Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 65 of 126
Found at i:13334184 original size:19 final size:19
Alignment explanation
Indices: 13334156--13334212 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
13334146 ATTTTTTTTG
*
13334156 TTTTTTGTATTTTGTATTA
1 TTTTTCGTATTTTGTATTA
*
13334175 TTTTTGGTATTTT-T-TT-
1 TTTTTCGTATTTTGTATTA
*
13334191 TTATTTCGTATTTTGTAATA
1 TT-TTTCGTATTTTGTATTA
13334211 TT
1 TT
13334213 ATTATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 2 0.06
17 12 0.39
18 2 0.06
19 13 0.42
20 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.11, T:0.72
Consensus pattern (19 bp):
TTTTTCGTATTTTGTATTA
Found at i:13334229 original size:36 final size:35
Alignment explanation
Indices: 13334146--13334236 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 35
13334136 TTCATTTTTC
* *
13334146 ATTTTTTTTGTTT-TTTGTATTTTGTATTATTTTTG
1 ATTTTTTTT-TTTATTTGTATTTTGTAATATTATTG
* *
13334181 GTATTTTTTTTTATTTCGTATTTTGTAATATTATT-
1 ATTTTTTTTTTTATTT-GTATTTTGTAATATTATTG
13334216 ATTTTTTTATTTTATTT-TATT
1 ATTTTTTT-TTTTATTTGTATT
13334237 CTGGGATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
34 7 0.15
35 16 0.34
36 24 0.51
ACGTcount: A:0.16, C:0.01, G:0.08, T:0.75
Consensus pattern (35 bp):
ATTTTTTTTTTTATTTGTATTTTGTAATATTATTG
Found at i:13334819 original size:73 final size:73
Alignment explanation
Indices: 13334605--13335261 Score: 844
Period size: 73 Copynumber: 9.2 Consensus size: 73
13334595 ATGATTTTAA
* *
13334605 ATTAAAGA-GA-TCGGGATTGAACCGCGAA-TCAGAGAA-TAA-G-AAT-ATCAGGATTAAACCA
1 ATTAAAGATGACT-GGGATTGAACCGC-AAGTCAGAGAATTAATGAAATGATCGGGATTAAACCG
* * *
13334663 TGAATCAAAT
64 CGAGTCAAAG
* * * * * *
13334673 ATTAACGATGACTGGGACTGAACCGCAAGTCGAGGGAATTAATGAAATGGTCGAGATTAAACCAC
1 ATTAAAGATGACTGGGATTGAACCGCAAGTC-AGAGAATTAATGAAATGATCGGGATTAAACCGC
*
13334738 GAGCCAAAG
65 GAGTCAAAG
* * * **
13334747 ATTAAAGATGACTGAGATTGAGCCGCAAGTCAGAGAATTAATGAAATGACCGGGATTAAACCATG
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAACCGCG
13334812 AGTCAAAG
66 AGTCAAAG
* *
13334820 ATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAAATTAATGAAATGATCGGGATTAAACCGCG
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAACCGCG
13334885 AGTCAAAG
66 AGTCAAAG
** * *
13334893 ATTAAAGACAATTGGGATTGAACCGTAAGTCA-A-AA--AATGAAATGATCGGGATTAAACCGCG
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAACCGCG
*
13334954 AGTCAAAT
66 AGTCAAAG
* * * * *
13334962 ATTAAAAATGACTGGGATTAAATCGTAAGTCAGAGAATTAATGAAATGA-CTGGGATTAAACTGC
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATC-GGGATTAAACCGC
13335026 GAGTCAAAG
65 GAGTCAAAG
* * * *
13335035 ATTAAAGATGACTGGGATTGAGCCGCAAGTCAGAG-A--AAT--AATGACCGAGATTAAACCACG
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAACCGCG
13335095 AGTCAAAG
66 AGTCAAAG
*
13335103 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATGATCGGGATTAAACCGCG
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAACCGCG
13335168 AGTCAAAG
66 AGTCAAAG
*
13335176 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATGATCGGGATTAAACCGCG
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAACCGCG
13335241 AGTCAAAG
66 AGTCAAAG
13335249 ATTAAAGATGACT
1 ATTAAAGATGACT
13335262 ATGAAATGAT
Statistics
Matches: 518, Mismatches: 52, Indels: 33
0.86 0.09 0.05
Matches are distributed among these distances:
68 67 0.13
69 77 0.15
70 10 0.02
71 10 0.02
72 4 0.01
73 305 0.59
74 45 0.09
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (73 bp):
ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAACCGCG
AGTCAAAG
Found at i:13335099 original size:33 final size:33
Alignment explanation
Indices: 13335060--13335146 Score: 86
Period size: 35 Copynumber: 2.6 Consensus size: 33
13335050 GATTGAGCCG
13335060 CAAGTCAGAGAAATAATGACCGAGATTAAACCA
1 CAAGTCAGAGAAATAATGACCGAGATTAAACCA
* * * * * *
13335093 CGAGTCAAAGATTAA-AGATGACTGGGATTGAACCG
1 CAAGTCAGAGA--AATA-ATGACCGAGATTAAACCA
13335128 CAAGTCAGAGAAATAATGA
1 CAAGTCAGAGAAATAATGA
13335147 AATGATCGGG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
33 15 0.36
34 2 0.05
35 25 0.60
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (33 bp):
CAAGTCAGAGAAATAATGACCGAGATTAAACCA
Found at i:13335146 original size:141 final size:144
Alignment explanation
Indices: 13334605--13335261 Score: 818
Period size: 142 Copynumber: 4.6 Consensus size: 144
13334595 ATGATTTTAA
* * * *
13334605 ATTAAAGA-GA-TCGGGATTGAACCGCGAA-TCAGAGAATAA-GAAT-ATCAGGATTAAACCATG
1 ATTAAAGATGACT-GGGATTGAACCGC-AAGTCAGAGAATAATAAATGACCGGGATTAAACCACG
* * * * * * * *
13334665 AATCAAATATTAACGATGACTGGGACTGAACCGCAAGTCGAGGGAATTAATGAAATGGTCGAGAT
64 AGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC-AGAGAAATAATGAAATGATCGGGAT
* *
13334730 TAAACCACGAGCCAAAG
128 TAAACCGCGAGTCAAAG
* * *
13334747 ATTAAAGATGACTGAGATTGAGCCGCAAGTCAGAGAATTAATGAAATGACCGGGATTAAACCATG
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAA-TAAT-AAATGACCGGGATTAAACCACG
*
13334812 AGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA-AAAAATTAATGAAATGATCGGGAT
64 AGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAA-TAATGAAATGATCGGGAT
13334876 TAAACCGCGAGTCAAAG
128 TAAACCGCGAGTCAAAG
** * * * *
13334893 ATTAAAGACAATTGGGATTGAACCGTAAGTCA-A-AA-AATGAAATGATCGGGATTAAACCGCGA
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATAAT-AAATGACCGGGATTAAACCACGA
* * * * * *
13334955 GTCAAATATTAAAAATGACTGGGATTAAATCGTAAGTCAGAGAATTAATGAAATGA-CTGGGATT
65 GTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATGATC-GGGATT
*
13335019 AAACTGCGAGTCAAAG
129 AAACCGCGAGTCAAAG
* *
13335035 ATTAAAGATGACTGGGATTGAGCCGCAAGTCAGAG-A-AAT-AATGACCGAGATTAAACCACGAG
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATAATAAATGACCGGGATTAAACCACGAG
13335097 TCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATGATCGGGATTAA
66 TCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATGATCGGGATTAA
13335162 ACCGCGAGTCAAAG
131 ACCGCGAGTCAAAG
* *
13335176 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATGATCGGGATTAAACCGCG
1 ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAG-AATAAT-AAATGACCGGGATTAAACCACG
13335241 AGTCAAAGATTAAAGATGACT
64 AGTCAAAGATTAAAGATGACT
13335262 ATGAAATGAT
Statistics
Matches: 445, Mismatches: 52, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
141 125 0.28
142 128 0.29
143 30 0.07
144 9 0.02
145 3 0.01
146 100 0.22
147 50 0.11
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (144 bp):
ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATAATAAATGACCGGGATTAAACCACGAG
TCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATGATCGGGATTAA
ACCGCGAGTCAAAG
Found at i:13335283 original size:46 final size:46
Alignment explanation
Indices: 13335216--13335307 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
13335206 CAGAGAAATA
*
13335216 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACT
1 ATGAAATGATCGAGATTAAACCGCGAGTCAAAGATTAAAGATGACT
*
13335262 ATGAAATGATCGAGATTAAACCGTGAGTCAAAGATTAAAGATGACT
1 ATGAAATGATCGAGATTAAACCGCGAGTCAAAGATTAAAGATGACT
13335308 GGGATTGAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGATCGAGATTAAACCGCGAGTCAAAGATTAAAGATGACT
Found at i:13335381 original size:73 final size:72
Alignment explanation
Indices: 13335262--13335831 Score: 814
Period size: 73 Copynumber: 8.0 Consensus size: 72
13335252 AAAGATGACT
* *
13335262 ATGAAATGATCGAGATTAAACCGTGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
1 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
13335327 GAAAAATA
66 -AAAAATA
13335335 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC-
1 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
*
13335399 AAAAATG
66 AAAAATA
* * * * ** * **
13335406 ATGAAATGATCGAGATTAAACTGCAAGTCAGAGATTAAAGACAATTGGGATTGAACCATAAGTCA
1 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
13335471 AAAAAT-
66 AAAAATA
13335477 A--AAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
1 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
*
13335540 AGAAATTA
66 A-AAAATA
*
13335548 ATGAAATGATCGGGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC-
1 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
* *
13335612 --AGAGA
66 AAAAATA
* * * *
13335617 ATGAAATGATCGGGATTAAACCACGAGTCAATGATTAAAGATGATTGAGATTGAACCGCAAGTCA
1 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
13335682 AAAAATTA
66 AAAAA-TA
* * *
13335690 ATGAAATGATCAGGATTAGACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
1 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
*
13335755 AGAAATTA
66 A-AAAATA
* *
13335763 ATGAAAT-ATCAGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCCCAAGTCA
1 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
13335827 AAAAA
66 AAAAA
13335832 CTATATAAGA
Statistics
Matches: 444, Mismatches: 43, Indels: 22
0.87 0.08 0.04
Matches are distributed among these distances:
69 115 0.26
70 4 0.01
71 66 0.15
72 63 0.14
73 193 0.43
74 3 0.01
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (72 bp):
ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
AAAAATA
Found at i:13335634 original size:142 final size:142
Alignment explanation
Indices: 13335262--13335830 Score: 815
Period size: 142 Copynumber: 4.0 Consensus size: 142
13335252 AAAGATGACT
*
13335262 ATGAAATGATCGAGATTAAACCGTGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
1 ATGAAATGATCGAGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
13335327 GAAAAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACC
66 G---AATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACC
*
13335392 GCAAGTCAAAAA-TG
128 GCAAGTCAAAAATTA
* * * ** * **
13335406 ATGAAATGATCGAGATTAAACTGCAAGTCAGAGATTAAAGACAATTGGGATTGAACCATAAGTCA
1 ATGAAATGATCGAGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
* *
13335471 -AAAAATAAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCA
66 GAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCA
13335535 AGTCAAGAAATTA
131 AGTCAA-AAATTA
* *
13335548 ATGAAATGATCGGGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
1 ATGAAATGATCGAGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
* * * * *
13335613 G-AGAATGAAATGATCGGGATTAAACCACGAGTCAATGATTAAAGATGATTGAGATTGAACCGCA
66 GAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCA
13335677 AGTCAAAAAATTA
131 AGTC-AAAAATTA
* *
13335690 ATGAAATGATC-AGGATTAGACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC
1 ATGAAATGATCGA-GATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC
*
13335754 AAGAAATTAATGAAAT-ATCAGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAAC
65 -AG-AA-TAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAAC
*
13335818 CCCAAGTCAAAAA
127 CGCAAGTCAAAAA
13335831 ACTATATAAG
Statistics
Matches: 377, Mismatches: 39, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
140 68 0.18
141 3 0.01
142 182 0.48
143 4 0.01
144 61 0.16
145 51 0.14
146 8 0.02
