Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 51 of 84
Found at i:11755278 original size:17 final size:17
Alignment explanation
Indices: 11755256--11755289 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11755246 TCTTAAACTT
*
11755256 TAACCTAGACCCTAAAC
1 TAACCTAAACCCTAAAC
11755273 TAACCTAAACCCTAAAC
1 TAACCTAAACCCTAAAC
11755290 CATCCCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.35, G:0.03, T:0.18
Consensus pattern (17 bp):
TAACCTAAACCCTAAAC
Found at i:11756299 original size:71 final size:72
Alignment explanation
Indices: 11756222--11757124 Score: 427
Period size: 72 Copynumber: 12.8 Consensus size: 72
11756212 TCAACTACAT
* ** *
11756222 TTTTTATGCTCAAAATGCCATCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATTTCAGCATCC
1 TTTTTATGCTAAAAATGTGATCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATTTCAACATCC
11756287 A-TTATG
66 ATTTATG
* * *
11756293 TTTTTAT-CTTAAAAATATGATCTTTGTTAAAATTCTAGAATTTTGAAAATAAAATTTCAATATC
1 TTTTTATGC-TAAAAATGTGATCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATTTCAACATC
** *
11756357 CACTACATA
65 CA-TTTATG
* * * * * ** * *
11756366 TTTTTATGTTTAAAACGTGATTTTTCTTAAAATTTTAGAATTTCAAAAATAAAGTTTTC-ACATT
1 TTTTTATGCTAAAAATGTGATCTTTGTTAAAATTTTAGAATTTTGAAAATAAA-ATTTCAACATC
*
11756430 CA-TTACG
65 CATTTATG
* * * * ** *
11756437 TTTATTATGCTAAAAATGCGACCTTTGTTAAAATTTCATAATTTCAAAAATAAATTTTCAACATC
1 TTT-TTATGCTAAAAATGTGATCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATTTCAACATC
*
11756502 CA-TTACG
65 CATTTATG
* * * * * * *
11756509 ---CTA--CT--CAATG-CAGTCTTTGTT---T--TCAAAATTTTGAAAATAAAGTTTCAACATC
1 TTTTTATGCTAAAAATGTGA-TCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATTTCAACATC
11756561 CATTTCAT-
65 CATTT-ATG
* **
11756569 TTTTTATCCTAAAAAT-ACAGTCTTTGTTAAAATTTTAGAATTTTGAGAAA-AAAATTTCAACAT
1 TTTTTATGCTAAAAATGTGA-TCTTTGTTAAAATTTTAGAATTTTGA-AAATAAAATTTCAACAT
11756632 CCAATTTAT-
64 CC-ATTTATG
* * * * * * *
11756641 TTGTTATGCTTAAAACGTGATCTTTGTTAAAATTTTAAAATTTTGAAAATAAAGTTTCAATATCT
1 TTTTTATGCTAAAAATGTGATCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATTTCAACATCC
* *
11756706 A-CTATC
66 ATTTATG
* * *
11756712 TTTTCTAT-CTTAAAAATGTGATATTTGTTAAAATTTATTA-AA-TTT--AAA-AATAGTTCAAC
1 TTTT-TATGC-TAAAAATGTGATCTTTGTTAAAA-TT-TTAGAATTTTGAAAATAAAATTTCAAC
* * *
11756771 ATTCA-CTACAG
62 ATCCATTTA-TG
* * * * * * * * * *
11756782 TTGTCATTCTCAAAATGTGGTTTTTGTTAAAATTTCATAATTTTGAAAATAAAGTTTCAACATTC
1 TTTTTATGCTAAAAATGTGATCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATTTCAACATCC
* *
11756847 -TCTACG
66 ATTTATG
* * * * * * *
11756853 TTTTTAATGCTCAAAATG-CAGTATTTATTAAAATTTCATAA-TTTCAAAATTAAAATTTCAACA
1 TTTTT-ATGCTAAAAATGTGA-TCTTTGTTAAAATTTTAGAATTTTGAAAA-TAAAATTTCAACA
*
11756916 TCCA-CTATG
63 TCCATTTATG
* * * * *
11756925 TTTCTTAT-CTTAAAAATATGATATTTTTGTTAAAATTTCCA-ATTTTTGAAAATAAAATTTAAA
1 TTT-TTATGC-TAAAAATGTG--ATCTTTGTTAAAATTT-TAGAATTTTGAAAATAAAATTTCAA
* *
11756988 CATCTATTACAT-
61 CATCCATT-TATG
* * * * * * *
11757000 TTCTTAT-TTAAAAAAATGTGGTCTTTATT-AAATTATAGAATTTTGATAATAAAATTTCAATAT
1 TTTTTATGCT--AAAAATGTGATCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATTTCAACAT
*
11757063 -CA-AT-TG
64 CCATTTATG
* * * *
11757069 TTTCTTAT-CTTAAAAATGTGGTTTTTGTTAAAA-TTTAAAATTTTGAAAATATAATT
1 TTT-TTATGC-TAAAAATGTGATCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATT
11757125 CATATTTCAA
Statistics
Matches: 642, Mismatches: 130, Indels: 122
0.72 0.15 0.14
Matches are distributed among these distances:
59 28 0.04
60 2 0.00
61 1 0.00
63 3 0.00
64 11 0.02
65 2 0.00
66 2 0.00
67 16 0.02
68 7 0.01
69 75 0.12
70 18 0.03
71 92 0.14
72 252 0.39
73 71 0.11
74 40 0.06
75 20 0.03
76 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (72 bp):
TTTTTATGCTAAAAATGTGATCTTTGTTAAAATTTTAGAATTTTGAAAATAAAATTTCAACATCC
ATTTATG
Found at i:11756699 original size:144 final size:142
Alignment explanation
Indices: 11756528--11757119 Score: 447
Period size: 141 Copynumber: 4.1 Consensus size: 142
11756518 GCAGTCTTTG
* * *
11756528 TTTTCAAAATTTTGAAAATAAAGTTTCAACATCCATTTCATTTTTTATCCTAAAAATACAGTCTT
1 TTTT-AAAATTTTGAAAATAAAGTTTCAACATCCATTACATTTTTTATCCTAAAAATGCAGTATT
* * * *
11756593 TGTTAAAATTTTAGAATTTTGAGAAAAAAATTTCAACATCCAATTTATTTGTTATGCTT-AAAAC
65 TATTAAAATTTTAGAA-TTTGA-AAAAAAATTTCAACATCCAATATATTTCTTAT-CTTAAAAAT
*
11756657 GTGATCTTTGTTAAAA
127 GTGATTTTTGTTAAAA
* * * * * *
11756673 TTTTAAAATTTTGAAAATAAAGTTTCAATATCTACTATC-TTTTCTATCTTAAAAATG-TGATAT
1 TTTTAAAATTTTGAAAATAAAGTTTCAACATCCATTA-CATTTTTTATCCTAAAAATGCAG-TAT
* * * * * * * *
11756736 TTGTTAAAATTTATTA-AATTT--AAAAATAGTTCAACATTCACTACAGTTGTCAT-TC-TCAAA
64 TTATTAAAA-TT-TTAGAATTTGAAAAAAAATTTCAACATCCAATATA-TT-TCTTATCTTAAAA
*
11756796 ATGTGGTTTTTGTTAAAA
125 ATGTGATTTTTGTTAAAA
* * * * * * *
11756814 TTTCATAATTTTGAAAATAAAGTTTCAACATTC-TCTACGTTTTTAATGCTCAAAATGCAGTATT
1 TTTTAAAATTTTGAAAATAAAGTTTCAACATCCAT-TACATTTTTTATCCTAAAAATGCAGTATT
* * * * * *
11756878 TATTAAAATTTCATAATTTCAAAATTAAAATTTCAACATCCACTATGTTTCTTATCTTAAAAATA
65 TATTAAAATTTTAGAATTTGAAAA--AAAATTTCAACATCCAATATATTTCTTATCTTAAAAATG
11756943 TGATATTTTTGTTAAAA
128 TG--ATTTTTGTTAAAA
** * * * * * * ** *
11756960 TTTCCAATTTTTGAAAATAAAATTTAAACATCTATTACATTTCTTAT-TTAAAAAAATGTGGTCT
1 TTTTAAAATTTTGAAAATAAAGTTTCAACATCCATTACATTTTTTATCCT--AAAAATGCAGTAT
* * * *
11757024 TTATT-AAATTATAGAATTTTGATAATAAAATTTCAATAT-CAAT-TGTTTCTTATCTTAAAAAT
64 TTATTAAAATTTTAGAA-TTTGA-AAAAAAATTTCAACATCCAATATATTTCTTATCTTAAAAAT
*
11757086 GTGGTTTTTGTTAAAA
127 GTGATTTTTGTTAAAA
11757102 -TTTAAAATTTTGAAAATA
1 TTTTAAAATTTTGAAAATA
11757120 TAATTCATAT
Statistics
Matches: 353, Mismatches: 70, Indels: 52
0.74 0.15 0.11
Matches are distributed among these distances:
139 2 0.01
140 9 0.03
141 106 0.30
142 22 0.06
143 7 0.02
144 103 0.29
145 13 0.04
146 70 0.20
147 19 0.05
148 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (142 bp):
TTTTAAAATTTTGAAAATAAAGTTTCAACATCCATTACATTTTTTATCCTAAAAATGCAGTATTT
ATTAAAATTTTAGAATTTGAAAAAAAATTTCAACATCCAATATATTTCTTATCTTAAAAATGTGA
TTTTTGTTAAAA
Found at i:11756763 original size:275 final size:274
Alignment explanation
Indices: 11756260--11756763 Score: 652
Period size: 275 Copynumber: 1.8 Consensus size: 274
11756250 AAAATTTTAG
* * *
11756260 AATTTTGAAAATAAAATTTCAGCATCCATTATGTTTTTATCTTAAAAATATGATCTTTGTTAAAA
1 AATTTTGAAAATAAAATTTCAACATCCATTATGTTTTTATCCTAAAAATAAGATCTTTGTTAAAA
* * *
11756325 TTCTAGAATTTTGAAAATAAAATTTCAATATCCACTACATATTTTTATGTTTAAAACGTGATTTT
66 TTCTAGAATTTTGAAAATAAAATTTCAACATCCAC-ACATATTTTTATGCTTAAAACGTGATCTT
* *
11756390 TCTTAAAATTTTAGAATTTCAAAAATAAAGTTTTCACATTCATTACGTTTATTATGCTAAAAATG
130 TCTTAAAATTTTAAAATTTCAAAAATAAAGTTTTCACATTCACTACGTTTATTATGCTAAAAATG
*
11756455 CGACCTTTGTTAAAATTTCATAATTTCAAAAATAAATTTTCAACATCCATTACGCTACTCAATGC
195 CGACATTTGTTAAAATTTCATAATTTCAAAAATAAATTTTCAACATCCATTACGCTACTCAATGC
11756520 AGTCTTTGTTTTCAA
260 AGTCTTTGTTTTCAA
*
11756535 AATTTTGAAAATAAAGTTTCAACATCCATTTCAT-TTTTTATCCTAAAAATACAG-TCTTTGTTA
1 AATTTTGAAAATAAAATTTCAACATCCA-TT-ATGTTTTTATCCTAAAAATA-AGATCTTTGTTA
* **
11756598 AAATTTTAGAATTTTGAGAAA-AAAATTTCAACATCCA-ATTTATTTGTTATGCTTAAAACGTGA
63 AAATTCTAGAATTTTGA-AAATAAAATTTCAACATCCACACATATTT-TTATGCTTAAAACGTGA
* **
11756661 TCTTTGTTAAAATTTTAAAATTTTGAAAATAAAG-TTTCA-ATATCTACTATC-TTT-TCTAT-C
126 TCTTTCTTAAAATTTTAAAATTTCAAAAATAAAGTTTTCACAT-TC-ACTA-CGTTTAT-TATGC
* *
11756721 TTAAAAATGTGATATTTGTTAAAATTT-ATTAAATTT-AAAAATA
187 -TAAAAATGCGACATTTGTTAAAATTTCA-T-AATTTCAAAAATA
11756764 GTTCAACATT
Statistics
Matches: 199, Mismatches: 18, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
273 2 0.01
274 16 0.08
275 111 0.56
276 64 0.32
277 6 0.03
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (274 bp):
AATTTTGAAAATAAAATTTCAACATCCATTATGTTTTTATCCTAAAAATAAGATCTTTGTTAAAA
TTCTAGAATTTTGAAAATAAAATTTCAACATCCACACATATTTTTATGCTTAAAACGTGATCTTT
CTTAAAATTTTAAAATTTCAAAAATAAAGTTTTCACATTCACTACGTTTATTATGCTAAAAATGC
GACATTTGTTAAAATTTCATAATTTCAAAAATAAATTTTCAACATCCATTACGCTACTCAATGCA
GTCTTTGTTTTCAA
Found at i:11757170 original size:16 final size:16
