Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 145 of 195
Found at i:24451610 original size:53 final size:53
Alignment explanation
Indices: 24451530--24451635 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
24451520 AGGAGCTTAG
*
24451530 AATAGAACAATTTGCTTCATTTAGTAATTCATCGGACCATTTCTCCGACGATT
1 AATAGAACAATTTGCTTCATTTAGTAATTCATCGAACCATTTCTCCGACGATT
* *
24451583 AATAGAACAATTTGTTTCATTTAGTAATTGATCGAACCATTTCTCCGACGATT
1 AATAGAACAATTTGCTTCATTTAGTAATTCATCGAACCATTTCTCCGACGATT
24451636 TGCAGCAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (53 bp):
AATAGAACAATTTGCTTCATTTAGTAATTCATCGAACCATTTCTCCGACGATT
Found at i:24456081 original size:90 final size:90
Alignment explanation
Indices: 24455902--24456068 Score: 244
Period size: 90 Copynumber: 1.9 Consensus size: 90
24455892 AGTTTTTTAA
* * *
24455902 AATTTCTTCAATTCTTAAAAGTTTACTTTTTGAGATTTTAGAGAAACTTTGGGTCTTCAAAATCT
1 AATTTCTTCAATTCTTAAAAGCTTACTTTCTGAGATTTTAGAGAAACTTTGAGTCTTCAAAATCT
*
24455967 TCTTTTTCTCTTCAAAATTATCAAT
66 TCTTCTTCTCTTCAAAATTATCAAT
*** * * *
24455992 AATTTCTTCAATTCTTTTGAGCTTGCTTTCTGAGATTTTGGAGAGACTTTGAGTCTTCAAAATCT
1 AATTTCTTCAATTCTTAAAAGCTTACTTTCTGAGATTTTAGAGAAACTTTGAGTCTTCAAAATCT
24456057 TCTTCTTCTCTT
66 TCTTCTTCTCTT
24456069 TAGAATTGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 67 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.47
Consensus pattern (90 bp):
AATTTCTTCAATTCTTAAAAGCTTACTTTCTGAGATTTTAGAGAAACTTTGAGTCTTCAAAATCT
TCTTCTTCTCTTCAAAATTATCAAT
Found at i:24459393 original size:91 final size:90
Alignment explanation
Indices: 24459205--24459380 Score: 216
Period size: 91 Copynumber: 2.0 Consensus size: 90
24459195 GCTTATTGGG
* * * *
24459205 GATCTTTCTTCGAGATTATTAGGGAATTTAGTTATACACCAAAATATGGAGAGTGGATTAAAGAT
1 GATCTTTCTTCAAGATTATTAGGGAATTTAGTTATACACCAAAATATGGAGAATGGACTAAAGAC
24459270 ATAGTATACTACTTCAAGACATTGAA
66 ATAGTATA-TACTTCAAGACATTGAA
* * *
24459296 GATCTTTCTTCAAGATTATT-GGGAAATTT-GTTTATATACCAAAATATGGGGAATGGACTGAAG
1 GATCTTTCTTCAAGATTATTAGGG-AATTTAG-TTATACACCAAAATATGGAGAATGGACTAAAG
* *
24459359 ACAT-GTAT-TATTTTAAGACATT
64 ACATAGTATATACTTCAAGACATT
24459381 AATGATATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
88 12 0.16
90 8 0.11
91 54 0.73
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (90 bp):
GATCTTTCTTCAAGATTATTAGGGAATTTAGTTATACACCAAAATATGGAGAATGGACTAAAGAC
ATAGTATATACTTCAAGACATTGAA
Found at i:24459842 original size:84 final size:84
Alignment explanation
Indices: 24459692--24460110 Score: 258
Period size: 84 Copynumber: 5.0 Consensus size: 84
24459682 TAGGCTTAAG
* * *
24459692 TAATCGAGTCTCACAGAGATGCAAAGAATTCAAGTTAAAGATGAAAACTTGGTTTCCAAGCACAA
1 TAAT-GAGTCTCATAGGGATGCAAAGAATTCAAG-TAAAGATGAAAACTTGATTTCCAAGCACAA
* *
24459757 TAAA-ATCTTGAGACTTACAT
64 TAAAGATCCTAAGACTTACAT
* * * * *
24459777 TAATGAGTCTCATAGGGATGAAAAGAATTCAAGCTGAAGATGAGAACTTGATTTTCAAGCGCAAT
1 TAATGAGTCTCATAGGGATGCAAAGAATTCAAG-TAAAGATGAAAACTTGATTTCCAAGCACAAT
* *
24459842 AAAGATCCTAAGACTTGCGT
65 AAAGATCCTAAGACTTACAT
** * * * *
24459862 TAACAAGTCT--TACGAGGATGCAAAGAATTCAAGTTAGAGATGAAAACTTGATTTCAAACCATA
1 TAATGAGTCTCATA-G-GGATGCAAAGAATTCAAG-TAAAGATGAAAACTTGATTTCCAAGCACA
* * * *
24459925 ATGAAGATCTTGAA-AC-TGCAC
63 ATAAAGATCCT-AAGACTTACAT
* * ** * ** * * *
24459946 CAACGAGTCTCAT-GAAAATGCAAAGAATTTAAGTTGGAGAAGAGAACTTGATTTCCAAGAACAA
1 TAATGAGTCTCATAG-GGATGCAAAGAATTCAAG-TAAAGATGAAAACTTGATTTCCAAGCACAA
* ***
24460010 TGAAGATCCTAAGA-TTGTGT
64 TAAAGATCCTAAGACTTACAT
* ** ** * ** * * *
24460030 CAACAAGTCTCATAAAGATGTAAAGGTTTCAAGTTAGAGATGAGAACTTGATTTCCAAGCATAAT
1 TAATGAGTCTCATAGGGATGCAAAGAATTCAAG-TAAAGATGAAAACTTGATTTCCAAGCACAAT
* *
24460095 AAATATCTTAAGACTT
65 AAAGATCCTAAGACTT
24460111 GTTAATCCTT
Statistics
Matches: 265, Mismatches: 59, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
83 4 0.02
84 183 0.69
85 75 0.28
86 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (84 bp):
TAATGAGTCTCATAGGGATGCAAAGAATTCAAGTAAAGATGAAAACTTGATTTCCAAGCACAATA
AAGATCCTAAGACTTACAT
Found at i:24459956 original size:169 final size:168
Alignment explanation
Indices: 24459698--24460103 Score: 465
Period size: 169 Copynumber: 2.4 Consensus size: 168
24459688 TAAGTAATCG
* * * *
24459698 AGTCTCACAGAGATGCAAAGAATTCAAGTTAAAGATGAAAACTTGGTTTCCAAGCACAATAAAAT
1 AGTCTCACAAAGATGCAAAGAATTCAAGTTAGAGATGAAAACTTGATTTCCAAGCATAATAAAAT
* ** * ** *
24459763 CTTGAGACTTACATTAATGAGTCTCAT-AGGGATGAAAAGAATTCAAGCTGAAGATGAGAACTTG
66 CTTGAAACTTACACCAACGAGTCTCATGA-AAATGAAAAGAATTCAAGCTGAAGAAGAGAACTTG
* ** *
24459827 ATTTTCAAGCGCAATAAAGATCCTAAGACTTGCGTTAACA
130 ATTTCCAAGAACAATAAAGATCCTAAGA-TTGCGTCAACA
* * * * * *
24459867 AGTCTTACGAGGATGCAAAGAATTCAAGTTAGAGATGAAAACTTGATTTCAAACCATAATGAAGA
1 AGTCTCACAAAGATGCAAAGAATTCAAGTTAGAGATGAAAACTTGATTTCCAAGCATAAT-AAAA
* * * * *
24459932 TCTTGAAAC-TGCACCAACGAGTCTCATGAAAATGCAAAGAATTTAAGTTGGAGAAGAGAACTTG
65 TCTTGAAACTTACACCAACGAGTCTCATGAAAATGAAAAGAATTCAAGCTGAAGAAGAGAACTTG
* *
24459996 ATTTCCAAGAACAATGAAGATCCTAAGATTGTGTCAACA
130 ATTTCCAAGAACAATAAAGATCCTAAGATTGCGTCAACA
* * ** *
24460035 AGTCTCATAAAGATGTAAAGGTTTCAAGTTAGAGATGAGAACTTGATTTCCAAGCATAATAAATA
1 AGTCTCACAAAGATGCAAAGAATTCAAGTTAGAGATGAAAACTTGATTTCCAAGCATAATAAA-A
24460100 TCTT
65 TCTT
24460104 AAGACTTGTT
Statistics
Matches: 195, Mismatches: 39, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
167 2 0.01
168 64 0.33
169 117 0.60
170 12 0.06
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (168 bp):
AGTCTCACAAAGATGCAAAGAATTCAAGTTAGAGATGAAAACTTGATTTCCAAGCATAATAAAAT
CTTGAAACTTACACCAACGAGTCTCATGAAAATGAAAAGAATTCAAGCTGAAGAAGAGAACTTGA
TTTCCAAGAACAATAAAGATCCTAAGATTGCGTCAACA
Found at i:24461189 original size:102 final size:100
Alignment explanation
Indices: 24460971--24461157 Score: 270
Period size: 100 Copynumber: 1.9 Consensus size: 100
24460961 GATTTTGTCA
* *
24460971 AGTTTAAGCTCATG-TT-TGGAGCAGTATGAGCAATTTAGGCTTTTGCTTAGGAGTAATTTTTTT
1 AGTTTAAGCTTATGCTTAT-GAGCAGTATGAGCAATTTAGGCTTTTGCTTAGGAGCAATTTTTTT
*
24461034 ATGCAGTTTAAACTCGTGCTTAAAAGCAACATGAAG
65 ATGCAATTTAAACTCGTGCTTAAAAGCAACATGAAG
* *
24461070 AGTTTAAGCTTATGCTTATGAGCAGTATGAGCAGTTTAGGCTTTTTCTTAGGAGCAACTTTTTTT
1 AGTTTAAGCTTATGCTTATGAGCAGTATGAGCAATTTAGGCTTTTGCTTAGGAGCAA--TTTTTT
* *
24461135 TGTGCAATTTAAACTTGTGCTTA
64 TATGCAATTTAAACTCGTGCTTA
24461158 GGAGTAACAT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
99 13 0.17
100 37 0.48
101 1 0.01
102 26 0.34
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (100 bp):
AGTTTAAGCTTATGCTTATGAGCAGTATGAGCAATTTAGGCTTTTGCTTAGGAGCAATTTTTTTA
TGCAATTTAAACTCGTGCTTAAAAGCAACATGAAG
Found at i:24463189 original size:31 final size:32
Alignment explanation
Indices: 24463125--24463191 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
24463115 GTGAAGAGTA
**
24463125 GATCCTAACAACAAATCTTTATAAGAAAAATC
1 GATCCTAACAACAAATCTCCATAAGAAAAATC
*
24463157 GATCCTAACAACAAATCTCCATTAG-AAAATC
1 GATCCTAACAACAAATCTCCATAAGAAAAATC
24463188 GATC
1 GATC
24463192 TTTGTAGCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 10 0.31
32 22 0.69
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.24
Consensus pattern (32 bp):
GATCCTAACAACAAATCTCCATAAGAAAAATC
Found at i:24463594 original size:21 final size:21
Alignment explanation
Indices: 24463568--24463607 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24463558 ACCGTTGGCC
24463568 ATCATTTTTTCCTCTTCAAGT
1 ATCATTTTTTCCTCTTCAAGT
*
24463589 ATCATTTTTTCTTCTTCAA
1 ATCATTTTTTCCTCTTCAA
24463608 ATCCTAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.55
Consensus pattern (21 bp):
ATCATTTTTTCCTCTTCAAGT
Found at i:24464667 original size:14 final size:14
Alignment explanation
Indices: 24464627--24464662 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
24464617 ACGAATGAAT
*
24464627 AAAAATAAATAATG
1 AAAAATAAAAAATG
24464641 AAAAATAAAAAATG
1 AAAAATAAAAAATG
24464655 ATAAAATA
1 A-AAAATA
24464663 GAAATAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAATAAAAAATG
Found at i:24476879 original size:215 final size:213
Alignment explanation
Indices: 24476491--24476913 Score: 731
Period size: 215 Copynumber: 2.0 Consensus size: 213
24476481 TGATCAAGGC
24476491 AAAAAAGGTGAAAGATTTTAAGAACCTTTTACCATAATTGAAGTGAATAATTTGATTGCATTGCA
1 AAAAAAGGTGAAAGATTTTAAGAACCTTTTACCATAATTGAAGTGAATAATTTGATTGCATTGCA
* *
24476556 TTTAGAGCATTTGATACATGCATCCGTGAAAGGTTAAATCATAAGTTGTACCAAGTACAAAGATT
66 TTTAGAGCATTTGATACATGCATCCATGAAAGGTTAAATCAAAAGTTGTACCAAGTACAAAGATT
* *
24476621 TTTTCATTCCCTAATGAAAATTAGAATTTTGGCCTTTGTGTAAGGATAATGATCATAAAATAGAC
131 TTTTCATTCCCTAATGAAAATTAGAATTTTGGCCTCTGTGTAAGGATAATGATCATAAAATAAAC
*
24476686 TTCAATCATCTAATAATG
196 TCCAATCATCTAATAATG
*
24476704 AAAAAAGGTGAGAGATTTTAAGAACCTTTTACCATAATTGAAAGTGAATAATTTGATTGCATTGC
1 AAAAAAGGTGAAAGATTTTAAGAACCTTTTACCATAATTG-AAGTGAATAATTTGATTGCATTGC
*
24476769 ATTTAGAGCATTT-AGTACATGCATCCATGAAAGGTTAAGATCAAAAGTTGTACCAAGTATAAAG
65 ATTTAGAGCATTTGA-TACATGCATCCATGAAAGGTTAA-ATCAAAAGTTGTACCAAGTACAAAG
* *
24476833 CTTTTTTCATTCCCTAATGAAAATTAGGATTTTGGCCTCTGTGTAAGGATAATGATCATAAAATA
128 ATTTTTTCATTCCCTAATGAAAATTAGAATTTTGGCCTCTGTGTAAGGATAATGATCATAAAATA
24476898 AACTCCAATCATCTAA
193 AACTCCAATCATCTAA
24476914 AAACAAAAAT
Statistics
Matches: 198, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
213 40 0.20
214 59 0.30
215 99 0.50
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (213 bp):
AAAAAAGGTGAAAGATTTTAAGAACCTTTTACCATAATTGAAGTGAATAATTTGATTGCATTGCA
TTTAGAGCATTTGATACATGCATCCATGAAAGGTTAAATCAAAAGTTGTACCAAGTACAAAGATT
TTTTCATTCCCTAATGAAAATTAGAATTTTGGCCTCTGTGTAAGGATAATGATCATAAAATAAAC
TCCAATCATCTAATAATG
Found at i:24477122 original size:25 final size:25
Alignment explanation
Indices: 24477075--24477123 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24477065 AGCCTCTTCT
* *
24477075 TAGAGGAGCCTTTTAAATTTTTAAG
1 TAGAAGAGCCTTTTAAACTTTTAAG
24477100 TAGAAGAGCCTTTCT-AACTTTTAA
1 TAGAAGAGCCTTT-TAAACTTTTAA
24477124 AATTGTTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (25 bp):
TAGAAGAGCCTTTTAAACTTTTAAG
Found at i:24477236 original size:41 final size:41
Alignment explanation
Indices: 24477190--24477391 Score: 172
Period size: 41 Copynumber: 4.9 Consensus size: 41
24477180 AGCAAAATAT
*
24477190 TTTAATTTTTAAAAGTTGTTGAGCCTCTTCTTAGAGGAACC
1 TTTAATTTTTAAAAGTTGTTGAGCCTCTTCTTAGAAGAACC
* * ** * * *
24477231 ATTAATTTTCAAAAGTTGTCAAGTCTCATCTTAGAAGAGCC
1 TTTAATTTTTAAAAGTTGTTGAGCCTCTTCTTAGAAGAACC
* ** * *
24477272 TTTAATTTTCAAAAGTTGTCAAGCTTCTACTTA-AAGAAGCC
1 TTTAATTTTTAAAAGTTGTTGAGCCTCTTCTTAGAAGAA-CC
* * * * * *
24477313 TTTAATTTTTAAAAAGTTATTGAGCGTCTACTTAAAAGAGCT
1 TTTAATTTTT-AAAAGTTGTTGAGCCTCTTCTTAGAAGAACC
* * *
24477355 TTTAATTTTTCAAAAGTTGTTGGGCTTTTTCTTAGAA
1 TTTAATTTTT-AAAAGTTGTTGAGCCTCTTCTTAGAA
24477392 AAGCTTTTCA
Statistics
Matches: 130, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
40 4 0.03
41 72 0.55
42 50 0.38
43 4 0.03
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (41 bp):
TTTAATTTTTAAAAGTTGTTGAGCCTCTTCTTAGAAGAACC
Found at i:24477399 original size:42 final size:41
Alignment explanation
Indices: 24477190--24477395 Score: 154
Period size: 42 Copynumber: 5.0 Consensus size: 41
24477180 AGCAAAATAT
* * *
24477190 TTTAATTTTT-AAAAGTTGTTGAGCCTCTTCTTAGAGGAA-CC
1 TTTAATTTTTCAAAAGTTGTTGAGCTTCTACTTA-A-AAAGCC
* ** *
24477231 ATTAA-TTTTCAAAAGTTGTCAAG--TCTCATCTTAGAAGAGCC
1 TTTAATTTTTCAAAAGTTGTTGAGCTTCT-A-CTTA-AAAAGCC
**
24477272 TTTAA-TTTTCAAAAGTTGTCAAGCTTCTACTTAAAGAAGCC
1 TTTAATTTTTCAAAAGTTGTTGAGCTTCTACTTAAA-AAGCC
* * * *
24477313 TTTAATTTTTAAAAAGTTATTGAGCGTCTACTTAAAAGAGCT
1 TTTAATTTTTCAAAAGTTGTTGAGCTTCTACTTAAAA-AGCC