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (142 bp):
ATGAAATGATCGAGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
GAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCA
AGTCAAAAATTA
Found at i:13336885 original size:20 final size:19
Alignment explanation
Indices: 13336860--13336923 Score: 92
Period size: 20 Copynumber: 3.3 Consensus size: 19
13336850 CTTTCTCATT
13336860 TTTTTTTTCATTTTTTTTCA
1 TTTTTTTTCATTTTTTTT-A
13336880 TTTTTTTTCATTTTTTTTA
1 TTTTTTTTCATTTTTTTTA
* *
13336899 TTTTTTTATAATTTTTTTGA
1 TTTTTTT-TCATTTTTTTTA
13336919 TTTTT
1 TTTTT
13336924 GATTTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.20
20 33 0.80
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTTTTTCATTTTTTTTA
Found at i:13336933 original size:10 final size:10
Alignment explanation
Indices: 13336860--13336916 Score: 89
Period size: 10 Copynumber: 5.7 Consensus size: 10
13336850 CTTTCTCATT
13336860 TTTTTTTTCA
1 TTTTTTTTCA
13336870 TTTTTTTTCA
1 TTTTTTTTCA
13336880 TTTTTTTTCA
1 TTTTTTTTCA
13336890 TTTTTTTT-A
1 TTTTTTTTCA
*
13336899 TTTTTTTATAA
1 TTTTTTT-TCA
13336910 TTTTTTT
1 TTTTTTT
13336917 GATTTTTGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
9 8 0.18
10 29 0.64
11 8 0.18
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:13336934 original size:12 final size:11
Alignment explanation
Indices: 13336859--13336945 Score: 50
Period size: 10 Copynumber: 8.8 Consensus size: 11
13336849 CCTTTCTCAT
*
13336859 TTTTTTTTTCA
1 TTTTTTTTTGA
*
13336870 -TTTTTTTTCA
1 TTTTTTTTTGA
*
13336880 -TTTTTTTTCA
1 TTTTTTTTTGA
13336890 -TTTTTTTT-A
1 TTTTTTTTTGA
*
13336899 TTTTTTTAT-A
1 TTTTTTTTTGA
*
13336909 -ATTTTTTTGA
1 TTTTTTTTTGA
13336919 ----TTTTTGA
1 TTTTTTTTTGA
*
13336926 TTTTTTTTTGC
1 TTTTTTTTTGA
13336937 TTTTTTTTT
1 TTTTTTTTT
13336946 TAAAGCAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
7 7 0.11
9 7 0.11
10 37 0.56
11 15 0.23
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTGA
Found at i:13346261 original size:11 final size:11
Alignment explanation
Indices: 13346245--13346274 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
13346235 GTTGCGACTC
13346245 TCATCAACTGT
1 TCATCAACTGT
13346256 TCATCAACTGT
1 TCATCAACTGT
13346267 TCATCAAC
1 TCATCAAC
13346275 CTTTACTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (11 bp):
TCATCAACTGT
Found at i:13348599 original size:22 final size:23
Alignment explanation
Indices: 13348559--13348601 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
13348549 ATTTTATTAT
*
13348559 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAACATTTATCC
*
13348582 TAATAA-ATTTAAACATTTAT
1 TAATAACAATTAAACATTTAT
13348602 GCATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATAACAATTAAACATTTATCC
Found at i:13349643 original size:20 final size:19
Alignment explanation
Indices: 13349584--13349660 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 19
13349574 ACATCCTTAA
* * *
13349584 TTTTTTTTGTCTTCTGTTCT
1 TTTTTTTTGT-TTTTATTTT
*
13349604 TTTTTTTTGTATTTTTTTTT
1 TTTTTTTTGT-TTTTATTTT
13349624 TTTTTTTTGTTTTGTATTTT
1 TTTTTTTTGTTTT-TATTTT
13349644 GTATTTTTTTGGTTTTT
1 -T-TTTTTTT-GTTTTT
13349661 TTGTATTTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
19 3 0.06
20 31 0.65
21 1 0.02
22 8 0.17
23 5 0.10
ACGTcount: A:0.04, C:0.04, G:0.10, T:0.82
Consensus pattern (19 bp):
TTTTTTTTGTTTTTATTTT
Found at i:13349650 original size:26 final size:25
Alignment explanation
Indices: 13349603--13349676 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 25
13349593 TCTTCTGTTC
*
13349603 TTTTTTTTTGTATTTT-TTTTTTTT
1 TTTTTTTTTGTATTTTGTATTTTTT
13349627 TTTTTGTTTTGTATTTTGTATTTTTT
1 TTTTT-TTTTGTATTTTGTATTTTTT
* *
13349653 TGGTTTTTTTGTATTTCGTATTTT
1 T-TTTTTTTTGTATTTTGTATTTT
13349677 GTAATATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 5 0.11
25 11 0.25
26 25 0.57
27 3 0.07
ACGTcount: A:0.07, C:0.01, G:0.11, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTGTATTTTGTATTTTTT
Found at i:13349652 original size:33 final size:32
Alignment explanation
Indices: 13349608--13349679 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
13349598 TGTTCTTTTT
** * * *
13349608 TTTTGTATTTTTTTTTTTTTTTTTGTTTTGTA
1 TTTTGTATTTTTTGGTTTTTTTGTATTTCGTA
13349640 TTTTGTATTTTTTTGGTTTTTTTGTATTTCGTA
1 TTTTGTA-TTTTTTGGTTTTTTTGTATTTCGTA
13349673 TTTTGTA
1 TTTTGTA
13349680 ATATTATTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.08, C:0.01, G:0.12, T:0.78
Consensus pattern (32 bp):
TTTTGTATTTTTTGGTTTTTTTGTATTTCGTA
Found at i:13349692 original size:33 final size:32
Alignment explanation
Indices: 13349625--13349709 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
13349615 TTTTTTTTTT
* *
13349625 TTTTTTTGT-TTTGTATTTTGTATTTTTTTGG
1 TTTTTTTGTATTTGTATTTTGTATATTATTGG
13349656 TTTTTTTGTATTTCGTATTTTGTAATATTATT-G
1 TTTTTTTGTATTT-GTATTTTGT-ATATTATTGG
*
13349689 TTTTTATTTTATTT-TATTTTG
1 TTTTT-TTGTATTTGTATTTTG
13349710 GGACAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
31 9 0.19
32 10 0.21
33 15 0.32
34 13 0.28
ACGTcount: A:0.13, C:0.01, G:0.12, T:0.74
Consensus pattern (32 bp):
TTTTTTTGTATTTGTATTTTGTATATTATTGG
Found at i:13350872 original size:19 final size:18
Alignment explanation
Indices: 13350844--13350887 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
13350834 TATTAAAAGT
13350844 TTATT-AAAAATTATTAAA
1 TTATTAAAAAATT-TTAAA
13350862 TTATATAAAAAATTTTAAA
1 TTAT-TAAAAAATTTTAAA
13350881 TT-TTAAA
1 TTATTAAA
13350888 TAAAAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
19 8 0.33
20 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATTAAAAAATTTTAAA
Found at i:13350890 original size:21 final size:20
Alignment explanation
Indices: 13350849--13350893 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
13350839 AAAGTTTATT
*
13350849 AAAAATTATTAAATTATATA
1 AAAAATTATTAAATTAAATA
13350869 AAAAATT-TTAAATTTTAAATA
1 AAAAATTATTAAA--TTAAATA
13350890 AAAA
1 AAAA
13350894 TCAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 7 0.32
21 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTATTAAATTAAATA
Found at i:13350892 original size:20 final size:21
Alignment explanation
Indices: 13350848--13350894 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
13350838 AAAAGTTTAT
*
13350848 TAAAAATTATTAAATTATATA
1 TAAAAATTATTAAATTATAAA
*
13350869 -AAAAATT-TTAAATTTTAAA
1 TAAAAATTATTAAATTATAAA
13350888 TAAAAAT
1 TAAAAAT
13350895 CAATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAATTATTAAATTATAAA
Found at i:13355019 original size:14 final size:14
Alignment explanation
Indices: 13354978--13355036 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
13354968 TAATAAGAGT
*
13354978 AAATAAAAATAAACA
1 AAAT-AAAATAAATA
13354993 AAATAAAATAAATA
1 AAATAAAATAAATA
13355007 AAATAAGAA-AAATA
1 AAATAA-AATAAATA
* *
13355021 AAGTCAAAATAGATA
1 AAAT-AAAATAAATA
13355036 A
1 A
13355037 TGGAGTGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:13355663 original size:52 final size:50
Alignment explanation
Indices: 13355518--13355666 Score: 136
Period size: 51 Copynumber: 2.9 Consensus size: 50
13355508 GTTTGATTTC
* * * **
13355518 CATTTTAATGAGAATTGATTTTGAAATCAAATCCCAAAAATCTCTCCTTAT
1 CATTTTAATGAGAATTGATTAT-AAATTAAATCCCAAAAATCTTTCCACAT
* * * ** *
13355569 CATTTTAATGTGAATTGATTATGGAATTAAATTCTGACAATCTTTCCACAT
1 CATTTTAATGAGAATTGATTAT-AAATTAAATCCCAAAAATCTTTCCACAT
** *
13355620 CATTTTTAATGCCAATTGATTCTACAATTAAATCCCAAAAATCTTTC
1 CA-TTTTAATGAGAATTGATTATA-AATTAAATCCCAAAAATCTTTC
13355667 ACTTACGGTT
Statistics
Matches: 77, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
51 42 0.55
52 35 0.45
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (50 bp):
CATTTTAATGAGAATTGATTATAAATTAAATCCCAAAAATCTTTCCACAT
Found at i:13356229 original size:18 final size:17
Alignment explanation
Indices: 13356162--13356233 Score: 56
Period size: 18 Copynumber: 4.1 Consensus size: 17
13356152 AAAGATTCAC
*
13356162 AAGATTTCAAGTTTCGCA
1 AAGATTTCAAATTT-GCA
* * *
13356180 AAG-GTTCTAGATTCGCA
1 AAGATTTC-AAATTTGCA
**
13356197 AAGATTTCAGGTTTGCA
1 AAGATTTCAAATTTGCA
13356214 AAGACTTTCAAATTTGCA
1 AAGA-TTTCAAATTTGCA
13356232 AA
1 AA
13356234 AAAAAAAGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
17 20 0.48
18 22 0.52
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (17 bp):
AAGATTTCAAATTTGCA
Found at i:13356259 original size:86 final size:85
Alignment explanation
Indices: 13356152--13356442 Score: 342
Period size: 86 Copynumber: 3.4 Consensus size: 85
13356142 CGTAAGAATG
13356152 AAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATTCGCAAAGATTTCAGGTTTGCAAAG
1 AAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATTCGCAAAGATTTCAGGTTT-CAAAG
13356217 ACTTTCAAATTTGCAAAAAAA
65 ACTTTCAAATTTGCAAAAAAA
** * *
13356238 AAAGATTTGCAAGATTCCAAGTTTCACAAAGGTTCTAGATTCGCAAAGA-TTCTAGG-TTCACAA
1 AAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATTCGCAAAGATTTC-AGGTTTCA-AA
13356301 GGACTTTCAAA-TT-CATAAGAAAA
64 -GACTTTCAAATTTGCA-AA-AAAA
* * * *
13356324 AAAGATTCACAAGATTTCAAGTTTTGCAAAAGTTCTAGATTCACAAAGATTTTAGG-TTCATAAG
1 AAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATTCGCAAAGATTTCAGGTTTCA-AAG
* * * *
13356388 AACTTTCAGATTCGCAAGAAAG
65 -ACTTTCAAATTTGCAAAAAAA
*
13356410 AAATATTCACAAGATTTCAAGTTTCAG-AAAGGT
1 AAAGATTCACAAGATTTCAAGTTTC-GCAAAGGT
13356443 CAAAAAAATG
Statistics
Matches: 175, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
84 4 0.02
85 12 0.07
86 152 0.87
87 5 0.03
88 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (85 bp):
AAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATTCGCAAAGATTTCAGGTTTCAAAGA
CTTTCAAATTTGCAAAAAAA
Found at i:13356425 original size:172 final size:172
Alignment explanation
Indices: 13356133--13356442 Score: 444
Period size: 172 Copynumber: 1.8 Consensus size: 172
13356123 TTGAAAAGGT
* ** * *
13356133 TTTCAAATTCGTAAGAATGAAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATTCGCAA
1 TTTCAAATTCATAAGAAAAAAAGATTCACAAGATTTCAAGTTTCGCAAAAGTTCTAGATTCACAA
* **
13356198 AGATTTCAGGTTTGCAAAGACTTTCAAATTTGCAAAAAAAAAAGATTTGCAAGATTCCAAGTTTC
66 AGATTTCAGGTTTGCAAAGACTTTCAAATTCGCAAAAAAAAAAGATTCACAAGATTCCAAGTTTC
13356263 ACAAAGGTTCTAGATTCGCAAAGATTCTAGGTTCACAAGGAC
131 ACAAAGGTTCTAGATTCGCAAAGATTCTAGGTTCACAAGGAC
*
13356305 TTTCAAATTCATAAGAAAAAAAGATTCACAAGATTTCAAGTTTTGCAAAAGTTCTAGATTCACAA
1 TTTCAAATTCATAAGAAAAAAAGATTCACAAGATTTCAAGTTTCGCAAAAGTTCTAGATTCACAA
* * * * * *
13356370 AGATTTTAGG-TT-CATAAGAACTTTCAGATTCGCAAGAAAGAAATATTCACAAGATTTCAAGTT
66 AGATTTCAGGTTTGCA-AAG-ACTTTCAAATTCGCAAAAAAAAAAGATTCACAAGATTCCAAGTT
*
13356433 TCAGAAAGGT
129 TCACAAAGGT
13356443 CAAAAAAATG
Statistics
Matches: 120, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
170 2 0.02
171 5 0.04
172 113 0.94
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (172 bp):
TTTCAAATTCATAAGAAAAAAAGATTCACAAGATTTCAAGTTTCGCAAAAGTTCTAGATTCACAA