Alignment explanation
Indices: 11757151--11757181 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11757141 ATACAATTAA
11757151 TATTTAAAATAATTTT
1 TATTTAAAATAATTTT
*
11757167 TATTTCAAATAATTT
1 TATTTAAAATAATTT
11757182 AATATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTAAAATAATTTT
Found at i:11757212 original size:32 final size:31
Alignment explanation
Indices: 11757162--11757222 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 31
11757152 ATTTAAAATA
11757162 ATTTTTATTTCAAATAATTTAATATTATTAT
1 ATTTTTATTTCAAATAATTTAATATTATTAT
*
11757193 ATTTTTAATTTCAAGTAATTTAATATTATT
1 ATTTTT-ATTTCAAATAATTTAATATTATT
11757223 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 6 0.21
32 22 0.79
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (31 bp):
ATTTTTATTTCAAATAATTTAATATTATTAT
Found at i:11769551 original size:14 final size:15
Alignment explanation
Indices: 11769534--11769562 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11769524 CCTTATTTTT
11769534 TAACAAA-AAATTAA
1 TAACAAATAAATTAA
11769548 TAACAAATAAATTAA
1 TAACAAATAAATTAA
11769563 ATAATAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
TAACAAATAAATTAA
Found at i:11770652 original size:40 final size:41
Alignment explanation
Indices: 11770568--11770707 Score: 106
Period size: 40 Copynumber: 3.4 Consensus size: 41
11770558 TACTTAGACT
* * * *
11770568 TTTTGAATAATATAAAAACTCCTCTAAACAGAGGTTTACCAC
1 TTTTGAA-AATATAAAAACTCCTCTAAACAAAGGCTCAACAC
* * *
11770610 -TTTGAAAATATAAAAGCTCCTCTAAGCAAAGGCTCAATAC
1 TTTTGAAAATATAAAAACTCCTCTAAACAAAGGCTCAACAC
* * * * *
11770650 TTTTGAAAA-ATAAATAAAGTTCCTCTAAATAAAAGCTCAATGAT
1 TTTTGAAAATAT-AA-AAA-CTCCTCTAAACAAAGGCTCAA-CAC
11770694 TTTTGAAAA-ATAAA
1 TTTTGAAAATATAAA
11770708 TAAGGCTTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
40 29 0.37
41 16 0.20
42 3 0.04
43 19 0.24
44 12 0.15
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (41 bp):
TTTTGAAAATATAAAAACTCCTCTAAACAAAGGCTCAACAC
Found at i:11770688 original size:43 final size:44
Alignment explanation
Indices: 11770610--11770710 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 44
11770600 GGTTTACCAC
* * *
11770610 TTTG-AAAATATA-AAAGCTCCTCTAAGCAAAGGCTCAAT-ACT
1 TTTGAAAAATAAATAAAGCTCCTCTAAACAAAAGCTCAATGACT
* * *
11770651 TTTGAAAAATAAATAAAGTTCCTCTAAATAAAAGCTCAATGATT
1 TTTGAAAAATAAATAAAGCTCCTCTAAACAAAAGCTCAATGACT
11770695 TTTGAAAAATAAATAA
1 TTTGAAAAATAAATAA
11770711 GGCTTTTCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.08
42 7 0.14
43 22 0.43
44 18 0.35
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.30
Consensus pattern (44 bp):
TTTGAAAAATAAATAAAGCTCCTCTAAACAAAAGCTCAATGACT
Found at i:11770700 original size:44 final size:43
Alignment explanation
Indices: 11770610--11770755 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 43
11770600 GGTTTACCAC
* * ** * *
11770610 TTTG-AAAATATA-AAAGCTCCTCTAAGCAAAGGCTCAATACT
1 TTTGAAAAATAAATAAAGTTCCTCTAAATAAAAGCTCAATATT
11770651 TTTGAAAAATAAATAAAGTTCCTCTAAATAAAAGCTCAATGATT
1 TTTGAAAAATAAATAAAGTTCCTCTAAATAAAAGCTCAAT-ATT
* * *
11770695 TTTGAAAAATAAATAAGGCTT-TTCTAAAT-AAAGACTCAACAATT
1 TTTGAAAAATAAATAAAG-TTCCTCTAAATAAAAG-CTCAA-TATT
*
11770739 TTTAAAAAAATAAATAA
1 TTT-GAAAAATAAATAA
11770756 TGCTCTTTGA
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
41 4 0.05
42 7 0.08
43 26 0.30
44 37 0.42
45 14 0.16
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (43 bp):
TTTGAAAAATAAATAAAGTTCCTCTAAATAAAAGCTCAATATT
Found at i:11771127 original size:33 final size:33
Alignment explanation
Indices: 11771075--11771145 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
11771065 TCCTAGATTC
* *
11771075 ATGCATTAGACATTCTTAAATGCAATGCATGTT
1 ATGCACTAGACATTCTTAAATGCAATGCATGCT
* *
11771108 ATGCACTAGATATTTTTAAATGCAATGCATGCT
1 ATGCACTAGACATTCTTAAATGCAATGCATGCT
11771141 ATGCA
1 ATGCA
11771146 AATGTCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (33 bp):
ATGCACTAGACATTCTTAAATGCAATGCATGCT
Found at i:11782279 original size:23 final size:23
Alignment explanation
Indices: 11782228--11782279 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
11782218 ATAAAATCCA
* *
11782228 ATTTTATGTATAAAAAACTCTTT
1 ATTTTTTGGATAAAAAACTCTTT
11782251 ATTTTTTGGATAAAAAACTCTTT
1 ATTTTTTGGATAAAAAACTCTTT
11782274 ATTTTT
1 ATTTTT
11782280 AGAAATATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.52
Consensus pattern (23 bp):
ATTTTTTGGATAAAAAACTCTTT
Found at i:11782682 original size:4 final size:4
Alignment explanation
Indices: 11782669--11782776 Score: 64
Period size: 4 Copynumber: 27.2 Consensus size: 4
11782659 AAATATTTAC
* * * *
11782669 AAAT -AAT AAAT AAAT AAAT GAA- AATT AAAT -AAT ACAC AAA- AACAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT
* * * * *
11782714 AGAT GGAAAAT AAAT AAAC AAAT AAAT AAAT AAAT AACT AAAC ATA- AAAT
1 AAAT --AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
11782764 AAAT AAAT AAAT A
1 AAAT AAAT AAAT A
11782777 GGAAAAAAAC
Statistics
Matches: 79, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
3 11 0.14
4 61 0.77
5 4 0.05
6 2 0.03
7 1 0.01
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:11782785 original size:23 final size:23
Alignment explanation
Indices: 11782721--11782776 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
11782711 CATAGATGGA
*
11782721 AAATAAATAAACAAATAAATAAAT
1 AAATAAATAAACATA-AAATAAAT
*
11782745 AAATAACTAAACATAAAATAAAT
1 AAATAAATAAACATAAAATAAAT
11782768 AAATAAATA
1 AAATAAATA
11782777 GGAAAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.21
Consensus pattern (23 bp):
AAATAAATAAACATAAAATAAAT
Found at i:11783089 original size:18 final size:18
Alignment explanation
Indices: 11783055--11783087 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
11783045 TTCACTAGCC
11783055 TTTTCTCTCTCTTTCTCA
1 TTTTCTCTCTCTTTCTCA
11783073 TTTTCT-T-TCTTTCTC
1 TTTTCTCTCTCTTTCTC
11783088 TCTCTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 1 0.07
18 6 0.40
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCTCTCTCTTTCTCA
Found at i:11787481 original size:59 final size:57
Alignment explanation
Indices: 11787378--11787628 Score: 252
Period size: 57 Copynumber: 4.2 Consensus size: 57
11787368 AATGAAAAAT
* * *
11787378 GCCTTATTTGATTATGAAAAAAAAAAGATGATCAATTAAGGCATTCATAAACACAAAC
1 GCCTTAATTGATTAT-AAAAAAAAAAAAAGATCAATTAAGGCATTCATAAACACAAAC
* * * *
11787436 ACCTTAATTGATTATAAAAAAAAAAAAGATGATCAATCAAGGCATTCATAAACATAAAT
1 GCCTTAATTGATTATAAAAAAAAAAAA-A-GATCAATTAAGGCATTCATAAACACAAAC
* ** * *
11787495 GCCTTAATTGATCTATTTTATAAATTATAAAAAAAAAATCAATTAAGGCATTCATAATGAGAAAT
1 GCCTTAATTGAT-TA---TA-AAA--A-AAAAAAAAGATCAATTAAGGCATTCATAAACACAAAC
* * *
11787560 GCCTCAATTGAATATGAACAAAAAAAAAA-ATCAATTAAGGCATTCATAAACACAAAC
1 GCCTTAATTGATTAT-AAAAAAAAAAAAAGATCAATTAAGGCATTCATAAACACAAAC
11787617 GCCTTAATTGAT
1 GCCTTAATTGAT
11787629 CTGTCTTATA
Statistics
Matches: 160, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
57 45 0.28
58 21 0.13
59 38 0.24
60 2 0.01
61 3 0.02
62 1 0.01
63 2 0.01
64 5 0.03
65 34 0.21
66 2 0.01
67 7 0.04
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (57 bp):
GCCTTAATTGATTATAAAAAAAAAAAAAGATCAATTAAGGCATTCATAAACACAAAC
Found at i:11787627 original size:122 final size:123
Alignment explanation
Indices: 11787408--11787685 Score: 357
Period size: 122 Copynumber: 2.3 Consensus size: 123
11787398 AAAAAAGATG
** * * * *
11787408 ATCAATTAAGGCATTCATAAACACAAACACCTTAATTGATTATAAAAAAAAAAAAGATGATCAAT
1 ATCAATTAAGGCATTCATAATGAGAAACGCCTCAATTGAATATAAAAAAAAAAAAGA-GATCAAT
* * *
11787473 CAAGGCATTCATAAACATAAATGCCTTAATTGATCTATTTTATAAATTATAAAAAAAAA
65 CAAGGCATTCATAAACACAAACGCCTTAATTGATCTATCTTATAAATTATAAAAAAAAA
* *
11787532 ATCAATTAAGGCATTCATAATGAGAAATGCCTCAATTGAATATGAACAAAAAAAAA-A-ATCAAT
1 ATCAATTAAGGCATTCATAATGAGAAACGCCTCAATTGAATAT-AAAAAAAAAAAAGAGATCAAT
* * **
11787595 TAAGGCATTCATAAACACAAACGCCTTAATTGATCTGTCTTATAAATTATAAAAAAAGG
65 CAAGGCATTCATAAACACAAACGCCTTAATTGATCTATCTTATAAATTATAAAAAAAAA
11787654 ATCAATTAA--CATGTTCATAATGAGAAACGCCT
1 ATCAATTAAGGCA--TTCATAATGAGAAACGCCT
