTA
18249465 GAGC
63 G-GC
18249469 TTTAAGGTTTA
1 TTTAAGGTTTA
18249480 TAGGGTTCTA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
62 5 0.08
63 5 0.08
64 50 0.79
65 3 0.05
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (65 bp):
TTTAAGGTTTAGATTTAACGTTTAGGGTTTAGGATTAGGGTTTGGTTTAGGAGTTAAGGTTAGGC
Found at i:18251879 original size:18 final size:21
Alignment explanation
Indices: 18251856--18251900 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
18251846 TTTTTAAGTT
18251856 TTATTTT-TCACTTTTT-T-A
1 TTATTTTGTCACTTTTTGTAA
*
18251874 TTATTTTGTTACTTTTTGTAA
1 TTATTTTGTCACTTTTTGTAA
18251895 TTATTT
1 TTATTT
18251901 AATAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 8 0.35
20 1 0.04
21 7 0.30
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (21 bp):
TTATTTTGTCACTTTTTGTAA
Found at i:18252843 original size:3 final size:3
Alignment explanation
Indices: 18252837--18252866 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18252827 TTGTTGTGAA
18252837 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18252867 TTCGTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18254884 original size:3 final size:3
Alignment explanation
Indices: 18254878--18254981 Score: 145
Period size: 3 Copynumber: 34.7 Consensus size: 3
18254868 TAATAATAAT
* * * * * * *
18254878 AAC AAC AAC AAC AAT AAC AAT AGC AAC AAA AAC AAC AAT AAT AAC AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
18254926 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
18254974 AAC AAC AA
1 AAC AAC AA
18254982 TAATAATAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.67, C:0.27, G:0.01, T:0.05
Consensus pattern (3 bp):
AAC
Found at i:18254986 original size:3 final size:3
Alignment explanation
Indices: 18254980--18255023 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
18254970 CAACAACAAC
18254980 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18255024 ATGATCCAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18255393 original size:43 final size:43
Alignment explanation
Indices: 18255341--18255524 Score: 189
Period size: 43 Copynumber: 4.4 Consensus size: 43
18255331 GCTAGGTCAC
* * * *
18255341 TTTTGAAAATTTAAAAGGCTATTCTAAGTAGAGGTTTAATAAT
1 TTTTAAAAATTTAAAAGGCTATTCTAAGTAGAGGCTTAACAAA
** * ** *
18255384 TTTTAAAAATTTAAAAAACTCTTC----TA-AGGCTCGATAAA
1 TTTTAAAAATTTAAAAGGCTATTCTAAGTAGAGGCTTAACAAA
* *
18255422 TTTTGAAAATTTAAAAGGCTTTTCTAAGTAGAGGCTTAACAAA
1 TTTTAAAAATTTAAAAGGCTATTCTAAGTAGAGGCTTAACAAA
* * * *
18255465 TTTTAAAAATTTAAAAGGCTACTCTAAGCAGAAGCTTAACAAG
1 TTTTAAAAATTTAAAAGGCTATTCTAAGTAGAGGCTTAACAAA
18255508 TTTTAAAAATTTAAAAG
1 TTTTAAAAATTTAAAAG
18255525 ACTTCTCTAA
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 28 0.24
39 2 0.02
42 2 0.02
43 83 0.72
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (43 bp):
TTTTAAAAATTTAAAAGGCTATTCTAAGTAGAGGCTTAACAAA
Found at i:18255533 original size:43 final size:43
Alignment explanation
Indices: 18255419--18255537 Score: 175
Period size: 43 Copynumber: 2.8 Consensus size: 43
18255409 AAGGCTCGAT
* * * *
18255419 AAATTTTGAAAATTTAAAAGGCTTTTCTAAGTAGAGGCTTAAC
1 AAATTTTAAAAATTTAAAAGGCTTCTCTAAGCAGAAGCTTAAC
*
18255462 AAATTTTAAAAATTTAAAAGGCTACTCTAAGCAGAAGCTTAAC
1 AAATTTTAAAAATTTAAAAGGCTTCTCTAAGCAGAAGCTTAAC
* *
18255505 AAGTTTTAAAAATTTAAAAGACTTCTCTAAGCA
1 AAATTTTAAAAATTTAAAAGGCTTCTCTAAGCA
18255538 AATGTTATGA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (43 bp):
AAATTTTAAAAATTTAAAAGGCTTCTCTAAGCAGAAGCTTAAC
Found at i:18255884 original size:36 final size:36
Alignment explanation
Indices: 18255844--18255940 Score: 124
Period size: 36 Copynumber: 2.7 Consensus size: 36
18255834 AAAGCTATTT
*
18255844 TAACCAAAGGATATAAGACTTTAAA-AAAGGCTCCTC
1 TAACCAAAGGATATAAGACTTTAAAGAAA-ACTCCTC
* * *
18255880 TAACCAAAGGTTATGATACTTTAAAGAAAACTCCTC
1 TAACCAAAGGATATAAGACTTTAAAGAAAACTCCTC
* *
18255916 TAATCAAAGGCTATAAGACTTTAAA
1 TAACCAAAGGATATAAGACTTTAAA
18255941 TAGCTTATCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 49 0.94
37 3 0.06
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (36 bp):
TAACCAAAGGATATAAGACTTTAAAGAAAACTCCTC
Found at i:18255961 original size:34 final size:33
Alignment explanation
Indices: 18255923--18256037 Score: 88
Period size: 34 Copynumber: 3.3 Consensus size: 33
18255913 CTCTAATCAA
*
18255923 AGGCTATAAGACTTTAAATAGCTTATCTAAGTAG
1 AGGCTATAA-ACTTTAAATAGCTTATCTAACTAG
** * * * *
18255957 AGGCTCGACACTTTAAAGAAAGCTCT-TCTGATTAG
1 AGGCTATAAACTTT-AA-ATAGCT-TATCTAACTAG
* *
18255992 AGGCAATGAAACTTTAAATAGCTTATCTAACCAG
1 AGGCTAT-AAACTTTAAATAGCTTATCTAACTAG
18256026 AGGCTATGAAAC
1 AGGCTAT-AAAC
18256038 ATAAAATTTA
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
33 6 0.10
34 30 0.49
35 18 0.30
36 7 0.11
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (33 bp):
AGGCTATAAACTTTAAATAGCTTATCTAACTAG
Found at i:18256006 original size:69 final size:69
Alignment explanation
Indices: 18255897--18256030 Score: 180
Period size: 69 Copynumber: 1.9 Consensus size: 69
18255887 AGGTTATGAT
* **
18255897 ACTTTAAAGAAAACTCCTCTAATCAAAGGCTATAAGACTTTAAATAGCTTATCTAAGTAGAGGCT
1 ACTTTAAAGAAAACTCCTCTAATCAAAGGCAATAAGACTTTAAATAGCTTATCTAACCAGAGGCT
18255962 CGAC
66 CGAC
* * * * *
18255966 ACTTTAAAGAAAGCTCTTCTGATTAGAGGCAATGAA-ACTTTAAATAGCTTATCTAACCAGAGGC
1 ACTTTAAAGAAAACTCCTCTAATCAAAGGCAAT-AAGACTTTAAATAGCTTATCTAACCAGAGGC
18256030 T
65 T
18256031 ATGAAACATA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 54 0.96
70 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (69 bp):
ACTTTAAAGAAAACTCCTCTAATCAAAGGCAATAAGACTTTAAATAGCTTATCTAACCAGAGGCT
CGAC
Found at i:18256399 original size:33 final size:33
Alignment explanation
Indices: 18256337--18256424 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 33