AGATTTCAGGTTTGCAAAGACTTTCAAATTCGCAAAAAAAAAAGATTCACAAGATTCCAAGTTTC
ACAAAGGTTCTAGATTCGCAAAGATTCTAGGTTCACAAGGAC
Found at i:13356936 original size:241 final size:241
Alignment explanation
Indices: 13356666--13357190 Score: 585
Period size: 241 Copynumber: 2.2 Consensus size: 241
13356656 GATCAAGATA
13356666 AAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATCT-AAT-AACTGAGACAAAA-TCA
1 AAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGAT-TGAATGAACTG-GACAAAACT-A
* * ** **
13356728 CAAGTCAAAAATAAAGCGACCAGAACTGAGTTGAGATTGAAAATAAACAACCAGGACAAAACCAC
63 CAAGTCAAAAATAAAGCAACCAGAACTAAGTCAAGATAAAAAATAAACAACCAGGACAAAACCAC
* * *
13356793 AAGTCATAAGAAATGATCT-AGACTAAGCCAAGATCGGGTGATCAGGATGAAATCACGAGTCAAA
128 AAGTCATAAGAAATGATCTGA-ACTAAGCCAAGATCGAGTGATCAGGATGAAACCACGAGTAAAA
* *
13356857 AAT-AAAGTGTCTAGGATCGAGTTGAGATAAAAAAATGAATAACCAGGATG
192 AATGAAA-CGACTAGGATCGAGTTGAGATAAAAAAATGAATAACCAGGATG
* * * ** * **
13356907 AAACCACTAGTCGTAAAAAATGATCTAGACTGAGTCAAGATTGGGTGACCTGGACAAAACTATGA
1 AAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATTGAATGAACTGGACAAAACTACAA
* * * * ** *
13356972 GTCAAAAATGAAGTAACCAGAACTAAGTCAAGGTAAAAAATAAACGACCAGGATGAAACCATAAG
66 GTCAAAAATAAAGCAACCAGAACTAAGTCAAGATAAAAAATAAACAACCAGGACAAAACCACAAG
* *
13357037 TCATAAGAAATGATCTGAATTAAGCCAAGATCGAGTGATCAGGATGAAACCATGAGTAAAAAATG
131 TCATAAGAAATGATCTGAACTAAGCCAAGATCGAGTGATCAGGATGAAACCACGAGTAAAAAATG
** * * * * * *
13357102 AAACGACTAGGATCGAGTCAAGGT-TAAAACTGAATGATCGGGATG
196 AAACGACTAGGATCGAGTTGAGATAAAAAAATGAATAACCAGGATG
** * * * *
13357147 AAACCATGAGTCATAAGAAATGATTTGGACTAAGCCAAGATTGA
1 AAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATTGA
13357191 GTGACTGAGA
Statistics
Matches: 234, Mismatches: 45, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
240 52 0.22
241 173 0.74
242 9 0.04
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.19
Consensus pattern (241 bp):
AAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATTGAATGAACTGGACAAAACTACAA
GTCAAAAATAAAGCAACCAGAACTAAGTCAAGATAAAAAATAAACAACCAGGACAAAACCACAAG
TCATAAGAAATGATCTGAACTAAGCCAAGATCGAGTGATCAGGATGAAACCACGAGTAAAAAATG
AAACGACTAGGATCGAGTTGAGATAAAAAAATGAATAACCAGGATG
Found at i:13356947 original size:121 final size:121
Alignment explanation
Indices: 13356665--13357074 Score: 355
Period size: 120 Copynumber: 3.4 Consensus size: 121
13356655 TGATCAAGAT
*** *
13356665 AAAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATCTAAT-AACTGAGACAAAATCAC
1 AAAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATCGGGTGAACAGAGACAAAATCAC
**
13356729 AAGTCAAAAATAAAGCGACCAGAACTGAGTTGAGATTGAAAATAAACAACCAGGAC
66 AAGTCAAAAATAAAGCGACCAGAACTGAGTTGAGATAAAAAATAAACAACCAGGAC
* * * **
13356785 AAAACCACAAGTCATAAGAAATGATCTAGACTAAGCCAAGATCGGGTGATCAG-GATGAAATCAC
1 AAAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATCGGGTGAACAGAGACAAAATCAC
* * * * * * * *
13356849 GAGTCAAAAATAAAGTGTCTAGGA-TCGAGTTGAGATAAAAAAATGAATAACCAGGAT
66 AAGTCAAAAATAAAGCGACCAGAACT-GAGTTGAGAT-AAAAAATAAACAACCAGGAC
* * * * * * *
13356906 GAAACCACTAGTCGTAAAAAATGATCTAGACTGAGTCAAGATTGGGTGACCTG-GACAAAA-CTA
1 AAAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATCGGGTGAACAGAGACAAAATC-A
** * ** * ** * * *
13356969 TGAGTCAAAAATGAAGTAACCAGAACTAAGTCAAGGTAAAAAATAAACGACCAGGAT
65 CAAGTCAAAAATAAAGCGACCAGAACTGAGTTGAGATAAAAAATAAACAACCAGGAC
* * * * * *
13357026 GAAACCATAAGTCATAAGAAATGATCT-GAATTAAGCCAAGATCGAGTGA
1 AAAACCACAAGTCATAAAAAATGATCTAG-ACTGAGCCAAGATCGGGTGA
13357075 TCAGGATGAA
Statistics
Matches: 232, Mismatches: 52, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
119 2 0.01
120 136 0.59
121 93 0.40
122 1 0.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (121 bp):
AAAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATCGGGTGAACAGAGACAAAATCAC
AAGTCAAAAATAAAGCGACCAGAACTGAGTTGAGATAAAAAATAAACAACCAGGAC
Found at i:13357066 original size:120 final size:119
Alignment explanation
Indices: 13356898--13357195 Score: 294
Period size: 120 Copynumber: 2.5 Consensus size: 119
13356888 AAAATGAATA
* * * * * *
13356898 ACCAGGATGAAACCACTAGTCGTAAAAAATGATCT-AGACTGAGTCAAGATTGGGTGACCTGGAC
1 ACCAGGATGAAACCA-TAGTCATAAGAAATGATCTGA-ACTAAGCCAAGATTGAGTGACCAGGAC
* * **
13356962 AAAACTATGAGTCAAAAATGAAGTAACCAGAA-CTAAGTCAAGGTAAAAAATAAACG
64 AAAACCATGAGTAAAAAATGAAACAACCAGAATC-AAGTCAAGGTAAAAAATAAACG
* * * **
13357018 ACCAGGATGAAACCATAAGTCATAAGAAATGATCTGAATTAAGCCAAGATCGAGTGATCAGGATG
1 ACCAGGATGAAACCAT-AGTCATAAGAAATGATCTGAACTAAGCCAAGATTGAGTGACCAGGACA
* * * * * * * *
13357083 AAACCATGAGTAAAAAATGAAACGACTAGGATCGAGTCAAGGTTAAAACTGAATG
65 AAACCATGAGTAAAAAATGAAACAACCAGAATCAAGTCAAGGTAAAAAATAAACG
* * * *
13357138 ATCGGGATGAAACCATGAGTCATAAGAAATGATTTGGACTAAGCCAAGATTGAGTGAC
1 ACCAGGATGAAACCAT-AGTCATAAGAAATGATCTGAACTAAGCCAAGATTGAGTGAC
13357196 TGAGATGAAA
Statistics
Matches: 144, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
119 1 0.01
120 141 0.98
121 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.19
Consensus pattern (119 bp):
ACCAGGATGAAACCATAGTCATAAGAAATGATCTGAACTAAGCCAAGATTGAGTGACCAGGACAA
AACCATGAGTAAAAAATGAAACAACCAGAATCAAGTCAAGGTAAAAAATAAACG
Found at i:13357203 original size:120 final size:120
Alignment explanation
Indices: 13356996--13357292 Score: 355
Period size: 120 Copynumber: 2.5 Consensus size: 120
13356986 AACCAGAACT
* * * * * *
13356996 AAGTCAAGGTAAAAAATAAACGACCAGGATGAAACCATAAGTCATAAGAAATGATCTGAATTAAG
1 AAGTCAAGGTCAAAAATAAATGATCGGGATGAAACCATGAGTCATAAGAAATGATCTGAACTAAG
* *
13357061 CCAAGATCGAGTGATCAGGATGAAACCATGAGTAAAAAATGAAA-CGACTAGGATC
66 CCAAGATCGAGTGATCAGGATGAAACCATAAATAAAAAAT-AAATCGACTAGGATC
* * * * * *
13357116 GAGTCAAGGTTAAAACTGAATGATCGGGATGAAACCATGAGTCATAAGAAATGATTTGGACTAAG
1 AAGTCAAGGTCAAAAATAAATGATCGGGATGAAACCATGAGTCATAAGAAATGATCTGAACTAAG
* * * *
13357181 CCAAGATTGAGTGA-CTGAGATGAAATCATAAATAAAAAATAAATCGACTAGGATT
66 CCAAGATCGAGTGATCAG-GATGAAACCATAAATAAAAAATAAATCGACTAGGATC
* * * * *
13357236 AAGTTAAGGTCAAAAATAAATGATCGAGACGAAACCACGAGTCATAAGAAATAATCT
1 AAGTCAAGGTCAAAAATAAATGATCGGGATGAAACCATGAGTCATAAGAAATGATCT
13357293 AGATTGAACC
Statistics
Matches: 148, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
119 5 0.03
120 143 0.97
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (120 bp):
AAGTCAAGGTCAAAAATAAATGATCGGGATGAAACCATGAGTCATAAGAAATGATCTGAACTAAG
CCAAGATCGAGTGATCAGGATGAAACCATAAATAAAAAATAAATCGACTAGGATC
Found at i:13357307 original size:240 final size:241
Alignment explanation
Indices: 13356666--13357307 Score: 572
Period size: 241 Copynumber: 2.7 Consensus size: 241
13356656 GATCAAGATA
* * * *
13356666 AAACCACAAGTCATAAAAAATGATCTAGACTGAGCCAAGATCT-AAT-AACTGAGACAAAA-TCA
1 AAACCACTAGTCATAAAAAATGATCTAGACTAAGCCAAGAT-TGAGTGACCTG-GACAAAACT-A
* * * ** * ** * ** * *
13356728 CAAGTCAAAAAT-AAAGCGACCAGAACTGAGTTGAGATTGAAAATAAACAACCAGGACAAAACCA
63 TAAATAAAAAATGAAA-TAACCAGAACTAAGTCAAGGTAAAAAATAAACGACCAGGACGAAACCA
* * * *
13356792 CAAGTCATAAGAAATGATCTAGACTAAGCCAAGATCGGGTGATCAGGATGAAATCACGAGTCAAA
127 CAAGTCATAAGAAATGATCTAGATTAAGCCAAGATCGAGTGATCAGGATGAAACCACGAGTAAAA
* * **
13356857 AATAAAGTGTCTAGGATCGAGTTGAGATAAAAAAATGAATAACCAGGATG
192 AATAAAGCGACTAGGATCGAGTCAAGATAAAAAAATGAATAACCAGGATG
* * * * *
13356907 AAACCACTAGTCGTAAAAAATGATCTAGACTGAGTCAAGATTGGGTGACCTGGACAAAACTATGA
1 AAACCACTAGTCATAAAAAATGATCTAGACTAAGCCAAGATTGAGTGACCTGGACAAAACTATAA
* * * * *
13356972 GTCAAAAATGAAGTAACCAGAACTAAGTCAAGGTAAAAAATAAACGACCAGGATGAAACCATAAG
66 ATAAAAAATGAAATAACCAGAACTAAGTCAAGGTAAAAAATAAACGACCAGGACGAAACCACAAG
*
13357037 TCATAAGAAATGATCT-GAATTAAGCCAAGATCGAGTGATCAGGATGAAACCATGAGTAAAAAAT
131 TCATAAGAAATGATCTAG-ATTAAGCCAAGATCGAGTGATCAGGATGAAACCACGAGTAAAAAAT
* * * * * *
13357101 GAAA-CGACTAGGATCGAGTCAAGGT-TAAAACTGAATGATCGGGATG
195 -AAAGCGACTAGGATCGAGTCAAGATAAAAAAATGAATAACCAGGATG
* * * **
13357147 AAACCA-TGAGTCATAAGAAATGATTTGGACTAAGCCAAGATTGAGTGA-CTGAGATGAAA-TCA
1 AAACCACT-AGTCATAAAAAATGATCTAGACTAAGCCAAGATTGAGTGACCTG-GACAAAACT-A
* * * * * * * *
13357209 TAAATAAAAAAT-AAATCGACTAGGATTAAGTTAAGGTCAAAAATAAATGATC-GAGACGAAACC
63 TAAATAAAAAATGAAAT-AACCAGAACTAAGTCAAGGTAAAAAATAAACGACCAG-GACGAAACC
* *
13357272 ACGAGTCATAAGAAATAATCTAGATTGAA-CCAAGAT
126 ACAAGTCATAAGAAATGATCTAGATT-AAGCCAAGAT
13357308 GGAGAATGAG
Statistics
Matches: 327, Mismatches: 61, Indels: 27
0.79 0.15 0.07
Matches are distributed among these distances:
239 9 0.03
240 135 0.41
241 173 0.53
242 10 0.03
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (241 bp):
AAACCACTAGTCATAAAAAATGATCTAGACTAAGCCAAGATTGAGTGACCTGGACAAAACTATAA
ATAAAAAATGAAATAACCAGAACTAAGTCAAGGTAAAAAATAAACGACCAGGACGAAACCACAAG
TCATAAGAAATGATCTAGATTAAGCCAAGATCGAGTGATCAGGATGAAACCACGAGTAAAAAATA
AAGCGACTAGGATCGAGTCAAGATAAAAAAATGAATAACCAGGATG
Found at i:13358065 original size:27 final size:24
Alignment explanation
Indices: 13358035--13358084 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
13358025 TTTGTCTCCT
*
13358035 TTTGTTTTGTTTTTTATTCATTTTTTA
1 TTTG-TTTCTTTTTT-TTC-TTTTTTA
13358062 TTTGTTTCTTTTTTTTCTTTTTT
1 TTTGTTTCTTTTTTTTCTTTTTT
13358085 GCTTTTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 9 0.41
27 4 0.18
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.82
Consensus pattern (24 bp):
TTTGTTTCTTTTTTTTCTTTTTTA
Found at i:13358102 original size:21 final size:21
Alignment explanation
Indices: 13358073--13358114 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13358063 TTGTTTCTTT
*
13358073 TTTTTCTTTTTTGCTTTTTGC
1 TTTTACTTTTTTGCTTTTTGC
**
13358094 TTTTACTTTTTTTTTTTTTGC
1 TTTTACTTTTTTGCTTTTTGC
13358115 ACACTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (21 bp):
TTTTACTTTTTTGCTTTTTGC
Found at i:13376499 original size:3 final size:3
Alignment explanation
Indices: 13376491--13376519 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13376481 GAGGATAAAT
13376491 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13376520 TTAAATTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13376747 original size:7 final size:7
Alignment explanation
Indices: 13376725--13376812 Score: 51
Period size: 7 Copynumber: 12.3 Consensus size: 7
13376715 CAGTGAAATT
13376725 AAATAAA
1 AAATAAA
13376732 AAACT-AA
1 AAA-TAAA
13376739 AAATAAA
1 AAATAAA
*
13376746 AATTTTAAAA
1 AA--AT-AAA
13376756 AAATAAA
1 AAATAAA
13376763 AAATAAA
1 AAATAAA
*
13376770 GAAA-ATA
1 -AAATAAA
13376777 AAATCAAA
1 AAAT-AAA
13376785 AAAT--A
1 AAATAAA
13376790 AAAT-AA
1 AAATAAA
13376796 AAATGAAA
1 AAAT-AAA
*
13376804 AAAGAAA
1 AAATAAA
13376811 AA
1 AA
13376813 CTTGCTATTC
Statistics
Matches: 65, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
5 5 0.08
6 9 0.14
7 29 0.45
8 16 0.25
9 1 0.02
10 5 0.08
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:13376774 original size:18 final size:19
Alignment explanation
Indices: 13376752--13376812 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
13376742 TAAAAATTTT
13376752 AAAAAAAT-AAAAAATAAAGA