* * *
24477355 TTTAATTTTTCAAAAGTTGTTGGGCTTTTTCTTAGAAAAGC
1 TTTAATTTTTCAAAAGTTGTTGAGCTTCTACTTA-AAAAGC
24477396 TTTTCAAACT
Statistics
Matches: 135, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
39 3 0.02
40 7 0.05
41 59 0.44
42 60 0.44
43 6 0.04
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.40
Consensus pattern (41 bp):
TTTAATTTTTCAAAAGTTGTTGAGCTTCTACTTAAAAAGCC
Found at i:24479111 original size:121 final size:117
Alignment explanation
Indices: 24478960--24479468 Score: 396
Period size: 121 Copynumber: 4.3 Consensus size: 117
24478950 AATATGTTAA
* * * *
24478960 AATAACAATAAAATCACAAGTGGTAATTTTATTAAAAATTTCACACAAACAAAATTTT-TATAAT
1 AATAAAAATAAAGTCACAAGTGGTGATTTTATTAAAAATTT-ACACAAA-AAAATTTTCTAAAAT
* ** *
24479024 ATTCTAAAAGTGTTAGAAATATTTTAGCATTTTTTTCAAACATAACAAAATATTATT
64 ATTCTAAAAGTGTTAAAAATATTTTAG-A-AATTTTCAAACATAA-AAAAAATTATT
* *
24479081 GATAAAAATAAAGTCACAAATGGTGATTTTATTAAAACTATTTACACAAAAAAATTTTCTAAAAT
1 AATAAAAATAAAGTCACAAGTGGTGATTTTATTAAAA--ATTTACACAAAAAAATTTTCTAAAAT
**
24479146 ATTCTAAAAGTGTTAAAAATATTTTAGAAATTTTCAAGTATAAAAAAAATTATT
64 ATTCTAAAAGTGTTAAAAATATTTTAGAAATTTTCAAACATAAAAAAAATTATT
* * * *
24479200 AATAAAAAATAAAGTTACAAGTGGTGATTTTATGAAGAAATTTTCTC---AAAA--TT-T----T
1 AAT-AAAAATAAAGTCACAAGTGGTGATTTTATTAA-AAATTTACACAAAAAAATTTTCTAAAAT
* *** * * * * *
24479255 A--CCAAAAGTGTTGGGAATATTTTTGAAAATTTTCTAATAAAATAAATAAATTGATAA
64 ATTCTAAAAGTGTTAAAAATATTTTAG-AAATTTTCAAACATAA-AAA-AAATT-AT-T
* * * * * *
24479312 AATAATAATAAAGTCATAAATGGTGATTTTATTAAAAACATTATTACAAAGAAATTTTCTAAAAT
1 AATAAAAATAAAGTCACAAGTGGTGATTTTATTAAAAA-TTTA-CACAAAAAAATTTTCTAAAAT
* * * *
24479377 ATCCTAAAAGTGTTAGAAATATTTTAGAATTTTTTTCAAACATGAAAAAATATTAATT
64 ATTCTAAAAGTGTTAAAAATATTTTAGAA--ATTTTCAAACAT-AAAAAAAATT-ATT
* *
24479435 GGGATAAAGATAAAGTCACAAGTGGTGATTTTAT
1 --AATAAAAATAAAGTCACAAGTGGTGATTTTAT
24479469 CCAAATTCCT
Statistics
Matches: 306, Mismatches: 53, Indels: 54
0.74 0.13 0.13
Matches are distributed among these distances:
107 19 0.06
108 13 0.04
109 5 0.02
110 8 0.03
111 31 0.10
112 4 0.01
113 1 0.00
114 2 0.01
115 3 0.01
116 4 0.01
117 2 0.01
118 1 0.00
119 18 0.06
120 40 0.13
121 43 0.14
122 40 0.13
123 6 0.02
124 26 0.08
125 38 0.12
126 2 0.01
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (117 bp):
AATAAAAATAAAGTCACAAGTGGTGATTTTATTAAAAATTTACACAAAAAAATTTTCTAAAATAT
TCTAAAAGTGTTAAAAATATTTTAGAAATTTTCAAACATAAAAAAAATTATT
Found at i:24482725 original size:32 final size:32
Alignment explanation
Indices: 24482669--24482754 Score: 120
Period size: 32 Copynumber: 2.7 Consensus size: 32
24482659 TAGACAAACG
* *
24482669 TGTTTTTGAATTCTT-AAAGGTTGTTGAGACT
1 TGTTTTTGAATGCTTCAAAGGTTGTTAAGACT
* *
24482700 TGTTTTTAAATGCTTCAAGGGTTGTTAAGACT
1 TGTTTTTGAATGCTTCAAAGGTTGTTAAGACT
*
24482732 TGTTCTTGAATGCTTCAAAGGTT
1 TGTTTTTGAATGCTTCAAAGGTT
24482755 TTATTGACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 13 0.28
32 34 0.72
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.45
Consensus pattern (32 bp):
TGTTTTTGAATGCTTCAAAGGTTGTTAAGACT
Found at i:24482764 original size:32 final size:32
Alignment explanation
Indices: 24482669--24482773 Score: 115
Period size: 32 Copynumber: 3.3 Consensus size: 32
24482659 TAGACAAACG
* * *
24482669 TGTTTTTGAATTCTT-AAAGGTTGTTGAGACT
1 TGTTCTTGAATGCTTCAAAGGTTGTTAAGACT
* * *
24482700 TGTTTTTAAATGCTTCAAGGGTTGTTAAGACT
1 TGTTCTTGAATGCTTCAAAGGTTGTTAAGACT
*
24482732 TGTTCTTGAATGCTTCAAAGGTT-TTATTGACT
1 TGTTCTTGAATGCTTCAAAGGTTGTTA-AGACT
*
24482764 TGATCTTGAA
1 TGTTCTTGAA
24482774 CAAACAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
31 16 0.25
32 47 0.75
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.46
Consensus pattern (32 bp):
TGTTCTTGAATGCTTCAAAGGTTGTTAAGACT
Found at i:24484716 original size:16 final size:16
Alignment explanation
Indices: 24484695--24484729 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24484685 TTGTACCTTA
24484695 CTTTTATT-TCTATTGC
1 CTTTTATTCT-TATTGC
24484711 CTTTTATTCTTATTGC
1 CTTTTATTCTTATTGC
24484727 CTT
1 CTT
24484730 GACAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.11, C:0.20, G:0.06, T:0.63
Consensus pattern (16 bp):
CTTTTATTCTTATTGC
Found at i:24488524 original size:59 final size:58
Alignment explanation
Indices: 24488388--24488790 Score: 476
Period size: 59 Copynumber: 6.9 Consensus size: 58
24488378 TTGTGTAGGG
* * *
24488388 AAAATTGATACTTTCAACTTTTCC-CCAAAA-ATCTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGA
*
24488444 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTGAAAATTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAAATTT-ATTTTTAAGA
* **
24488503 AAAATTGATACTTTTAACTTTTCCTCAAAAACCCTTTTTTCTG-AAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTT-TGAAAATTTATTTTTAAGA
* * * *
24488562 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTAATTTATTT-TTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAA--AATTTATTTTTAAGA
* * *
24488623 AAAATTGATATTTTCAACTTTTCCTCAAAATCTTTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTTGAAAATTTATTTTTAAGA
* ** * * *
24488682 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-AGTTTGGAAAGCTTTTTTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-ATTTATTTTTAAGA
*
24488740 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTAT
24488791 CATTTTATTT
Statistics
Matches: 298, Mismatches: 34, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
56 25 0.08
57 11 0.04
58 64 0.21
59 116 0.39
60 39 0.13
61 39 0.13
62 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGA
Found at i:24490616 original size:20 final size:20
Alignment explanation
Indices: 24490591--24490630 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24490581 TTCGTCAGAT
24490591 TCTGGAAAATGTCACCGGAA
1 TCTGGAAAATGTCACCGGAA
* *
24490611 TCTGGAAAATTTCGCCGGAA
1 TCTGGAAAATGTCACCGGAA
24490631 GTTAGCCGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (20 bp):
TCTGGAAAATGTCACCGGAA
Found at i:24491303 original size:35 final size:34
Alignment explanation
Indices: 24491230--24491335 Score: 85
Period size: 35 Copynumber: 3.1 Consensus size: 34
24491220 ATATATATAC
24491230 ATAAATAATAAAATACACATAAATATTAACAAAAA
1 ATAAATAATAAAATACACAT-AATATTAACAAAAA
* * * *
24491265 ATAAATAAATAAATATATACAT-ATATTAATACATA
1 ATAAAT-AATAAA-ATACACATAATATTAACAAAAA
**
24491300 AT-AATAATAATAATA-A-ATAATACAATACAAAAA
1 ATAAATAATAA-AATACACATAATATTA-ACAAAAA
24491333 ATA
1 ATA
24491336 CAAAAGAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
31 2 0.04
32 5 0.09
33 14 0.25
34 4 0.07
35 18 0.32
36 6 0.11
37 7 0.12
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (34 bp):
ATAAATAATAAAATACACATAATATTAACAAAAA
Found at i:24491531 original size:1 final size:1
Alignment explanation
Indices: 24491527--24491601 Score: 87
Period size: 1 Copynumber: 75.0 Consensus size: 1
24491517 CATTTTTTGG
* * * * * * *
24491527 TTTTTTGTTTTTTTTTTTTGTTTTTTATTTTTTTGTTTTTGTTTTTTTGTTTTTTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24491592 TTTTTTTTTT
1 TTTTTTTTTT
24491602 ACCAAAGCTC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.01, C:0.00, G:0.08, T:0.91
Consensus pattern (1 bp):
T
Found at i:24491532 original size:8 final size:7
Alignment explanation
Indices: 24491519--24491600 Score: 100
Period size: 7 Copynumber: 11.9 Consensus size: 7
24491509 CAACTCAACA
24491519 TTTTTTGG
1 TTTTTT-G
24491527 TTTTTTG
1 TTTTTTG
24491534 TTTTTT-
1 TTTTTTG
24491540 TTTTTTG
1 TTTTTTG
*
24491547 TTTTTTA
1 TTTTTTG
24491554 TTTTTT-
1 TTTTTTG
24491560 TGTTTTTG
1 T-TTTTTG
24491568 TTTTTTTG
1 -TTTTTTG
24491576 TTTTTT-
1 TTTTTTG
24491582 TTTTTTG
1 TTTTTTG
24491589 TTTTTT-
1 TTTTTTG
24491595 TTTTTT
1 TTTTTT
24491601 TACCAAAGCT
Statistics
Matches: 68, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
6 19 0.28
7 36 0.53
8 12 0.18
9 1 0.01
ACGTcount: A:0.01, C:0.00, G:0.10, T:0.89
Consensus pattern (7 bp):
TTTTTTG
Found at i:24491543 original size:13 final size:13
Alignment explanation
Indices: 24491527--24491600 Score: 121
Period size: 13 Copynumber: 5.5 Consensus size: 13
24491517 CATTTTTTGG
24491527 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
24491540 TTTTTTGTTTTTTAT
1 TTTTTTG-TTTTT-T
24491555 TTTTTTGTTTTTGT
1 TTTTTTGTTTTT-T
24491569 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
24491582 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
24491595 TTTTTT
1 TTTTTT
24491601 TACCAAAGCT
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
13 27 0.47
14 23 0.40
15 8 0.14
ACGTcount: A:0.01, C:0.00, G:0.08, T:0.91
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:24491545 original size:21 final size:20
Alignment explanation
Indices: 24491519--24491601 Score: 123
Period size: 20 Copynumber: 4.1 Consensus size: 20
24491509 CAACTCAACA
*
24491519 TTTTTTGGTTTTTTGTTTTT
1 TTTTTTTGTTTTTTGTTTTT
*
24491539 TTTTTTTGTTTTTTATTTTT
1 TTTTTTTGTTTTTTGTTTTT
24491559 TTGTTTTTGTTTTTTTGTTTTT
1 TT-TTTTTG-TTTTTTGTTTTT
24491581 TTTTTTTGTTTTTT-TTTTT
1 TTTTTTTGTTTTTTGTTTTT
24491600 TT
1 TT
24491602 ACCAAAGCTC
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
19 7 0.12
20 26 0.45
21 12 0.21
22 13 0.22
ACGTcount: A:0.01, C:0.00, G:0.10, T:0.89
Consensus pattern (20 bp):
TTTTTTTGTTTTTTGTTTTT
Found at i:24491579 original size:42 final size:41
Alignment explanation
Indices: 24491520--24491601 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 41
24491510 AACTCAACAT
24491520 TTTTTGGTTTTTTGTTTTTTTTTTTTGTTTTTTATTTTTTTG
1 TTTTTGGTTTTTTGTTTTTTTTTTTTGTTTTTT-TTTTTTTG
*
24491562 TTTTTGTTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTTTT
1 TTTTTGGTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTTTT
24491602 ACCAAAGCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 7 0.18
42 32 0.82
ACGTcount: A:0.01, C:0.00, G:0.10, T:0.89
Consensus pattern (41 bp):
TTTTTGGTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTTTTG
Found at i:24491703 original size:41 final size:41
Alignment explanation
Indices: 24491608--24491819 Score: 347
Period size: 41 Copynumber: 5.1 Consensus size: 41
24491598 TTTTACCAAA
24491608 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTGAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGT-AAATT
* *
24491651 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
24491692 GCTCCTCTAAACAGAGGCA--ACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
24491732 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
24491773 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
24491814 GCTCCT
1 GCTCCT
24491820 ACGACTTTGA
Statistics
Matches: 158, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 33 0.21
41 85 0.54
42 12 0.08
43 25 0.16
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:24491746 original size:81 final size:81
Alignment explanation
Indices: 24491608--24491819 Score: 336
Period size: 81 Copynumber: 2.6 Consensus size: 81
24491598 TTTTACCAAA
*
24491608 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTGAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGCA-CACGAC-TTTGAAAAGT-AAATTGCTCCTCTAAACAGAGGCACCA
*
24491673 CGACTTTGGAAAGTAAATT
63 CGACTTTGAAAAGTAAATT
* *
24491692 GCTCCTCTAAACAGAGGCA-ACGAACTTGGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
24491756 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
24491773 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATTGCTCCT
24491820 ACGACTTTGA
Statistics
Matches: 120, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
81 62 0.52
82 34 0.28
83 5 0.04
84 19 0.16