18256327 GGTATGAAAC
* * * **
18256337 TTGAATGATTTCTCTAAACATAAATTATGAAGT
1 TTGAATGATTCCTCTAAATAGAAGCTATGAAGT
*
18256370 TTGAATTATTCCTCTAAATAGAAGCTATGAAGT
1 TTGAATGATTCCTCTAAATAGAAGCTATGAAGT
*
18256403 TTGAGTGATTCCTCTAAATAGA
1 TTGAATGATTCCTCTAAATAGA
18256425 GGGCTTACAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (33 bp):
TTGAATGATTCCTCTAAATAGAAGCTATGAAGT
Found at i:18262145 original size:194 final size:194
Alignment explanation
Indices: 18261816--18262208 Score: 687
Period size: 194 Copynumber: 2.0 Consensus size: 194
18261806 CATTATTAAT
18261816 AAGCACTTTGGCCAGTATATGATCCTTGTATCATGTTGAGCTATGTAAGGCCTTAGCATAACCCT
1 AAGCACTTTGGCCAGTATATGATCCTTGTATCATGTTGAGCTATGTAAGGCCTTAGCATAACCCT
18261881 TACCACTAGGTAGAATCTCATTATCACTAAACAATATAAAATTCTCCACTATGATGTTTCCCATT
66 TACCACTAGGTAGAATCTCATTATCACTAAACAATATAAAATTCTCCACTATGATGTTTCCCATT
* * *
18261946 ATGCAATCAAGTTTCTCTACAGATATATTGTAAGCTATATAAGCCTTGTTGAGTACTTTAAGCA
131 ATGCAATCAAGTTTATCCACAGATATATTGTAAGCTATATAAGCCTTATTGAGTACTTTAAGCA
*
18262010 AAGCACTTTGGCCAGTATATGATCCTTGTATCATGTTGAGCTATGTAAGGCCTTAGCATCACCCT
1 AAGCACTTTGGCCAGTATATGATCCTTGTATCATGTTGAGCTATGTAAGGCCTTAGCATAACCCT
** *
18262075 TACCACTAGGTAGAATCTCATTATCACTAAATGATATAAAATTCTCCACTATGATGTTTCTCATT
66 TACCACTAGGTAGAATCTCATTATCACTAAACAATATAAAATTCTCCACTATGATGTTTCCCATT
* * * *
18262140 ATGCAATCAAGTTTATCCATAGATATATTGTAAGCTATATAAGCTTTATTGAGTGCTTTGAGCA
131 ATGCAATCAAGTTTATCCACAGATATATTGTAAGCTATATAAGCCTTATTGAGTACTTTAAGCA
18262204 AAGCA
1 AAGCA
18262209 TTTCTATTAA
Statistics
Matches: 188, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
194 188 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (194 bp):
AAGCACTTTGGCCAGTATATGATCCTTGTATCATGTTGAGCTATGTAAGGCCTTAGCATAACCCT
TACCACTAGGTAGAATCTCATTATCACTAAACAATATAAAATTCTCCACTATGATGTTTCCCATT
ATGCAATCAAGTTTATCCACAGATATATTGTAAGCTATATAAGCCTTATTGAGTACTTTAAGCA
Found at i:18270578 original size:3 final size:3
Alignment explanation
Indices: 18270572--18270599 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18270562 GTTGTGAAAC
18270572 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18270600 TTCGTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18271012 original size:20 final size:21
Alignment explanation
Indices: 18270974--18271012 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
18270964 TATTTAATTA
*
18270974 ATTTTATTGTCATTTTTTTTC
1 ATTTTATTGTCATTATTTTTC
*
18270995 ATTTT-TTGTTATTATTTT
1 ATTTTATTGTCATTATTTT
18271013 CTATTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (21 bp):
ATTTTATTGTCATTATTTTTC
Found at i:18271031 original size:13 final size:14
Alignment explanation
Indices: 18271003--18271031 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18270993 TCATTTTTTG
18271003 TTATTATTTTCTAT
1 TTATTATTTTCTAT
18271017 TTATTATTTTC-AT
1 TTATTATTTTCTAT
18271030 TT
1 TT
18271032 TCCTATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATTATTTTCTAT
Found at i:18271206 original size:21 final size:21
Alignment explanation
Indices: 18271168--18271214 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
18271158 TTTTTCATTT
*
18271168 ATTTTATTATTATTAAAACA-A
1 ATTTTATTATTA-TAAAAAATA
* *
18271189 ATTTTATTTTTGTAAAAAATA
1 ATTTTATTATTATAAAAAATA
18271210 ATTTT
1 ATTTT
18271215 TAAATTATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTTTATTATTATAAAAAATA
Found at i:18273315 original size:33 final size:32
Alignment explanation
Indices: 18273260--18273362 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 32
18273250 TCTTTAAATG
* *
18273260 TTTATTTATCCT-ATTAGTTATTTATTCATGT
1 TTTATTTATCTTGTTTAGTTATTTATTCATGT
* *
18273291 ATTTATTTATCTTGTTTAGTTATTTTTTTAT-T
1 -TTTATTTATCTTGTTTAGTTATTTATTCATGT
* *
18273323 TTTATTTAT-TTGTTGTTAGTTATTTATCCTTGT
1 TTTATTTATCTTG-T-TTAGTTATTTATTCATGT
18273356 TTTATTT
1 TTTATTT
18273363 TATATTTATC
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
30 3 0.05
31 10 0.17
32 24 0.41
33 22 0.37
ACGTcount: A:0.18, C:0.06, G:0.08, T:0.68
Consensus pattern (32 bp):
TTTATTTATCTTGTTTAGTTATTTATTCATGT
Found at i:18273331 original size:18 final size:19
Alignment explanation
Indices: 18273305--18273388 Score: 63
Period size: 18 Copynumber: 4.5 Consensus size: 19
18273295 ATTTATCTTG
*
18273305 TTTAGTTATTT-TTTTATT
1 TTTATTTATTTGTTTTATT
18273323 TTTATTTATTTGTTGTTA--
1 TTTATTTATTTGTT-TTATT
*
18273341 GTTATTTATCCTTGTTTTATT
1 TTTATTTAT--TTGTTTTATT
18273362 TTATATTTATCTTG---TATT
1 TT-TATTTAT-TTGTTTTATT
18273380 TTTATTTAT
1 TTTATTTAT
18273389 CAACTTTGTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
17 7 0.12
18 24 0.43
19 5 0.09
20 8 0.14
21 5 0.09
22 7 0.12
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTATTTATTTGTTTTATT
Found at i:18280790 original size:9 final size:9
Alignment explanation
Indices: 18280776--18280807 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
18280766 ATCATTCAAC
18280776 TAATAATTA
1 TAATAATTA
18280785 TAATAATTA
1 TAATAATTA
18280794 TAATAATCTA
1 TAATAAT-TA
18280804 TAAT
1 TAAT
18280808 GATGTACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATAATTA
Found at i:18281834 original size:3 final size:3
Alignment explanation
Indices: 18281820--18281854 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
18281810 AGTACCTTTA
* *
18281820 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18281855 AAGACAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18284397 original size:214 final size:211
Alignment explanation
Indices: 18283995--18284379 Score: 453
Period size: 214 Copynumber: 1.8 Consensus size: 211
18283985 TGAAGAAAAA
*
18283995 ATTTTTTATTATATTGAAAATTTTCTATAATTATTCCAATAAACTGATAATATTTTAAAAAATCT
1 ATTTTTTATTATATTGAAAATTTTCTATAAATATTCCAATAAACTGATAATATTTTAAAAAATCT
* * * ** * * ** *