1 AAAAAAATCAAAAAAT-AA-A
13376772 AAATAAAATCAAAAAATAAA
1 AAA-AAAATCAAAAAATAAA
* * *
13376792 ATAAAAATGAAAAAAGAAA
1 AAAAAAATCAAAAAATAAA
13376811 AA
1 AA
13376813 CTTGCTATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 15 0.43
20 6 0.17
21 7 0.20
22 7 0.20
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.11
Consensus pattern (19 bp):
AAAAAAATCAAAAAATAAA
Found at i:13376778 original size:24 final size:22
Alignment explanation
Indices: 13376725--13376792 Score: 57
Period size: 24 Copynumber: 3.0 Consensus size: 22
13376715 CAGTGAAATT
*
13376725 AAATAAAAAACTAAAAATAAAA
1 AAATAAAAAAATAAAAATAAAA
**
13376747 ATTTTAAAAAAATAAAAAATAAAGA
1 A-AATAAAAAAAT-AAAAATAAA-A
**
13376772 AAATAAAATCA-AAAAATAAAA
1 AAATAAAAAAATAAAAATAAAA
13376793 TAAAAATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
21 1 0.03
22 10 0.28
23 8 0.22
24 15 0.42
25 2 0.06
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (22 bp):
AAATAAAAAAATAAAAATAAAA
Found at i:13377185 original size:11 final size:10
Alignment explanation
Indices: 13377164--13377208 Score: 63
Period size: 10 Copynumber: 4.3 Consensus size: 10
13377154 TTCAAAAATA
13377164 TTTCAAATTT
1 TTTCAAATTT
*
13377174 TCTCAAATTT
1 TTTCAAATTT
13377184 TTTCAAATTT
1 TTTCAAATTT
13377194 CTTTCAAATCTT
1 -TTTCAAAT-TT
13377206 TTT
1 TTT
13377209 AGAACTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
10 18 0.58
11 11 0.35
12 2 0.06
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTCAAATTT
Found at i:13377664 original size:26 final size:23
Alignment explanation
Indices: 13377611--13377670 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
13377601 AAAAGAAAAT
*
13377611 ATAATAATAATAATAACTATAAG
1 ATAATAATAATAATAACTATAAC
*
13377634 GTAATAATAATAATATACCATATAAC
1 ATAATAATAATAATA-A-C-TATAAC
13377660 ATAAT-ATAATA
1 ATAATAATAATA
13377671 TAGTAGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 14 0.45
24 1 0.03
25 7 0.23
26 9 0.29
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (23 bp):
ATAATAATAATAATAACTATAAC
Found at i:13382009 original size:20 final size:20
Alignment explanation
Indices: 13381986--13382047 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
13381976 TATTTTTTTA
13381986 TTATATATTTAATTTAATAT
1 TTATATATTTAATTTAATAT
* *
13382006 TTATATATTGCTAAAATTATTAT
1 TTATATATT--T-AATTTAATAT
13382029 TTA-ATATATTAATTTAATA
1 TTATATAT-TTAATTTAATA
13382048 AAATATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 16 0.47
21 1 0.03
22 5 0.15
23 12 0.35
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTATATATTTAATTTAATAT
Found at i:13384449 original size:18 final size:18
Alignment explanation
Indices: 13384410--13384460 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
13384400 TTAGATTTCT
* *
13384410 TCAAAGTTTTTC-TTCTA
1 TCAAACTTTTTCTTTTTA
* *
13384427 ACAAATTTTTTCTTTTTA
1 TCAAACTTTTTCTTTTTA
*
13384445 TCAAACTTATTCTTTT
1 TCAAACTTTTTCTTTT
13384461 CAGGCTTTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.25, C:0.16, G:0.02, T:0.57
Consensus pattern (18 bp):
TCAAACTTTTTCTTTTTA
Found at i:13387340 original size:16 final size:19
Alignment explanation
Indices: 13387319--13387367 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
13387309 TTTTATGTAT
13387319 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
13387336 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
13387354 TGTATATATTTATT
1 TGTAT-TATTTATT
13387368 TTTTTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:13387402 original size:60 final size:57
Alignment explanation
Indices: 13387331--13387496 Score: 147
Period size: 60 Copynumber: 2.8 Consensus size: 57
13387321 TATTATTTAT
* * *
13387331 TATTATTATTATGTATTAATATATGTATATATTTATTTTTTTTTTTGTTAAT-ATTTATGTG
1 TATT-TTATTATCTATT-ATATATATATATATTTATTTTTTTTATT-TTAATCATTT-T-TG
* * * *
13387392 TATTTTATTATTTATGTATATATATATATTTTTTATCTTTTTTATTTTATTCATTTTTG
1 TATTTTATTATCTAT-TATATATATATA-TATTTATTTTTTTTATTTTAATCATTTTTG
* *
13387451 TATTTTACTTATCTAATTATATATCTGATATATTT-TTTTTATTATT
1 TATTTTA-TTATCT-ATTATATATAT-ATATATTTATTTTTTTTATT
13387497 ATTTATCCTA
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
59 18 0.20
60 42 0.48
61 28 0.32
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.66
Consensus pattern (57 bp):
TATTTTATTATCTATTATATATATATATATTTATTTTTTTTATTTTAATCATTTTTG
Found at i:13387930 original size:31 final size:31
Alignment explanation
Indices: 13387895--13387953 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
13387885 ATCCGGCGAA
* *
13387895 AATTCTGGCGAA-ATTTGAATTTTCCGGCAGT
1 AATTCCGGCGAACA-TTGAAGTTTCCGGCAGT
*
13387926 AATTCCGGTGAACATTGAAGTTTCCGGC
1 AATTCCGGCGAACATTGAAGTTTCCGGC
13387954 GACCAGTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (31 bp):
AATTCCGGCGAACATTGAAGTTTCCGGCAGT
Found at i:13388402 original size:17 final size:16
Alignment explanation
Indices: 13388365--13388422 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
13388355 CGGCTCCATG
13388365 TTTTTTTTTTTTTTTAAA
1 TTTTTTTTTTTTTTT--A
13388383 TTTTTTTTATTTTTTTA
1 TTTTTTTT-TTTTTTTA
* *
13388400 TTTATTTGTTTATTTTA
1 TTT-TTTTTTTTTTTTA
13388417 TTTTTT
1 TTTTTT
13388423 ATTTATTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 3 0.08
17 14 0.39
18 12 0.33
19 7 0.19
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTA
Found at i:13388411 original size:20 final size:20
Alignment explanation
Indices: 13388388--13388426 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13388378 TTAAATTTTT
13388388 TTTATTTT-TTTATTTATTTG
1 TTTATTTTATTT-TTTATTTG
13388408 TTTATTTTATTTTTTATTT
1 TTTATTTTATTTTTTATTT
13388427 ATTAGATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTATTTTATTTTTTATTTG
Found at i:13388423 original size:12 final size:11
Alignment explanation
Indices: 13388365--13388429 Score: 69
Period size: 11 Copynumber: 5.7 Consensus size: 11
13388355 CGGCTCCATG
13388365 TTTTT-TTTTT
1 TTTTTATTTTT
**
13388375 TTTTTAAATTT
1 TTTTTATTTTT
13388386 TTTTTATTTTT
1 TTTTTATTTTT
13388397 TTATTTATTTGTT
1 TT-TTTATTT-TT
13388410 TATTTTATTTTT
1 T-TTTTATTTTT
*
13388422 TATTTATT
1 TTTTTATT
13388430 AGATTAGGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 5 0.11
11 20 0.43
12 10 0.22
13 10 0.22
14 1 0.02
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:13388429 original size:4 final size:4
Alignment explanation
Indices: 13388388--13388429 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
13388378 TTAAATTTTT
* *
13388388 TTTA TTTT TTTA TTTA TTTG TTTA TTTTA TTT- TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TT
13388430 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 3 0.09
4 25 0.78
5 4 0.12
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (4 bp):
TTTA
Found at i:13388623 original size:115 final size:117
Alignment explanation
Indices: 13388498--13388829 Score: 474
Period size: 115 Copynumber: 2.8 Consensus size: 117
13388488 TAAAAATAAA
*
13388498 AAATTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
13388563 CAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCC-T-CAG-AAAT
66 CAAAAAATATTTTTAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAAAT
13388613 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTT
13388677 CCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
65 CCAAAAAATATTTTTAGG-AAAAGTTGAAAGTATCAATTTTCCTT-AAAG-AAAAT
* * * * *
13388733 AAATTTCCAAAAAAAAAAAAATTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAATAAAT
1 AAATTT-C--AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
13388798 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGA
63 TTCC--AAAAAATATTTTTA-GGAAAAGTTGA
13388830 TAAAAAATCA
Statistics
Matches: 196, Mismatches: 7, Indels: 18
0.89 0.03 0.08
Matches are distributed among these distances:
114 2 0.01
115 102 0.52
116 1 0.01
118 2 0.01
120 10 0.05
121 1 0.01
123 52 0.27
124 1 0.01
125 23 0.12
126 2 0.01
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (117 bp):
AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
CAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAAAT
Found at i:13388654 original size:58 final size:58
Alignment explanation
Indices: 13388498--13388829 Score: 445
Period size: 57 Copynumber: 5.6 Consensus size: 58
13388488 TAAAAATAAA
* *
13388498 AAATTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
* *
13388556 AAATTTC-CAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
*
13388613 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAAT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGA-AAT
* * *
13388671 AAATTTC-CAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-T--CAG--AAAT
* * * *
13388733 AAATTTCCAAAAAAAAAAAAATTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTT-C--AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
13388794 AAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGA
1 AAATTT-CAAAAAAAATATTTTTAGGGAAAAGTTGA
13388830 TAAAAAATCA
Statistics
Matches: 241, Mismatches: 21, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
57 95 0.39
58 59 0.24
59 24 0.10
60 1 0.00
61 12 0.05
62 9 0.04
63 4 0.02
65 1 0.00
66 36 0.15
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (58 bp):
AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
Found at i:13388717 original size:27 final size:27
Alignment explanation
Indices: 13388629--13388717 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
13388619 CAAAAAAAAT
*
13388629 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGAAAAAGTTGAAAGTATCA
* * * **
13388656 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGAA-AAAGTT-GAAAGTATCA
13388686 ATTTTTAGGAAAAAGTTGAAAGTATCA
1 ATTTTTAGGAAAAAGTTGAAAGTATCA
13388713 ATTTT
1 ATTTT
13388718 CCTTAAAAGA
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 5 0.11
27 12 0.27
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.11
32 5 0.11
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGAAAAAGTTGAAAGTATCA
Found at i:13392728 original size:33 final size:34
Alignment explanation
Indices: 13392685--13392749 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
13392675 ACACTGGATG
*
13392685 AAAAATGAGAAAAGA-GAAAAAA-AAAAAAGAAAA
1 AAAAAGGAGAAAA-ATGAAAAAAGAAAAAAGAAAA
13392718 AAAAAGGAGAAAAATGAAAAAATGAAAAAAGA
1 AAAAAGGAGAAAAATGAAAAAA-GAAAAAAGA
13392750 GATCCAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 1 0.04
33 19 0.68
35 8 0.29
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (34 bp):
AAAAAGGAGAAAAATGAAAAAAGAAAAAAGAAAA
Found at i:13392737 original size:26 final size:27
Alignment explanation
Indices: 13392694--13392747 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
13392684 GAAAAATGAG
13392694 AAAAGAG-AAAAAAAAAAAA-GAAAAA
1 AAAAGAGAAAAAAAAAAAAATGAAAAA
**
13392719 AAAAGGAGAAAAATGAAAAAATGAAAAA
1 AAAA-GAGAAAAAAAAAAAAATGAAAAA
13392747 A
1 A
13392748 GAGATCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.17
26 3 0.12