11787686 TATAAATTAA
Statistics
Matches: 135, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
120 2 0.01
122 85 0.63
124 37 0.27
125 11 0.08
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (123 bp):
ATCAATTAAGGCATTCATAATGAGAAACGCCTCAATTGAATATAAAAAAAAAAAAGAGATCAATC
AAGGCATTCATAAACACAAACGCCTTAATTGATCTATCTTATAAATTATAAAAAAAAA
Found at i:11792215 original size:41 final size:41
Alignment explanation
Indices: 11792158--11792240 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
11792148 ATGCTTGAGA
*
11792158 TTAACTAACTTAAACATACACAATAGAAGAGGTAGCTTATT
1 TTAACTAACTTAAACATACACAATAGAAGAGGCAGCTTATT
*
11792199 TTAACTAACTTAAACATACCCAATAGAAGAGGCAGCTTATT
1 TTAACTAACTTAAACATACACAATAGAAGAGGCAGCTTATT
11792240 T
1 T
11792241 CCTGAGAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (41 bp):
TTAACTAACTTAAACATACACAATAGAAGAGGCAGCTTATT
Found at i:11792559 original size:70 final size:70
Alignment explanation
Indices: 11792441--11792580 Score: 217
Period size: 70 Copynumber: 2.0 Consensus size: 70
11792431 AAGGGTGACA
*
11792441 AAGGAATGAATCAAACTACTCTCTTGAGCAATCTACAACGGGCAAAATCCTTATCCCAAACCTCA
1 AAGGAATGAATCAAACTACTCTCTCGAGCAATCTACAACGGGCAAAATCCTTATCCCAAACCTCA
11792506 ACCAC
66 ACCAC
* * * * *
11792511 AAGGAATGAATCAATCTACTGTCTCGAGCAATCTCCAACGGTCGAAATCCTTATCCCAAACCTCA
1 AAGGAATGAATCAAACTACTCTCTCGAGCAATCTACAACGGGCAAAATCCTTATCCCAAACCTCA
*
11792576 TCCAC
66 ACCAC
11792581 TCCCTCCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.36, C:0.31, G:0.12, T:0.21
Consensus pattern (70 bp):
AAGGAATGAATCAAACTACTCTCTCGAGCAATCTACAACGGGCAAAATCCTTATCCCAAACCTCA
ACCAC
Found at i:11795472 original size:35 final size:34
Alignment explanation
Indices: 11795433--11795506 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
11795423 TCTTTAATTT
* ** *
11795433 TATATTAAAAGAACGTGTGGGTATAATATTATATA
1 TATATTAAAA-AACATGTGAATATAATATGATATA
*
11795468 TATA-TAAAAAATATGTGAATATAATATGATATA
1 TATATTAAAAAACATGTGAATATAATATGATATA
11795501 TATATT
1 TATATT
11795507 TAAATTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
33 23 0.70
34 6 0.18
35 4 0.12
ACGTcount: A:0.47, C:0.01, G:0.12, T:0.39
Consensus pattern (34 bp):
TATATTAAAAAACATGTGAATATAATATGATATA
Found at i:11796317 original size:13 final size:14
Alignment explanation
Indices: 11796292--11796320 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11796282 TAAAATTTAC
11796292 ATAAAATTTTATAA
1 ATAAAATTTTATAA
11796306 ATAAAA-TTTATAA
1 ATAAAATTTTATAA
11796319 AT
1 AT
11796321 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAAATTTTATAA
Found at i:11798302 original size:108 final size:108
Alignment explanation
Indices: 11798113--11798328 Score: 335
Period size: 108 Copynumber: 2.0 Consensus size: 108
11798103 AAGTATTCCC
** *
11798113 ACATCAAGTGAGTCTGTGGAGCCTAACAAGCCAGAAATTGAATCAAATGTTGCCCTGGAGGAAGA
1 ACATCAAGTGAGTCTGCAGAGCCTAACAAGACAGAAATTGAATCAAATGTTGCCCTGGAGGAAGA
*
11798178 ATCAATCATTGAGCTTTTTCAGAAGAATAAGGTAGATGAAGGT
66 ATCAATCATTGAGCTTTATCAGAAGAATAAGGTAGATGAAGGT
* ** *
11798221 ACATCAAGTGAGTTTGCAGAGCCTAACAAGACAGAAATTGAATCAAATGTTGCTGTTGAGGAAGA
1 ACATCAAGTGAGTCTGCAGAGCCTAACAAGACAGAAATTGAATCAAATGTTGCCCTGGAGGAAGA
*
11798286 ATCAA-CTGTTGAGCTTTATCAGAAGAATAAGGTAGATGAAGGT
66 ATCAATC-ATTGAGCTTTATCAGAAGAATAAGGTAGATGAAGGT
11798329 GAAAAGGAAG
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 1 0.01
108 97 0.99
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (108 bp):
ACATCAAGTGAGTCTGCAGAGCCTAACAAGACAGAAATTGAATCAAATGTTGCCCTGGAGGAAGA
ATCAATCATTGAGCTTTATCAGAAGAATAAGGTAGATGAAGGT
Found at i:11803132 original size:30 final size:29
Alignment explanation
Indices: 11803096--11803165 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 29
11803086 TTTATTGCAC
11803096 CCAAATAAGCCCTTAACCTTTAATTTATA
1 CCAAATAAGCCCTTAACCTTTAATTTATA
*
11803125 TCCAAATAAGCCCTTACCCTTTAATTTATA
1 -CCAAATAAGCCCTTAACCTTTAATTTATA
11803155 CCTAAATAAGC
1 CC-AAATAAGC
11803166 TTTTAACATA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 2 0.05
30 36 0.95
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (29 bp):
CCAAATAAGCCCTTAACCTTTAATTTATA
Found at i:11806820 original size:33 final size:33
Alignment explanation
Indices: 11806774--11806841 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
11806764 AGGAATATGG
*
11806774 TATGGTCGCAATTGATTATGAACCCTTTTGACT
1 TATGGTCGAAATTGATTATGAACCCTTTTGACT
*
11806807 TATGGTTGAAATTGATTATGAACCCTTTTGACT
1 TATGGTCGAAATTGATTATGAACCCTTTTGACT
11806840 TA
1 TA
11806842 AAATCTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (33 bp):
TATGGTCGAAATTGATTATGAACCCTTTTGACT
Found at i:11812406 original size:20 final size:22
Alignment explanation
Indices: 11812376--11812417 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
11812366 ATTAGATAAA
11812376 AAAATTTAATTATTG-ATTAAT
1 AAAATTTAATTATTGTATTAAT
*
11812397 AAAA-TTAATTTTTGTATTAAT
1 AAAATTTAATTATTGTATTAAT
11812418 TTTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
AAAATTTAATTATTGTATTAAT
Found at i:11812470 original size:20 final size:20
Alignment explanation
Indices: 11812431--11812470 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11812421 ATTTATATTT
*
11812431 TAAATAATTATATTTGAACA
1 TAAATAATTATATATGAACA
11812451 TAAATAATTATCATAT-AACA
1 TAAATAATTAT-ATATGAACA
11812471 AATAGTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (20 bp):
TAAATAATTATATATGAACA
Found at i:11816681 original size:18 final size:18
Alignment explanation
Indices: 11816640--11816695 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
11816630 AACTATTTAA
* *
11816640 ATATAAATAGATTATTATT
1 ATATAAA-AGATCATAATT
11816659 CATA-AAAAG-TCATAATT
1 -ATATAAAAGATCATAATT
11816676 ATATAAAAGATCATAATT
1 ATATAAAAGATCATAATT
11816694 AT
1 AT
11816696 CTGAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 3 0.09
17 11 0.34
18 12 0.38
19 3 0.09
20 3 0.09
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
ATATAAAAGATCATAATT
Found at i:11823687 original size:2 final size:2
Alignment explanation
Indices: 11823674--11823715 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
11823664 CCGCTAATCT
*
11823674 TA TA TGA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11823716 GAATCCCTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11824725 original size:2 final size:2
Alignment explanation
Indices: 11824684--11824709 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11824674 TGTCTAGCTC
11824684 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11824710 CATCTATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11824875 original size:41 final size:41
Alignment explanation
Indices: 11824829--11824919 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
11824819 ACACTTAATA
*
11824829 AAATTTTTAATAAATTTTAGTTTAAATGATTTTTTATTATT
1 AAATTTTTAATAAATTTTAATTTAAATGATTTTTTATTATT
* *
11824870 AAATTTTTGATAAATTTTAATTTAAATTATTTTTTATTATT
1 AAATTTTTAATAAATTTTAATTTAAATGATTTTTTATTATT
11824911 AAACTTTTT
1 AAA-TTTTT
11824920 TATTAATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 41 0.89
42 5 0.11
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (41 bp):
AAATTTTTAATAAATTTTAATTTAAATGATTTTTTATTATT
Found at i:11824931 original size:19 final size:19
Alignment explanation
Indices: 11824886--11824943 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
11824876 TTGATAAATT
11824886 TTAAT-TTAAA-TTATTTT-
1 TTAATATTAAACTT-TTTTA
*
11824903 TTATTATTAAACTTTTTTA
1 TTAATATTAAACTTTTTTA
*
11824922 TTAATATTAAACCTGTTTTA
1 TTAATATTAAA-CTTTTTTA
11824942 TT
1 TT
11824944 TTTATCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 4 0.12
18 9 0.26
19 12 0.35
20 9 0.26
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (19 bp):
TTAATATTAAACTTTTTTA
Found at i:11824942 original size:20 final size:19
Alignment explanation
Indices: 11824886--11824943 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
11824876 TTGATAAATT
* *
11824886 TTAAT-TTAAATTATTTT-
1 TTAATATTAAACTGTTTTA
* *
11824903 TTATTATTAAACTTTTTTA
1 TTAATATTAAACTGTTTTA