18284060 TCTTATCTAGAGATTTCTTAAAGCATCTTTACTTGAAATACTTTTAGAATCCCGTCATCGGATAA
66 TCTCAACTAGAGATTTCGTAAAGCATCACTACTCGAAATACATTTAGAATCCAATCATCAGATAA
* *
18284125 AATTTTATTTTTCTTATTTTTTTTTATCATTTTATTACTTTATTAATTAATTTTTATTTACTATT
131 AAATTTATTTTTCTTATTTTTATTTA-CATTTTATTAC-TTATTAATTAATTTTTATTT-CTATT
18284190 TTATAACAAAAAAAAAGAT
193 TTATAACAAAAAAAAAGAT
* * * *
18284209 ATTTTTTATTGTATTGAAAATTTTTTTATAAATACTT-C-ATACACTGGTAATATTTTAAAAAAC
1 ATTTTTTATTATATTGAAAA-TTTTCTATAAATA-TTCCAATAAACTGATAATATTTTAAAAAA-
* * * *
18284272 TCTTCTCAACTAGAGATTTCGT-AAGTATCACTACTCGAAGTACATTT-GAATCTAATCGTCAGA
63 TCTTCTCAACTAGAGATTTCGTAAAGCATCACTACTCGAAATACATTTAGAATCCAATCATCAGA
18284335 TAAAAATTT-TTTTTCTTACATTTTTATTTA-A-TTTATTA-TTATTAA
128 TAAAAATTTATTTTTCTT--ATTTTTATTTACATTTTATTACTTATTAA
18284380 AAGGTTTTAT
Statistics
Matches: 145, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
209 7 0.05
211 7 0.05
212 9 0.06
213 19 0.13
214 70 0.48
215 31 0.21
216 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (211 bp):
ATTTTTTATTATATTGAAAATTTTCTATAAATATTCCAATAAACTGATAATATTTTAAAAAATCT
TCTCAACTAGAGATTTCGTAAAGCATCACTACTCGAAATACATTTAGAATCCAATCATCAGATAA
AAATTTATTTTTCTTATTTTTATTTACATTTTATTACTTATTAATTAATTTTTATTTCTATTTTA
TAACAAAAAAAAAGAT
Found at i:18285110 original size:17 final size:17
Alignment explanation
Indices: 18285088--18285123 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18285078 TCAGCCAAAA
18285088 TTTTTTTTATGTTTGTG
1 TTTTTTTTATGTTTGTG
* *
18285105 TTTTTTTTTTTTTTGTG
1 TTTTTTTTATGTTTGTG
18285122 TT
1 TT
18285124 GAGGTCTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.83
Consensus pattern (17 bp):
TTTTTTTTATGTTTGTG
Found at i:18285326 original size:23 final size:23
Alignment explanation
Indices: 18285297--18285345 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
18285287 TTTATAAAGC
*
18285297 TTTTTGAGATTCAAATCCTAGAT
1 TTTTTGAGATTCAAATCCCAGAT
18285320 TTTTTGAGATTCAAATCCCAGAT
1 TTTTTGAGATTCAAATCCCAGAT
18285343 TTT
1 TTT
18285346 CAAGCTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (23 bp):
TTTTTGAGATTCAAATCCCAGAT
Found at i:18285554 original size:3 final size:3
Alignment explanation
Indices: 18285546--18285582 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18285536 AAGAAAAAAT
18285546 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 A
18285583 ATACAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18285863 original size:50 final size:48
Alignment explanation
Indices: 18285749--18286122 Score: 391
Period size: 47 Copynumber: 7.8 Consensus size: 48
18285739 TTGAAAATTT
** * * * *
18285749 AAAAAGGCTCCTCTAAACAGAGGCTTAACAACTTTAAAAATCCATCTTA
1 AAAAA-GCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTCTATCTTG
*
18285798 AAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAATTCATCATCTTG
1 AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTC-T-ATCTTG
** *
18285848 AAAAAGCTATTCTAAGTAGAGGCTCAACAATTTTAAAAATT-TATCTTG
1 AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTT-AAAATTCTATCTTG
* *
18285896 AAAAAGCTCCTCTAAGCAGATGG-TCAATAACTTTAAAATT-TATCTTG
1 AAAAAGCTCCTCTAAGTAGA-GGCTCAACAACTTTAAAATTCTATCTTG
* * * *
18285943 AAAAAGTTCCTCTAAGCAGAGGTTCAACAACTTTAAAATTCATCATTTTGG
1 AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTC-T-ATCTT-G
*
18285994 AAAAA-CTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTC-ATTTTG
1 AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTCTATCTTG
* * * ** *
18286040 GAAAAGCTTCTCTAAGTAGAGGCTTAATGATTTTAAAATT-TATCTTG
1 AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTCTATCTTG
* * * *
18286087 AAAAAGCTTCTCTAAGCAGAGGTTCAACGACTTTAA
1 AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAA
18286123 GACTCTCATC
Statistics
Matches: 280, Mismatches: 34, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
46 7 0.03
47 117 0.42
48 63 0.22
49 9 0.03
50 72 0.26
51 12 0.04
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (48 bp):
AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTCTATCTTG
Found at i:18285964 original size:145 final size:144
Alignment explanation
Indices: 18285749--18286122 Score: 475
Period size: 144 Copynumber: 2.6 Consensus size: 144
18285739 TTGAAAATTT
* * ** * * *
18285749 AAAAAGGCTCCTCTAAACAGAGGCTTAACAACTTTAAAAATCCATCTTAAAAAAGCTCATCTAAG
1 AAAAA-GCTCCTCTAAGCAGAGGCTTAATAACTTT-AAAATTTATCTTGAAAAAGTTCCTCTAAG
* * *
18285814 TAGAGGCTCAACAACTTTAAAATTCATCATCTT-GAAAAAGCTATTCTAAGTAGAGGCTCAACAA
64 CAGAGGTTCAACAACTTTAAAATTCATCATCTTGGAAAAA-CTACTCTAAGTAGAGGCTCAACAA
* *
18285878 TTTTAAAAATTTATCTTG
128 CTTT-AAAATTCATCTTG
*
18285896 AAAAAGCTCCTCTAAGCAGATGG-TCAATAACTTTAAAATTTATCTTGAAAAAGTTCCTCTAAGC
1 AAAAAGCTCCTCTAAGCAGA-GGCTTAATAACTTTAAAATTTATCTTGAAAAAGTTCCTCTAAGC
* *
18285960 AGAGGTTCAACAACTTTAAAATTCATCATTTTGGAAAAACTCCTCTAAGTAGAGGCTCAACAACT
65 AGAGGTTCAACAACTTTAAAATTCATCATCTTGGAAAAACTACTCTAAGTAGAGGCTCAACAACT
*
18286025 TTAAAATTCATTTTG
130 TTAAAATTCATCTTG
* * * * *
18286040 GAAAAGCTTCTCTAAGTAGAGGCTTAATGATTTTAAAATTTATCTTGAAAAAGCTT-CTCTAAGC
1 AAAAAGCTCCTCTAAGCAGAGGCTTAATAACTTTAAAATTTATCTTGAAAAAG-TTCCTCTAAGC
*
18286104 AGAGGTTCAACGACTTTAA
65 AGAGGTTCAACAACTTTAA
18286123 GACTCTCATC
Statistics
Matches: 200, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
143 2 0.01
144 81 0.41
145 81 0.41
146 29 0.14
147 7 0.04
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (144 bp):
AAAAAGCTCCTCTAAGCAGAGGCTTAATAACTTTAAAATTTATCTTGAAAAAGTTCCTCTAAGCA
GAGGTTCAACAACTTTAAAATTCATCATCTTGGAAAAACTACTCTAAGTAGAGGCTCAACAACTT
TAAAATTCATCTTG
Found at i:18295169 original size:21 final size:21
Alignment explanation
Indices: 18295145--18295209 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
18295135 TTATACTTGG
18295145 ATCAGGCTATGAGTGGTAGGA
1 ATCAGGCTATGAGTGGTAGGA
*
18295166 ATCAAGCTATGAGTGGTAGGA