27 10 0.42
28 7 0.29
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (27 bp):
AAAAGAGAAAAAAAAAAAAATGAAAAA
Found at i:13393436 original size:12 final size:12
Alignment explanation
Indices: 13393418--13393451 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
13393408 GTGATGGTGG
13393418 ATGAAATTTGTT
1 ATGAAATTTGTT
*
13393430 TTGAAATTTGTT
1 ATGAAATTTGTT
13393442 ATGAAATTTG
1 ATGAAATTTG
13393452 CTAGCGCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
ATGAAATTTGTT
Found at i:13394146 original size:41 final size:40
Alignment explanation
Indices: 13393987--13394636 Score: 992
Period size: 40 Copynumber: 16.0 Consensus size: 40
13393977 GTCTAGGAGT
13393987 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
13394027 ATTTA-TTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
13394067 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
13394109 ATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
13394150 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
13394190 ATTTACTTTTCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
13394231 ATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
13394272 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
13394313 ATTTACTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
13394353 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
13394393 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
13394434 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
13394475 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
13394515 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
13394555 ATTTACTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
13394596 ATTTACTTTCCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGC
13394637 TTTGGTAAAA
Statistics
Matches: 575, Mismatches: 15, Indels: 38
0.92 0.02 0.06
Matches are distributed among these distances:
39 20 0.03
40 245 0.43
41 222 0.39
42 75 0.13
43 13 0.02
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:13394459 original size:162 final size:162
Alignment explanation
Indices: 13393987--13394636 Score: 1114
Period size: 162 Copynumber: 4.0 Consensus size: 162
13393977 GTCTAGGAGT
13393987 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTTCGTTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGTTGCC
13394051 TCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
65 TCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-
*
13394116 TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
128 TTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
13394150 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTAC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TGC
13394214 CTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA
64 CTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
13394277 CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
127 CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
13394313 ATTTACTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCT
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCT
13394378 CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
66 CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
13394443 CCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
131 CCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
13394475 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCCT
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCT
* *
13394540 CTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTT
66 CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
13394605 CCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
131 CC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
13394637 TTTGGTAAAA
Statistics
Matches: 466, Mismatches: 10, Indels: 22
0.94 0.02 0.04
Matches are distributed among these distances:
160 4 0.01
161 13 0.03
162 226 0.48
163 177 0.38
164 37 0.08
165 9 0.02
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (162 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCT
CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
CCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:13394666 original size:18 final size:18
Alignment explanation
Indices: 13394643--13394715 Score: 98
Period size: 18 Copynumber: 4.2 Consensus size: 18
13394633 GAGCTTTGGT
13394643 AAAAAACAAAAAAACAAA
1 AAAAAACAAAAAAACAAA
13394661 AAAAAACAAAAAAAC---
1 AAAAAACAAAAAAACAAA
*
13394676 AAAAAACAAAAAAATAAA
1 AAAAAACAAAAAAACAAA
*
13394694 AAAACAAAAAAAAAACAAA
1 AAAA-AACAAAAAAACAAA
13394713 AAA
1 AAA
13394716 CCAAAAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
15 14 0.29
18 19 0.40
19 15 0.31
ACGTcount: A:0.89, C:0.10, G:0.00, T:0.01
Consensus pattern (18 bp):
AAAAAACAAAAAAACAAA
Found at i:13394689 original size:41 final size:42
Alignment explanation
Indices: 13394643--13394723 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
13394633 GAGCTTTGGT
13394643 AAAAAACAAAAAAAC-AAAAAAAAACAAAAAAACAAAAAACA
1 AAAAAACAAAAAAACAAAAAAAAAACAAAAAAACAAAAAACA
* *
13394684 AAAAAATAAAAAAACAAAAAAAAAACAAAAAACCAAAAAA
1 AAAAAACAAAAAAACAAAAAAAAAACAAAAAAACAAAAAA
13394724 TGTTGAGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
41 14 0.38
42 23 0.62
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (42 bp):
AAAAAACAAAAAAACAAAAAAAAAACAAAAAAACAAAAAACA
Found at i:13394723 original size:1 final size:1
Alignment explanation
Indices: 13394643--13394715 Score: 74
Period size: 1 Copynumber: 73.0 Consensus size: 1
13394633 GAGCTTTGGT
* * * * * * *
13394643 AAAAAACAAAAAAACAAAAAAAAACAAAAAAACAAAAAACAAAAAAATAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
13394708 ACAAAAAA
1 AAAAAAAA
13394716 CCAAAAAATG
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.89, C:0.10, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:13394723 original size:8 final size:8
Alignment explanation
Indices: 13394643--13394705 Score: 92
Period size: 8 Copynumber: 7.8 Consensus size: 8
13394633 GAGCTTTGGT
13394643 AAAAAACA
1 AAAAAACA
13394651 AAAAAACAAA
1 AAAAAAC--A
13394661 AAAAAACA
1 AAAAAACA
13394669 AAAAAAC-
1 AAAAAACA
13394676 AAAAAACA
1 AAAAAACA
*
13394684 AAAAAATA
1 AAAAAACA
13394692 AAAAAACA
1 AAAAAACA
13394700 AAAAAA
1 AAAAAA
13394706 AAACAAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
7 7 0.14
8 35 0.70
10 8 0.16
ACGTcount: A:0.89, C:0.10, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAAAACA
Found at i:13394943 original size:16 final size:19
Alignment explanation
Indices: 13394922--13394970 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
13394912 TTTTATGTAT
13394922 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
13394939 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
13394957 TGTATATATTTATT
1 TGTAT-TATTTATT
13394971 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:13395569 original size:19 final size:19
Alignment explanation
Indices: 13395547--13395586 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13395537 TGAACATTGA
13395547 AGTTTCCGGCGACCAGTCC
1 AGTTTCCGGCGACCAGTCC
13395566 AGTTTCCGGCGACCAGTCC
1 AGTTTCCGGCGACCAGTCC
13395585 AG
1 AG
13395587 AAATCGACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (19 bp):
AGTTTCCGGCGACCAGTCC
Found at i:13395655 original size:20 final size:19
Alignment explanation
Indices: 13395611--13395655 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
13395601 CCGGCCAACT
*
13395611 TCCGGCGAAATTTCCAGAT
1 TCCGGCGAAATTTCCAGAA
* *
13395630 TTCGGCGAAAATTTTCAGAA
1 TCCGGCG-AAATTTCCAGAA
13395650 TCCGGC
1 TCCGGC
13395656 ACCGGTGTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (19 bp):
TCCGGCGAAATTTCCAGAA
Found at i:13396014 original size:16 final size:16
Alignment explanation
Indices: 13395986--13396028 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
13395976 TTTTTGAATT
13395986 TTTTTTATTT-TTTT-
1 TTTTTTATTTATTTTA
* *
13396000 TTATTTGTTTATTTTA
1 TTTTTTATTTATTTTA
13396016 TTTTTTATTTATT
1 TTTTTTATTTATT
13396029 AGATTAGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 8 0.35
15 4 0.17
16 11 0.48
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTTTATTTATTTTA
Found at i:13396144 original size:27 final size:27
Alignment explanation
Indices: 13396114--13396202 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
13396104 AAAAAAAAAT
13396114 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
** * * **
13396141 ATTTTCCTTAGAAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
13396171 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
13396198 ATTTT
1 ATTTT
13396203 CCTCAAAAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:13396238 original size:115 final size:116
Alignment explanation
Indices: 13396105--13396623 Score: 776
Period size: 115 Copynumber: 4.4 Consensus size: 116
13396095 AAAAATTCCA
13396105 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCCAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCCAAAAA
13396169 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
66 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
*
13396220 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCCAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCCAAAAA
13396284 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
66 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
13396335 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG-AAAATAAATTTCC-
* * *
13396400 AAAAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
61 ---AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
* *
13396459 AAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAA
1 --AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAT--AAATTTC-C
* **
13396523 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTTC
61 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT--AAA-TTTC
*
13396582 -AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
13396624 CTACAAAAAA
Statistics
Matches: 375, Mismatches: 11, Indels: 31
0.90 0.03 0.07
Matches are distributed among these distances:
115 158 0.42
118 1 0.00
120 99 0.26
121 5 0.01
122 4 0.01
123 11 0.03
124 53 0.14
126 44 0.12
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (116 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCCAAAAA
ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
Found at i:13396254 original size:58 final size:58
Alignment explanation
Indices: 13396105--13396637 Score: 730
Period size: 60 Copynumber: 8.9 Consensus size: 58
13396095 AAAAATTCCA
* *
13396105 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
*
13396163 -CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
* *
13396220 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
*
13396278 -CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
*