11824922 TTAATATTAAACCTGTTTTA
1 TTAATATTAAA-CTGTTTTA
11824942 TT
1 TT
11824944 TTTATCATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 4 0.12
18 10 0.30
19 10 0.30
20 9 0.27
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (19 bp):
TTAATATTAAACTGTTTTA
Found at i:11827246 original size:13 final size:13
Alignment explanation
Indices: 11827218--11827264 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 13
11827208 ATATGTAAAA
11827218 TTTAATAAA-A-T
1 TTTAATAAATATT
*
11827229 TTTAATATATATT
1 TTTAATAAATATT
*
11827242 TTTAAATAAATTTT
1 TTT-AATAAATATT
11827256 TTTAATAAA
1 TTTAATAAA
11827265 AATATTAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 8 0.27
12 1 0.03
13 10 0.33
14 11 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAATAAATATT
Found at i:11827360 original size:22 final size:23
Alignment explanation
Indices: 11827335--11827381 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11827325 TTTTTTCATA
11827335 TTATTAATTT-TT-ACCTTAAATT
1 TTATTAATTTATTGA-CTTAAATT
*
11827357 TTATTACTTTATTGACTTAAATT
1 TTATTAATTTATTGACTTAAATT
11827380 TT
1 TT
11827382 TTATTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 12 0.55
24 1 0.05
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTAATTTATTGACTTAAATT
Found at i:11828808 original size:2 final size:2
Alignment explanation
Indices: 11828803--11828849 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
11828793 CAATAAATAC
* * *
11828803 AT AT AT AC AT AT AT AC AT AT AT AT TT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11828845 AT AT A
1 AT AT A
11828850 CATAAAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11828810 original size:8 final size:8
Alignment explanation
Indices: 11828799--11828853 Score: 74
Period size: 8 Copynumber: 6.9 Consensus size: 8
11828789 AAATCAATAA
11828799 ATACATAT
1 ATACATAT
11828807 ATACATAT
1 ATACATAT
11828815 ATACATAT
1 ATACATAT
**
11828823 ATATTTAT
1 ATACATAT
*
11828831 ATATATAT
1 ATACATAT
*
11828839 ATATATAT
1 ATACATAT
11828847 ATACATA
1 ATACATA
11828854 AAAGGGAGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (8 bp):
ATACATAT
Found at i:11828820 original size:16 final size:16
Alignment explanation
Indices: 11828799--11828853 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
11828789 AAATCAATAA
*
11828799 ATACATATATACATAT
1 ATACATATATATATAT
*
11828815 ATACATATATATTTAT
1 ATACATATATATATAT
*
11828831 ATATATATATATATAT
1 ATACATATATATATAT
11828847 ATACATA
1 ATACATA
11828854 AAAGGGAGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (16 bp):
ATACATATATATATAT
Found at i:11829570 original size:42 final size:41
Alignment explanation
Indices: 11829521--11829602 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
11829511 ATGAATTATA
* *
11829521 TTTTAATTATA-TATAAATATAATATTTTTATTAATTTAATGT
1 TTTTAATTA-AGTATAAA-ATAATAATTTTATTAATATAATGT
*
11829563 TTTTAATTAAGTTATCAAATAATAATTTTATTAATATAAT
1 TTTTAATTAAG-TATAAAATAATAATTTTATTAATATAAT
11829603 ATATATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 29 0.83
43 5 0.14
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (41 bp):
TTTTAATTAAGTATAAAATAATAATTTTATTAATATAATGT
Found at i:11831603 original size:17 final size:17
Alignment explanation
Indices: 11831583--11831617 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11831573 AAGATATGAG
11831583 ATTTTTTTTCTT-AATTT
1 ATTTTTTTT-TTAAATTT
11831600 ATTTTTTTTTTAAATTT
1 ATTTTTTTTTTAAATTT
11831617 A
1 A
11831618 AAAATGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTTTTTAAATTT
Found at i:11831604 original size:16 final size:17
Alignment explanation
Indices: 11831585--11831617 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11831575 GATATGAGAT
11831585 TTTTTTTCTT-AATTTA
1 TTTTTTTCTTAAATTTA
*
11831601 TTTTTTTTTTAAATTTA
1 TTTTTTTCTTAAATTTA
11831618 AAAATGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTTCTTAAATTTA
Found at i:11846197 original size:6 final size:6
Alignment explanation
Indices: 11846186--11846212 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11846176 AGATGCTTTA
11846186 TAGGTT TAGGTT TAGGTT TAGGTT TAG
1 TAGGTT TAGGTT TAGGTT TAGGTT TAG
11846213 ATCTCTCTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (6 bp):
TAGGTT
Found at i:11847464 original size:24 final size:25
Alignment explanation
Indices: 11847425--11847484 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
11847415 TTATTTAATA
*
11847425 AAAAAATTAAATTAAA-AACCAAAT
1 AAAAAATTAAATTAAAGAACAAAAT
*
11847449 AAAAAA-TAAATGTAAAGAATAAAAT
1 AAAAAATTAAAT-TAAAGAACAAAAT
*
11847474 AAAAACTTAAA
1 AAAAAATTAAA
11847485 AAGGAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 5 0.17
24 10 0.33
25 11 0.37
26 4 0.13
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (25 bp):
AAAAAATTAAATTAAAGAACAAAAT
Found at i:11852312 original size:13 final size:13
Alignment explanation
Indices: 11852294--11852318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11852284 AAATAAAAAA
11852294 TTTTAAAAATTAT
1 TTTTAAAAATTAT
11852307 TTTTAAAAATTA
1 TTTTAAAAATTA
11852319 ATTAAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTTAAAAATTAT
Found at i:11853472 original size:29 final size:27
Alignment explanation
Indices: 11853426--11853482 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 27
11853416 ATAGATTCAT
*
11853426 AATTAAAATATTATATTAAAAATATTTTA
1 AATTAAAATATTACATT--AAATATTTTA
*
11853455 AATTTAAATATTACATTAAATATTTTA
1 AATTAAAATATTACATTAAATATTTTA
11853482 A
1 A
11853483 TATAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 11 0.42
29 15 0.58
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTAAAATATTACATTAAATATTTTA
Found at i:11885627 original size:33 final size:32
Alignment explanation
Indices: 11885562--11885632 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
11885552 ACTTAAAAAT
* *
11885562 AATTAGTATAACTTAATAGTAAATTATGGATA
1 AATTAGTATAAATTAATAGTAAATAATGGATA
11885594 AATTAGTGATAAATTAATAGTAAATGAAT-GATA
1 AATTAGT-ATAAATTAATAGTAAAT-AATGGATA
*
11885627 ATTTAG
1 AATTAG
11885633 ACTTCGTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 7 0.21
33 25 0.74
34 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.14, T:0.37
Consensus pattern (32 bp):
AATTAGTATAAATTAATAGTAAATAATGGATA
Found at i:11885792 original size:3 final size:3
Alignment explanation
Indices: 11885786--11885810 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11885776 ACACTTATTT
11885786 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
11885811 ATGCCATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11889163 original size:27 final size:28
Alignment explanation
Indices: 11889128--11889181 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
11889118 TTGAATGATA
*
11889128 ACATATTTT-GCAATGAATTATGAATTG
1 ACATATTTTAACAATGAATTATGAATTG
* * *
11889155 ACATGTTTTAACATTGATTTATGAATT
1 ACATATTTTAACAATGAATTATGAATT
11889182 TAAGAAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (28 bp):
ACATATTTTAACAATGAATTATGAATTG
Found at i:11893347 original size:52 final size:51
Alignment explanation
Indices: 11893255--11893358 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 51
11893245 TGAACAAAAA
* *
11893255 GACTTGTAAAAAAGAATTCTAAGAGAAAAAAGATTTTTAATAGGCAAGTTT
1 GACTTGTAAAAAAGAATTCTAAGAGAAAAAAGATTCTTAATAGACAAGTTT
* *
11893306 GACTTGTAGGAAAAGAATTCTAA-A-AAGAAATGAATTCTTAATAGACAAGTTT
1 GACTTGTA-AAAAAGAATTCTAAGAGAA-AAAAG-ATTCTTAATAGACAAGTTT
11893358 G
1 G
11893359 TATGGTTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
50 2 0.04
51 13 0.28
52 31 0.67
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (51 bp):
GACTTGTAAAAAAGAATTCTAAGAGAAAAAAGATTCTTAATAGACAAGTTT
Found at i:11894385 original size:15 final size:15
Alignment explanation
Indices: 11894365--11894395 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11894355 ATAGGGTTAG
11894365 GCATGAGAAAAAGAT
1 GCATGAGAAAAAGAT
11894380 GCATGAGAAAAAGAT
1 GCATGAGAAAAAGAT
11894395 G
1 G
11894396 TAAGAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.29, T:0.13