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGAAAAGTAAATT
Found at i:24491823 original size:26 final size:26
Alignment explanation
Indices: 24491794--24491845 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24491784 CAGAGGCACC
24491794 ACGACTTTGAAAAGTAAATTGCTCCT
1 ACGACTTTGAAAAGTAAATTGCTCCT
24491820 ACGACTTTGAAAAGTAAATTGCTCCT
1 ACGACTTTGAAAAGTAAATTGCTCCT
24491846 CTAAACAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (26 bp):
ACGACTTTGAAAAGTAAATTGCTCCT
Found at i:24491907 original size:107 final size:107
Alignment explanation
Indices: 24491715--24491926 Score: 381
Period size: 107 Copynumber: 2.0 Consensus size: 107
24491705 GAGGCAACGA
*
24491715 ACTTGGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
1 ACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATTGCTCCTC
24491780 TAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTACG
65 TAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTACG
*
24491823 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGAACTTTGAAAAGTAAATTGCTCCTC
1 ACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATTGCTCCTC
24491887 TAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
65 TAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
24491927 CTAAACAGAG
Statistics
Matches: 101, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
106 3 0.03
107 64 0.63
108 34 0.34
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (107 bp):
ACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACGACTTTGAAAAGTAAATTGCTCCTCT
AAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTACG
Found at i:24491940 original size:148 final size:152
Alignment explanation
Indices: 24491672--24492043 Score: 563
Period size: 148 Copynumber: 2.4 Consensus size: 152
24491662 CAGAGGTACC
* *
24491672 ACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCC
1 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCC
*
24491737 TCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
66 TCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
*
24491802 -GAAAAGTAAATTGCT-C-CT-
131 GGAAAAATAAATTGCTCCTCTA
24491820 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCC
1 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCC
24491885 TCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
66 TCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
24491950 GGGAAAAATAAATTGCTCCTCTAAACAGAGGCA
131 -GGAAAAATAAATTGCTCCTCT----------A
24491983 ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAAT
1 ACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTG-AAAAGTAAAT
24492044 ACTCCTAGAC
Statistics
Matches: 203, Mismatches: 4, Indels: 17
0.91 0.02 0.08
Matches are distributed among these distances:
148 127 0.63
150 14 0.07
151 1 0.00
152 2 0.01
163 3 0.01
164 46 0.23
165 10 0.05
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (152 bp):
ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCC
TCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
GGAAAAATAAATTGCTCCTCTA
Found at i:24492049 original size:40 final size:40
Alignment explanation
Indices: 24491823--24492043 Score: 356
Period size: 40 Copynumber: 5.4 Consensus size: 40
24491813 TGCTCCTACG
24491823 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
24491863 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGA
24491904 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGA
*
24491945 ACTTTGGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
1 ACTTT--GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
24491987 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
24492027 ACTTTGAAAAAGTAAAT
1 ACTTTG-AAAAGTAAAT
24492044 ACTCCTAGAC
Statistics
Matches: 173, Mismatches: 2, Indels: 11
0.93 0.01 0.06
Matches are distributed among these distances:
40 76 0.44
41 59 0.34
42 8 0.05
43 30 0.17
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (40 bp):
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
Found at i:24493308 original size:7 final size:7
Alignment explanation
Indices: 24493296--24493335 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
24493286 TTGGTTCTCT
24493296 TTTTTCA
1 TTTTTCA
24493303 TTTTTCA
1 TTTTTCA
24493310 -TTTT--
1 TTTTTCA
*
24493314 TTTTTCT
1 TTTTTCA
24493321 TTTTTCA
1 TTTTTCA
24493328 TTTTTCA
1 TTTTTCA
24493335 T
1 T
24493336 CCAGTGTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
5 4 0.14
6 4 0.14
7 21 0.72
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:24493312 original size:25 final size:25
Alignment explanation
Indices: 24493278--24493335 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
24493268 CCCTTTCAGG
*
24493278 TTTTTAATTTGGTTCTCTTTTTTCA
1 TTTTTCATTTGGTTCTCTTTTTTCA
** *
24493303 TTTTTCATTTTTTTTTCTTTTTTCA
1 TTTTTCATTTGGTTCTCTTTTTTCA
24493328 TTTTTCAT
1 TTTTTCAT
24493336 CCAGTGTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.10, C:0.12, G:0.03, T:0.74
Consensus pattern (25 bp):
TTTTTCATTTGGTTCTCTTTTTTCA
Found at i:24493316 original size:18 final size:18
Alignment explanation
Indices: 24493295--24493332 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
24493285 TTTGGTTCTC
24493295 TTTTTTCATTTTTCATTT
1 TTTTTTCATTTTTCATTT
*
24493313 TTTTTTCTTTTTTCATTT
1 TTTTTTCATTTTTCATTT
24493331 TT
1 TT
24493333 CATCCAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTCATTTTTCATTT
Found at i:24497307 original size:59 final size:58
Alignment explanation
Indices: 24497169--24497510 Score: 415
Period size: 59 Copynumber: 5.9 Consensus size: 58
24497159 TTGTGTAGGG
* * *
24497169 AAAATTGATACTTTCAACTTTTCCCC-AAAA-ATCTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAAGA
* *
24497225 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTT-ATTTTTAAGA
* ** *
24497284 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTCTGAAA-TTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTT-TGAAATTTTATTTTTAAGA
* * * * *
24497343 AAAATTGATATTTTCAACTTTTCCTCAAAATCTTTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAA-ATATTTTTTTGAAATTTTATTTTTAAGA
* ** *
24497402 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-AGTTTGGAAAGCTTTT-TTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAA--TTTTATTTTTAAGA
*
24497460 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAATTTTAT
24497511 CATTTTATTT
Statistics
Matches: 244, Mismatches: 30, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
56 26 0.11
57 11 0.05
58 63 0.26
59 124 0.51
60 16 0.07
61 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAAGA
Found at i:24499175 original size:18 final size:17
Alignment explanation
Indices: 24499154--24499192 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
24499144 TCTCCTTTTC
*
24499154 CTATTCGGATTCCTCCT
1 CTATTCAGATTCCTCCT
24499171 ACTATTCAGATTCCTCCT
1 -CTATTCAGATTCCTCCT
24499189 CTAT
1 CTAT
24499193 CTTTTTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.18, C:0.33, G:0.08, T:0.41
Consensus pattern (17 bp):
CTATTCAGATTCCTCCT
Found at i:24500552 original size:43 final size:42
Alignment explanation
Indices: 24500476--24500628 Score: 175
Period size: 43 Copynumber: 3.6 Consensus size: 42
24500466 AGATATCTCA
* * * *
24500476 TTTATTTTTCAAAAGTTTTAAAGGCTCACTTGTGGGTG-TGCAT
1 TTTATTTTTCAAAAGTTTCAAA-CCTCAATTGTGGG-GAAGCAT
*
24500519 TTTATTTTTCAAAAATTTCAAATCCTCAATTGTGGGGAAGCAT
1 TTTATTTTTCAAAAGTTTCAAA-CCTCAATTGTGGGGAAGCAT
* * *
24500562 TTTATTTTTCAAAAGTTTCAAACGCTCAGTTGTGGGAAAACAT
1 TTTATTTTTCAAAAGTTTCAAAC-CTCAATTGTGGGGAAGCAT
24500605 TTTATTTTTTC-AAAGTTTCAAACC
1 TTTA-TTTTTCAAAAGTTTCAAACC
24500629 CTCTAATGGA
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
42 3 0.03
43 88 0.91
44 6 0.06
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (42 bp):
TTTATTTTTCAAAAGTTTCAAACCTCAATTGTGGGGAAGCAT
Found at i:24500908 original size:12 final size:12
Alignment explanation
Indices: 24500891--24500934 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
24500881 AGCCTAAAAA
24500891 TTAATTTTGATT
1 TTAATTTTGATT
* *
24500903 TTAATTCTAATT
1 TTAATTTTGATT
*
24500915 TTGATTTTGATT
1 TTAATTTTGATT
24500927 TTAATTTT
1 TTAATTTT
24500935 AGCTTTATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (12 bp):
TTAATTTTGATT
Found at i:24500915 original size:18 final size:18
Alignment explanation
Indices: 24500892--24500934 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
24500882 GCCTAAAAAT
24500892 TAATTTTGATTTTAATTC
1 TAATTTTGATTTTAATTC
* *
24500910 TAATTTTGATTTTGATTT
1 TAATTTTGATTTTAATTC
24500928 TAATTTT
1 TAATTTT
24500935 AGCTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (18 bp):
TAATTTTGATTTTAATTC
Found at i:24500921 original size:6 final size:6
Alignment explanation
Indices: 24500891--24500935 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
24500881 AGCCTAAAAA
* * * *
24500891 TTAATT TTGATT TTAATT CTAATT TTGATT TTGATT TTAATT TTA
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTA
24500936 GCTTTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (6 bp):
TTAATT
Found at i:24500946 original size:24 final size:24
Alignment explanation
Indices: 24500894--24500945 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
24500884 CTAAAAATTA
*
24500894 ATTTTGATTTTAATTCTAATTTTG
1 ATTTTGATTTTAATTCTAACTTTG
* *
24500918 ATTTTGATTTTAATTTTAGCTTT-
1 ATTTTGATTTTAATTCTAACTTTG
24500941 ATTTT
1 ATTTT
24500946 TATATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.23, C:0.04, G:0.08, T:0.65
Consensus pattern (24 bp):
ATTTTGATTTTAATTCTAACTTTG
Found at i:24503636 original size:43 final size:43
Alignment explanation
Indices: 24503531--24503647 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
24503521 TAAATTTCTT
* * * * *
24503531 TATACAAAGGC-AAAGAAATTTAAATTAAGTAATGGGCTCCTC
1 TATACAAAGGCTAAACAACTTTAAAATAAGAAATGAGCTCCTC
* * * * * *
24503573 TAAATAGAGGTTAAACAACTTTAAAATAGGAAATGAGCTCGTC
1 TATACAAAGGCTAAACAACTTTAAAATAAGAAATGAGCTCCTC
*
24503616 TATACAAAGGCTAAATAACTTTAAAATAAGAA
1 TATACAAAGGCTAAACAACTTTAAAATAAGAA
24503648 TCCTATAACC
Statistics
Matches: 57, Mismatches: 17, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
42 7 0.12
43 50 0.88
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (43 bp):
TATACAAAGGCTAAACAACTTTAAAATAAGAAATGAGCTCCTC
Found at i:24517326 original size:15 final size:16
Alignment explanation
Indices: 24517308--24517388 Score: 56
Period size: 19 Copynumber: 4.5 Consensus size: 16
24517298 TTTAGTTTTT
24517308 TTATTAA-TTGCATGA
1 TTATTAATTTGCATGA
24517323 TTATTTATTATTTGCATGA
1 TTA-TTA--ATTTGCATGA
24517342 TTATTAAAATATTTGCATGA
1 TTATT---A-ATTTGCATGA
*
24517362 TTATTTATTATTTGTATGA
1 TTA-TTA--ATTTGCATGA
24517381 TTATTAAT
1 TTATTAAT
24517389 ATATTTGCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
15 3 0.05
16 5 0.09
18 7 0.12
19 24 0.43
20 14 0.25
21 3 0.05
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (16 bp):
TTATTAATTTGCATGA
Found at i:24517358 original size:39 final size:39
Alignment explanation
Indices: 24517315--24517427 Score: 172
Period size: 39 Copynumber: 2.9 Consensus size: 39
24517305 TTTTTATTAA
24517315 TTGCATGATTATTTATTATTTGCATGATTATTAAAATAT
1 TTGCATGATTATTTATTATTTGCATGATTATTAAAATAT
* *
24517354 TTGCATGATTATTTATTATTTGTATGATTATTAATATAT
1 TTGCATGATTATTTATTATTTGCATGATTATTAAAATAT
* * *
24517393 TTGCATAATTATTAATATATTTGCATAATTATTAA
1 TTGCATGATTATTTAT-TATTTGCATGATTATTAA
24517428 TATTATTGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 51 0.76
40 16 0.24
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (39 bp):
TTGCATGATTATTTATTATTTGCATGATTATTAAAATAT
Found at i:24517406 original size:59 final size:58