13396335 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-T----CAAAAATAAATTT-C
* * *
13396399 AAAAAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
1 --AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
* **
13396459 AAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 --AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT--AAATTTC
* **
13396521 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT--AAA-TTTC
* *
13396582 -AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTACAAAAAAAAAT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT-CCT-CAAAAATAAAT
13396638 CATTCTTTCC
Statistics
Matches: 437, Mismatches: 23, Indels: 29
0.89 0.05 0.06
Matches are distributed among these distances:
57 108 0.25
58 95 0.22
59 2 0.00
60 148 0.34
61 18 0.04
62 11 0.03
63 12 0.03
64 1 0.00
65 1 0.00
66 41 0.09
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (58 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTC
Found at i:13396317 original size:27 final size:27
Alignment explanation
Indices: 13396229--13396317 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
13396219 CAAAAAAAAT
13396229 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
13396256 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
13396286 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
13396313 ATTTT
1 ATTTT
13396318 CCTCAAAAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:13397261 original size:15 final size:15
Alignment explanation
Indices: 13397241--13397276 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
13397231 TTGACCTAGT
13397241 CAGTCTATCTTGTGG
1 CAGTCTATCTTGTGG
13397256 CAGTCTATCTTGTGG
1 CAGTCTATCTTGTGG
13397271 CAGTCT
1 CAGTCT
13397277 TTCAGGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.39
Consensus pattern (15 bp):
CAGTCTATCTTGTGG
Found at i:13397994 original size:64 final size:64
Alignment explanation
Indices: 13397891--13398337 Score: 474
Period size: 64 Copynumber: 7.0 Consensus size: 64
13397881 CATATGCAGT
* * *
13397891 CGATGAATTAATATCCAACCCTCAAAATTGAATAGTAGTAGTTGCAAAGAACAATTATTGAAGA
1 CGATGAATTAATATCCAACCTTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGA
* * * * *
13397955 CAATGAATTAATATCTAACATTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTCTT----T
1 CGATGAATTAATATCCAACCTTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGA
* * * *
13398015 CGGTGAATTAAAATCCCAACCTTCAAAATTTAATAGTGGTAGTTGCCAAGGACAATTATTG-AGT
1 CGATGAATTAATAT-CCAACCTTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAG-
*
13398079 T
64 A
* * * *
13398080 GGATGAATTAATATCCAACCCTCAAAATTTAATAGTGGTTGTTGCAAAGGACAATTATTGAAGA
1 CGATGAATTAATATCCAACCTTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGA
* * * * * **
13398144 CGATGAATTAATATCTAACATTCAAAATTTAGTAGAAGTAGTTGCAAAGGACAATTCTTGAATT
1 CGATGAATTAATATCCAACCTTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGA
* * * * * * * * *
13398208 CGGTGAGTTAAAAGCCCAACCTTCAAAATTTAAGAGTGGTAGTTGCCAGGGACGATTATTGAA-A
1 CGATGAATTAATA-TCCAACCTTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGA
* * * * *
13398272 TGGATGAATTAATATCCAACCCTCAAAATTTAATAGTAGTAGTTGCAAAAGATAATTAATGAAGA
1 -CGATGAATTAATATCCAACCTTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGA
13398337 C
1 C
13398338 TCAAAAGTCA
Statistics
Matches: 310, Mismatches: 64, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
60 11 0.04
61 40 0.13
64 197 0.64
65 62 0.20
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (64 bp):
CGATGAATTAATATCCAACCTTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGA
Found at i:13398298 original size:193 final size:189
Alignment explanation
Indices: 13397892--13398337 Score: 703
Period size: 193 Copynumber: 2.3 Consensus size: 189
13397882 ATATGCAGTC
* *
13397892 GATGAATTAATATCCAACCCTCAAAATTGAATAGTAGTAGTTGCAAAGAACAATTATTGAAGACA
1 GATGAATTAATATCCAACCCTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGACA
*
13397957 ATGAATTAATATCTAACATTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTCTTTCGGTGAA
66 ATGAATTAATATCTAACATTCAAAATTTAATAGAAGTAGTTGCAAAGGACAATTCTTTCGGTGAA
* * **
13398022 TTAAAATCCCAACCTTCAAAATTTAATAGTGGTAGTTGCCAAGGACAATTATTGAGTTG
131 TTAAAAGCCCAACCTTCAAAATTTAAGAGTGGTAGTTGCCAAGGACAATTATTGAAATG
* * *
13398081 GATGAATTAATATCCAACCCTCAAAATTTAATAGTGGTTGTTGCAAAGGACAATTATTGAAGACG
1 GATGAATTAATATCCAACCCTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGACA
*
13398146 ATGAATTAATATCTAACATTCAAAATTTAGTAGAAGTAGTTGCAAAGGACAATTCTTGAATTCGG
66 ATGAATTAATATCTAACATTCAAAATTTAATAGAAGTAGTTGCAAAGGACAATTC-T---TTCGG
* * *
13398211 TGAGTTAAAAGCCCAACCTTCAAAATTTAAGAGTGGTAGTTGCCAGGGACGATTATTGAAATG
127 TGAATTAAAAGCCCAACCTTCAAAATTTAAGAGTGGTAGTTGCCAAGGACAATTATTGAAATG
* * *
13398274 GATGAATTAATATCCAACCCTCAAAATTTAATAGTAGTAGTTGCAAAAGATAATTAATGAAGAC
1 GATGAATTAATATCCAACCCTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGAC
13398338 TCAAAAGTCA
Statistics
Matches: 234, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
189 113 0.48
190 1 0.00
193 120 0.51
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (189 bp):
GATGAATTAATATCCAACCCTCAAAATTTAATAGTAGTAGTTGCAAAGGACAATTATTGAAGACA
ATGAATTAATATCTAACATTCAAAATTTAATAGAAGTAGTTGCAAAGGACAATTCTTTCGGTGAA
TTAAAAGCCCAACCTTCAAAATTTAAGAGTGGTAGTTGCCAAGGACAATTATTGAAATG
Found at i:13399673 original size:42 final size:41
Alignment explanation
Indices: 13399627--13399712 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
13399617 TTTTATTATT
* *
13399627 TATTTAATTTTAT-ATTTATATATATT-ATATTAATAAAATTAC
1 TATTTAATTTTATAATTTA-AGATATTAAT-TTAA-AAAAATAC
*
13399669 TATTTAATTTTTTAATTTAAGATATTAATTTAAAAAAATAC
1 TATTTAATTTTATAATTTAAGATATTAATTTAAAAAAATAC
13399710 TAT
1 TAT
13399713 ATTTACATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
41 10 0.26
42 22 0.56
43 7 0.18
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (41 bp):
TATTTAATTTTATAATTTAAGATATTAATTTAAAAAAATAC
Found at i:13400950 original size:23 final size:24
Alignment explanation
Indices: 13400915--13400961 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
13400905 TGATATATTA
* *
13400915 AATAATATTTTTAAATTTTATTTCG
1 AATAATA-TTTTAAAATGTATTTCG
13400940 AATAATA-TTTAAAATGTATTTC
1 AATAATATTTTAAAATGTATTTC
13400962 TCTACATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
25 7 0.35
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
AATAATATTTTAAAATGTATTTCG
Found at i:13401293 original size:19 final size:19
Alignment explanation
Indices: 13401279--13401326 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
13401269 AAAAAAAATT
* *
13401279 AAAAATAATACAAAATACC
1 AAAAAAAATACAAAAAACC
*
13401298 AAAAAAAATACAAAACAAAC
1 AAAAAAAATACAAAA-AACC
13401318 AAAAAAAAT
1 AAAAAAAAT
13401327 CAAGGATGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAAAAATACAAAAAACC
Found at i:13401320 original size:20 final size:19
Alignment explanation
Indices: 13401262--13401326 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
13401252 ATAAAATATG
*
13401262 AAATACAAAAAAAAATTAAAA
1 AAATACAAAAAAACA--AAAA
* *
13401283 ATAATACAAAATACCAAAAA
1 A-AATACAAAAAAACAAAAA
13401303 AAATACAAAACAAACAAAAA
1 AAATACAAAA-AAACAAAAA
13401323 AAAT
1 AAAT
13401327 CAAGGATGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 9 0.24
20 16 0.43
21 1 0.03
22 11 0.30
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.12
Consensus pattern (19 bp):
AAATACAAAAAAACAAAAA
Found at i:13401322 original size:29 final size:29
Alignment explanation
Indices: 13401262--13401321 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
13401252 ATAAAATATG
*
13401262 AAATACAAAAAAAAATTAAAAATAATACA
1 AAATACAAAAAAAAATTAAAAACAATACA
*
13401291 AAATACCAAAAAAAA-TACAAAACAA-ACA
1 AAATACAAAAAAAAATTA-AAAACAATACA
13401319 AAA
1 AAA
13401322 AAAATCAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (29 bp):
AAATACAAAAAAAAATTAAAAACAATACA
Found at i:13402427 original size:15 final size:16
Alignment explanation
Indices: 13402394--13402449 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
13402384 AAATAAACTT
13402394 TAAAAATAAAATAATA
1 TAAAAATAAAATAATA
*
13402410 TAAAAATAAATTTAATAA
1 TAAAAATAAA-ATAAT-A
* *
13402428 TAATACTAAAATAATA
1 TAAAAATAAAATAATA
13402444 -AAAAAT
1 TAAAAAT
13402450 TAGAGAAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.12
16 11 0.34
17 8 0.25
18 9 0.28
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATAAAATAATA
Found at i:13402441 original size:29 final size:28
Alignment explanation
Indices: 13402383--13402450 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
13402373 GTTAATTTTT
*
13402383 AAAATAAACTTTAAAAATAAAATAATATA
1 AAAATAAA-TTTAAAAATAAAATAAAATA
* *
13402412 AAAATAAATTTAATAATAATACTAAAATA
1 AAAATAAATTTAAAAATAA-AATAAAATA
13402441 ATAAA-AAATT
1 A-AAATAAATT
13402451 AGAGAAAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.29
29 21 0.62
30 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAATAAATTTAAAAATAAAATAAAATA
Found at i:13402646 original size:18 final size:18
Alignment explanation
Indices: 13402618--13402665 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
13402608 TTGGTTATAA
13402618 AATAA-TAATAAA-TAAG
1 AATAAGTAATAAATTAAG
*
13402634 AACTAATTAATAAATTAAG
1 AA-TAAGTAATAAATTAAG
13402653 AATAAGTAATAAA
1 AATAAGTAATAAA
13402666 AATGAGAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 2 0.07
17 3 0.11
18 17 0.61
19 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AATAAGTAATAAATTAAG
Found at i:13404083 original size:20 final size:20
Alignment explanation
Indices: 13404049--13404103 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 20
13404039 AATACAAAAC
*
13404049 AAACAAAACAAAAAAAATCTTAA
1 AAACAAAA-AAAAAACA-C-TAA
13404072 AACACAAAAAAAAAACACTAA
1 AA-ACAAAAAAAAAACACTAA
13404093 AAACAAAAAAA
1 AAACAAAAAAA
13404104 TATTTTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 9 0.30
21 5 0.17
22 1 0.03
23 9 0.30
24 6 0.20
ACGTcount: A:0.78, C:0.15, G:0.00, T:0.07
Consensus pattern (20 bp):
AAACAAAAAAAAAACACTAA
Found at i:13404088 original size:13 final size:15
Alignment explanation
Indices: 13404070--13404101 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
13404060 AAAAAATCTT
13404070 AAAACAC-AAAAA-A
1 AAAACACTAAAAACA
13404083 AAAACACTAAAAACA
1 AAAACACTAAAAACA
13404098 AAAA
1 AAAA
13404102 AATATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 5 0.29
15 5 0.29
ACGTcount: A:0.81, C:0.16, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAACACTAAAAACA
Found at i:13410270 original size:17 final size:16
Alignment explanation
Indices: 13410227--13410282 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
13410217 TTTTTTCTAC
*
13410227 ATTTTT-TATTAGTTT
1 ATTTTTATATTAATTT
* *
13410242 AGTATTATTATTAAATTT
1 ATTTTTA-TATT-AATTT
*
13410260 ATTTTTATATTATTTT
1 ATTTTTATATTAATTT
13410276 ATTTTTA
1 ATTTTTA
13410283 AAGTTTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.12
16 11 0.34
17 8 0.25