Consensus pattern (15 bp):
GCATGAGAAAAAGAT
Found at i:11896837 original size:23 final size:22
Alignment explanation
Indices: 11896809--11896866 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
11896799 TCTTTTATAC
11896809 GATTTAATTAAATTGAATTTATT
1 GATTT-ATTAAATTGAATTTATT
* *
11896832 GATTTAGTTCAATTTAATTTATT
1 GATTTA-TTAAATTGAATTTATT
*
11896855 AATTT-TTAAATT
1 GATTTATTAAATT
11896867 TAAATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 6 0.20
22 1 0.03
23 23 0.77
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (22 bp):
GATTTATTAAATTGAATTTATT
Found at i:11896881 original size:22 final size:21
Alignment explanation
Indices: 11896816--11896884 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 21
11896806 TACGATTTAA
* *
11896816 TTAAATTGAATTTATTGATTT
1 TTAAATTTAATTTATTAATTT
*
11896837 AGTTCAATTTAATTTATTAATTT
1 --TTAAATTTAATTTATTAATTT
* *
11896860 TTAAATTTAAATTTTTTTATTT
1 TTAAATTT-AATTTATTAATTT
11896882 TTA
1 TTA
11896885 TATATTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
21 7 0.18
22 14 0.36
23 18 0.46
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (21 bp):
TTAAATTTAATTTATTAATTT
Found at i:11903192 original size:28 final size:27
Alignment explanation
Indices: 11903130--11903192 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
11903120 CCTAAGGCTC
*
11903130 TTTGATTTAAGAAAATATTTTATATTT
1 TTTGTTTTAAGAAAATATTTTATATTT
* *
11903157 TTAT-TTTTCAGAAAATACTTTTTTATTT
1 TT-TGTTTTAAGAAAATA-TTTTATATTT
11903185 TTTGTTTT
1 TTTGTTTT
11903193 TTTAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (27 bp):
TTTGTTTTAAGAAAATATTTTATATTT
Found at i:11903395 original size:21 final size:21
Alignment explanation
Indices: 11903366--11903412 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
11903356 ATATCACTTA
*
11903366 TTTTCATAATTAAAAATATTT
1 TTTTAATAATTAAAAATATTT
11903387 TTTTAATAATTAAAAATATTT
1 TTTTAATAATTAAAAATATTT
11903408 TTTTA
1 TTTTA
11903413 TTTTCATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTAATAATTAAAAATATTT
Found at i:11905244 original size:23 final size:22
Alignment explanation
Indices: 11905209--11905258 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
11905199 AAAGATAAAA
* *
11905209 ATAAATTTAAAATATTTATTGAAT
1 ATAAATATAAAATATATA-T-AAT
11905233 ATAAATAT-AAATATATATAAT
1 ATAAATATAAAATATATATAAT
11905254 ATAAA
1 ATAAA
11905259 AATACAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 1 0.04
23 8 0.33
24 7 0.29
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAATATAAAATATATATAAT
Found at i:11908497 original size:29 final size:29
Alignment explanation
Indices: 11908455--11908516 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
11908445 GGCTATCAAG
*
11908455 CTGATAGTTTTTCTTGTACCAGTTGAAAC
1 CTGATAGTTTTTCTTCTACCAGTTGAAAC
*
11908484 CTGATAGTTTTTCTTCTACCAGTTGGAAC
1 CTGATAGTTTTTCTTCTACCAGTTGAAAC
11908513 CTGA
1 CTGA
11908517 CAGCTACTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (29 bp):
CTGATAGTTTTTCTTCTACCAGTTGAAAC
Found at i:11909562 original size:16 final size:17
Alignment explanation
Indices: 11909537--11909570 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11909527 TATTAGAGCA
*
11909537 AAAAAGTCACGAGTTCG
1 AAAAAGTCACAAGTTCG
11909554 AAAAA-TCACAAGTTCG
1 AAAAAGTCACAAGTTCG
11909570 A
1 A
11909571 GTTTCAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAAAGTCACAAGTTCG
Found at i:11914031 original size:40 final size:41
Alignment explanation
Indices: 11913952--11914031 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
11913942 TCTAACATAG
*
11913952 ATCGGTTGGTAGATGATAGTACTGAGCATGACCTTTTCAGC
1 ATCGGTTGATAGATGATAGTACTGAGCATGACCTTTTCAGC
*
11913993 ATCGGTTGATAGATGATAGTACT-AGCATGGCCTTTTCAG
1 ATCGGTTGATAGATGATAGTACTGAGCATGACCTTTTCAG
11914032 TTTCATGGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 15 0.41
41 22 0.59
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (41 bp):
ATCGGTTGATAGATGATAGTACTGAGCATGACCTTTTCAGC
Found at i:11921377 original size:19 final size:20
Alignment explanation
Indices: 11921340--11921380 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
11921330 ACTCACGTAA
*
11921340 TATATAAATTTTATTATAATT
1 TATAAAAATTTTA-TATAATT
11921361 TATAAAAATTTTA-ATAATT
1 TATAAAAATTTTATATAATT
11921380 T
1 T
11921381 TATTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATAAAAATTTTATATAATT
Found at i:11924099 original size:20 final size:20
Alignment explanation
Indices: 11924074--11924129 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
11924064 ATGAAAACTT
11924074 AAAATTTTCAAAAAAA-TCTC
1 AAAATTTTCAAAAAAATTC-C
*
11924094 AAAATTTTAATAAAAAATTCC
1 AAAATTTTCA-AAAAAATTCC
**
11924115 AAAAAATTCAAAAAA
1 AAAATTTTCAAAAAA
11924130 TTAAAAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 14 0.47
21 14 0.47
22 2 0.07
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATTTTCAAAAAAATTCC
Found at i:11924242 original size:18 final size:19
Alignment explanation
Indices: 11924214--11924253 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
11924204 TTATAAAAAG
*
11924214 AATTCTTATAAACTTTCAA
1 AATTCTTATAAAATTTCAA
*
11924233 AATT-TTATAAAATTTTAA
1 AATTCTTATAAAATTTCAA
11924251 AAT
1 AAT
11924254 ATTTGAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCTTATAAAATTTCAA
Found at i:11924337 original size:28 final size:27
Alignment explanation
Indices: 11924263--11924338 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
11924253 TATTTGAAAT
*
11924263 ATTCAATAAAAATTATAAAAATCTAAAAA
1 ATTC-ATAAAAATTA-AAAAAACTAAAAA
* *
11924292 ATT-TTGGAAAAATAAAAAAAACTAAAAA
1 ATTCAT--AAAAATTAAAAAAACTAAAAA
*
11924320 ATTCATAAAAATTTAAAAA
1 ATTCATAAAAATTAAAAAA
11924339 TTAAAATTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
27 12 0.32
28 15 0.39
29 11 0.29
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (27 bp):
ATTCATAAAAATTAAAAAAACTAAAAA
Found at i:11924585 original size:9 final size:9
Alignment explanation
Indices: 11924537--11924605 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
11924527 TGAATTTTCA
11924537 AAATTTTTT
1 AAATTTTTT
11924546 GAAATTTTTAGT
1 -AAATTTTT--T
* *
11924558 AAAATTTTG
1 AAATTTTTT
*
11924567 AGATTTTTTT
1 A-AATTTTTT
11924577 AAATTTTTT
1 AAATTTTTT
**
11924586 -AATTTTCA
1 AAATTTTTT
11924594 AAATTTTTT
1 AAATTTTTT
11924603 AAA
1 AAA
11924606 ATTTCTAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
8 6 0.13
9 17 0.38
10 14 0.31
11 7 0.16
12 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (9 bp):
AAATTTTTT
Found at i:11924703 original size:22 final size:21
Alignment explanation
Indices: 11924628--11924706 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
11924618 TTCAGTTTTT
*
11924628 AATTTTTAT-AATTTTTTAAAA
1 AATTTTT-TGAATTTTTTAGAA
*
11924649 AATATTTCTG-ATTTTTT-GAA
1 AAT-TTTTTGAATTTTTTAGAA
* **
11924669 AAATTTTAAAATTATTTTAGAA
1 AATTTTTTGAATT-TTTTAGAA
11924691 AATTTTTTGAATTTTT
1 AATTTTTTGAATTTTT
11924707 GTGAATTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
19 3 0.07
20 7 0.16
21 18 0.41
22 16 0.36
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (21 bp):
AATTTTTTGAATTTTTTAGAA
Found at i:11926089 original size:15 final size:15
Alignment explanation
Indices: 11926057--11926091 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
11926047 AGGAATTTAT
11926057 TTTA-ATTTTTAAAA
1 TTTATATTTTTAAAA
11926071 -TTATATTTTTAAAA
1 TTTATATTTTTAAAA
11926085 TTTATAT
1 TTTATAT
11926092 GTAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.16
14 10 0.53
15 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATATTTTTAAAA
Found at i:11927689 original size:15 final size:15
Alignment explanation
Indices: 11927671--11927710 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
11927661 TTATGTATTT
11927671 TAAAATTTTATATAA
1 TAAAATTTTATATAA
*
11927686 TAAAATTTATGTATAA
1 TAAAATTT-TATATAA
*
11927702 GAAAATTTT
1 TAAAATTTT
11927711 CAAATAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
TAAAATTTTATATAA
Found at i:11929225 original size:44 final size:44
Alignment explanation