Alignment explanation
Indices: 24517307--24517438 Score: 176
Period size: 59 Copynumber: 2.2 Consensus size: 58
24517297 ATTTAGTTTT
* * * *
24517307 TTTATTAATTGCATGATTATTTATTATTTGCATGATTATTAAAATATTTGCATGATTA
1 TTTATTATTTGCATGATTATTAATTATTTGCATAATTATTAAAATATTTGCATAATTA
* *
24517365 TTTATTATTTGTATGATTATTAATATATTTGCATAATTATTAATATATTTGCATAATTA
1 TTTATTATTTGCATGATTATTAAT-TATTTGCATAATTATTAAAATATTTGCATAATTA
24517424 TTAATATTA-TTGCAT
1 TT--TATTATTTGCAT
24517439 AATTTGTTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
58 21 0.33
59 33 0.52
60 5 0.08
61 5 0.08
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (58 bp):
TTTATTATTTGCATGATTATTAATTATTTGCATAATTATTAAAATATTTGCATAATTA
Found at i:24517428 original size:20 final size:20
Alignment explanation
Indices: 24517315--24517430 Score: 164
Period size: 20 Copynumber: 5.9 Consensus size: 20
24517305 TTTTTATTAA
*
24517315 TTGCATGATTATTTAT-TAT
1 TTGCATGATTATTAATATAT
*
24517334 TTGCATGATTATTAAAATAT
1 TTGCATGATTATTAATATAT
*
24517354 TTGCATGATTATTTAT-TAT
1 TTGCATGATTATTAATATAT
*
24517373 TTGTATGATTATTAATATAT
1 TTGCATGATTATTAATATAT
*
24517393 TTGCATAATTATTAATATAT
1 TTGCATGATTATTAATATAT
*
24517413 TTGCATAATTATTAATAT
1 TTGCATGATTATTAATAT
24517431 TATTGCATAA
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
19 31 0.36
20 56 0.64
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (20 bp):
TTGCATGATTATTAATATAT
Found at i:24517442 original size:20 final size:21
Alignment explanation
Indices: 24517309--24517438 Score: 159
Period size: 20 Copynumber: 6.6 Consensus size: 21
24517299 TTAGTTTTTT
*
24517309 TATTAATTGCATGATTATT--
1 TATTATTTGCATGATTATTAA
24517328 TATTATTTGCATGATTATTAA
1 TATTATTTGCATGATTATTAA
*
24517349 -AATATTTGCATGATTATT--
1 TATTATTTGCATGATTATTAA
*
24517367 TATTATTTGTATGATTATTAA
1 TATTATTTGCATGATTATTAA
*
24517388 TA-TATTTGCATAATTATTAA
1 TATTATTTGCATGATTATTAA
*
24517408 TA-TATTTGCATAATTATTAA
1 TATTATTTGCATGATTATTAA
24517428 TATTA-TTGCAT
1 TATTATTTGCAT
24517439 AATTTGTTAT
Statistics
Matches: 99, Mismatches: 6, Indels: 11
0.85 0.05 0.09
Matches are distributed among these distances:
19 34 0.34
20 61 0.62
21 4 0.04
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (21 bp):
TATTATTTGCATGATTATTAA
Found at i:24517931 original size:14 final size:13
Alignment explanation
Indices: 24517900--24517930 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24517890 AAATAATGAG
*
24517900 AAAATTTTATTAA
1 AAAAATTTATTAA
24517913 AAAAATTTATTAA
1 AAAAATTTATTAA
24517926 AAAAA
1 AAAAA
24517931 ACATCTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAAATTTATTAA
Found at i:24524123 original size:209 final size:207
Alignment explanation
Indices: 24523765--24524181 Score: 658
Period size: 209 Copynumber: 2.0 Consensus size: 207
24523755 CTGTGTATGT
* *
24523765 TTGTATGTTTGTGAGTGACTAAAAGAGACTAAGAGGATCCATGTAAGTATGGTACATATGAGTGG
1 TTGTATGTTTGTGAGTGACTAAAAGAGACTAAGAGGATCCACGTAAGTATGGTACATATGAGTGA
* * * * *
24523830 ACTAGAGGAGATTAAGATGATCCACGTAGTTATAATATACGGGTGCATATGAGTATGTGTTTGGT
66 ACTAGAGAAGATTAAGATAATCCACATAGTTATAATATACGGATGCATATGAGTATGTGTTTGAT
* *
24523895 TGTGTTGAAAGGATACACATGGGTATGTATTTATATGGGTTGAAAATACTCCATAAGACTATA-A
131 TGTATTGAAAGGATACACATGAGTATGTATTTATATGGGTTGAAAATACTCCATAAGACTATAGA
24523959 GAGATTGAGAGGG
196 -AGATTGAGAGGG
* * *
24523972 TTGTATGTTTGTGAGTGGACTAAAAGAGACTGAGAGGGTCCACGTAAGTATGGTGCATATGAGTG
1 TTGTATGTTTGTGAGT-GACTAAAAGAGACTAAGAGGATCCACGTAAGTATGGTACATATGAGTG
*
24524037 AACTAGAGAAGATTTAAGATAATCCACATAGTTATAATGTACGGATGCATATGAGTATGTGTTTG
65 AACTAGAGAAGA-TTAAGATAATCCACATAGTTATAATATACGGATGCATATGAGTATGTGTTTG
*
24524102 ATTGTATTGAAATGG-TACACATGAGTATGTGTTTATATGGGTTGAAAATACTCCATAAGACTAT
129 ATTGTATTGAAA-GGATACACATGAGTATGTATTTATATGGGTTGAAAATACTCCATAAGACTAT
24524166 AGAAGATTGAGAGGG
193 AGAAGATTGAGAGGG
24524181 T
1 T
24524182 CTATGTGTAT
Statistics
Matches: 192, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
207 16 0.08
208 54 0.28
209 119 0.62
210 3 0.02
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.31
Consensus pattern (207 bp):
TTGTATGTTTGTGAGTGACTAAAAGAGACTAAGAGGATCCACGTAAGTATGGTACATATGAGTGA
ACTAGAGAAGATTAAGATAATCCACATAGTTATAATATACGGATGCATATGAGTATGTGTTTGAT
TGTATTGAAAGGATACACATGAGTATGTATTTATATGGGTTGAAAATACTCCATAAGACTATAGA
AGATTGAGAGGG
Found at i:24526123 original size:35 final size:35
Alignment explanation
Indices: 24526024--24526125 Score: 118
Period size: 35 Copynumber: 2.9 Consensus size: 35
24526014 TTGTGTCTAT
**
24526024 AATAATTCTTAAC-ACTATAATTATATTTGTTCTTC
1 AATAATTCTTAACAAC-ATAATCGTATTTGTTCTTC
*
24526059 AATAATTCTTAACAACATAATCGTGTTTGTTCTTC
1 AATAATTCTTAACAACATAATCGTATTTGTTCTTC
* **
24526094 AATAATTTTTAGTAACATAAGT-GTATTTGTTC
1 AATAATTCTTAACAACATAA-TCGTATTTGTTC
24526126 GTTTAACTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
35 55 0.95
36 3 0.05
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (35 bp):
AATAATTCTTAACAACATAATCGTATTTGTTCTTC
Found at i:24538195 original size:21 final size:22
Alignment explanation
Indices: 24538170--24538210 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24538160 ATCAAATTCA
*
24538170 TAAATAATAAGATTT-AAGATT
1 TAAATAATAAAATTTCAAGATT
*
24538191 TAAATATTAAAATTTCAAGA
1 TAAATAATAAAATTTCAAGA
24538211 CTTTTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAATAATAAAATTTCAAGATT
Found at i:24546287 original size:2 final size:2
Alignment explanation
Indices: 24546280--24546315 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
24546270 CAATAGTCGC
24546280 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24546316 CCAACAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24547655 original size:22 final size:21
Alignment explanation
Indices: 24547630--24547670 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24547620 AATCAAGAGC
*
24547630 CATTAAACATCAAATTAAAAGT
1 CATTAAACAT-AAAGTAAAAGT
*
24547652 CATTAATCATAAAGTAAAA
1 CATTAAACATAAAGTAAAA
24547671 TTATATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (21 bp):
CATTAAACATAAAGTAAAAGT
Found at i:24548699 original size:30 final size:28
Alignment explanation
Indices: 24548622--24548705 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 28
24548612 TTTGAATAAT
24548622 AAATAATAAATAAAATAGAATAATAA-CAAA
1 AAATAAT-AATAAAAT--AATAATAATCAAA
** *
24548652 AAATTCTAAAAAAAATAATAATAATCTAAA
1 AAATAAT-AATAAAATAATAATAATC-AAA
24548682 AAATAATAATAAGAATAA-AATAAT
1 AAATAATAATAA-AATAATAATAAT
24548706 AATTTTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
28 8 0.18
29 11 0.24
30 26 0.58
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (28 bp):
AAATAATAATAAAATAATAATAATCAAA
Found at i:24548701 original size:18 final size:18
Alignment explanation
Indices: 24548661--24548708 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
24548651 AAAATTCTAA
**
24548661 AAAAAATAATAATAATCT
1 AAAAAATAATAATAAAAT
24548679 AAAAAATAATAATAAGAAT
1 AAAAAATAATAATAA-AAT
24548698 AAAATAATAAT
1 AAAA-AATAAT
24548709 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 15 0.58
19 5 0.19
20 6 0.23
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAAATAATAATAAAAT
Found at i:24548968 original size:30 final size:31
Alignment explanation
Indices: 24548934--24549001 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
24548924 TTTTTTAAAC
* *
24548934 CCTAAACCCTT-TAAACCCCAAAACTAAAAG
1 CCTAAACCATTCTAAACCCCAAAACTAAAAA
* *
24548964 CCTAAA-TATTCTAAACCCTAAAACTAAAAA
1 CCTAAACCATTCTAAACCCCAAAACTAAAAA
24548994 CCTAAACC
1 CCTAAACC
24549002 TAAAATCCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (31 bp):
CCTAAACCATTCTAAACCCCAAAACTAAAAA
Found at i:24548999 original size:14 final size:14
Alignment explanation
Indices: 24548946--24549043 Score: 74
Period size: 14 Copynumber: 6.9 Consensus size: 14
24548936 TAAACCCTTT
*
24548946 AAACCCCAAAACTA
1 AAACCCTAAAACTA
*
24548960 AAAGCCTAAATATTCT-
1 AAACCCTAAA-A--CTA
24548976 AAACCCTAAAACTA
1 AAACCCTAAAACTA
* *
24548990 AAAACCTAAACCTA
1 AAACCCTAAAACTA
* *
24549004 AAATCCTTAAATCTA
1 AAA-CCCTAAAACTA
*
24549019 AAACCCTAAAAC-C
1 AAACCCTAAAACTA
*
24549032 AAACCCTTAAAC
1 AAACCCTAAAAC
24549044 CCTTAAAACT
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
13 13 0.19
14 30 0.45
15 13 0.19
16 9 0.13
17 2 0.03
ACGTcount: A:0.52, C:0.29, G:0.01, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAACTA
Found at i:24550469 original size:165 final size:165
Alignment explanation
Indices: 24550196--24550523 Score: 602
Period size: 165 Copynumber: 2.0 Consensus size: 165
24550186 TGGCGACTCT
*
24550196 ACTGAGGACCTTTGAAAGTCAAGCAAAAAATTTTAATTATGCGCTATTAATAATTATTGGATTTA
1 ACTGAGGACCTTTGAAAGTCAAGCAAAAAAGTTTAATTATGCGCTATTAATAATTATTGGATTTA
24550261 ATTGGTTTTATTTGATATTTAATTTAATTCCCTTTACTTTAATTTTTCAAAAATATGTATACAAG
66 ATTGGTTTTATTTGATATTTAATTTAATTCCCTTTACTTTAATTTTTCAAAAATATGTATACAAG
24550326 TTAATAAATAAAATAAATTGTATGGTAGTTATTCC
131 TTAATAAATAAAATAAATTGTATGGTAGTTATTCC
*
24550361 ACTGAGGACCTTTGAAAGTCAGGCAAAAAAGTTTAATTATGCGCTATTAATAATTATTGGATTTA
1 ACTGAGGACCTTTGAAAGTCAAGCAAAAAAGTTTAATTATGCGCTATTAATAATTATTGGATTTA
* *
24550426 ATTGGTTTTATTTGATATTTAATTTAATTCTCTTTATTTTAATTTTTCAAAAATATGTATACAAG
66 ATTGGTTTTATTTGATATTTAATTTAATTCCCTTTACTTTAATTTTTCAAAAATATGTATACAAG
* *
24550491 TTAATAAATAAAATAAGTTGTATGTTAGTTATT
131 TTAATAAATAAAATAAATTGTATGGTAGTTATT
24550524 GTTTTCTTTT
Statistics
Matches: 157, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 157 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (165 bp):
ACTGAGGACCTTTGAAAGTCAAGCAAAAAAGTTTAATTATGCGCTATTAATAATTATTGGATTTA
ATTGGTTTTATTTGATATTTAATTTAATTCCCTTTACTTTAATTTTTCAAAAATATGTATACAAG
TTAATAAATAAAATAAATTGTATGGTAGTTATTCC
Found at i:24555300 original size:8 final size:8
Alignment explanation
Indices: 24555287--24555321 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
24555277 AACTTTCAAG
24555287 ATAAAAAA
1 ATAAAAAA
24555295 ATAAAAAA
1 ATAAAAAA
24555303 ATAAAAAAA
1 AT-AAAAAA
24555312 ATAAAGAAA
1 ATAAA-AAA
24555321 A
1 A
24555322 AAGAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 13 0.52
9 12 0.48
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (8 bp):
ATAAAAAA
Found at i:24555303 original size:9 final size:9
Alignment explanation
Indices: 24555289--24555332 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
24555279 CTTTCAAGAT
24555289 AAAAAAAT-
1 AAAAAAATA
24555297 AAAAAAATA
1 AAAAAAATA
24555306 AAAAAAATA
1 AAAAAAATA
24555315 AAGAAAAA-A
1 AA-AAAAATA
24555324 GAAAAAAAT
1 -AAAAAAAT
24555333 GAAGTTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.25
9 17 0.53
10 7 0.22
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.09
Consensus pattern (9 bp):
AAAAAAATA
Found at i:24555938 original size:12 final size:12
Alignment explanation
Indices: 24555921--24555962 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
24555911 GGCATCACAA
24555921 AAAAAAAAGATG
1 AAAAAAAAGATG
*
24555933 AAAAAAAAG--C
1 AAAAAAAAGATG
24555943 AAAAAAAAGATG
1 AAAAAAAAGATG
24555955 AAAAAAAA
1 AAAAAAAA
24555963 AACAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 9 0.35
12 17 0.65
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (12 bp):
AAAAAAAAGATG
Found at i:24555946 original size:23 final size:24
Alignment explanation
Indices: 24555920--24555972 Score: 83
Period size: 22 Copynumber: 2.3 Consensus size: 24
24555910 GGGCATCACA
*
24555920 AAAAAAAAAGATG-AAAAAAAAGC
1 AAAAAAAAAGATGAAAAAAAAAAC
24555943 -AAAAAAAAGATGAAAAAAAAAAC
1 AAAAAAAAAGATGAAAAAAAAAAC
24555966 AAAAAAA
1 AAAAAAA
24555973 TCCCTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.44