18 9 0.28
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
ATTTTTATATTAATTT
Found at i:13410685 original size:27 final size:27
Alignment explanation
Indices: 13410655--13410725 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
13410645 TGGGTGCTTA
13410655 AAACGACGTCGTTTTGGGCATTTATTG
1 AAACGACGTCGTTTTGGGCATTTATTG
** *
13410682 AAACGATATCATTTTGGGCATTTATTG
1 AAACGACGTCGTTTTGGGCATTTATTG
13410709 AAACGACGTCGTTTTGG
1 AAACGACGTCGTTTTGG
13410726 CTATTGACAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (27 bp):
AAACGACGTCGTTTTGGGCATTTATTG
Found at i:13411378 original size:29 final size:29
Alignment explanation
Indices: 13411316--13411371 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
13411306 TAGTGGCTGT
*
13411316 CAGTAGGATA-GGTGATCAGAAGGGTGGA
1 CAGTAGGGTATGGTGATCAGAAGGGTGGA
13411344 CAGTAGGGTATGGTGATCAGAAGGGTGG
1 CAGTAGGGTATGGTGATCAGAAGGGTGG
13411372 GGGGTAGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.29, C:0.07, G:0.45, T:0.20
Consensus pattern (29 bp):
CAGTAGGGTATGGTGATCAGAAGGGTGGA
Found at i:13411385 original size:29 final size:29
Alignment explanation
Indices: 13411326--13411388 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
13411316 CAGTAGGATA
* *
13411326 GGTGATCAGAAGGGTGGACAGTAGGGTAT
1 GGTGATCAGAAGGGTGGACAGTAGAGCAT
***
13411355 GGTGATCAGAAGGGTGGGGGGTAGAGCAT
1 GGTGATCAGAAGGGTGGACAGTAGAGCAT
13411384 GGTGA
1 GGTGA
13411389 CAGTGGTGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.06, G:0.49, T:0.19
Consensus pattern (29 bp):
GGTGATCAGAAGGGTGGACAGTAGAGCAT
Found at i:13411461 original size:19 final size:18
Alignment explanation
Indices: 13411425--13411506 Score: 62
Period size: 17 Copynumber: 4.6 Consensus size: 18
13411415 CCATCCTTGA
* *
13411425 TTTTTTT-TTTGTTCTAT
1 TTTTTTTATTTTTTGTAT
13411442 TTTTTTTACTTTTTTGTA-
1 TTTTTTTA-TTTTTTGTAT
*
13411460 -TTGTTTATTTTTTAGTAT
1 TTTTTTTATTTTTT-GTAT
* *
13411478 TTTGTATTATTTTTGGTAT
1 TTT-TTTTATTTTTTGTAT
*
13411497 TTTTTGTATT
1 TTTTTTTATT
13411507 CTGTATTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
16 6 0.12
17 16 0.31
18 5 0.10
19 16 0.31
20 8 0.16
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (18 bp):
TTTTTTTATTTTTTGTAT
Found at i:13411489 original size:46 final size:45
Alignment explanation
Indices: 13411431--13411517 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
13411421 TTGATTTTTT
** * *
13411431 TTTTGTTCTATTTTTTTTACTTTTTTGTATTGTTTATTTTTTAGTA
1 TTTTGTTCTATTTTTGGTA-TTTTTTGTATTCTGTATTTTTTAGTA
13411477 TTTTGTAT-TATTTTTGGTATTTTTTGTATTCTGTATTTTTT
1 TTTTGT-TCTATTTTTGGTATTTTTTGTATTCTGTATTTTTT
13411518 GTTTAATGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 20 0.56
46 15 0.42
47 1 0.03
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.74
Consensus pattern (45 bp):
TTTTGTTCTATTTTTGGTATTTTTTGTATTCTGTATTTTTTAGTA
Found at i:13412539 original size:21 final size:20
Alignment explanation
Indices: 13412502--13412560 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
13412492 TTTTTATAAA
*
13412502 TAAAAATAATAAT-AAATAT
1 TAAAAAAAATAATAAAATAT
*
13412521 TAAAAAAAATTAATAAAATTT
1 TAAAAAAAA-TAATAAAATAT
13412542 TCAAACAAAAA-AATAAAAT
1 T-AAA-AAAAATAATAAAAT
13412561 GTGTGCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 8 0.24
20 4 0.12
21 14 0.41
22 3 0.09
23 5 0.15
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAAAAAATAATAAAATAT
Found at i:13417545 original size:64 final size:63
Alignment explanation
Indices: 13417430--13417674 Score: 267
Period size: 64 Copynumber: 3.8 Consensus size: 63
13417420 CGATATATTA
* * * * * **
13417430 ATATCCAACCCTCAAAATTGAATAGCAGTTGTTACAAAGGACAATTATTGAAGACGATGAATT
1 ATATCCAACCTTCAAAATTTAATAGCAGTAGTTGCCAAGGACAATTATTGAATTCGATGAATT
* * * * * *
13417493 AGTATCTAACGTTCAAAATTTAATAGTAGTAGTTGCCAAGGACAATTCTTGAATTCGGTGAATCA
1 A-TATCCAACCTTCAAAATTTAATAGCAGTAGTTGCCAAGGACAATTATTGAATTCGATGAAT-T
* * *
13417558 AAATCCCAACCTTCAAAATTTAATAGTAGTAGTTGCCAAGGACAATTATTGAATTGGATGAATTT
1 ATAT-CCAACCTTCAAAATTTAATAGCAGTAGTTGCCAAGGACAATTATTGAATTCGATGAA-TT
* * *
13417623 ATATCCAACCCTCAAAATTTAATAGCAGTAGTTG-CAGAAGATAATTATTGAA
1 ATATCCAACCTTCAAAATTTAATAGCAGTAGTTGCCA-AGGACAATTATTGAA
13417675 GACTCAAAAG
Statistics
Matches: 152, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
63 3 0.02
64 92 0.61
65 56 0.37
66 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (63 bp):
ATATCCAACCTTCAAAATTTAATAGCAGTAGTTGCCAAGGACAATTATTGAATTCGATGAATT
Found at i:13417674 original size:129 final size:129
Alignment explanation
Indices: 13417434--13417674 Score: 306
Period size: 129 Copynumber: 1.9 Consensus size: 129
13417424 ATATTAATAT
*
13417434 CCAACCCTCAAAATTGAATAGCAGTTGTTACAAAGGACAATTATTGAAGACGATGAATTAGTATC
1 CCAACCCTCAAAATTGAATAGCAGTAGTTACAAAGGACAATTATTGAAGACGATGAATTAGTATC
* ** * * *
13417499 TAACGTTCAAAATTTAATAGTAGTAGTTGCCAAGGACAATTCTTGAATTCGGTGAATCAAAATC
66 CAACCCTCAAAATTTAATAGCAGTAGTTGCCAAAGACAATTATTGAATTCGGTGAATCAAAATC
* * * * * ***
13417563 CCAACCTTCAAAATTTAATAGTAGTAGTTGCCAAGGACAATTATTGAATTGGATGAATTTA-TAT
1 CCAACCCTCAAAATTGAATAGCAGTAGTTACAAAGGACAATTATTGAAGACGATGAA-TTAGTAT
*
13417627 CCAACCCTCAAAATTTAATAGCAGTAGTTG-CAGAAGATAATTATTGAA
65 CCAACCCTCAAAATTTAATAGCAGTAGTTGCCA-AAGACAATTATTGAA
13417675 GACTCAAAAG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
128 2 0.02
129 89 0.95
130 3 0.03
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (129 bp):
CCAACCCTCAAAATTGAATAGCAGTAGTTACAAAGGACAATTATTGAAGACGATGAATTAGTATC
CAACCCTCAAAATTTAATAGCAGTAGTTGCCAAAGACAATTATTGAATTCGGTGAATCAAAATC
Found at i:13418396 original size:12 final size:12
Alignment explanation
Indices: 13418379--13418405 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13418369 ATTTTTTAAA
13418379 AAGAGAATTTAT
1 AAGAGAATTTAT
13418391 AAGAGAATTTAT
1 AAGAGAATTTAT
13418403 AAG
1 AAG
13418406 TGTTGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (12 bp):
AAGAGAATTTAT
Found at i:13419132 original size:15 final size:15
Alignment explanation
Indices: 13419112--13419145 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13419102 TCAATGACAA
*
13419112 CATGCTAACGTATAT
1 CATGCTAACGAATAT
*
13419127 CATGCTAATGAATAT
1 CATGCTAACGAATAT
13419142 CATG
1 CATG
13419146 TAAAATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (15 bp):
CATGCTAACGAATAT
Found at i:13419476 original size:16 final size:15
Alignment explanation
Indices: 13419414--13419481 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
13419404 TCCTTAGGAT
*
13419414 TTTTAGGACTTTGGA
1 TTTTAGGATTTTGGA
*
13419429 TTTCATGGATTTTGGA
1 TTTTA-GGATTTTGGA
* *
13419445 TTTTGGGGGGTTTTGGA
1 TTTT--AGGATTTTGGA
13419462 TTTTAGAGATTTTGGA
1 TTTTAG-GATTTTGGA
13419478 TTTT
1 TTTT
13419482 TAAGGGGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 5 0.12
16 24 0.57
17 13 0.31
ACGTcount: A:0.16, C:0.03, G:0.29, T:0.51
Consensus pattern (15 bp):
TTTTAGGATTTTGGA
Found at i:13420714 original size:28 final size:27
Alignment explanation
Indices: 13420649--13420722 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
13420639 TGTTTCTGGC
*
13420649 TTTTTGCGTTTTTGTTTCTTTTTTTTTTG
1 TTTTTG-GTTTCTGTTT-TTTTTTTTTTG
* *
13420678 TTTCT-GTTTCTGTTTTTTTTTTTTTT
1 TTTTTGGTTTCTGTTTTTTTTTTTTTG
13420704 TTTTTGGGTTTCTGTTTTT
1 TTTTT-GGTTTCTGTTTTT
13420723 GGGTATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 14 0.36
27 9 0.23
28 12 0.31
29 4 0.10
ACGTcount: A:0.00, C:0.07, G:0.14, T:0.80
Consensus pattern (27 bp):
TTTTTGGTTTCTGTTTTTTTTTTTTTG
Found at i:13420912 original size:12 final size:12
Alignment explanation
Indices: 13420892--13420966 Score: 64
Period size: 12 Copynumber: 6.2 Consensus size: 12
13420882 GGTGGTTATA
*
13420892 GGGTGGTTGGTC
1 GGGTAGTTGGTC
*
13420904 GGGTAGTTGGTA
1 GGGTAGTTGGTC
* *
13420916 AGGTAATTGGTC
1 GGGTAGTTGGTC
*
13420928 GGAG-AGTTGGTT
1 GG-GTAGTTGGTC
*
13420940 GGGTAATTGGTC
1 GGGTAGTTGGTC
13420952 GGAG-AGTTGGTC
1 GG-GTAGTTGGTC
13420964 GGG
1 GGG
13420967 GCAGTTCGGC
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
11 2 0.04
12 45 0.92
13 2 0.04
ACGTcount: A:0.15, C:0.05, G:0.49, T:0.31
Consensus pattern (12 bp):
GGGTAGTTGGTC
Found at i:13420925 original size:24 final size:24
Alignment explanation
Indices: 13420898--13420962 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
13420888 TATAGGGTGG
13420898 TTGGTCGG-GTAGTTGGTAAGGTAA
1 TTGGTCGGAG-AGTTGGTAAGGTAA
**
13420922 TTGGTCGGAGAGTTGGTTGGGTAA
1 TTGGTCGGAGAGTTGGTAAGGTAA
13420946 TTGGTCGGAGAGTTGGT
1 TTGGTCGGAGAGTTGGT
13420963 CGGGGCAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.17, C:0.05, G:0.45, T:0.34
Consensus pattern (24 bp):
TTGGTCGGAGAGTTGGTAAGGTAA
Found at i:13421034 original size:9 final size:9
Alignment explanation
Indices: 13421011--13421062 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
13421001 TCTTATTTCC
13421011 GTTTTGTTT
1 GTTTTGTTT
13421020 -TTTTGTTT
1 GTTTTGTTT
13421028 GTTTTGTTT
1 GTTTTGTTT
*
13421037 -TTTTCTATT
1 GTTTTGT-TT
*
13421046 TTTTTGTTT
1 GTTTTGTTT
13421055 GTTTTGTT
1 GTTTTGTT
13421063 AAATATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 13 0.35
9 19 0.51
10 5 0.14
ACGTcount: A:0.02, C:0.02, G:0.15, T:0.81
Consensus pattern (9 bp):
GTTTTGTTT
Found at i:13421072 original size:27 final size:27
Alignment explanation
Indices: 13421017--13421072 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
13421007 TTCCGTTTTG
** *
13421017 TTTTTTTGTTTGTTTTGTTTTTTTCTA
1 TTTTTTTGTTTGTTTTGTTAATATCTA
13421044 TTTTTTTGTTTGTTTTGTTAAATAT-TA
1 TTTTTTTGTTTGTTTTGTT-AATATCTA
13421071 TT
1 TT
13421073 ATTATTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.77
Consensus pattern (27 bp):
TTTTTTTGTTTGTTTTGTTAATATCTA
Found at i:13421703 original size:15 final size:15
Alignment explanation
Indices: 13421683--13421716 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13421673 TCAATGACAA
*
13421683 CATGCTAACGTATAT
1 CATGCTAACGAATAT
*
13421698 CATGCTAATGAATAT
1 CATGCTAACGAATAT
13421713 CATG
1 CATG
13421717 TAAAATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (15 bp):
CATGCTAACGAATAT
Found at i:13422013 original size:16 final size:16
Alignment explanation
Indices: 13421994--13422051 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
13421984 TTTTTAAGAC
*
13421994 TTTGGATTTCATGGAT
1 TTTGGATTTCAGGGAT
** *
13422010 TTTGGATTTTGGGGGGT
1 TTTGGA-TTTCAGGGAT
*
13422027 TTTGGATTTTAGGGAT
1 TTTGGATTTCAGGGAT
13422043 TTTGGATTT
1 TTTGGATTT
13422052 TTAGGGGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 22 0.65
17 12 0.35
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.52
Consensus pattern (16 bp):
TTTGGATTTCAGGGAT
Found at i:13422033 original size:33 final size:33
Alignment explanation
Indices: 13421994--13422062 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
13421984 TTTTTAAGAC
* *
13421994 TTTGGATTTCATGGATTTTGGATTTTGGGGGGT
1 TTTGGATTTCAGGGATTTTGGATTTTGAGGGGT
* *