Indices: 11929171--11929517 Score: 180
Period size: 44 Copynumber: 8.1 Consensus size: 44
11929161 AAATAAGTGT
* * * *
11929171 TAACTTAATAGTTAATTATTGATAATTTAGTAATAAATCAATAA
1 TAACTTAATAGTAAATTATTGATAACTTAATAATAAATCAATGA
* * * * **
11929215 TAACTTAATAGTAAATTACTGATAATTTAATAGTAAATCAGTTT
1 TAACTTAATAGTAAATTATTGATAACTTAATAATAAATCAATGA
* * * *
11929259 TGATTTAATAGT-AATTAATTGAT-A--TAGA-AGTAAATC-ATAAA
1 TAACTTAATAGTAAATT-ATTGATAACTTA-ATAATAAATCAAT-GA
** * * *
11929300 TAACTTAAGGGTAAATTAATGTTAACTTAGTAATAAAT-AATTGA
1 TAACTTAATAGTAAATTATTGATAACTTAATAATAAATCAA-TGA
* * ** * * * * *
11929344 TAATTTAGTTTTTAATCATTGAAAACTTAAAAATTAAT---TGA
1 TAACTTAATAGTAAATTATTGATAACTTAATAATAAATCAATGA
* * * * * *
11929385 TAATTTAGTAGTTAATTTTTGAAAACTTAA-AAGTAAATC-ATTA
1 TAACTTAATAGTAAATTATTGATAACTTAATAA-TAAATCAATGA
* * *
11929428 TAATTTAGTAGTAAATTATTGATAACTTAATAATTAATCAATGA
1 TAACTTAATAGTAAATTATTGATAACTTAATAATAAATCAATGA
* * * * *
11929472 TAACTTAATAGTAAATCATGGATAATTTAAT-ATAAATTATTGA
1 TAACTTAATAGTAAATTATTGATAACTTAATAATAAATCAATGA
11929515 TAA
1 TAA
11929518 TTTGGCAATA
Statistics
Matches: 234, Mismatches: 54, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
40 3 0.01
41 55 0.24
42 6 0.03
43 51 0.22
44 118 0.50
45 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.40
Consensus pattern (44 bp):
TAACTTAATAGTAAATTATTGATAACTTAATAATAAATCAATGA
Found at i:11929229 original size:22 final size:22
Alignment explanation
Indices: 11929171--11929639 Score: 112
Period size: 22 Copynumber: 21.6 Consensus size: 22
11929161 AAATAAGTGT
* * *
11929171 TAACTTAATAGTTAATTATTGA
1 TAACTTAATAGTAAATCAATGA
* * * *
11929193 TAATTTAGTAATAAATCAATAA
1 TAACTTAATAGTAAATCAATGA
* *
11929215 TAACTTAATAGTAAATTACTGA
1 TAACTTAATAGTAAATCAATGA
* * **
11929237 TAATTTAATAGTAAATCAGTTT
1 TAACTTAATAGTAAATCAATGA
* * *
11929259 TGATTTAATAGT-AATTAATTGA
1 TAACTTAATAGTAAATCAA-TGA
*
11929281 T-A--TAGA-AGTAAATC-ATAAA
1 TAACTTA-ATAGTAAATCAAT-GA
** * *
11929300 TAACTTAAGGGTAAATTAATGT
1 TAACTTAATAGTAAATCAATGA
* *
11929322 TAACTTAGTAATAAAT-AATTGA
1 TAACTTAATAGTAAATCAA-TGA
* * ** * *
11929344 TAATTTAGTTTTTAATCATTGA
1 TAACTTAATAGTAAATCAATGA
* *
11929366 AAACTT-A-A--AAATTAATTGA
1 TAACTTAATAGTAAATCAA-TGA
* * * ***
11929385 TAATTTAGTAGTTAATTTTTGA
1 TAACTTAATAGTAAATCAATGA
* * *
11929407 AAACTTAAAAGTAAATC-ATTA
1 TAACTTAATAGTAAATCAATGA
* * * *
11929428 TAATTTAGTAGTAAATTATTGA
1 TAACTTAATAGTAAATCAATGA
* *
11929450 TAACTTAATAATTAATCAATGA
1 TAACTTAATAGTAAATCAATGA
11929472 TAACTTAATAGTAAATC-ATGGA
1 TAACTTAATAGTAAATCAAT-GA
* * *
11929494 TAATTTAATA-TAAATTATTGA
1 TAACTTAATAGTAAATCAATGA
* *** * *
11929515 TAATTTGGCAATAAGTC-ATGGA
1 TAACTTAATAGTAAATCAAT-GA
* *
11929537 TAATTTAATAGTAAATTAATTATTGA
1 TAACTTAATAGTAAA-TCA--A-TGA
*
11929563 TAACTTAGTAGTAAAT---TGA
1 TAACTTAATAGTAAATCAATGA
* *
11929582 TAACTTAATAGTAAATCACTAA
1 TAACTTAATAGTAAATCAATGA
* * * *
11929604 T-AGTATAGTAGTAAATTAATAA
1 TAACT-TAATAGTAAATCAATGA
*
11929626 TAACTTAATTGTAA
1 TAACTTAATAGTAA
11929640 CTTATTAATA
Statistics
Matches: 315, Mismatches: 101, Indels: 62
0.66 0.21 0.13
Matches are distributed among these distances:
18 5 0.02
19 33 0.10
20 5 0.02
21 42 0.13
22 202 0.64
23 10 0.03
25 1 0.00
26 16 0.05
27 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
TAACTTAATAGTAAATCAATGA
Found at i:11929383 original size:41 final size:41
Alignment explanation
Indices: 11929337--11929465 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 41
11929327 TAGTAATAAA
**
11929337 TAATTGATAATTTAGTTTTTAATCATTGAAAACTTAAAAAT
1 TAATTGATAATTTAGTAGTTAATCATTGAAAACTTAAAAAT
** *
11929378 TAATTGATAATTTAGTAGTTAATTTTTGAAAACTTAAAAGT
1 TAATTGATAATTTAGTAGTTAATCATTGAAAACTTAAAAAT
* * * * * *
11929419 AAATCATTATAATTTAGTAGTAAATTATTGATAACTTAATAAT
1 TAAT--TGATAATTTAGTAGTTAATCATTGAAAACTTAAAAAT
11929462 TAAT
1 TAAT
11929466 CAATGATAAC
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 39 0.53
43 34 0.47
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (41 bp):
TAATTGATAATTTAGTAGTTAATCATTGAAAACTTAAAAAT
Found at i:11929539 original size:65 final size:65
Alignment explanation
Indices: 11929408--11929552 Score: 170
Period size: 65 Copynumber: 2.2 Consensus size: 65
11929398 AATTTTTGAA
* * * *
11929408 AACTTAAAAGTAAATCATTATAATTTAGTAGTAAATTATTGATAACTTAATAATTAATCAATGAT
1 AACTTAATAGTAAATCATGATAATTTAATAGTAAATTATTGATAACTTAACAATTAATCAATGAT
* **
11929473 AACTTAATAGTAAATCATGGATAATTTAATA-TAAATTATTGATAATTTGGCAA-TAAGTC-ATG
1 AACTTAATAGTAAATCAT-GATAATTTAATAGTAAATTATTGATAACTTAACAATTAA-TCAAT-
11929535 GAT
63 GAT
*
11929538 AATTTAATAGTAAAT
1 AACTTAATAGTAAAT
11929553 TAATTATTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
64 5 0.07
65 54 0.78
66 10 0.14
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (65 bp):
AACTTAATAGTAAATCATGATAATTTAATAGTAAATTATTGATAACTTAACAATTAATCAATGAT
Found at i:11929582 original size:19 final size:19
Alignment explanation
Indices: 11929558--11929597 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
11929548 TAAATTAATT
*
11929558 ATTGATAACTTAGTAGTAA
1 ATTGATAACTTAATAGTAA
11929577 ATTGATAACTTAATAGTAA
1 ATTGATAACTTAATAGTAA
11929596 AT
1 AT
11929598 CACTAATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (19 bp):
ATTGATAACTTAATAGTAA
Found at i:11929649 original size:44 final size:44
Alignment explanation
Indices: 11929581--11929665 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
11929571 TAGTAAATTG
* *
11929581 ATAACTTAATAGTAAATCACTAATAGTATAGTAGTAAATTAATA
1 ATAACTTAATAGTAAATCACTAATAATATAGTAGAAAATTAATA
* * * * *
11929625 ATAACTTAATTGTAACTTATTAATAATTTAGTAGAAAATTA
1 ATAACTTAATAGTAAATCACTAATAATATAGTAGAAAATTA
11929666 GTTAATCATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (44 bp):
ATAACTTAATAGTAAATCACTAATAATATAGTAGAAAATTAATA
Found at i:11929826 original size:22 final size:22
Alignment explanation
Indices: 11929664--11929820 Score: 94
Period size: 22 Copynumber: 7.2 Consensus size: 22
11929654 AGTAGAAAAT
* *
11929664 TAGTTAATCATTAATAAATTTA-
1 TAGTAAATCATTCATAAA-TTAG
*
11929686 TAGTATATCA-TCAATAAATTAG
1 TAGTAAATCATTC-ATAAATTAG
*
11929708 TAGTAAATCAGTT-ATAATTTTAG
1 TAGTAAATCA-TTCATAA-ATTAG
* ** *
11929731 AAAAAAATCA-TCAATAACTTAG
1 TAGTAAATCATTC-ATAAATTAG
* *
11929753 --GTAAATCATTCATAATTTAA
1 TAGTAAATCATTCATAAATTAG
* *
11929773 TGGTCAATCATTCATAAATTAG
1 TAGTAAATCATTCATAAATTAG
*
11929795 TAGTAAATCATTGATAACA-TAG
1 TAGTAAATCATTCATAA-ATTAG
11929817 TAGT
1 TAGT
11929821 TTATCACACA
Statistics
Matches: 105, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
20 13 0.12
21 7 0.07
22 68 0.65
23 16 0.15
24 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.37
Consensus pattern (22 bp):
TAGTAAATCATTCATAAATTAG
Found at i:11930226 original size:44 final size:45
Alignment explanation
Indices: 11930160--11930258 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
11930150 TGATACTTGG
*
11930160 TAATAAATCAATAACAACTTAATAGTAAATT-AGTGAT-AACTTTA
1 TAATAAATCAATAACAACTTAATAGT-AATTAAGTGATAAACTTAA
** ** *
11930204 TAATAAATCAATTTCAGTTTAATAGTAATTAATTGATAAACTTAA
1 TAATAAATCAATAACAACTTAATAGTAATTAAGTGATAAACTTAA
*
11930249 TAGTAAATCA
1 TAATAAATCA
11930259 CAAATATCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 4 0.09
44 27 0.59
45 15 0.33
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (45 bp):
TAATAAATCAATAACAACTTAATAGTAATTAAGTGATAAACTTAA
Found at i:11930343 original size:64 final size:66
Alignment explanation
Indices: 11930241--11930388 Score: 169
Period size: 64 Copynumber: 2.3 Consensus size: 66
11930231 ATTAATTGAT
* * * *
11930241 AAACTTAATAGTAAATCACAAATATCTTAGTAATAAATCAATGATAATTTAGGAGCTAATCA-TT
1 AAACTTAAAAGTAAATCACAAATATCTTAGTAATAAATCAATGATAAGTTAAGAGCTAATCAGTG
11930305 A
66 A
* * * * *
11930306 AAACTTAAAAGTAACTCA-ATATAAT-TTAGTAATAAATCATTGATAAGTTAATAGTTAATCAGT
1 AAACTTAAAAGTAAATCACAAAT-ATCTTAGTAATAAATCAATGATAAGTTAAGAGCTAATCAGT
11930369 GA
65 GA
11930371 AAACTTAACAA-TAAATCA
1 AAACTTAA-AAGTAAATCA
11930389 TAGATAAGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
64 34 0.49
65 34 0.49
66 2 0.03