23 9 0.33
24 6 0.22
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAGATGAAAAAAAAAAC
Found at i:24555949 original size:22 final size:23
Alignment explanation
Indices: 24555921--24555972 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
24555911 GGCATCACAA
*
24555921 AAAAAAAAGATG-AAAAAAAAGC
1 AAAAAAAAGATGAAAAAAAAAAC
24555943 AAAAAAAAGATGAAAAAAAAAAC
1 AAAAAAAAGATGAAAAAAAAAAC
24555966 AAAAAAA
1 AAAAAAA
24555973 TCCCTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.83, C:0.04, G:0.10, T:0.04
Consensus pattern (23 bp):
AAAAAAAAGATGAAAAAAAAAAC
Found at i:24557895 original size:2 final size:2
Alignment explanation
Indices: 24557888--24557919 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
24557878 GCCCCAAAGA
*
24557888 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24557920 TAATGAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24558805 original size:2 final size:2
Alignment explanation
Indices: 24558798--24558822 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24558788 ATTATTTCAT
24558798 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
24558823 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24560949 original size:7 final size:7
Alignment explanation
Indices: 24560937--24561040 Score: 53
Period size: 6 Copynumber: 15.4 Consensus size: 7
24560927 TCATAACCTC
24560937 ATTTTAT
1 ATTTTAT
24560944 ATTTTAGT
1 ATTTTA-T
* *
24560952 -TCTTAA
1 ATTTTAT
24560958 ACTTTTAT
1 A-TTTTAT
24560966 -TTTT-T
1 ATTTTAT
24560971 ATTTT-T
1 ATTTTAT
24560977 ATTTT-T
1 ATTTTAT
*
24560983 ATTTTTT
1 ATTTTAT
24560990 A-TTTAT
1 ATTTTAT
* *
24560996 A-TTAAA
1 ATTTTAT
24561002 ATTTT-T
1 ATTTTAT
*
24561008 TTTTTAT
1 ATTTTAT
24561015 ATTTTAT
1 ATTTTAT
*
24561022 ATTTCAT
1 ATTTTAT
24561029 ATGTTTAAT
1 AT-TTT-AT
24561038 ATT
1 ATT
24561041 ATTTTTTAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
5 1 0.01
6 33 0.44
7 29 0.39
8 8 0.11
9 4 0.05
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (7 bp):
ATTTTAT
Found at i:24560975 original size:6 final size:6
Alignment explanation
Indices: 24560960--24561021 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
24560950 GTTCTTAAAC
* ***
24560960 TTTTATT TTTTAT TTTTAT TTTTATT TTTTAT TTATAT TAAAAT TTTT-T
1 TTTTA-T TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT
24561009 TTTTAT ATTTTAT
1 TTTTAT -TTTTAT
24561022 ATTTCATATG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
5 5 0.11
6 24 0.52
7 17 0.37
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:24560978 original size:13 final size:13
Alignment explanation
Indices: 24560960--24560998 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
24560950 GTTCTTAAAC
24560960 TTTTATTTTT-TAT
1 TTTTATTTTTAT-T
24560973 TTTTATTTTTATT
1 TTTTATTTTTATT
*
24560986 TTTTATTTATATT
1 TTTTATTTTTATT
24560999 AAAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:24560984 original size:19 final size:19
Alignment explanation
Indices: 24560960--24561048 Score: 72
Period size: 19 Copynumber: 4.6 Consensus size: 19
24560950 GTTCTTAAAC
24560960 TTTTATTTTTTATTTTTAT
1 TTTTATTTTTTATTTTTAT
*
24560979 TTTTATTTTTTATTTATAT
1 TTTTATTTTTTATTTTTAT
***
24560998 TAAAATTTTTT-TTTTATAT
1 TTTTATTTTTTATTTT-TAT
** * *
24561017 TTTATATTTCATATGTTTAA
1 TTT-TATTTTTTATTTTTAT
*
24561037 TATTATTTTTTA
1 TTTTATTTTTTA
24561049 AATAAATACA
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
18 3 0.06
19 37 0.71
20 9 0.17
21 3 0.06
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (19 bp):
TTTTATTTTTTATTTTTAT
Found at i:24561784 original size:20 final size:21
Alignment explanation
Indices: 24561756--24561798 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
24561746 TAAATCGATT
*
24561756 ATAATTTAAAA-TTATATAAA
1 ATAAATTAAAATTTATATAAA
*
24561776 ATAAATTAAAATTTTTATAAA
1 ATAAATTAAAATTTATATAAA
24561797 AT
1 AT
24561799 TTACATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAAATTAAAATTTATATAAA
Found at i:24565243 original size:4 final size:4
Alignment explanation
Indices: 24565236--24565260 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
24565226 ATCCATAATT
24565236 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
24565261 GGCTTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:24565497 original size:15 final size:15
Alignment explanation
Indices: 24565477--24565506 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24565467 AACTTTGTTC
*
24565477 ATTTTTTATTTTTTA
1 ATTTTTAATTTTTTA
24565492 ATTTTTAATTTTTTA
1 ATTTTTAATTTTTTA
24565507 TTTAAAAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTAATTTTTTA
Found at i:24565614 original size:19 final size:18
Alignment explanation
Indices: 24565590--24565634 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
24565580 TAACATAAAA
*
24565590 ATAATTTAATAAATTTTTT
1 ATAATTTAAT-AATTTTAT
24565609 ATAATTTAATAATTTTAT
1 ATAATTTAATAATTTTAT
24565627 A-AATTTAA
1 ATAATTTAA
24565635 AATAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.28
18 8 0.32
19 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTTAATAATTTTAT
Found at i:24565623 original size:27 final size:27
Alignment explanation
Indices: 24565589--24565649 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
24565579 TTAACATAAA
***
24565589 AATAATTTAATAAATTTTTTATAATTT
1 AATAATTTAATAAATTTAAAATAATTT
*
24565616 AATAATTTTATAAATTTAAAATAATTT
1 AATAATTTAATAAATTTAAAATAATTT
24565643 AA-AATTT
1 AATAATTT
24565650 TTATTACATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AATAATTTAATAAATTTAAAATAATTT
Found at i:24572687 original size:3 final size:3
Alignment explanation
Indices: 24572679--24572719 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
24572669 TAAAATTAAA
24572679 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 AA
24572720 ATATATTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24572736 original size:21 final size:21
Alignment explanation
Indices: 24572691--24572755 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
24572681 TAATAATAAT
*
24572691 AATAAT-AATAA-TAATAATAA
1 AATAATAAATAATTATTAA-AA
24572711 TAATAATAAATATATT-TTAAAA
1 -AATAATAAATA-ATTATTAAAA
* *
24572733 AATAATTATTAATTATTAAAA
1 AATAATAAATAATTATTAAAA
24572754 AA
1 AA
24572756 AAAGAAAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.08
21 23 0.62
22 6 0.16
23 4 0.11
24 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAATAAATAATTATTAAAA
Found at i:24572779 original size:19 final size:19
Alignment explanation
Indices: 24572750--24572805 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
24572740 ATTAATTATT
*
24572750 AAAAAAAAAGAAAAGAAAG
1 AAAAAACAAGAAAAGAAAG
*
24572769 AGAAAACAAGAAAAAGAAA-
1 AAAAAACAAG-AAAAGAAAG
*
24572788 AAAAAACAA-AAAATAAAG
1 AAAAAACAAGAAAAGAAAG
24572806 TGGTTGGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 7 0.23
19 16 0.52
20 8 0.26
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (19 bp):
AAAAAACAAGAAAAGAAAG
Found at i:24574229 original size:17 final size:17
Alignment explanation
Indices: 24574199--24574299 Score: 106
Period size: 17 Copynumber: 6.3 Consensus size: 17
24574189 TTAGGTTTCT
24574199 AAAA-CCCCTAAAATCC
1 AAAATCCCCTAAAATCC
*
24574215 AAAATCCCTTAAAATCC
1 AAAATCCCCTAAAATCC
*
24574232 AAAAT--CTTAAAATCC
1 AAAATCCCCTAAAATCC
*
24574247 AAGAT--CCTAAAATCC
1 AAAATCCCCTAAAATCC
*
24574262 GAAA-CCCCTAAAATCC
1 AAAATCCCCTAAAATCC
* *
24574278 TAAACCCCCTAAAATCC
1 AAAATCCCCTAAAATCC
24574295 AAAAT
1 AAAAT
24574300 TTCAAACCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
15 25 0.34
16 17 0.23
17 31 0.42
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATCCCCTAAAATCC
Found at i:24574242 original size:15 final size:15
Alignment explanation
Indices: 24574207--24574261 Score: 74
Period size: 15 Copynumber: 3.5 Consensus size: 15
24574197 CTAAAACCCC
24574207 TAAAATCCAAAATCCCT
1 TAAAATCCAAAAT--CT
24574224 TAAAATCCAAAATCT
1 TAAAATCCAAAATCT
* *
24574239 TAAAATCCAAGATCC
1 TAAAATCCAAAATCT
24574254 TAAAATCC
1 TAAAATCC
24574262 GAAACCCCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 23 0.64
17 13 0.36
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.24
Consensus pattern (15 bp):
TAAAATCCAAAATCT
Found at i:24574438 original size:30 final size:28
Alignment explanation
Indices: 24574358--24574459 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 28
24574348 ACCTCAAATT
* *
24574358 TTAAAACCGAAATCCTAAAATCTTCAAAC
1 TTAAAACC-AAACCCTAAAACCTTCAAAC
* *
24574387 TCTAAAATCAAAACCCT-AAACCTTCCATACC
1 T-TAAAA-CCAAACCCTAAAACCTT-CA-AAC
**
24574418 TTAAAACCAAACCCTAAAACCCTAAAAAC
1 TTAAAACCAAACCCTAAAA-CCTTCAAAC
*
24574447 TTAAATCCAAACC
1 TTAAAACCAAACC
24574460 TTTAAAATCC
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
29 29 0.50
30 22 0.38
31 7 0.12
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (28 bp):
TTAAAACCAAACCCTAAAACCTTCAAAC
Found at i:24579225 original size:1 final size:1
Alignment explanation
Indices: 24579176--24579217 Score: 57
Period size: 1 Copynumber: 42.0 Consensus size: 1
24579166 TCAAGATTTC
* * *
24579176 AAAAAAAAAAAAAAAAAAAACAAAACAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24579218 GAGAAAAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:24579225 original size:11 final size:11
Alignment explanation
Indices: 24579175--24579217 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
24579165 TTCAAGATTT
24579175 CAAAAAAAAAA
1 CAAAAAAAAAA
24579186 -AAAAAAAAAA
1 CAAAAAAAAAA
*
24579196 CAAAACAAAAA
1 CAAAAAAAAAA
24579207 CAAAAAAAAAA
1 CAAAAAAAAAA
24579218 GAGAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:24581835 original size:37 final size:37
Alignment explanation
Indices: 24581776--24581858 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
24581766 TGATTCGCGA
* * * * * *
24581776 TGTTATCCCGATCGATTTCTTATTTTTTGACTTACGG
1 TGTTATCTCGATCAACTCCTTATATTTTAACTTACGG
*
24581813 TGTTATCTCGATCAACTCCTTATATTTTAACTTGCGG
1 TGTTATCTCGATCAACTCCTTATATTTTAACTTACGG
*
24581850 TATTATCTC
1 TGTTATCTC
24581859 AGTCGATTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.47
Consensus pattern (37 bp):
TGTTATCTCGATCAACTCCTTATATTTTAACTTACGG
Found at i:24581895 original size:22 final size:22
Alignment explanation
Indices: 24581870--24581912 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24581860 GTCGATTCTA
*
24581870 TAAGACCTTCGGACATGATTTT
1 TAAGACCTTCGGACATAATTTT
24581892 TAAGACCTTCGGACATAATTT
1 TAAGACCTTCGGACATAATTT
24581913 CGATTCGCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (22 bp):
TAAGACCTTCGGACATAATTTT
Found at i:24582005 original size:22 final size:22
Alignment explanation
Indices: 24581979--24582021 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24581969 GTTGATTCTG
*
24581979 TAAGACCTTCGGGCATGATTTC
1 TAAGACCTTCGGGCATAATTTC
*
24582001 TAAGACCTTTGGGCATAATTT
1 TAAGACCTTCGGGCATAATTT
24582022 TGATTCGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (22 bp):
TAAGACCTTCGGGCATAATTTC
Found at i:24582005 original size:109 final size:109
Alignment explanation
Indices: 24581852--24582204 Score: 426
Period size: 109 Copynumber: 3.2 Consensus size: 109
24581842 ACTTGCGGTA
* * * *
24581852 TTATCTCAGTCGATTCTATAAGACCTTCGGACATGATTTTTAAGACCTTCGGACATAATTTCGAT
1 TTATCTCAGTTGATTCTGTAAGACCTTCGGGCATGATTTCTAAGACCTTCGGACATAATTTCGAT
*
24581917 TCGCGGTGTTATCCCAATCGATTCTTTATCTTTCAACTATGATG
66 TCGCGGTGTTATCCCAATCGATTCTTTATCTTTCAACTACGATG
* * *
24581961 TTAT-TCCAGTTGATTCTGTAAGACCTTCGGGCATGATTTCTAAGACCTTTGGGCATAATTTTGA
1 TTATCT-CAGTTGATTCTGTAAGACCTTCGGGCATGATTTCTAAGACCTTCGGACATAATTTCGA
* * * *