13422027 TTTGGATTTTAGGGATTTTGGATTTTTAGGGGT
1 TTTGGATTTCAGGGATTTTGGATTTTGAGGGGT
13422060 TTT
1 TTT
13422063 AGAAACTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.13, C:0.01, G:0.33, T:0.52
Consensus pattern (33 bp):
TTTGGATTTCAGGGATTTTGGATTTTGAGGGGT
Found at i:13422052 original size:16 final size:16
Alignment explanation
Indices: 13421994--13422062 Score: 75
Period size: 17 Copynumber: 4.2 Consensus size: 16
13421984 TTTTTAAGAC
* *
13421994 TTTGGATTTCATGGAT
1 TTTGGATTTTAGGGAT
* *
13422010 TTTGGATTTTGGGGGGT
1 TTTGGATTTT-AGGGAT
13422027 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
*
13422043 TTTGGATTTTTAGGGGT
1 TTTGGA-TTTTAGGGAT
13422060 TTT
1 TTT
13422063 AGAAACTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 19 0.43
17 25 0.57
ACGTcount: A:0.13, C:0.01, G:0.33, T:0.52
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:13422518 original size:12 final size:12
Alignment explanation
Indices: 13422501--13422526 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13422491 TTACCTGAAC
13422501 CGGTCCGGTCAA
1 CGGTCCGGTCAA
13422513 CGGTCCGGTCAA
1 CGGTCCGGTCAA
13422525 CG
1 CG
13422527 ATCGGTTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.35, G:0.35, T:0.15
Consensus pattern (12 bp):
CGGTCCGGTCAA
Found at i:13423266 original size:22 final size:22
Alignment explanation
Indices: 13423211--13423269 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
13423201 TCTGTTTCTA
**
13423211 TGTTTCTGGCTTTTTGCGTTTC
1 TGTTTCTGTTTTTTTGCGTTTC
* *
13423233 TGTTTCTTTTTTTTTGGGTTTC
1 TGTTTCTGTTTTTTTGCGTTTC
13423255 TGTTTCTGTTTTTTT
1 TGTTTCTGTTTTTTT
13423270 TTTTTCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.00, C:0.12, G:0.19, T:0.69
Consensus pattern (22 bp):
TGTTTCTGTTTTTTTGCGTTTC
Found at i:13423501 original size:24 final size:23
Alignment explanation
Indices: 13423474--13423537 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
13423464 ATAGGGTGGC
*
13423474 TGGTCAGGTAGTTGGTAAGGTAAT
1 TGGTC-GGGAGTTGGTAAGGTAAT
**
13423498 TGGTCGGAGAGTTGGTTGGGTAAT
1 TGGTCGG-GAGTTGGTAAGGTAAT
13423522 TGGTCGGGGAGTTGGT
1 TGGTC-GGGAGTTGGT
13423538 CGGGACAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.06
24 31 0.89
25 2 0.06
ACGTcount: A:0.17, C:0.05, G:0.45, T:0.33
Consensus pattern (23 bp):
TGGTCGGGAGTTGGTAAGGTAAT
Found at i:13423621 original size:27 final size:28
Alignment explanation
Indices: 13423581--13423637 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 28
13423571 TTCTGTCTTA
*
13423581 TTTTCGTTTTATTTTTTTGTTTGTTTTG
1 TTTTCGTTCTATTTTTTTGTTTGTTTTG
13423609 TTTTC-TTCTATTTTTTTGTTTGTTTTG
1 TTTTCGTTCTATTTTTTTGTTTGTTTTG
13423636 TT
1 TT
13423638 AAATATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.04, C:0.05, G:0.12, T:0.79
Consensus pattern (28 bp):
TTTTCGTTCTATTTTTTTGTTTGTTTTG
Found at i:13423647 original size:27 final size:26
Alignment explanation
Indices: 13423588--13423647 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
13423578 TTATTTTCGT
***
13423588 TTTATTTTTTTGTTTGTTTTGTTTTC
1 TTTATTTTTTTGTTTGTTTTGTTAAA
13423614 TTCTATTTTTTTGTTTGTTTTGTTAAA
1 TT-TATTTTTTTGTTTGTTTTGTTAAA
13423641 TATTATT
1 T-TTATT
13423648 ATTATTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 26 0.90
28 1 0.03
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (26 bp):
TTTATTTTTTTGTTTGTTTTGTTAAA
Found at i:13423878 original size:4 final size:4
Alignment explanation
Indices: 13423869--13423916 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
13423859 ATATTTAACA
* * *
13423869 AAAC AAAC AAAA AAAC AAAC AAAAA AAAC AAAC AAAC AAAA AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC -AAAC AAAC AAAC AAAC AAAC AAAC AAA
13423917 ACTGAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
4 34 0.92
5 3 0.08
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:13423885 original size:12 final size:12
Alignment explanation
Indices: 13423868--13423917 Score: 75
Period size: 12 Copynumber: 4.1 Consensus size: 12
13423858 AATATTTAAC
13423868 AAAACAAACAAA
1 AAAACAAACAAA
13423880 AAAACAAACAAAA
1 AAAACAAAC-AAA
13423893 AAAACAAACAAA
1 AAAACAAACAAA
13423905 CAAAA-AAACAAA
1 -AAAACAAACAAA
13423917 A
1 A
13423918 CTGAAATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.03
12 19 0.53
13 16 0.44
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAAACAAA
Found at i:13423899 original size:25 final size:25
Alignment explanation
Indices: 13423868--13423917 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
13423858 AATATTTAAC
13423868 AAAACAAACAAA-AAAACAAACAAAA
1 AAAACAAACAAACAAAA-AAACAAAA
13423893 AAAACAAACAAACAAAAAAACAAAA
1 AAAACAAACAAACAAAAAAACAAAA
13423918 CTGAAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAACAAACAAACAAAAAAACAAAA
Found at i:13423918 original size:17 final size:16
Alignment explanation
Indices: 13423869--13423916 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
13423859 ATATTTAACA
13423869 AAACAAACAAAAAAAC
1 AAACAAACAAAAAAAC
13423885 AAAC--A-AAAAAAAC
1 AAACAAACAAAAAAAC
13423898 AAACAAACAAAAAAAC
1 AAACAAACAAAAAAAC
13423914 AAA
1 AAA
13423917 ACTGAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.41
14 1 0.03
15 1 0.03
16 15 0.52
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (16 bp):
AAACAAACAAAAAAAC
Found at i:13424665 original size:27 final size:27
Alignment explanation
Indices: 13424613--13424665 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
13424603 CTGTCAATAG
*
13424613 CCAAAACGACGTCGTTTCAATAAAAGC
1 CCAAAACGACGTCGTTTCAACAAAAGC
* *
13424640 CCAAAACGACGTCGTTTTAACCAAAG
1 CCAAAACGACGTCGTTTCAACAAAAG
13424666 AAGGATCCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (27 bp):
CCAAAACGACGTCGTTTCAACAAAAGC
Found at i:13425233 original size:16 final size:16
Alignment explanation
Indices: 13425209--13425271 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
13425199 TTTTTTTTTT
*
13425209 AGGACTTTGGATTTCA
1 AGGATTTTGGATTTCA
*
13425225 AGGATTTTGGATTTCGG
1 AGGATTTTGGATTTC-A
* *
13425242 GGGGTTTTGGATTT-A
1 AGGATTTTGGATTTCA
13425257 ATGGATTTTGGATTT
1 A-GGATTTTGGATTT
13425272 TTAGGGGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 26 0.68
17 12 0.32
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.44
Consensus pattern (16 bp):
AGGATTTTGGATTTCA
Found at i:13425279 original size:33 final size:33
Alignment explanation
Indices: 13425214--13425282 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
13425204 TTTTTAGGAC
*
13425214 TTTGGATTTCAAGGATTTTGGATTTCGGGGGGT
1 TTTGGATTTCAAGGATTTTGGATTTCGAGGGGT
**
13425247 TTTGGATTT-AATGGATTTTGGATTTTTAGGGGT
1 TTTGGATTTCAA-GGATTTTGGATTTCGAGGGGT
13425280 TTT
1 TTT
13425283 AGAAACCTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.16, C:0.03, G:0.32, T:0.49
Consensus pattern (33 bp):
TTTGGATTTCAAGGATTTTGGATTTCGAGGGGT
Found at i:13425783 original size:18 final size:18
Alignment explanation
Indices: 13425760--13425821 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
13425750 GTTGGATCGG
13425760 CGGTTCGGGTGATCTGAC
1 CGGTTCGGGTGATCTGAC
*
13425778 CGGTTCGACGGTCGGATC--AA
1 CGGTTCG--GGT--GATCTGAC
*
13425798 CGGTTCGGGAGATCTGAC
1 CGGTTCGGGTGATCTGAC
13425816 CGGTTC
1 CGGTTC
13425822 AGTCCGGTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
16 4 0.11
18 16 0.46
20 11 0.31
22 4 0.11
ACGTcount: A:0.15, C:0.24, G:0.37, T:0.24
Consensus pattern (18 bp):
CGGTTCGGGTGATCTGAC
Found at i:13425783 original size:38 final size:38
Alignment explanation
Indices: 13425732--13425821 Score: 135
Period size: 38 Copynumber: 2.4 Consensus size: 38
13425722 CTGGTCCGAC
* ** *
13425732 GATCTGACCGGTTCGACAGTTGGATCGGCGGTTCGGGT
1 GATCTGACCGGTTCGACAGTCGGATCAACGGTTCGGGA
*
13425770 GATCTGACCGGTTCGACGGTCGGATCAACGGTTCGGGA
1 GATCTGACCGGTTCGACAGTCGGATCAACGGTTCGGGA
13425808 GATCTGACCGGTTC
1 GATCTGACCGGTTC
13425822 AGTCCGGTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.16, C:0.23, G:0.37, T:0.24
Consensus pattern (38 bp):
GATCTGACCGGTTCGACAGTCGGATCAACGGTTCGGGA
Found at i:13426568 original size:12 final size:12
Alignment explanation
Indices: 13426553--13426650 Score: 74
Period size: 12 Copynumber: 8.1 Consensus size: 12
13426543 ATAGGGTGGC
13426553 TGGTCGGGTAGT
1 TGGTCGGGTAGT
** *
13426565 TGGTAAGGTAAT
1 TGGTCGGGTAGT
13426577 TGGTCGGAG-AGT
1 TGGTCGG-GTAGT
* *
13426589 TGGTTGGGTAAT
1 TGGTCGGGTAGT
13426601 TGGTCGGAG-AGT
1 TGGTCGG-GTAGT
* *
13426613 TGGTTGGGTAAT
1 TGGTCGGGTAGT
* *
13426625 TGATCGGGGAGT
1 TGGTCGGGTAGT
13426637 TGGTCGGGTCAGT
1 TGGTCGGGT-AGT
13426650 T
1 T
13426651 CGGCGCCGTA
Statistics
Matches: 63, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
11 2 0.03
12 55 0.87
13 6 0.10
ACGTcount: A:0.16, C:0.06, G:0.45, T:0.33
Consensus pattern (12 bp):
TGGTCGGGTAGT
Found at i:13426580 original size:24 final size:24
Alignment explanation
Indices: 13426553--13426645 Score: 125
Period size: 24 Copynumber: 3.9 Consensus size: 24
13426543 ATAGGGTGGC
**
13426553 TGGTCGG-GTAGTTGGTAAGGTAAT
1 TGGTCGGAG-AGTTGGTTGGGTAAT
13426577 TGGTCGGAGAGTTGGTTGGGTAAT
1 TGGTCGGAGAGTTGGTTGGGTAAT
13426601 TGGTCGGAGAGTTGGTTGGGTAAT
1 TGGTCGGAGAGTTGGTTGGGTAAT
* * *
13426625 TGATCGGGGAGTTGGTCGGGT
1 TGGTCGGAGAGTTGGTTGGGT
13426646 CAGTTCGGCG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 62 0.98
25 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.46, T:0.32
Consensus pattern (24 bp):
TGGTCGGAGAGTTGGTTGGGTAAT
Found at i:13426708 original size:4 final size:4
Alignment explanation
Indices: 13426691--13426736 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
13426681 TTATTTCAGT
* * *
13426691 TTTG TTTT TTTG TTTG TTT- TTTT TTTG TTTG TTTT TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
13426737 TGTTAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
3 3 0.08
4 33 0.92
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (4 bp):
TTTG
Found at i:13426708 original size:12 final size:11
Alignment explanation
Indices: 13426690--13426737 Score: 69
Period size: 12 Copynumber: 4.1 Consensus size: 11
13426680 CTTATTTCAG
13426690 TTTTGTTTTTT
1 TTTTGTTTTTT
13426701 TGTTTGTTTTTT
1 T-TTTGTTTTTT
13426713 TTTTGTTTGTTT
1 TTTTGTTT-TTT
13426725 TTTTGTTTGTTT
1 TTTTGTTT-TTT
13426737 T
1 T
13426738 GTTAAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.23
12 27 0.77
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:13431201 original size:17 final size:16
Alignment explanation
Indices: 13431159--13431221 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
13431149 ATTTTTTTTT
*
13431159 AGGACTTTGGATTTCA
1 AGGATTTTGGATTTCA
13431175 AGGATTTTGGATTTCA
1 AGGATTTTGGATTTCA
* *
13431191 GGGGGTTTTGGATTT-A
1 -AGGATTTTGGATTTCA
13431207 ATGGATTTTGGATTT
1 A-GGATTTTGGATTT
13431222 TTAGGGGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 28 0.70
17 12 0.30
ACGTcount: A:0.21, C:0.05, G:0.30, T:0.44
Consensus pattern (16 bp):
AGGATTTTGGATTTCA
Done.