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (66 bp):
AAACTTAAAAGTAAATCACAAATATCTTAGTAATAAATCAATGATAAGTTAAGAGCTAATCAGTG
A
Found at i:11930365 original size:22 final size:22
Alignment explanation
Indices: 11930326--11930407 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
11930316 GTAACTCAAT
* *
11930326 ATAATTTAGTAATAAATCATTG
1 ATAAGTTAATAATAAATCATTG
* * *
11930348 ATAAGTTAATAGTTAATCAGTG
1 ATAAGTTAATAATAAATCATTG
* * * *
11930370 AAAACTTAACAATAAATCATAG
1 ATAAGTTAATAATAAATCATTG
11930392 ATAAGTTAAT-ATAAAT
1 ATAAGTTAATAATAAAT
11930408 TAGTAGTGAA
Statistics
Matches: 45, Mismatches: 15, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
21 6 0.13
22 39 0.87
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (22 bp):
ATAAGTTAATAATAAATCATTG
Found at i:11930500 original size:22 final size:22
Alignment explanation
Indices: 11930475--11930528 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
11930465 TAAAAAATTA
*
11930475 AGTAGTAAATAAATAATAATAT
1 AGTAGTAAATAAATAATAACAT
**
11930497 AGTAGTAAATTCATAATAACAT
1 AGTAGTAAATAAATAATAACAT
*
11930519 AATAGTAAAT
1 AGTAGTAAAT
11930529 GATTGATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (22 bp):
AGTAGTAAATAAATAATAACAT
Found at i:11930525 original size:44 final size:44
Alignment explanation
Indices: 11930477--11930560 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
11930467 AAAAATTAAG
*
11930477 TAGTAAATAAATAATAATATAGTAGTAAATTCA-TAATAACATAA
1 TAGTAAATAAATAATAATATAATAGTAAATT-ATTAATAACATAA
* * * *
11930521 TAGTAAATGATTGATAATTTAATAGTAAATTATTAATAAC
1 TAGTAAATAAATAATAATATAATAGTAAATTATTAATAAC
11930561 TTATCAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 33 0.97
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (44 bp):
TAGTAAATAAATAATAATATAATAGTAAATTATTAATAACATAA
Found at i:11930537 original size:22 final size:22
Alignment explanation
Indices: 11930477--11930560 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
11930467 AAAAATTAAG
* * * *
11930477 TAGTAAATAAATAATAATATAG
1 TAGTAAATGATTAATAACATAA
*
11930499 TAGTAAATTCA-TAATAACATAA
1 TAGTAAA-TGATTAATAACATAA
* **
11930521 TAGTAAATGATTGATAATTTAA
1 TAGTAAATGATTAATAACATAA
*
11930543 TAGTAAATTATTAATAAC
1 TAGTAAATGATTAATAAC
11930561 TTATCAATAA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
21 2 0.04
22 46 0.92
23 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (22 bp):
TAGTAAATGATTAATAACATAA
Found at i:11930635 original size:22 final size:22
Alignment explanation
Indices: 11930589--11930735 Score: 71
Period size: 22 Copynumber: 6.3 Consensus size: 22
11930579 TAATTATTTA
*
11930589 TAAATTAGTGATAATTTACTTG
1 TAAATTAGTGATAATTTACTAG
*
11930611 TAAATTAGTGATAAATTT-GTAG
1 TAAATTAGTGAT-AATTTACTAG
* *
11930633 TAAATTAGCTTATAATTAATAACTTTG
1 TAAATTAG-TGATAATT--T-AC-TAG
* * * *
11930660 TACCAAATTATTTATAAATTAATAG
1 T---AAATTAGTGATAATTTACTAG
* * * *
11930685 TAAATCAATAATAATTTAGTAG
1 TAAATTAGTGATAATTTACTAG
* * *
11930707 TAAATTATTGATAATTTAATAA
1 TAAATTAGTGATAATTTACTAG
11930729 TAAATTA
1 TAAATTA
11930736 TTAATAAATT
Statistics
Matches: 96, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
22 66 0.69
23 8 0.08
24 1 0.01
25 3 0.03
26 1 0.01
27 4 0.04
29 7 0.07
30 6 0.06
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
TAAATTAGTGATAATTTACTAG
Found at i:11930660 original size:30 final size:30
Alignment explanation
Indices: 11930621--11930683 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
11930611 TAAATTAGTG
**
11930621 ATAAATTTGTAGTAAATTAGCTTAT-AATTA
1 ATAAATTTGTACCAAATTA-CTTATAAATTA
* *
11930651 ATAACTTTGTACCAAATTATTTATAAATTA
1 ATAAATTTGTACCAAATTACTTATAAATTA
11930681 ATA
1 ATA
11930684 GTAAATCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
ATAAATTTGTACCAAATTACTTATAAATTA
Found at i:11930688 original size:11 final size:11
Alignment explanation
Indices: 11930673--11930755 Score: 85
Period size: 11 Copynumber: 7.5 Consensus size: 11
11930663 CAAATTATTT
11930673 ATAAATTAATA
1 ATAAATTAATA
* *
11930684 GTAAATCAATA
1 ATAAATTAATA
* *
11930695 ATAATTTAGTA
1 ATAAATTAATA
* * *
11930706 GTAAATTATTG
1 ATAAATTAATA
*
11930717 ATAATTTAATA
1 ATAAATTAATA
*
11930728 ATAAATTATTA
1 ATAAATTAATA
11930739 ATAAATTAATA
1 ATAAATTAATA
11930750 ATAAAT
1 ATAAAT
11930756 CCCTGATAAC
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 55 1.00
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:11930713 original size:33 final size:33
Alignment explanation
Indices: 11930664--11930756 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 33
11930654 ACTTTGTACC
* *
11930664 AAATTATTTATAAATTAATAGTAAATCAATAAT
1 AAATTAGTAATAAATTAATAGTAAATCAATAAT
* * * * *
11930697 AATTTAGTAGTAAATT-ATTGATAATTTAATAAT
1 AAATTAGTAATAAATTAATAG-TAAATCAATAAT
* *
11930730 AAATTATTAATAAATTAATAATAAATC
1 AAATTAGTAATAAATTAATAGTAAATC
11930757 CCTGATAACA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
32 3 0.07
33 39 0.89
34 2 0.05
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (33 bp):
AAATTAGTAATAAATTAATAGTAAATCAATAAT
Found at i:11930713 original size:44 final size:44
Alignment explanation
Indices: 11930664--11930808 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
11930654 ACTTTGTACC
* * * *
11930664 AAATTATTTATAAATTAATAGTAAATCAATAATAATTTAGTAGT
1 AAATTATTGATAAATTAATAGTAAATCAATAATAAATTAATAAT
* * * *
11930708 AAATTATTGATAATTTAATAATAAATTATTAATAAATTAATAAT
1 AAATTATTGATAAATTAATAGTAAATCAATAATAAATTAATAAT
*** * *
11930752 AAATCCCTGATAACA-TGATAGTAAATCAATAATAAATTAATTAT
1 AAATTATTGATAA-ATTAATAGTAAATCAATAATAAATTAATAAT
* *
11930796 CAATCATTGATAA
1 AAATTATTGATAA
11930809 TTTTTTTATA
Statistics
Matches: 80, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 80 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.38
Consensus pattern (44 bp):
AAATTATTGATAAATTAATAGTAAATCAATAATAAATTAATAAT
Found at i:11930736 original size:22 final size:22
Alignment explanation
Indices: 11930664--11930755 Score: 103
Period size: 22 Copynumber: 4.2 Consensus size: 22
11930654 ACTTTGTACC
* *
11930664 AAATTATTTATAAATTAATAGT
1 AAATTATTAATAAATTAATAAT
* * * * *
11930686 AAATCAATAATAATTTAGTAGT
1 AAATTATTAATAAATTAATAAT
* *
11930708 AAATTATTGATAATTTAATAAT
1 AAATTATTAATAAATTAATAAT
11930730 AAATTATTAATAAATTAATAAT
1 AAATTATTAATAAATTAATAAT
11930752 AAAT
1 AAAT
11930756 CCCTGATAAC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (22 bp):
AAATTATTAATAAATTAATAAT
Found at i:11930764 original size:22 final size:22
Alignment explanation
Indices: 11930673--11930808 Score: 76
Period size: 22 Copynumber: 6.2 Consensus size: 22
11930663 CAAATTATTT
* * *
11930673 ATAAATTAATAGTAAATCAATA
1 ATAAATTAATAATAAATCACTG
* * * * *
11930695 ATAATTTAGTAGTAAATTATTG
1 ATAAATTAATAATAAATCACTG
* * * *
11930717 ATAATTTAATAATAAATTATTA
1 ATAAATTAATAATAAATCACTG
*
11930739 ATAAATTAATAATAAATCCCTG
1 ATAAATTAATAATAAATCACTG
* * * *
11930761 ATAACA-TGATAGTAAATCAATA
1 ATAA-ATTAATAATAAATCACTG
* * *
11930783 ATAAATTAATTATCAATCATTG
1 ATAAATTAATAATAAATCACTG
11930805 ATAA
1 ATAA
11930809 TTTTTTTATA
Statistics
Matches: 88, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
21 1 0.01
22 86 0.98
23 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (22 bp):
ATAAATTAATAATAAATCACTG
Found at i:11931076 original size:21 final size:21
Alignment explanation
Indices: 11931036--11931077 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11931026 TATTAAATAT
11931036 ATGATAACATAAAATTTATCA
1 ATGATAACATAAAATTTATCA
*
11931057 ATGATTACA-AAAATTATATCA
1 ATGATAACATAAAATT-TATCA
11931078 TAAATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (21 bp):
ATGATAACATAAAATTTATCA
Found at i:11931084 original size:21 final size:20
Alignment explanation
Indices: 11931060--11931191 Score: 65
Period size: 21 Copynumber: 6.2 Consensus size: 20
11931050 TTTATCAATG
11931060 ATTACAAAAATTATATCATAA
1 ATTAC-AAAATTATATCATAA
*
11931081 ATTATCAAAATTATATGA-AA
1 ATTA-CAAAATTATATCATAA
* * *
11931101 AGGTTACTAAATTACATCAAGAA
1 A--TTACAAAATTATATC-ATAA
*
11931124 ATTACCAAAATTTTATCA-AA
1 ATTA-CAAAATTATATCATAA
*