1 ATCAGGCTATGAGTGGTAGGA
18295187 ATCAGGCTATGAGTGGTAGGA
1 ATCAGGCTATGAGTGGTAGGA
18295208 AT
1 AT
18295210 AAACTGCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.31, C:0.09, G:0.35, T:0.25
Consensus pattern (21 bp):
ATCAGGCTATGAGTGGTAGGA
Found at i:18299130 original size:21 final size:19
Alignment explanation
Indices: 18299094--18299156 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 19
18299084 ATCGAAAGAG
*
18299094 AAAAGAAAAAGAAGAAAAAT
1 AAAA-AAAAAGGAGAAAAAT
18299114 AAAGAAAGAAAGGAGAACAAAAT
1 AAA-AAA-AAAGGAG-A-AAAAT
18299137 AAAAAAAAAGGA-AAAAAT
1 AAAAAAAAAGGAGAAAAAT
18299155 AA
1 AA
18299157 TAAATACAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 7 0.18
19 1 0.03
20 5 0.13
21 13 0.34
22 4 0.11
23 8 0.21
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAGGAGAAAAAT
Found at i:18299917 original size:20 final size:19
Alignment explanation
Indices: 18299894--18299932 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
18299884 TATTAAAATC
*
18299894 TTTACTTTATTATTTTAAAA
1 TTTAATTTATTA-TTTAAAA
*
18299914 TTTAATTTTTTATTTAAAA
1 TTTAATTTATTATTTAAAA
18299933 AGATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAATTTATTATTTAAAA
Found at i:18301685 original size:3 final size:3
Alignment explanation
Indices: 18301677--18301708 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18301667 AATATAAAAG
18301677 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18301709 TAATACATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18304221 original size:2 final size:2
Alignment explanation
Indices: 18304214--18304244 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
18304204 AAAAAGAATC
18304214 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
18304245 CGATACTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18306404 original size:73 final size:73
Alignment explanation
Indices: 18306285--18306429 Score: 195
Period size: 73 Copynumber: 2.0 Consensus size: 73
18306275 TTTCTTTCTA
* * * * *
18306285 GCCAATAAAATTGGATGTAAAGTGGCTGTAGATAATCACATTTTTGGTTTTCTGTGTTGAGTTAT
1 GCCAATAAAACTGCATGTAAAGTGGCTGTAGACAATCACATCTTTGGTTTTATGTGTTGAGTTAT
18306350 TACTTTTG
66 TACTTTTG
*
18306358 GCCAATAAAACTGCATGTAAAGTGGCT-TCAGACAA-CGGCATCTTTGGTTTTATGTGTTGAGTT
1 GCCAATAAAACTGCATGTAAAGTGGCTGT-AGACAATC-ACATCTTTGGTTTTATGTGTTGAGTT
*
18306421 GTTACTTTT
64 ATTACTTTT
18306430 AGTCATGGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
72 2 0.03
73 61 0.97
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (73 bp):
GCCAATAAAACTGCATGTAAAGTGGCTGTAGACAATCACATCTTTGGTTTTATGTGTTGAGTTAT
TACTTTTG
Found at i:18309468 original size:18 final size:18
Alignment explanation
Indices: 18309400--18309488 Score: 56
Period size: 18 Copynumber: 4.9 Consensus size: 18
18309390 AGCAAAAAAA
*
18309400 TTTTAATTTTAAGTTT-G
1 TTTTAATTTTAATTTTAG
* *
18309417 ATTTTAACTTTAATTTTGG
1 -TTTTAATTTTAATTTTAG
* **
18309436 TTTTTA-TTCGATTTTAG
1 TTTTAATTTTAATTTTAG
* *
18309453 TTTTAATTTTGATTTTTTAT
1 TTTTAATTTT-A-ATTTTAG
*
18309473 TTTTAATTTTAGTTTT
1 TTTTAATTTTAATTTT
18309489 TATTATTTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
17 13 0.24
18 25 0.45
19 2 0.04
20 15 0.27
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (18 bp):
TTTTAATTTTAATTTTAG
Found at i:18309476 original size:20 final size:21
Alignment explanation
Indices: 18309447--18309500 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
18309437 TTTTATTCGA
*
18309447 TTTTAGTTTTAATTTT-GATT
1 TTTTATTTTTAATTTTAGATT
*
18309467 TTTTATTTTTAATTTTAGTTT
1 TTTTATTTTTAATTTTAGATT
18309488 TTATTATTTTTAA
1 TT-TTATTTTTAA
18309501 AGTCAAACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 15 0.50
21 5 0.17
22 10 0.33
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (21 bp):
TTTTATTTTTAATTTTAGATT
Found at i:18309497 original size:47 final size:46
Alignment explanation
Indices: 18309399--18309497 Score: 119
Period size: 49 Copynumber: 2.1 Consensus size: 46
18309389 AAGCAAAAAA
*
18309399 ATTTTAATTTTAAGTTTGATTTTAACTTTAATTTTGGTTTTTATTC
1 ATTTTAATTTTAAGTTTGATTTTAACTTTAATTTTAGTTTTTATTC
* * **
18309445 GATTTTAGTTTTAATTTTGATTTTTTATTTTTAATTTTAGTTTTTATT-
1 -ATTTTAATTTTAAGTTTGA--TTTTAACTTTAATTTTAGTTTTTATTC
18309493 ATTTT
1 ATTTT
18309498 TAAAGTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
47 22 0.49
49 23 0.51
ACGTcount: A:0.22, C:0.02, G:0.08, T:0.68
Consensus pattern (46 bp):
ATTTTAATTTTAAGTTTGATTTTAACTTTAATTTTAGTTTTTATTC
Found at i:18310621 original size:26 final size:25
Alignment explanation
Indices: 18310565--18310621 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
18310555 GCAGAGCTAA
18310565 ATTT-TTTTTGTTATATTTATATAT
1 ATTTATTTTTGTTATATTTATATAT
* * *
18310589 ATATATTTATTGTTATATTTATTTTT
1 ATTTATTT-TTGTTATATTTATATAT
18310615 ATTTATT
1 ATTTATT
18310622 ATCCATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 3 0.11
25 3 0.11
26 21 0.78
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (25 bp):
ATTTATTTTTGTTATATTTATATAT
Found at i:18311440 original size:16 final size:16
Alignment explanation
Indices: 18311419--18311463 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
18311409 ATTTTTTTCC
*
18311419 TTATTTGTAT-TTTAT
1 TTATTTATATATTTAT
18311434 TTCATTTATATATTTAT
1 TT-ATTTATATATTTAT
18311451 TTATTTTATATAT
1 TTA-TTTATATAT
18311464 ATGTCATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 8 0.31
17 16 0.62
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TTATTTATATATTTAT
Found at i:18313862 original size:27 final size:25
Alignment explanation
Indices: 18313824--18313920 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 25
18313814 GTTTCATTAA
* * *
18313824 GGTTTCATTTAGGGTTCTGACTTTAG
1 GGTTTAATTTAGGGTT-TAAATTTAG
*
18313850 GGTTGTAATTTAGGGTTTTAATTTTAG