24582025 TTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCAACTGCGGTG
65 TTCGCGGTGTTATCCCAATCGATTCTTTATCTTTCAACTACGATG
* * *
24582070 TTATCTCAATTGATTCTGTAAAACCTTCGGGCATGATTTC-AAGACC-TCTGGACATAATCTCGA
1 TTATCTCAGTTGATTCTGTAAGACCTTCGGGCATGATTTCTAAGACCTTC-GGACATAATTTCGA
* * * * * *
24582133 TTCGCGGTGTTATCTCAATCAATTTTTTATTTTTTAACT-TGTAGTG
65 TTCGCGGTGTTATCCCAATCGATTCTTTATCTTTCAACTACG-A-TG
* * *
24582179 TTATCTCAGTCGATTTTATAAGACCT
1 TTATCTCAGTTGATTCTGTAAGACCT
24582205 CCGAGTATAA
Statistics
Matches: 207, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
107 2 0.01
108 50 0.24
109 154 0.74
110 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (109 bp):
TTATCTCAGTTGATTCTGTAAGACCTTCGGGCATGATTTCTAAGACCTTCGGACATAATTTCGAT
TCGCGGTGTTATCCCAATCGATTCTTTATCTTTCAACTACGATG
Found at i:24582253 original size:196 final size:197
Alignment explanation
Indices: 24582015--24582404 Score: 511
Period size: 197 Copynumber: 2.0 Consensus size: 197
24582005 ACCTTTGGGC
**
24582015 ATAATTTTGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCAACTGCGGTGTTAT-CTCAA
1 ATAATTTTGATTCGCAGTGTTATCCCGATCGATTCTTTATCTTTCAACTGCGGTGTTATCCT-AA
* * *
24582079 TTGATTCTGTAAAACCTTCGGGCATGATTTC-AAGACCTCTGGACATAATCTCGATTCGCGGTGT
65 TCGATTCTGTAAAACCTTCGGACATGATTTCTAAGACCTCCGGACATAATCTCGATTCGCGGTGT
* * * *
24582143 TATCTCAATCAATTTTTTATTTTTTAACTTGTAG-TGTTA-TCTCAGTCGATTTTATAAGACCTC
130 TATCTCAATCAATTCTTTATATTTCAACTTG-AGATGTTATTC-CAGTCGATTCTATAAGACCTC
24582206 CGAGT
193 CGAGT
* * *
24582211 ATAATTTTGATTCGCAGTGTTATCCCGATCTATT-TCTTATCTTTCGACTGTGGTGTTATCCTAA
1 ATAATTTTGATTCGCAGTGTTATCCCGATCGATTCT-TTATCTTTCAACTGCGGTGTTATCCTAA
* * * * * *
24582275 TCGATTTTGTAAGACTTTCGGACATGATTTCTAAGACCTCCGGACATAATTTTGATTCGTGGTGT
65 TCGATTCTGTAAAACCTTCGGACATGATTTCTAAGACCTCCGGACATAATCTCGATTCGCGGTGT
* * * *
24582340 TATCTCGATCGATTCTTTATATTTCGACTTGCGATGTTATTCCAGTCGATTCTATAAGACCTCCG
130 TATCTCAATCAATTCTTTATATTTCAACTTGAGATGTTATTCCAGTCGATTCTATAAGACCTCCG
24582405 GACATGATTT
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
195 1 0.01
196 81 0.49
197 83 0.50
198 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (197 bp):
ATAATTTTGATTCGCAGTGTTATCCCGATCGATTCTTTATCTTTCAACTGCGGTGTTATCCTAAT
CGATTCTGTAAAACCTTCGGACATGATTTCTAAGACCTCCGGACATAATCTCGATTCGCGGTGTT
ATCTCAATCAATTCTTTATATTTCAACTTGAGATGTTATTCCAGTCGATTCTATAAGACCTCCGA
GT
Found at i:24582310 original size:22 final size:22
Alignment explanation
Indices: 24582284--24582326 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24582274 ATCGATTTTG
* * *
24582284 TAAGACTTTCGGACATGATTTC
1 TAAGACCTCCGGACATAATTTC
24582306 TAAGACCTCCGGACATAATTT
1 TAAGACCTCCGGACATAATTT
24582327 TGATTCGTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTC
Found at i:24582436 original size:22 final size:22
Alignment explanation
Indices: 24582394--24582437 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24582384 GTCGATTCTA
*
24582394 TAAGACCTCCGGACATGATTTT
1 TAAGACCTCCGGACATAATTTT
* *
24582416 TAAGACCTCTGGGCATAATTTT
1 TAAGACCTCCGGACATAATTTT
24582438 GATTTGTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTT
Found at i:24582518 original size:219 final size:219
Alignment explanation
Indices: 24582190--24582728 Score: 595
Period size: 219 Copynumber: 2.5 Consensus size: 219
24582180 TATCTCAGTC
* * * * *
24582190 GATTTTATAAGACCTCCGAGTATAATTTTGATTCGCAGTGTTATCCCGATCTATT-TCTTATCTT
1 GATTTT-TAAGACCTCTGAGCATAATTTTGATTCGCGGTGTTATTCCGATCGATTCT-TTATCTT
* * * * * * *
24582254 TCGACTGTGGTGTTATCCTAATCGATTTTGTAAGACTTTCGGACATGATTTCTAAGACC-TCCGG
64 TTGACTGCGATGTTATCCTAGTCGATTTTGTAAGACCTCCGGACATGATTTCTAAGACCTTCAGG
* ** * * * *
24582318 ACATAATTTTGATTCGTGGTGTTAT-CTCGATCGA-TTCTTTATATTTCGACTTGCGATGTTATT
129 -CATAATTTAGATTCGCAGTGTTATCCT-GATCAATTTC-TTATATTTCGACTTACGATATTATC
*
24582381 CCAGTCGATTCTATAAGACCTCCGGACAT
191 CCAATCGATTCTATAAGACCTCCGGACAT
* * *
24582410 GATTTTTAAGACCTCTGGGCATAATTTTGATTTGTGGTGTTATTCCGATCGATTCTTTATCTTTT
1 GATTTTTAAGACCTCTGAGCATAATTTTGATTCGCGGTGTTATTCCGATCGATTCTTTATCTTTT
* * * *
24582475 GACTGCGATGTTATCCTAGTTGATTTTGTAATACCTCCGGACATGATTTCTAAGACCTTTAGGTA
66 GACTGCGATGTTATCCTAGTCGATTTTGTAAGACCTCCGGACATGATTTCTAAGACCTTCAGGCA
* *
24582540 TAATTTAGATTCGCAGTGTTATCCTGATCAATTTCTTATCTTTCGATTTACGATATTATCCCAAT
131 TAATTTAGATTCGCAGTGTTATCCTGATCAATTTCTTATATTTCGACTTACGATATTATCCCAAT
* * * *
24582605 TGATTCTGTAAGATCTCCGGGCAT
196 CGATTCTATAAGACCTCCGGACAT
* * * * *
24582629 GATTTCTAAGACCT-TCGAGCATAATTTCGATTCGCGTTGTTA-TCTCGATCGATTCCTTATTTT
1 GATTTTTAAGACCTCT-GAGCATAATTTTGATTCGCGGTGTTATTC-CGATCGATTCTTTATCTT
* * *
24582692 TTGACTTGCAATGTTATCCCAGTCGATTCTGTAAGAC
64 TTGAC-TGCGATGTTATCCTAGTCGATTTTGTAAGAC
24582729 TTTCGGGCAT
Statistics
Matches: 266, Mismatches: 46, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
218 3 0.01
219 222 0.83
220 41 0.15
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (219 bp):
GATTTTTAAGACCTCTGAGCATAATTTTGATTCGCGGTGTTATTCCGATCGATTCTTTATCTTTT
GACTGCGATGTTATCCTAGTCGATTTTGTAAGACCTCCGGACATGATTTCTAAGACCTTCAGGCA
TAATTTAGATTCGCAGTGTTATCCTGATCAATTTCTTATATTTCGACTTACGATATTATCCCAAT
CGATTCTATAAGACCTCCGGACAT
Found at i:24582543 original size:109 final size:107
Alignment explanation
Indices: 24582197--24582728 Score: 528
Period size: 110 Copynumber: 4.9 Consensus size: 107
24582187 GTCGATTTTA
* * * *
24582197 TAAGACCTCCGAGTATAATTTTGATTCGCAGTGTTATCCCGATCTATT-TCTTATCTTTCGACTG
1 TAAGACCTTCG-GCATAATTTTGATTCGCGGTGTTAT-CCGATCGATTCT-TTATCTTTCGACTG
* * * * * * *
24582261 TGGTGTTATCCTAATCGATTTTGTAAGACTTTCGGACATGATTTC
63 CGATGTTATCCCAGTCGATTCTGTAAGACCTCCGGACATGATTTC
* * *
24582306 TAAGACCTCCGGACATAATTTTGATTCGTGGTGTTATCTCGATCGATTCTTTATATTTCGACTTG
1 TAAGACCTTCGG-CATAATTTTGATTCGCGGTGTTATC-CGATCGATTCTTTATCTTTCGAC-TG
* * *
24582371 CGATGTTATTCCAGTCGATTCTATAAGACCTCCGGACATGATTTT
63 CGATGTTATCCCAGTCGATTCTGTAAGACCTCCGGACATGATTTC
* * * *
24582416 TAAGACCTCTGGGCATAATTTTGATTTGTGGTGTTATTCCGATCGATTCTTTATCTTTTGACTGC
1 TAAGACCT-TCGGCATAATTTTGATTCGCGGTGTTA-TCCGATCGATTCTTTATCTTTCGACTGC
* * * *
24582481 GATGTTATCCTAGTTGATTTTGTAATACCTCCGGACATGATTTC
64 GATGTTATCCCAGTCGATTCTGTAAGACCTCCGGACATGATTTC
* * * * * *
24582525 TAAGACCTTTAGGTATAATTTAGATTCGCAGTGTTATCCTGATCAATT-TCTTATCTTTCGATTT
1 TAAGACC-TTCGGCATAATTTTGATTCGCGGTGTTATCC-GATCGATTCT-TTATCTTTCGA-CT
* * * * * *
24582589 ACGATATTATCCCAATTGATTCTGTAAGATCTCCGGGCATGATTTC
62 GCGATGTTATCCCAGTCGATTCTGTAAGACCTCCGGACATGATTTC
* * * * *
24582635 TAAGACCTTCGAGCATAATTTCGATTCGCGTTGTTATCTCGATCGATTCCTTATTTTTTGACTTG
1 TAAGACCTTCG-GCATAATTTTGATTCGCGGTGTTATC-CGATCGATTCTTTATCTTTCGAC-TG
*
24582700 CAATGTTATCCCAGTCGATTCTGTAAGAC
63 CGATGTTATCCCAGTCGATTCTGTAAGAC
24582729 TTTCGGGCAT
Statistics
Matches: 349, Mismatches: 60, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
108 6 0.02
109 139 0.40
110 199 0.57
111 5 0.01
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (107 bp):
TAAGACCTTCGGCATAATTTTGATTCGCGGTGTTATCCGATCGATTCTTTATCTTTCGACTGCGA
TGTTATCCCAGTCGATTCTGTAAGACCTCCGGACATGATTTC
Found at i:24582813 original size:88 final size:88
Alignment explanation
Indices: 24582635--24582832 Score: 218
Period size: 88 Copynumber: 2.2 Consensus size: 88
24582625 GCATGATTTC
* * * * * * *
24582635 TAAGACCTTCGAGCATAATTTCGATTCGCGTTGTTATCTCGATCGATTCCTTATTTTTTGACTTG
1 TAAGACCTTCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCCTTATCTTTCGACTTA
*
24582700 CAATGTTATCCCAGTCGATTCTG
66 CAATGTTATCCCAGTCAATTCTG
* * *
24582723 TAAGACTTTCGGGCATAATTTTGATTTGCGATGTTATCCCGATCGATTTCTTATCTTTCGACTTA
1 TAAGACCTTCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCCTTATCTTTCGACTTA
** ** *
24582788 TGATGTTAT-CTTGATCAATTTTG
66 CAATGTTATCCCAG-TCAATTCTG
* *
24582811 TAAGACCTTCGGGTATGATTTT
1 TAAGACCTTCGGGCATAATTTT
24582833 TAAGACCTCC
Statistics
Matches: 90, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 2 0.02
88 88 0.98
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (88 bp):
TAAGACCTTCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCCTTATCTTTCGACTTA
CAATGTTATCCCAGTCAATTCTG
Found at i:24582838 original size:417 final size:417
Alignment explanation
Indices: 24582306--24583155 Score: 1059
Period size: 417 Copynumber: 2.0 Consensus size: 417
24582296 ACATGATTTC
* * * * * *
24582306 TAAGACCTCCGGACATAATTTTGATTCGTGGTGTTATCTCGATCGATTCTTTATATTTCGACTTG
1 TAAGACCTTCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTTATATTTCGACTTA
* *
24582371 CGATGTTATTCCAGTCGATTCTATAAGACCTCCGGACATGATTTTTAAGACCTCTGGGCATAATT
66 CGATGTTATTCCAGTCAATTCTATAAGACCTCCGGACATGATTTTTAAGACCTCCGGGCATAATT
* * * * * *
24582436 TTGATTTGTGGTGTTATTCCGATCGATTCTTTATCTTTTGAC-TGCGATGTTATCCTAGTTGATT
131 TCGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCGACTTGCGATGTTATCCCAGTCGATT
* * * * *
24582500 TTGTAATACCTCCGGACATGATTTCTAAGACCTTTAGGTATAATTT-AGATTCGC-AGTGTTATC
196 CTGTAAGACCTCCGAACATGATTTCTAAGACCTTCAGGCATAATTTCA-ATTCGCGA-TGTTATC
** * *
24582563 -CTGATCAATT-TCTTATCTTTCGATTTACGATATTATCCCAATTGATTCTGTAAGATCTCCGGG
259 TC-GATCAATTCT-TTAT-TTTCGATTTACGATATTATCCCAATCAATTCTGTAAGACCTCCGGA
* * *
24582626 CATGATTTCTAAGACCT-TCGAGCATAATTTCGATTCGCGTTGTTATCTCGATCGATTCCTTATT
321 CATGATTTCTAAGACCTCT-GAGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCCTTATC
** *
24582690 TTTTGACTTGCAATGTTATCCCAGTCGATTCTG
385 TTTCAACTTACAATGTTATCCCAGTCGATTCTG
* * *
24582723 TAAGACTTTCGGGCATAATTTTGATTTGCGATGTTATCCCGATCGATT-TCTTATCTTTCGACTT
1 TAAGACCTTCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCT-TTATATTTCGACTT
* ** * * * **
24582787 ATGATGTTA-TCTTGATCAATTTTGTAAGACCTTCGGGTATGATTTTTAAGACCTCCGGGCATAA
65 ACGATGTTATTCCAG-TCAATTCTATAAGACCTCCGGACATGATTTTTAAGACCTCCGGGCATAA
* * * *
24582851 TTTCGATTCGTTGTGTTATCCCGATGGATTCTTTATCTTTCGACTTGTGGTGTTATCCCAGTCGA
129 TTTCGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCGACTTGCGATGTTATCCCAGTCGA
* *
24582916 TTCTGTAAGACCTCCGAACATGATTTCTAAGACCTTCGGGCATAATTTCAATTCGCGATGTTGTC
194 TTCTGTAAGACCTCCGAACATGATTTCTAAGACCTTCAGGCATAATTTCAATTCGCGATGTTATC
* ** * *
24582981 TCGATCAATTCTTTATTTTTGATTTGTGGTGTTATCCCAATCAATTCTGTAAGACCTCCGGACAT
259 TCGATCAATTCTTTATTTTCGATTTACGATATTATCCCAATCAATTCTGTAAGACCTCCGGACAT
* * *
24583046 GATTTCTAAGACCTCTGGGCATAATTTGGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTC
324 GATTTCTAAGACCTCTGAGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCCTTATCTTTC
***
24583111 AACTTATGGTGTTATCCCAGTCGATTCTG
389 AACTTACAATGTTATCCCAGTCGATTCTG
24583140 TAAGACCTTCGGGCAT
1 TAAGACCTTCGGGCAT
24583156 GATTCTATAA
Statistics
Matches: 367, Mismatches: 58, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
416 4 0.01
417 276 0.75
418 83 0.23
419 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (417 bp):
TAAGACCTTCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTTATATTTCGACTTA
CGATGTTATTCCAGTCAATTCTATAAGACCTCCGGACATGATTTTTAAGACCTCCGGGCATAATT
TCGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCGACTTGCGATGTTATCCCAGTCGATT
CTGTAAGACCTCCGAACATGATTTCTAAGACCTTCAGGCATAATTTCAATTCGCGATGTTATCTC
GATCAATTCTTTATTTTCGATTTACGATATTATCCCAATCAATTCTGTAAGACCTCCGGACATGA
TTTCTAAGACCTCTGAGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCCTTATCTTTCAA
CTTACAATGTTATCCCAGTCGATTCTG
Found at i:24582853 original size:22 final size:23
Alignment explanation
Indices: 24582804--24582853 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
24582794 TATCTTGATC
* *
24582804 AATTTTGTAAGACCTTCGGGTAT
1 AATTTTGTAAGACCTCCGGGCAT
*
24582827 GATTTT-TAAGACCTCCGGGCAT
1 AATTTTGTAAGACCTCCGGGCAT
24582849 AATTT
1 AATTT
24582854 CGATTCGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (23 bp):
AATTTTGTAAGACCTCCGGGCAT