1 GGTT-TAATTTAGGG-TTTAAATTTAG
* * *
18313877 GGTTTCAATCTAGGATTTCAATTTAG
1 GGTTT-AATTTAGGGTTTAAATTTAG
18313903 GGTTTTAATTTTAGGGTT
1 GG-TTTAA-TTTAGGGTT
18313921 GGGGTTTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
26 18 0.32
27 37 0.65
28 2 0.04
ACGTcount: A:0.21, C:0.06, G:0.25, T:0.48
Consensus pattern (25 bp):
GGTTTAATTTAGGGTTTAAATTTAG
Found at i:18313863 original size:13 final size:13
Alignment explanation
Indices: 18313812--18313920 Score: 91
Period size: 13 Copynumber: 8.4 Consensus size: 13
18313802 TTAGAGTTTC
18313812 GGGTTTC-A-TTA
1 GGGTTTCAATTTA
*
18313823 AGGTTTC-ATTTA
1 GGGTTTCAATTTA
* *
18313835 GGGTTCTGACTTTA
1 GGGTT-TCAATTTA
18313849 GGGTTGT-AATTTA
1 GGGTT-TCAATTTA
*
18313862 GGGTTTTAATTTTA
1 GGGTTTCAA-TTTA
*
18313876 GGGTTTCAATCTA
1 GGGTTTCAATTTA
*
18313889 GGATTTCAATTTA
1 GGGTTTCAATTTA
*
18313902 GGGTTTTAATTTTA
1 GGGTTTCAA-TTTA
18313916 GGGTT
1 GGGTT
18313921 GGGGTTTTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
11 7 0.09
12 8 0.10
13 34 0.43
14 31 0.39
ACGTcount: A:0.21, C:0.06, G:0.25, T:0.48
Consensus pattern (13 bp):
GGGTTTCAATTTA
Found at i:18313932 original size:19 final size:20
Alignment explanation
Indices: 18313902--18313939 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18313892 TTTCAATTTA
*
18313902 GGGTTTTAATTTTAGGGTTG
1 GGGTTTTAATTTTAAGGTTG
18313922 GGGTTTT-ATTTTAAGGTT
1 GGGTTTTAATTTTAAGGTT
18313940 TCATTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.53
Consensus pattern (20 bp):
GGGTTTTAATTTTAAGGTTG
Found at i:18314219 original size:3 final size:3
Alignment explanation
Indices: 18314211--18314248 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18314201 ATTTAAAATC
18314211 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18314249 TAAAACTGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18320211 original size:19 final size:21
Alignment explanation
Indices: 18320189--18320237 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
18320179 TTTTTTTTCA
18320189 TTTTCATTTTTTT-G-TTG-T
1 TTTTCATTTTTTTGGTTTGCT
**
18320207 TTTTTTTTTTTTTGGTTTGCT
1 TTTTCATTTTTTTGGTTTGCT
18320228 TTTTCATTTT
1 TTTTCATTTT
18320238 GTTTTGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 11 0.46
19 1 0.04
20 3 0.12
21 9 0.38
ACGTcount: A:0.04, C:0.06, G:0.10, T:0.80
Consensus pattern (21 bp):
TTTTCATTTTTTTGGTTTGCT
Found at i:18320237 original size:23 final size:22
Alignment explanation
Indices: 18320189--18320253 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 22
18320179 TTTTTTTTCA
18320189 TTTTCA-TTT-TTTTG--TTGT
1 TTTTCATTTTGTTTTGATTTGT
* *
18320207 TTTT--TTTTTTTTTGGTTTGCT
1 TTTTCATTTTGTTTTGATTTG-T
18320228 TTTTCATTTTGTTTTGATTTGT
1 TTTTCATTTTGTTTTGATTTGT
18320250 TTTT
1 TTTT
18320254 AGGACAACAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 3 0.08
18 9 0.24
20 3 0.08
21 5 0.13
22 5 0.13
23 13 0.34
ACGTcount: A:0.05, C:0.05, G:0.12, T:0.78
Consensus pattern (22 bp):
TTTTCATTTTGTTTTGATTTGT
Found at i:18320557 original size:35 final size:34
Alignment explanation
Indices: 18320382--18320563 Score: 102
Period size: 35 Copynumber: 5.1 Consensus size: 34
18320372 CCACAAGTCA
18320382 AAAAATGAAAAATGACTAGGATGACA-T-TACGAGTT
1 AAAAAT-AAAAATGACTAGGATGACACTGTA--AGTT
* * *
18320417 AAAAAATAAATATGACCAGGATGACACCGTAAGTT
1 -AAAAATAAAAATGACTAGGATGACACTGTAAGTT
* * * *
18320452 AGAAAATAAAGAATGA-TCAAGATGATACTGCAAGTC
1 A-AAAATAAA-AATGACT-AGGATGACACTGTAAGTT
* * * ** *
18320488 AAAAA-GAAAATAACTACTGAAACAACACTATAAGTT
1 AAAAATAAAAATGACTA--G-GATGACACTGTAAGTT
* *
18320524 AAAAATAAAGAACGACTAGGATGACACTGTAAGTC
1 AAAAATAAA-AATGACTAGGATGACACTGTAAGTT
18320559 AAAAA
1 AAAAA
18320564 ATGTAAAATG
Statistics
Matches: 107, Mismatches: 28, Indels: 23
0.68 0.18 0.15
Matches are distributed among these distances:
33 5 0.05
34 4 0.04
35 49 0.46
36 39 0.36
37 4 0.04
38 6 0.06
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.19
Consensus pattern (34 bp):
AAAAATAAAAATGACTAGGATGACACTGTAAGTT
Found at i:18320819 original size:35 final size:36
Alignment explanation
Indices: 18320780--18320862 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
18320770 AAATGACATT
18320780 GCAAGTCAAAAA-TAAAGAATGACCAAGACAACACC
1 GCAAGTCAAAAAGTAAAGAATGACCAAGACAACACC
* * *
18320815 GCAAGTCAAAAAGTAAATAATGATCTAGACAACACC
1 GCAAGTCAAAAAGTAAAGAATGACCAAGACAACACC
*
18320851 ACAAGTCAAAAA
1 GCAAGTCAAAAA
18320863 ATAATGAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 12 0.28
36 31 0.72
ACGTcount: A:0.54, C:0.20, G:0.13, T:0.12
Consensus pattern (36 bp):
GCAAGTCAAAAAGTAAAGAATGACCAAGACAACACC
Found at i:18321095 original size:37 final size:38
Alignment explanation
Indices: 18321051--18321151 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 38
18321041 GAATGACCTA
* *
18321051 GACAACACCGCAAGTCGAAAAAT-AAGAAAACGATTGG
1 GACAACACCGCAAGTCAAAAAATAAAAAAAACGATTGG
* * * **
18321088 GATAACACCGTAAGCCAAAAAATAAAAAAAATTATTGG
1 GACAACACCGCAAGTCAAAAAATAAAAAAAACGATTGG
* *
18321126 GACAACACCGCAAGTTAGAAAATAAA
1 GACAACACCGCAAGTCAAAAAATAAA
18321152 GAATGATCGG
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
37 19 0.37
38 32 0.63
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (38 bp):
GACAACACCGCAAGTCAAAAAATAAAAAAAACGATTGG
Found at i:18321194 original size:75 final size:75
Alignment explanation
Indices: 18321051--18321192 Score: 189
Period size: 74 Copynumber: 1.9 Consensus size: 75
18321041 GAATGACCTA
* *
18321051 GACAACACCGCAAGTCGAAAAATAAGAAAACGATTGGGATAACACCGTAAGCCAAAAAATAAAAA
1 GACAACACCGCAAGTAGAAAAATAAGAAAACGATCGGGATAACACCGTAAGCCAAAAAATAAAAA
18321116 AAATTATTGG
66 AAATTATTGG
* * * * * *
18321126 GACAACACCGCAAGTTAG-AAAATAA-AGAATGATCGGGATGACATCGTTAGTCAAAAAATAAAA
1 GACAACACCGCAAG-TAGAAAAATAAGAAAACGATCGGGATAACACCGTAAGCCAAAAAATAAAA
18321189 AAAA
65 AAAA
18321193 ATGATCGAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
74 35 0.60
75 21 0.36
76 2 0.03
ACGTcount: A:0.52, C:0.15, G:0.18, T:0.15
Consensus pattern (75 bp):
GACAACACCGCAAGTAGAAAAATAAGAAAACGATCGGGATAACACCGTAAGCCAAAAAATAAAAA
AAATTATTGG
Found at i:18321364 original size:33 final size:32
Alignment explanation
Indices: 18321274--18321365 Score: 130
Period size: 32 Copynumber: 2.8 Consensus size: 32
18321264 ATTTTGGTGA
*
18321274 TAGATAAACTGGACTTAAATTTCATTGAAGGC
1 TAGATAAACTAGACTTAAATTTCATTGAAGGC
* * *
18321306 TAGCTAAACTAGGCTTAAATTTCATTGAGGGC
1 TAGATAAACTAGACTTAAATTTCATTGAAGGC
*
18321338 TAGATAAATTAGACTTAAAATTTCATTG
1 TAGATAAACTAGACTT-AAATTTCATTG
18321366 GGTGCCAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
32 41 0.79
33 11 0.21
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (32 bp):
TAGATAAACTAGACTTAAATTTCATTGAAGGC
Found at i:18321642 original size:35 final size:33
Alignment explanation
Indices: 18321564--18321882 Score: 111
Period size: 33 Copynumber: 9.6 Consensus size: 33
18321554 AGAAGCCAAG
*** * *
18321564 TAAACTAGGCTT-AAATTTCATTGGAAACTAGC
1 TAAACTAGGCTTAAAATTTCATTGGGTGCCAGA
* * *
18321596 TAAGCTGGGCTTTAAAATCTTCATTGGGTGCCAGG
1 TAAACTAGGC-TTAAAAT-TTCATTGGGTGCCAGA
* *
18321631 TAAACTAGGCTTAAAATATTTC-TTTGGTGCTAGA
1 TAAACTAGGCTT-AAA-ATTTCATTGGGTGCCAGA
****
18321665 TAAACTAGGCTTAAAATTTCATCATATGCCAGA
1 TAAACTAGGCTTAAAATTTCATTGGGTGCCAGA
* *
18321698 TAAATTGGGCTT-AAA----ATTGGGTGCCA-A
1 TAAACTAGGCTTAAAATTTCATTGGGTGCCAGA
*
18321725 CTAAGCTAGGCTTAGAAATTCTTTTCA-TGGTGTGCCAGA
1 -TAAACTAGGCTTA-AAA----TTTCATTGG-GTGCCAGA
* * * * * * *
18321764 TCAATTGGGCTTAAATTTTTATTGGGAGCCAGC
1 TAAACTAGGCTTAAAATTTCATTGGGTGCCAGA
** * * **
18321797 TAAGTTGGGCTTTAAAATCTTTATT-GGTATCA-A
1 TAAACTAGGC-TTAAAAT-TTCATTGGGTGCCAGA
* * ** * *
18321830 GTAAATTGGGCTTAAAATTTTTTTTGGTGCCAAA
1 -TAAACTAGGCTTAAAATTTCATTGGGTGCCAGA
18321864 TAAACTAGGCTTAAAATTT
1 TAAACTAGGCTTAAAATTT
18321883 AATTAGTACC
Statistics
Matches: 215, Mismatches: 47, Indels: 49
0.69 0.15 0.16
Matches are distributed among these distances:
27 1 0.00
28 16 0.07
30 3 0.01
32 21 0.10
33 69 0.32
34 50 0.23
35 31 0.14
36 2 0.01
37 5 0.02
38 16 0.07
39 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (33 bp):
TAAACTAGGCTTAAAATTTCATTGGGTGCCAGA
Found at i:18321857 original size:33 final size:33
Alignment explanation
Indices: 18321766--18321899 Score: 112
Period size: 33 Copynumber: 4.1 Consensus size: 33
18321756 GTGCCAGATC
*
18321766 AATTGGGCTT-AAATTTTTATTGGGAGCC-AGCTA
1 AATTGGGCTTAAAATTTTTATTGGTA-CCAAG-TA
* * *
18321799 AGTTGGGCTTTAAAATCTTTATTGGTATCAAGTA
1 AATTGGGC-TTAAAATTTTTATTGGTACCAAGTA
* * *
18321833 AATTGGGCTTAAAATTTTTTTTGGTGCCAAATA
1 AATTGGGCTTAAAATTTTTATTGGTACCAAGTA
* * * * *
18321866 AACTAGGCTTAAAA-TTTAATTAGTACCAAATA
1 AATTGGGCTTAAAATTTTTATTGGTACCAAGTA
18321898 AA
1 AA
18321900 ACTGGGCTAT
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
32 16 0.20
33 39 0.48
34 12 0.15
35 15 0.18
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (33 bp):
AATTGGGCTTAAAATTTTTATTGGTACCAAGTA
Found at i:18322180 original size:32 final size:32
Alignment explanation
Indices: 18322143--18322219 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
18322133 CATGTAACAA
18322143 ATAATCTGGGCTTAA-ACTTTCACTAATGCCAG
1 ATAATCTGGGCTTAAGACTTT-ACTAATGCCAG
* * *
18322175 ATAATCTGGGTTTAAGACTTTATTAGTGCCAG
1 ATAATCTGGGCTTAAGACTTTACTAATGCCAG
*
18322207 ATAATTTGGGCTT
1 ATAATCTGGGCTT
18322220 GTGTGCCAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 34 0.87
33 5 0.13
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (32 bp):
ATAATCTGGGCTTAAGACTTTACTAATGCCAG
Found at i:18322258 original size:54 final size:54
Alignment explanation
Indices: 18322180--18322297 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
18322170 GCCAGATAAT
* * *
18322180 CTGGGTTTAAGACTTTATTAGTGCCAGATAATTTGGGCTTGTGTGCCAACTACA
1 CTGGGCTTAAGACTTAATTAGTGCCAGATAATATGGGCTTGTGTGCCAACTACA
* * * * *
18322234 CTGGGCTTAAGACTTAATTGGTGCCAGATAATATGGGCTTTTGTGCTAGCTATA
1 CTGGGCTTAAGACTTAATTAGTGCCAGATAATATGGGCTTGTGTGCCAACTACA
*
18322288 CTAGGCTTAA
1 CTGGGCTTAA
18322298 ATCTCAGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (54 bp):
CTGGGCTTAAGACTTAATTAGTGCCAGATAATATGGGCTTGTGTGCCAACTACA
Found at i:18322352 original size:32 final size:32
Alignment explanation
Indices: 18322311--18322401 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 32
18322301 TCAGTAATGA
* *
18322311 CAGATAATCTAGGCTTAAGACTTTATTGGTGC
1 CAGATAATCTAGGCTTAAGACTTCATTGGTAC
*
18322343 CAGATAATCTGGGCTTAAGACTTCATTGGTAC
1 CAGATAATCTAGGCTTAAGACTTCATTGGTAC
* *
18322375 TAGATAATCTAGGCTTAGGACTTCATT
1 CAGATAATCTAGGCTTAAGACTTCATT
18322402 AGTGTCATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (32 bp):
CAGATAATCTAGGCTTAAGACTTCATTGGTAC
Found at i:18322499 original size:7 final size:7
Alignment explanation
Indices: 18322487--18322535 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
18322477 TTTGTTTTTA
18322487 TTTTATT
1 TTTTATT
18322494 TTTTATT
1 TTTTATT
* *
18322501 CTGTATT
1 TTTTATT
18322508 TTTTATT
1 TTTTATT
*
18322515 TTTTATA
1 TTTTATT
18322522 TTTTATT
1 TTTTATT
*
18322529 TATTATT
1 TTTTATT
18322536 ACTATTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (7 bp):
TTTTATT
Found at i:18322509 original size:14 final size:12
Alignment explanation
Indices: 18322481--18322545 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
18322471 TTTCAATTTG
18322481 TTTTTATTTTAT
1 TTTTTATTTTAT
18322493 TTTTTATTCTGTAT
1 TTTTTATT-T-TAT
18322507 TTTTTA--TT-T
1 TTTTTATTTTAT
*
18322516 TTTATATTTTAT
1 TTTTTATTTTAT
* *
18322528 TTATTATTACTAT
1 TTTTTATT-TTAT
18322541 TTTTT
1 TTTTT
18322546 TATTATTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