Found at i:24582907 original size:198 final size:198
Alignment explanation
Indices: 24582539--24583155 Score: 508
Period size: 198 Copynumber: 3.0 Consensus size: 198
24582529 ACCTTTAGGT
* *
24582539 ATAATTTAGATTCGCAGTGTTATCCTGATCAATTTCTTATCTTTCGATTTACGATATTATCCCAA
1 ATAATTTAGATTCGCAGTGTTATCCCGATCAATTTCTTATCTTTCGACTTACGATATTATCCCAA
** * *
24582604 TTGATTCTGTAAGATCTCCGGGCATGATTTCTAAGACCTTCGAGCATAATTTCGATTCGCGTTGT
66 TCAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGCATAATTTCGATTCGCGTTGT
* * *
24582669 TATCTCGATCGATTCCTTATTTTTTGACTTGCAATGTTATCCCAGTCGATTCTGTAAGACTTTCG
131 TATCCCGATCGATTCCTTATCTTTCGACTTGCAATGTTATCCCAGTCGATTCTGTAAGACTTTCG
24582734 GGC
196 GGC
* * * * * ***
24582737 ATAATTTTGATTTGC-GATGTTATCCCGATCGATTTCTTATCTTTCGACTTATGATGTTATCTTG
1 ATAATTTAGATTCGCAG-TGTTATCCCGATCAATTTCTTATCTTTCGACTTACGATATTATCCCA
* * * * * *
24582801 ATCAATTTTGTAAGACCTTCGGGTATGATTTTTAAGACCTCCGGGCATAATTTCGATTCG-TTGT
65 ATCAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGCATAATTTCGATTCGCGT-T
* * ***
24582865 GTTATCCCGATGGATTCTTTATCTTTCGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTC
129 GTTATCCCGATCGATTCCTTATCTTTCGACTTGCAATGTTATCCCAGTCGATTCTGT-A-A----
*
24582930 CGAACATGATTTCTAAGACCTTCGGGC
188 -G-AC----TTTC---G-----GG--C
* * * * ** * *
24582957 ATAATTTCA-ATTCGC-GATGTTGTCTCGATCAA-TTCTTTAT-TTTTGATTTGTGGTGTTATCC
1 ATAATTT-AGATTCGCAG-TGTTATCCCGATCAATTTC-TTATCTTTCGACTTACGATATTATCC
* * * * *
24583018 CAATCAATTCTGTAAGACCTCCGGACATGATTTCTAAGACCTCTGGGCATAATTTGGATTCGCGG
63 CAATCAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGCATAATTTCGATTCGCGT
* * **** *
24583083 TGTTATCCCGATCGATTCTTTATCTTTCAACTTATGGTGTTATCCCAGTCGATTCTGTAAGACCT
128 TGTTATCCCGATCGATTCCTTATCTTTCGACTTGCAATGTTATCCCAGTCGATTCTGTAAGACTT
24583148 TCGGGC
193 TCGGGC
24583154 AT
1 AT
24583156 GATTCTATAA
Statistics
Matches: 337, Mismatches: 55, Indels: 55
0.75 0.12 0.12
Matches are distributed among these distances:
197 5 0.01
198 153 0.45
199 2 0.01
200 1 0.00
204 1 0.00
205 1 0.00
206 2 0.01
207 3 0.01
210 4 0.01
211 2 0.01
212 1 0.00
213 1 0.00
217 1 0.00
218 2 0.01
219 127 0.38
220 31 0.09
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (198 bp):
ATAATTTAGATTCGCAGTGTTATCCCGATCAATTTCTTATCTTTCGACTTACGATATTATCCCAA
TCAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGCATAATTTCGATTCGCGTTGT
TATCCCGATCGATTCCTTATCTTTCGACTTGCAATGTTATCCCAGTCGATTCTGTAAGACTTTCG
GGC
Found at i:24583050 original size:109 final size:110
Alignment explanation
Indices: 24582723--24583303 Score: 675
Period size: 110 Copynumber: 5.3 Consensus size: 110
24582713 GTCGATTCTG
* * *
24582723 TAAGACTTTCGGGCATAATTTTGATTTGCGATGTTATCCCGATCGATT-TCTTATCTTTCGACTT
1 TAAGACCTTCGGGCATAATTTCGATTCGCGATGTTATCCCGATCGATTCT-TTATCTTTCGACTT
* *** * * * * *
24582787 ATGATGTTATCTTGATCAATTTTGTAAGACCTTCGGGTATGATTTT
65 ATGGTGTTATCCCAATCGATTCTGTAAGACCTCCGGGCATGATTTC
* * *
24582833 TAAGACCTCCGGGCATAATTTCGATTCGTTG-TGTTATCCCGATGGATTCTTTATCTTTCGACTT
1 TAAGACCTTCGGGCATAATTTCGATTCG-CGATGTTATCCCGATCGATTCTTTATCTTTCGACTT
* * **
24582897 GTGGTGTTATCCCAGTCGATTCTGTAAGACCTCCGAACATGATTTC
65 ATGGTGTTATCCCAATCGATTCTGTAAGACCTCCGGGCATGATTTC
* * * * * * *
24582943 TAAGACCTTCGGGCATAATTTCAATTCGCGATGTTGTCTCGATCAATTCTTTAT-TTTTGATTTG
1 TAAGACCTTCGGGCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCGACTTA
* *
24583007 TGGTGTTATCCCAATCAATTCTGTAAGACCTCCGGACATGATTTC
66 TGGTGTTATCCCAATCGATTCTGTAAGACCTCCGGGCATGATTTC
* * *
24583052 TAAGACC-TCTGGGCATAATTTGGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTCAACTT
1 TAAGACCTTC-GGGCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCGACTT
* * *
24583116 ATGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGCATGATTCTA
65 ATGGTGTTATCCCAATCGATTCTGTAAGACCTCCGGGCATGATT-TC
* * *
24583163 TAAGACCTCCGGGCATAATTTCGATTTGCAATGTTATCCCGATCGATTCTTTATCTTTTCGACTT
1 TAAGACCTTCGGGCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATC-TTTCGACTT
* * * * * *
24583228 ATGGTATTATCCTAATCGATTCTGTAAGACCTCTGGGTATTATTTT
65 ATGGTGTTATCCCAATCGATTCTGTAAGACCTCCGGGCATGATTTC
* * *
24583274 TAAGATCTTCGAGCATAATTTCGACTCGCG
1 TAAGACCTTCGGGCATAATTTCGATTCGCG
24583304 GTGACCCAGG
Statistics
Matches: 397, Mismatches: 66, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
108 2 0.01
109 96 0.24
110 177 0.45
111 76 0.19
112 46 0.12
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (110 bp):
TAAGACCTTCGGGCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCGACTTA
TGGTGTTATCCCAATCGATTCTGTAAGACCTCCGGGCATGATTTC
Found at i:24583058 original size:219 final size:221
Alignment explanation
Indices: 24582716--24583306 Score: 774
Period size: 219 Copynumber: 2.7 Consensus size: 221
24582706 TATCCCAGTC
* * *
24582716 GATTCTGTAAGACTTTCGGGCATAATTTTGATTTGCGATGTTATCCCGATCGATT-TCTTATCTT
1 GATTCTATAAGACCTTCGGGCATAATTTCGATTTGCGATGTTATCCCGATCGATTCT-TTATCTT
* * * * * *
24582780 TCGACTTATGATGTTATCTTGATCAATTTTGTAAGACCTTCGGGTATGATTTTTAAGACCTCCGG
65 TTGACTTATGGTGTTATCCTAATCAATTCTGTAAGACCTCCGGGTATGATTTTTAAGACCTCCGG
** * * *
24582845 GCATAATTTCGATTCGTTGTGTTATCCCGATGGATTCTTTATCTTTCGACTTGTGGTGTTATCCC
130 GCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTCAACTTATGGTGTTATCCC
24582910 AGTCGATTCTGTAAGACCTCCGAACAT
195 AGTCGATTCTGTAAGACCTCCGAACAT
* * * * * *
24582937 GATT-TCTAAGACCTTCGGGCATAATTTCAATTCGCGATGTTGTCTCGATCAATTCTTTAT-TTT
1 GATTCTATAAGACCTTCGGGCATAATTTCGATTTGCGATGTTATCCCGATCGATTCTTTATCTTT
* * * ** * *
24583000 TGATTTGTGGTGTTATCCCAATCAATTCTGTAAGACCTCCGGACATGATTTCTAAGACCTCTGGG
66 TGACTTATGGTGTTATCCTAATCAATTCTGTAAGACCTCCGGGTATGATTTTTAAGACCTCCGGG
*
24583065 CATAATTTGGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTCAACTTATGGTGTTATCCCA
131 CATAATTTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTCAACTTATGGTGTTATCCCA
* **
24583130 GTCGATTCTGTAAGACCTTCGGGCAT
196 GTCGATTCTGTAAGACCTCCGAACAT
* *
24583156 GATTCTATAAGACCTCCGGGCATAATTTCGATTTGCAATGTTATCCCGATCGATTCTTTATCTTT
1 GATTCTATAAGACCTTCGGGCATAATTTCGATTTGCGATGTTATCCCGATCGATTCTTTATCTTT
* * * * * * *
24583221 TCGACTTATGGTATTATCCTAATCGATTCTGTAAGACCTCTGGGTATTATTTTTAAGATCTTCGA
66 T-GACTTATGGTGTTATCCTAATCAATTCTGTAAGACCTCCGGGTATGATTTTTAAGACCTCCGG
*
24583286 GCATAATTTCGACTCGCGGTG
130 GCATAATTTCGATTCGCGGTG
24583307 ACCCAGGCGA
Statistics
Matches: 312, Mismatches: 54, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
219 141 0.45
220 94 0.30
221 9 0.03
222 68 0.22
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (221 bp):
GATTCTATAAGACCTTCGGGCATAATTTCGATTTGCGATGTTATCCCGATCGATTCTTTATCTTT
TGACTTATGGTGTTATCCTAATCAATTCTGTAAGACCTCCGGGTATGATTTTTAAGACCTCCGGG
CATAATTTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTCAACTTATGGTGTTATCCCA
GTCGATTCTGTAAGACCTCCGAACAT
Found at i:24583072 original size:22 final size:22
Alignment explanation
Indices: 24583030--24583072 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24583020 ATCAATTCTG
*
24583030 TAAGACCTCCGGACATGATTTC
1 TAAGACCTCCGGACATAATTTC
* *
24583052 TAAGACCTCTGGGCATAATTT
1 TAAGACCTCCGGACATAATTT
24583073 GGATTCGCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTC
Found at i:24583166 original size:23 final size:23
Alignment explanation
Indices: 24583133--24583178 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
24583123 TATCCCAGTC
* *
24583133 GATTCTGTAAGACCTTCGGGCAT
1 GATTCTATAAGACCTCCGGGCAT
24583156 GATTCTATAAGACCTCCGGGCAT
1 GATTCTATAAGACCTCCGGGCAT
24583179 AATTTCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (23 bp):
GATTCTATAAGACCTCCGGGCAT
Found at i:24584153 original size:17 final size:17
Alignment explanation
Indices: 24584114--24584171 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
24584104 ATCTTAGGTT
24584114 TCTAAAA-CCCCTAAAA
1 TCTAAAATCCCCTAAAA
24584130 T-TCAAAATCCCCTAAAA
1 TCT-AAAATCCCCTAAAA
24584147 TCTAAAAT---CTAAAA
1 TCTAAAATCCCCTAAAA
24584161 TCTTAAAATCC
1 TC-TAAAATCC
24584172 GAAACCCCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.22
15 7 0.19
16 5 0.14
17 15 0.42
18 1 0.03
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (17 bp):
TCTAAAATCCCCTAAAA
Found at i:24584169 original size:8 final size:7
Alignment explanation
Indices: 24584141--24584170 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
24584131 TCAAAATCCC
24584141 CTAAAAT
1 CTAAAAT
24584148 CTAAAAT
1 CTAAAAT
24584155 CTAAAAT
1 CTAAAAT
24584162 CTTAAAAT
1 C-TAAAAT
24584170 C
1 C
24584171 CGAAACCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
CTAAAAT
Found at i:24584183 original size:31 final size:30
Alignment explanation
Indices: 24584148--24584216 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 30
24584138 CCCCTAAAAT
*
24584148 CTAAAATCTAAAAT-CTTAAAATCCGAAACCC
1 CTAAAATCCAAAATCCTT-AAATCC-AAACCC
24584179 CTAAAATCCAAAATCCCTTAAATCCAAACCC
1 CTAAAATCCAAAAT-CCTTAAATCCAAACCC
*
24584210 TTAAAAT
1 CTAAAAT
24584217 TCGAAACCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 25 0.74
32 6 0.18
33 3 0.09
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (30 bp):
CTAAAATCCAAAATCCTTAAATCCAAACCC
Found at i:24584185 original size:16 final size:16
Alignment explanation
Indices: 24584164--24584255 Score: 96
Period size: 16 Copynumber: 5.8 Consensus size: 16
24584154 TCTAAAATCT
24584164 TAAAATCCGAAACCCC
1 TAAAATCCGAAACCCC
* *
24584180 TAAAATCCAAAATCCC
1 TAAAATCCGAAACCCC
* *
24584196 TTAAATCC-AAACCCT
1 TAAAATCCGAAACCCC
*
24584211 TAAAATTCGAAACCCC
1 TAAAATCCGAAACCCC
* *
24584227 TAAAATGCTAAACCCCC
1 TAAAATCCGAAA-CCCC
*
24584244 TAAAATCTGAAA
1 TAAAATCCGAAA
24584256 TTTCAAACCT
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
15 11 0.18
16 37 0.61
17 13 0.21
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (16 bp):
TAAAATCCGAAACCCC
Found at i:24584279 original size:23 final size:22
Alignment explanation
Indices: 24584244--24584292 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
24584234 CTAAACCCCC
* *
24584244 TAAAATCTGAAATTTCAAACCTT
1 TAAAATCTGAAA-TCCAAACCCT
* *
24584267 TAAACTCTTAAATCCAAACCCT
1 TAAAATCTGAAATCCAAACCCT
24584289 TAAA
1 TAAA
24584293 TTAAAACCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATCTGAAATCCAAACCCT
Found at i:24584335 original size:22 final size:22
Alignment explanation
Indices: 24584293--24584335 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24584283 AACCCTTAAA
* *
24584293 TTAAAACCCTAAACCTCAAATT
1 TTAAAACCCGAAACCTAAAATT
24584315 TTAAAA-CCGAAACCCTAAAAT
1 TTAAAACCCGAAA-CCTAAAAT
24584336 CTTCAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (22 bp):
TTAAAACCCGAAACCTAAAATT
Found at i:24584350 original size:30 final size:30
Alignment explanation
Indices: 24584316--24584426 Score: 79
Period size: 30 Copynumber: 3.7 Consensus size: 30
24584306 CCTCAAATTT
24584316 TAAAACCGAAACCCTAAAATCTT-CAAACTC
1 TAAAACC-AAACCCTAAAATCTTACAAACTC
** * * *
24584346 TAAAATTAAAACCCT-AAACCTTCCATAC-C
1 TAAAA-CCAAACCCTAAAATCTTACAAACTC
*
24584375 TTAAAACCAAACCCTAAAA-CTTTAAAAACT-
1 -TAAAACCAAACCCTAAAATC-TTACAAACTC
*
24584405 TAAATCCAAACCCTTAAAATCT
1 TAAAACCAAACCC-TAAAATCT
24584427 GAATCTTCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
29 27 0.43
30 35 0.56
31 1 0.02
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (30 bp):
TAAAACCAAACCCTAAAATCTTACAAACTC
Found at i:24596835 original size:22 final size:22
Alignment explanation
Indices: 24596810--24596973 Score: 90
Period size: 24 Copynumber: 7.0 Consensus size: 22
24596800 GAATTTTATT
24596810 TAAAAAAAATAAAATAATAAAA
1 TAAAAAAAATAAAATAATAAAA
24596832 TAAAATGAAAATAAAATGAA-AATAA
1 TAAAA--AAAATAAAAT-AATAA-AA
24596857 -AAATAAAAATAAAAATAA-AGAAA
1 TAAA-AAAAAT-AAAATAATA-AAA