9 6 0.14
10 1 0.02
11 3 0.07
12 15 0.36
13 8 0.19
14 9 0.21
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:18322534 original size:21 final size:21
Alignment explanation
Indices: 18322482--18322573 Score: 65
Period size: 21 Copynumber: 4.7 Consensus size: 21
18322472 TTCAATTTGT
*
18322482 TTTTA-TT-TTATTTTTTATT
1 TTTTATTTATTATTTTTTATA
* * *
18322501 CTGTATTTTTTATTTTTTATA
1 TTTTATTTATTATTTTTTATA
18322522 TTTTATTTATTA----TTACTA
1 TTTTATTTATTATTTTTTA-TA
*
18322540 TTTT-TTTATTATTTGTATATA
1 TTTTATTTATTATTT-TTTATA
18322561 TTTT-TTTATTATT
1 TTTTATTTATTATT
18322574 ACTTATCTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
17 10 0.17
18 6 0.10
19 3 0.05
20 2 0.03
21 35 0.60
22 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTATTTATTATTTTTTATA
Found at i:18322536 original size:3 final size:3
Alignment explanation
Indices: 18322528--18322681 Score: 50
Period size: 3 Copynumber: 47.7 Consensus size: 3
18322518 TATATTTTAT
* * *
18322528 TTA TTA TTA CTA TT- TTT TTA TTA TT- TGTA TATA TT- TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA
* *
18322572 TTA CTTA TCTGT TTA TATA TCTA TTA TCA TTA TTA TATA TCTA TTA TTA
1 TTA -TTA T-T-A TTA T-TA T-TA TTA TTA TTA TTA T-TA T-TA TTA TTA
* *
18322621 TTA TTGT TTA TCTA TTAA TTA ATA -TA TTA TCT- TTA TTTA TTTA TTTA
1 TTA TT-A TTA T-TA TT-A TTA TTA TTA TTA T-TA TTA -TTA -TTA -TTA
18322668 CTTA TT- TTA TTA TT
1 -TTA TTA TTA TTA TT
18322682 TTTTCTTTCT
Statistics
Matches: 119, Mismatches: 15, Indels: 34
0.71 0.09 0.20
Matches are distributed among these distances:
2 10 0.08
3 64 0.54
4 44 0.37
5 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:18322569 original size:38 final size:35
Alignment explanation
Indices: 18322481--18322576 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 35
18322471 TTTCAATTTG
* *
18322481 TTTT-TATTTTATTTTTTATT-CTGTATTTTTTATT
1 TTTTATATTTTATTTATTATTACTAT-TTTTTTATT
18322515 TTTTATATTTTATTTATTATTACTATTTTTTTATT
1 TTTTATATTTTATTTATTATTACTATTTTTTTATT
*
18322550 ATTTGTATATATTTTTTTATTATTACT
1 -TTT-TATAT-TTTATTTATTATTACT
18322577 TATCTGTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
34 4 0.07
35 24 0.44
36 6 0.11
37 5 0.09
38 15 0.28
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (35 bp):
TTTTATATTTTATTTATTATTACTATTTTTTTATT
Found at i:18322620 original size:17 final size:20
Alignment explanation
Indices: 18322584--18322637 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
18322574 ACTTATCTGT
18322584 TTATATATCTATTATCATTA
1 TTATATATCTATTATCATTA
*
18322604 TTATATATCTATTATTATTA
1 TTATATATCTATTATCATTA
* *
18322624 TTGTTTATCTATTA
1 TTATATATCTATTA
18322638 ATTAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATATATCTATTATCATTA
Found at i:18323445 original size:4 final size:4
Alignment explanation
Indices: 18323438--18323489 Score: 51
Period size: 4 Copynumber: 14.0 Consensus size: 4
18323428 TTTTTTTTTA
*
18323438 TATT TATT T-TT TATAT T-TA TATT TATT TA-T TA-T TA-T TATT TATT
1 TATT TATT TATT TAT-T TATT TATT TATT TATT TATT TATT TATT TATT
18323482 TATT TATT
1 TATT TATT
18323490 AGATTAGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 13 0.31
4 27 0.64
5 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:18323449 original size:13 final size:13
Alignment explanation
Indices: 18323431--18323574 Score: 65
Period size: 13 Copynumber: 10.9 Consensus size: 13
18323421 TCTCATGTTT
18323431 TTTTTTATATTTA
1 TTTTTTATATTTA
18323444 TTTTTTATATTTA
1 TTTTTTATATTTA
18323457 TATTTATT-TA-TTA
1 T-TTT-TTATATTTA
18323470 TTATTATT-TATTTA
1 TT-TT-TTATATTTA
* * *
18323484 TTTATTAGATTAGAA
1 TTTTTTATATT--TA
18323499 TTTTTTAGTA-TTA
1 TTTTTTA-TATTTA
18323512 --TTTTAT-TTTA
1 TTTTTTATATTTA
18323522 TTTTATT-TATTTTA
1 TTTT-TTATA-TTTA
18323536 TTTCTTTAT-TTT-
1 TTT-TTTATATTTA
* *
18323548 TATTTTATTTTTA
1 TTTTTTATATTTA
18323561 TTTTGTTATTATTT
1 TTTT-TTA-TATTT
18323575 TCTTTAAATA
Statistics
Matches: 102, Mismatches: 9, Indels: 38
0.68 0.06 0.26
Matches are distributed among these distances:
10 4 0.04
11 10 0.10
12 11 0.11
13 38 0.37
14 22 0.22
15 16 0.16
16 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTTATATTTA
Found at i:18323458 original size:19 final size:19
Alignment explanation
Indices: 18323434--18323559 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 19
18323424 CATGTTTTTT
18323434 TTTATATTTATTTTTTATA
1 TTTATATTTATTTTTTATA
*
18323453 TTTATATTTATTTATTAT-
1 TTTATATTTATTTTTTATA
* *
18323471 TAT-TATTTATTTATT-TA
1 TTTATATTTATTTTTTATA
* *
18323488 -TTAGATTAGAATTTTTTAGTA
1 TTTATATT--TATTTTTTA-TA
*
18323509 -TTAT-TTTATTTTATTTTA
1 TTTATATTTATTTT-TTATA
*
18323527 TTTAT-TTTATTTCTTTATT
1 TTTATATTTATTT-TTTATA
18323546 TTTAT-TTTATTTTT
1 TTTATATTTATTTTT
18323560 ATTTTGTTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
16 2 0.02
17 15 0.17
18 11 0.13
19 51 0.59
20 3 0.03
21 5 0.06
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTATATTTATTTTTTATA
Found at i:18323519 original size:5 final size:5
Alignment explanation
Indices: 18323509--18323575 Score: 68
Period size: 5 Copynumber: 13.4 Consensus size: 5
18323499 TTTTTTAGTA
*
18323509 TTATT TTATT TTATT TTA-T TTATT TTA-T TT-CT TTATTT TTATT TTATTT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTA-TT TTATT TTA-TT
*
18323558 TTATT TTGTT ATTATT TT
1 TTATT TTATT -TTATT TT
18323576 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
4 10 0.19
5 30 0.57
6 13 0.25
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:18323569 original size:14 final size:13
Alignment explanation
Indices: 18323431--18323570 Score: 62
Period size: 14 Copynumber: 10.7 Consensus size: 13
18323421 TCTCATGTTT
*
18323431 TTTTTTATATTTA
1 TTTTTTATTTTTA
18323444 TTTTTTATATTTATA
1 TTTTTTAT-TTT-TA