*
24596880 -AATAAAAATAAAATAAGAATAAAA
1 TAAAAAAAATAAAAT---AATAAAA
* *
24596904 TAAAATAAAAATAAAA-AATATAT
1 T-AAA-AAAAATAAAATAATAAAA
24596927 TAAACAAATCTAATAATAATAAT-AAA
1 TAAA-AAA---AATAA-AATAATAAAA
*
24596953 TAAATAAAATAAAATAA-AAAA
1 TAAAAAAAATAAAATAATAAAA
24596974 GAGAACGGCT
Statistics
Matches: 114, Mismatches: 8, Indels: 41
0.70 0.05 0.25
Matches are distributed among these distances:
21 13 0.11
22 22 0.19
23 18 0.16
24 26 0.23
25 13 0.11
26 9 0.08
27 13 0.11
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.20
Consensus pattern (22 bp):
TAAAAAAAATAAAATAATAAAA
Found at i:24596842 original size:6 final size:5
Alignment explanation
Indices: 24596810--24596971 Score: 122
Period size: 5 Copynumber: 31.0 Consensus size: 5
24596800 GAATTTTATT
24596810 TAAAA -AAAA TAAAA T--AA TAAAA TAAAA TGAAAA TAAAA TGAAAA TAAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA T-AAAA T-AAAA
24596860 TAAAAA TAAAAA TAAAGA -AAAA TAAAAA TAAAA TAAGAA TAAAA TAAAA
1 T-AAAA T-AAAA TAAA-A TAAAA T-AAAA TAAAA TAA-AA TAAAA TAAAA
* * *
24596909 TAAAAA TAAAA -AATATA TTAAA CAAATC TAATAA TAATAA T-AAA T-AAA
1 T-AAAA TAAAA TAA-A-A TAAAA TAAA-A TAA-AA TAA-AA TAAAA TAAAA
24596957 TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA
24596972 AAGAGAACGG
Statistics
Matches: 134, Mismatches: 7, Indels: 32
0.77 0.04 0.18
Matches are distributed among these distances:
3 3 0.02
4 14 0.10
5 61 0.46
6 54 0.40
7 2 0.01
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:24596844 original size:11 final size:10
Alignment explanation
Indices: 24596810--24596971 Score: 122
Period size: 11 Copynumber: 15.5 Consensus size: 10
24596800 GAATTTTATT
24596810 TAAAA-AAAA
1 TAAAATAAAA
24596819 TAAAAT--AA
1 TAAAATAAAA
24596827 TAAAATAAAA
1 TAAAATAAAA
24596837 TGAAAATAAAA
1 T-AAAATAAAA
24596848 TGAAAATAAAAA
1 T-AAAAT-AAAA
24596860 TAAAAATAAAAA
1 T-AAAAT-AAAA
24596872 TAAAGA-AAAA
1 TAAA-ATAAAA
24596882 TAAAAATAAAA
1 T-AAAATAAAA
24596893 TAAGAATAAAA
1 TAA-AATAAAA
24596904 TAAAATAAAAA
1 TAAAAT-AAAA
24596915 TAAAA-AATATA
1 TAAAATAA-A-A
* * *
24596926 TTAAACAAATC
1 TAAAATAAA-A
24596937 TAATAATAATAA
1 TAA-AATAA-AA
24596949 T-AAAT-AAA
1 TAAAATAAAA
24596957 TAAAATAAAA
1 TAAAATAAAA
24596967 TAAAA
1 TAAAA
24596972 AAGAGAACGG
Statistics
Matches: 130, Mismatches: 6, Indels: 33
0.77 0.04 0.20
Matches are distributed among these distances:
8 11 0.08
9 12 0.09
10 26 0.20
11 56 0.43
12 24 0.18
13 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.20
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:24596995 original size:13 final size:13
Alignment explanation
Indices: 24596977--24597001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24596967 TAAAAAAGAG
24596977 AACGGCTCGGCTT
1 AACGGCTCGGCTT
24596990 AACGGCTCGGCT
1 AACGGCTCGGCT
24597002 CGGCTTGAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (13 bp):
AACGGCTCGGCTT
Found at i:24597817 original size:41 final size:41
Alignment explanation
Indices: 24597750--24597829 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
24597740 AAAATCAGAA
*
24597750 AAAGAAAATAAAAAATCAAATAAAAATATTAATAGATAATT
1 AAAGAAAATAAAAAATCAAATAAAAATATTAACAGATAATT
*
24597791 AAAGAAAA-AAATAAGAT-AAATCAAAATATTAACAGATAA
1 AAAGAAAATAAA-AA-ATCAAATAAAAATATTAACAGATAA
24597830 AAATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 3 0.09
41 30 0.86
42 2 0.06
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (41 bp):
AAAGAAAATAAAAAATCAAATAAAAATATTAACAGATAATT
Found at i:24597844 original size:36 final size:39
Alignment explanation
Indices: 24597804--24597877 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 39
24597794 GAAAAAAATA
*
24597804 AGATAAATCA-AA-ATATTAACAGATAAA-AATAATAAT
1 AGATAAATCATAATATATAAACAGATAAATAATAATAAT
* *
24597840 AGATAAATTATAATATATAAATAGATAAATAATAATAA
1 AGATAAATCATAATATATAAACAGATAAATAATAATAA
24597878 ATATATAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.28
37 2 0.06
38 13 0.41
39 8 0.25
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (39 bp):
AGATAAATCATAATATATAAACAGATAAATAATAATAAT
Found at i:24597852 original size:7 final size:8
Alignment explanation
Indices: 24597837--24598028 Score: 70
Period size: 8 Copynumber: 24.4 Consensus size: 8
24597827 TAAAAATAAT
*
24597837 AATAGATA
1 AATATATA
24597845 AAT-TAT-
1 AATATATA
24597851 AATATATA
1 AATATATA
*
24597859 AATAGATA
1 AATATATA
24597867 AATAATAATA
1 AAT-AT-ATA
24597877 AATATATA
1 AATATATA
* *
24597885 ACTAGATA
1 AATATATA
* *
24597893 AATAAAAAA
1 AAT-ATATA
24597902 AATATATA
1 AATATATA
*
24597910 TTAACATA-A
1 --AATATATA
*
24597919 AA-AAATA
1 AATATATA
24597926 AATATATA
1 AATATATA
*
24597934 TTAATAAATA
1 --AATATATA
24597944 GTAATA-ATA
1 --AATATATA
*
24597953 AATAAATA
1 AATATATA
24597961 AATA-ATA
1 AATATATA
*
24597968 AATACATA
1 AATATATA
24597976 AGATATA-A
1 A-ATATATA
**
24597984 AGGA-A-A
1 AATATATA
24597990 AA-ATATA
1 AATATATA
24597997 AA-ATATA
1 AATATATA
24598004 AATA-ATA
1 AATATATA
24598011 AA-ATAATA
1 AATAT-ATA
24598019 AA-ATATA
1 AATATATA
24598026 AAT
1 AAT
24598029 TACAAAATAA
Statistics
Matches: 145, Mismatches: 19, Indels: 40
0.71 0.09 0.20
Matches are distributed among these distances:
5 1 0.01
6 10 0.07
7 42 0.29
8 52 0.36
9 17 0.12
10 23 0.16
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (8 bp):
AATATATA
Found at i:24597852 original size:14 final size:14
Alignment explanation
Indices: 24597830--24597897 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 14
24597820 TAACAGATAA
24597830 AAATAATAATAGAT
1 AAATAATAATAGAT
* *
24597844 AAATTATAATATAT
1 AAATAATAATAGAT
*
24597858 AAATAGATAAATAATAAT
1 AAATA-AT-AAT-A-GAT
24597876 AAATATATAACTAGAT
1 AAATA-ATAA-TAGAT
24597892 AAATAA
1 AAATAA
24597898 AAAAAATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
14 16 0.37
15 3 0.07
16 10 0.23
17 4 0.09
18 10 0.23
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:24597862 original size:22 final size:25
Alignment explanation
Indices: 24597826--24598028 Score: 111
Period size: 22 Copynumber: 8.7 Consensus size: 25
24597816 ATATTAACAG
24597826 ATAA-AAATA-AT-AATAGATAAAT
1 ATAATAAATATATAAATAGATAAAT
24597848 -T-AT-AATATATAAATAGATAAAT
1 ATAATAAATATATAAATAGATAAAT
*
24597870 AATAATAAATATATAACTAGATAAAT
1 -ATAATAAATATATAAATAGATAAAT
* * * *
24597896 AAAAAAAATATAT-ATTAACATAAA-
1 ATAATAAATATATAAAT-AGATAAAT
* * *
24597920 AAAATAAATATATATTAATAAAT-AGT
1 ATAATAAATATATA--AATAGATAAAT
*
24597946 AATAATAAATAAATAAATA-ATAAAT
1 -ATAATAAATATATAAATAGATAAAT
* * * *
24597971 A-CAT-AAGATATAAA-GGA-AAAA
1 ATAATAAATATATAAATAGATAAAT
24597992 AT-ATAAA-ATATAAATA-ATAAA-
1 ATAATAAATATATAAATAGATAAAT
24598013 ATAATAAA-ATATAAAT
1 ATAATAAATATATAAAT
24598029 TACAAAATAA
Statistics
Matches: 143, Mismatches: 18, Indels: 40
0.71 0.09 0.20
Matches are distributed among these distances:
20 5 0.03
21 19 0.13
22 38 0.27
23 2 0.01
24 18 0.13
25 26 0.18
26 21 0.15
27 14 0.10
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (25 bp):
ATAATAAATATATAAATAGATAAAT
Found at i:24597880 original size:4 final size:4
Alignment explanation
Indices: 24597755--24597976 Score: 68
Period size: 4 Copynumber: 54.5 Consensus size: 4
24597745 CAGAAAAAGA
* * * * *
24597755 AAAT AAA- AAAT CAAAT AAA- AATAT TAAT AGAT AATT AAAG AAAA AAAT
1 AAAT AAAT AAAT -AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * * *
24597803 AAGAT AAAT CAAA- ATAT TAAC AGAT AAAA ATAAT -AAT AGAT AAATT
1 AA-AT AAAT -AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAA-T
* * * * *
24597849 ATAAT ATAT AAAT AGAT AAAT -AAT -AAT AAAT ATAT AACT AGAT AAAT
1 A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
24597896 AAA- AAA- AATAT ATATT AACAT AAAA AAAT AAAT ATATAT TAAT AAAT
1 AAAT AAAT AA-AT A-AAT AA-AT AAAT AAAT AAAT A-A-AT AAAT AAAT
*
24597943 AGTAAT -AAT AAAT AAAT AAAT -AAT AAAT ACAT AA
1 A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
24597977 GATATAAAGG
Statistics
Matches: 157, Mismatches: 39, Indels: 44
0.65 0.16 0.18
Matches are distributed among these distances:
3 27 0.17
4 96 0.61
5 26 0.17
6 8 0.05
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:24597950 original size:24 final size:24
Alignment explanation
Indices: 24597864--24597943 Score: 92
Period size: 24 Copynumber: 3.3 Consensus size: 24
24597854 ATATAAATAG
* *
24597864 ATAAATAATAATAAATATATAACTAG
1 ATAAATAA-AATAAATATAT-ATTAC
*
24597890 ATAAATAAAAAAAATATATATTAAC
1 ATAAATAAAATAAATATATATT-AC
24597915 ATAAA-AAAATAAATATATATTA-
1 ATAAATAAAATAAATATATATTAC
24597937 ATAAATA
1 ATAAATA
24597944 GTAATAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 5 0.10
23 2 0.04
24 17 0.35
25 16 0.33
26 8 0.17
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (24 bp):
ATAAATAAAATAAATATATATTAC
Found at i:24598002 original size:21 final size:22
Alignment explanation
Indices: 24597946--24598043 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
24597936 AATAAATAGT
* *
24597946 AATAATAAATAAATAAATAAT-A
1 AATAATAAA-ATATAAAGAATAA
*
24597968 AATACATAAGATATAAAGGAA-AA
1 AATA-ATAAAATATAAA-GAATAA
*
24597991 AAT-ATAAAATATAAATAATAA
1 AATAATAAAATATAAAGAATAA
** *
24598012 AATAATAAAATATAAATTACAA
1 AATAATAAAATATAAAGAATAA
24598034 AATAATAAAA
1 AATAATAAAA
24598044 AAAAAGTGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.03
21 16 0.25
22 36 0.56
23 10 0.16
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.24
Consensus pattern (22 bp):
AATAATAAAATATAAAGAATAA
Found at i:24598036 original size:43 final size:44
Alignment explanation
Indices: 24597946--24598043 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 44
24597936 AATAAATAGT
* *
24597946 AATAATAAATAAATAAATAATAAATACATAAGATATAAAGGAAAA
1 AATAATAAA-ATATAAATAATAAATACATAAAATATAAAGGAAAA
** *
24597991 AAT-ATAAAATATAAATAATAAAATA-ATAAAATATAAATTACAA
1 AATAATAAAATATAAATAAT-AAATACATAAAATATAAAGGAAAA
24598034 AATAATAAAA
1 AATAATAAAA
24598044 AAAAAGTGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 27 0.59
44 16 0.35
45 3 0.07
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.24
Consensus pattern (44 bp):
AATAATAAAATATAAATAATAAATACATAAAATATAAAGGAAAA
Found at i:24598452 original size:43 final size:41
Alignment explanation
Indices: 24598232--24598572 Score: 328
Period size: 41 Copynumber: 8.1 Consensus size: 41
24598222 ATTTGATCAA
* * * * *
24598232 GGCTCCTCTGAGCAGAGGCTCAACGACTTTAAAAAACATAAACAA
1 GGCTCCTCTAATCAGAGGCTCAACAACTTT-GAAAA-AT-AA-AT
* * * *
24598277 AGCTCCTCTAATCAGAGGCTCAATGAA-TTTGGAAAATAAAC
1 GGCTCCTCTAATCAGAGGCTCAA-CAACTTTGAAAAATAAAT
**
24598318 GGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAACA-
1 GGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAA-AT
* * *
24598359 -ACTCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAT
* *
24598399 GGCTCATCTAATCAGAGGCTAAACAACTTTTGAAAAAGTAAAT
1 GGCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAA-TAAAT
* *
24598442 GGCTCCTCTAATCATAAGCTCAACAACTTTGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAT
* * * *
24598483 AAAGCTCCTCTAATCAGAGGCTTAACGACTTTTAAAAAGTAAAT
1 --GGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAA-TAAAT
* * * *
24598527 AGCTTCTCTAATCAAAGGCTCAACAACTTTGAAAAGTAAAT
1 GGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAT
24598568 GGCTC
1 GGCTC
24598573 TTTGAAAATC
Statistics
Matches: 248, Mismatches: 38, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.00
40 36 0.15
41 69 0.28
42 50 0.20
43 60 0.24
44 8 0.03
45 23 0.09
46 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (41 bp):
GGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAT
Done.