*
18323459 TTTATTTATTATTA
1 TTT-TTTATTTTTA
*
18323473 TTATTTA--TTTA
1 TTTTTTATTTTTA
* ***
18323484 TTTATTAGATTAGAA
1 TTT-TT-TATTTTTA
* *
18323499 TTTTTTAGTATTA
1 TTTTTTATTTTTA
18323512 --TTTTA-TTTTA
1 TTTTTTATTTTTA
18323522 TTTTATT-TATTTTA
1 TTTT-TTAT-TTTTA
18323536 TTTCTTTATTTTTA
1 TTT-TTTATTTTTA
18323550 --TTTTATTTTTA
1 TTTTTTATTTTTA
18323561 TTTTGTTATT
1 TTTT-TTATT
18323571 ATTTTCTTTA
Statistics
Matches: 96, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
10 4 0.04
11 20 0.21
12 5 0.05
13 21 0.22
14 28 0.29
15 13 0.14
16 5 0.05
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:18323569 original size:19 final size:18
Alignment explanation
Indices: 18323428--18323570 Score: 69
Period size: 19 Copynumber: 7.4 Consensus size: 18
18323418 CATTCTCATG
*
18323428 TTTTT-TTTTATATTTAT
1 TTTTTATTTTATTTTTAT
*
18323445 TTTTTATATTTATATTTAT
1 TTTTTAT-TTTATTTTTAT
*
18323464 TTATTATTATTATTTATTTAT
1 TTTTTATT-TTA-TT-TTTAT
* **
18323485 TTATTAGATTAGAATTTTT-T
1 TT-TT-TATT-TTATTTTTAT
* *
18323505 AGTATTATTTTA-TTTTATT
1 -TTTTTATTTTATTTTTA-T
18323524 TTATTTATTTTATTTCTT-T
1 TT-TTTATTTTATTT-TTAT
18323543 ATTTTTATTTTATTTTTAT
1 -TTTTTATTTTATTTTTAT
18323562 TTTGTTATT
1 TTT-TTATT
18323571 ATTTTCTTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 30
0.69 0.09 0.21
Matches are distributed among these distances:
17 9 0.09
18 9 0.09
19 51 0.53
20 7 0.07
21 13 0.13
22 3 0.03
23 5 0.05
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTATTTTTAT
Found at i:18323660 original size:58 final size:57
Alignment explanation
Indices: 18323587--18323871 Score: 317
Period size: 58 Copynumber: 4.8 Consensus size: 57
18323577 TTTAAATAAA
*
18323587 TTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC
1 TTTCTAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC
*
18323645 TTTCTAAAAAATATTTTTGGGAAAATGTTGAAAGTTTCAATTTTCCTTGAAAATAAGC
1 TTTCTAAAAAATATTTTTGGGAAAA-GTTGAAAGTATCAATTTTCCTTGAAAATAAGC
* * *
18323703 TTTCTAAAAAATATTTTTGGGAAAAAAGTTGAAAGTATCGATTTTCCTTAAAAATAA-A
1 TTTCTAAAAAATATTTTTGGG--AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC
** * * *
18323761 TTTCATAAAAGGTTTTTTCTTTTGAGGAAAAGTTGAAAGGATCAATTTT-CTTCGAAATTAAAG-
1 TTTC-TAAAA---AATAT-TTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT-AAGC
* *
18323824 TTTCTAAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 TTTCTAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTG
18323872 TACAAAAGCA
Statistics
Matches: 196, Mismatches: 18, Indels: 27
0.81 0.07 0.11
Matches are distributed among these distances:
57 36 0.18
58 76 0.39
59 33 0.17
60 4 0.02
61 3 0.02
62 31 0.16
63 11 0.06
64 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (57 bp):
TTTCTAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC
Found at i:18327001 original size:15 final size:15
Alignment explanation
Indices: 18326981--18327011 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18326971 TTTGCATACA
*
18326981 TGCATTCTCATTCAT
1 TGCATTCTCACTCAT
18326996 TGCATTCTCACTCAT
1 TGCATTCTCACTCAT
18327011 T
1 T
18327012 ACACTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.45
Consensus pattern (15 bp):
TGCATTCTCACTCAT
Found at i:18335400 original size:42 final size:41
Alignment explanation
Indices: 18335243--18335543 Score: 254
Period size: 41 Copynumber: 7.1 Consensus size: 41
18335233 ATGATTATCA
* * * *
18335243 AGGAGTAATTTATTTTCCAAAGTTGTT-ATGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCAAAAGTCGTTGA-GCCTCTGATTAG
* * *
18335284 AGGAGCAATCTATTCTTC-AAAGTTG-TGATGCCTCTGCTTAG
1 AGGAGCAATTTATT-TTCAAAAGTCGTTGA-GCCTCTGATTAG
*
18335325 AGGAGCAATTTATTTTCAAAAGTCGTTGAGCCTCTAATTAG
1 AGGAGCAATTTATTTTCAAAAGTCGTTGAGCCTCTGATTAG
**
18335366 AGGAGCAATTTACTTCCCAAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTA-TTTTCAAAAGTCGTTGAGCCTCTGATTAG
**
18335408 AGGAGCCGTTTATTTTC-AAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTATTTTCAAAAGTCGTTGAGCCTCTGATTAG
* * *
18335448 AGGAGCTTTGTTTATTTATTTTC-AAAGTCGTTGAGCTTCTAATTAG
1 AGGAGC------AATTTATTTTCAAAAGTCGTTGAGCCTCTGATTAG
* * *
18335494 AAGAGCTTTGTTTATTTATTTTC-AAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGC------AATTTATTTTCAAAAGTCGTTGAGCCTCTGATTAG
18335540 AGGA
1 AGGA
18335544 ACATTAATCA
Statistics
Matches: 226, Mismatches: 23, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
40 33 0.15
41 76 0.34
42 42 0.19
46 75 0.33
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTATTTTCAAAAGTCGTTGAGCCTCTGATTAG
Found at i:18335478 original size:46 final size:42
Alignment explanation
Indices: 18335250--18335543 Score: 239
Period size: 46 Copynumber: 6.9 Consensus size: 42
18335240 TCAAGGAGTA
* * *
18335250 ATTTATTTTCCAAAGTTGTT-ATGCCTCTGTTTAGAGGAGC--A
1 ATTTATTTT-CAAAGTCGTTGA-GCCTCTGATTAGAGGAGCTGT
* * * *
18335291 ATCTATTCTTCAAAGTTG-TGATGCCTCTGCTTAGAGGAGC--A
1 ATTTATT-TTCAAAGTCGTTGA-GCCTCTGATTAGAGGAGCTGT
* *
18335332 ATTTATTTTCAAAAGTCGTTGAGCCTCTAATTAGAGGAGC--A
1 ATTTATTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTGT
** *
18335373 ATTTACTTCCCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCG-
1 ATTTA-TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTGT
18335416 -TTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC--TG--T
* * *
18335461 ATTTATTTTCAAAGTCGTTGAGCTTCTAATTAGAAGAGCTTTGTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC--TG--T
*
18335507 ATTTATTTTCAAAGTCGTTGAGCCTCTGCTTAGAGGA
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
18335544 ACATTAATCA
Statistics
Matches: 221, Mismatches: 19, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
40 33 0.15
41 71 0.32
42 42 0.19
46 75 0.34
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (42 bp):
ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTGT
Done.