11931144 TATTATCAAAATTGTAT--TAA
1 -ATTA-CAAAATTATATCATAA
*
11931164 TAGTTACAAAAATTATATTATAA
1 -A-TTAC-AAAATTATATCATAA
*
11931187 GTTAC
1 ATTAC
11931192 TAAACTAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 24
0.72 0.09 0.20
Matches are distributed among these distances:
20 10 0.11
21 58 0.66
22 14 0.16
23 6 0.07
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTACAAAATTATATCATAA
Found at i:11933172 original size:17 final size:17
Alignment explanation
Indices: 11933150--11933182 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11933140 ATTTAATACT
11933150 ATATCATGCCTAGACTC
1 ATATCATGCCTAGACTC
11933167 ATATCATGCCTAGACT
1 ATATCATGCCTAGACT
11933183 TTTATTCTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.30
Consensus pattern (17 bp):
ATATCATGCCTAGACTC
Found at i:11937272 original size:3 final size:3
Alignment explanation
Indices: 11937254--11937303 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
11937244 TGGGGGCTTA
* * * * *
11937254 GGT GGT GGA GGA GGT GGT GGT GGT GGT GGT GGA GGT GGG GGT GGG GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
11937302 GG
1 GG
11937304 CAATGGGGGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.06, C:0.00, G:0.72, T:0.22
Consensus pattern (3 bp):
GGT
Found at i:11937290 original size:12 final size:12
Alignment explanation
Indices: 11937254--11937303 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
11937244 TGGGGGCTTA
*
11937254 GGTGGTGGAGGA
1 GGTGGTGGAGGT
*
11937266 GGTGGTGGTGGT
1 GGTGGTGGAGGT
11937278 GGTGGTGGAGGT
1 GGTGGTGGAGGT
* *
11937290 GGGGGTGGGGGT
1 GGTGGTGGAGGT
11937302 GG
1 GG
11937304 CAATGGGGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.06, C:0.00, G:0.72, T:0.22
Consensus pattern (12 bp):
GGTGGTGGAGGT
Found at i:11937378 original size:3 final size:3
Alignment explanation
Indices: 11937370--11937417 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
11937360 ACGAAGGGTT
* * * * *
11937370 TGG TGG TGG TGG TGG TGG AGG TGG AGG CGG AGG TGG TGG TGG GGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
11937418 GGGAGGCAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.06, C:0.02, G:0.69, T:0.23
Consensus pattern (3 bp):
TGG
Found at i:11937387 original size:12 final size:12
Alignment explanation
Indices: 11937370--11937417 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
11937360 ACGAAGGGTT
*
11937370 TGGTGGTGGTGG
1 TGGTGGAGGTGG
11937382 TGGTGGAGGTGG
1 TGGTGGAGGTGG
* *
11937394 AGGCGGAGGTGG
1 TGGTGGAGGTGG
*
11937406 TGGTGGGGGTGG
1 TGGTGGAGGTGG
11937418 GGGAGGCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.06, C:0.02, G:0.69, T:0.23
Consensus pattern (12 bp):
TGGTGGAGGTGG
Found at i:11937432 original size:120 final size:120
Alignment explanation
Indices: 11937254--11937516 Score: 400
Period size: 120 Copynumber: 2.2 Consensus size: 120
11937244 TGGGGGCTTA
* * * * * *
11937254 GGTGGTGGAGGAGGTGGTGGTGGTGGTGGTGGAGGTGGGGGTGGGGGTGGCAATGGGGGTGCTGG
1 GGTGGTGGAGGTGGAGGTGGAGGCGGAGGTGGAGGTGGGGGTGGGGGAGGCAATGGGGGTGCTGG
*
11937319 ATATGGTTTTGGGAGTGGATCTGGGTTTGGGTTTGGAGGAAACGAAGGGTTTGGT
66 ATATGGTTTTGGGAGTGGATCTGGGTTTGGGTCTGGAGGAAACGAAGGGTTTGGT
* *
11937374 GGTGGTGGTGGTGGAGGTGGAGGCGGAGGTGGTGGTGGGGGTGGGGGAGGCAATGGGGGTGCTGG
1 GGTGGTGGAGGTGGAGGTGGAGGCGGAGGTGGAGGTGGGGGTGGGGGAGGCAATGGGGGTGCTGG
* *
11937439 ATATGGTTTTGGGGGTGGATCTGGGTTTGGGTCTGGAGGAAACGGAGGGTTTGGT
66 ATATGGTTTTGGGAGTGGATCTGGGTTTGGGTCTGGAGGAAACGAAGGGTTTGGT
* * *
11937494 GGCGGTGGAGGTGAAGGCGGAGG
1 GGTGGTGGAGGTGGAGGTGGAGG
11937517 TGGTGGCGGG
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 128 1.00
ACGTcount: A:0.13, C:0.05, G:0.58, T:0.25
Consensus pattern (120 bp):
GGTGGTGGAGGTGGAGGTGGAGGCGGAGGTGGAGGTGGGGGTGGGGGAGGCAATGGGGGTGCTGG
ATATGGTTTTGGGAGTGGATCTGGGTTTGGGTCTGGAGGAAACGAAGGGTTTGGT
Found at i:11938750 original size:15 final size:15
Alignment explanation
Indices: 11938730--11938780 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 15
11938720 CCACTTTTAA
11938730 AATTTTTAAAATTTT
1 AATTTTTAAAATTTT
11938745 AA-TTTTAGAAA-TTT
1 AATTTTTA-AAATTTT
*
11938759 AAATTTTAAAATAGTTT
1 AATTTTTAAAAT--TTT
11938776 AATTT
1 AATTT
11938781 CACATAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 13 0.43
15 10 0.33
17 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
AATTTTTAAAATTTT
Found at i:11938759 original size:14 final size:14
Alignment explanation
Indices: 11938733--11938770 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
11938723 CTTTTAAAAT
*
11938733 TTTTAAAATTTTAA
1 TTTTAAAATTTAAA
11938747 TTTTAGAAATTTAAA
1 TTTTA-AAATTTAAA
11938762 TTTTAAAAT
1 TTTTAAAAT
11938771 AGTTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTTAAAATTTAAA
Found at i:11958475 original size:152 final size:154
Alignment explanation
Indices: 11958238--11958535 Score: 370
Period size: 152 Copynumber: 1.9 Consensus size: 154
11958228 ATTTAAATTT
*
11958238 TTTAAAAAAATAACAAATAAAAAGCTATCTATTTAATGACAAATAATCTTTAGTAAATAGATAAA
1 TTTAAAAAAATAACAAATAAAAAGCTATATATTTAATGACAAATAATCTTTAGTAAATAGATAAA
* * * * *
11958303 TAAATGCTAAAATTTGAAAGATAAATTTTTTATTTTTTAAAATTCATAAAGATATTTATCTTATT
66 CAAATGCTAAAATTTGAAAGATAAATTTGTTATTTCTTAAAATTC-TAAAGATATTTATATCATT
*
11958368 TATTTTTATTACTTTTATATTTAAA
130 TATTTTTAATACTTTTATATTTAAA
* * * * * * * *
11958393 TTTAAATAATTAACCAAT-AAAAGCTATATATTTAATGATAAATCATTTTTATTAAATA-A-ATA
1 TTTAAAAAAATAACAAATAAAAAGCTATATATTTAATGACAAATAATCTTTAGTAAATAGATAAA
* * * *
11958455 CAAATGCTAAAAATTT-AAAGATAAATTTGTTGTTTCTTAAAATTCTTATGATATTTATATCGTT
66 CAAATGCT-AAAATTTGAAAGATAAATTTGTTATTTCTTAAAATTCTAAAGATATTTATATCATT
*
11958519 TATTTTTAATATTTTTA
130 TATTTTTAATACTTTTA
11958536 AAGTTTATAT
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
151 29 0.24
152 35 0.29
153 8 0.07
154 35 0.29
155 15 0.12
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (154 bp):
TTTAAAAAAATAACAAATAAAAAGCTATATATTTAATGACAAATAATCTTTAGTAAATAGATAAA
CAAATGCTAAAATTTGAAAGATAAATTTGTTATTTCTTAAAATTCTAAAGATATTTATATCATTT
ATTTTTAATACTTTTATATTTAAA
Found at i:11961515 original size:2 final size:2
Alignment explanation
Indices: 11961510--11961540 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11961500 GACAGCCTTT
11961510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11961541 GCGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11969480 original size:23 final size:21
Alignment explanation
Indices: 11969447--11969499 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
11969437 AAAAAATCAT
*
11969447 AAAATATAATTTTAAAATATAA
1 AAAATAAAATTTT-AAATATAA
11969469 AAAATTAAAATTTTAAATATAA
1 AAAA-TAAAATTTTAAATATAA
11969491 AAAATAAAA
1 AAAATAAAA
11969500 CATAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 16 0.55
23 8 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATAAAATTTTAAATATAA
Found at i:11972658 original size:35 final size:35
Alignment explanation
Indices: 11972612--11972681 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
11972602 TAGGAAAGAA
11972612 TGTATTTGGGACTTTATTTACGTGGCACTAATAAG
1 TGTATTTGGGACTTTATTTACGTGGCACTAATAAG
* *
11972647 TGTATTTGGGACTTTGTTTATGTGGCACTAATAAG
1 TGTATTTGGGACTTTATTTACGTGGCACTAATAAG
11972682 AGTTGCTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (35 bp):
TGTATTTGGGACTTTATTTACGTGGCACTAATAAG
Found at i:11974012 original size:41 final size:41
Alignment explanation
Indices: 11973936--11974018 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
11973926 AATAAATATA
* * *
11973936 AATGTTAAATCTCATTTTGTGGTACATTGGTGGAAAGTTTG
1 AATGTTAAATCTCATTGTCTGGTACATTGGCGGAAAGTTTG
* *
11973977 AATGTTAAATCTTATTGTCTTGTATC-TTGGCGGAAAGTTTG
1 AATGTTAAATCTCATTGTCTGGTA-CATTGGCGGAAAGTTTG
11974018 A
1 A
11974019 TTATTAGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (41 bp):
AATGTTAAATCTCATTGTCTGGTACATTGGCGGAAAGTTTG
Found at i:11974708 original size:19 final size:20
Alignment explanation
Indices: 11974675--11974713 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
11974665 TACATGATAA
*
11974675 TTTGTATTATTATATTATAT
1 TTTGTATTATAATATTATAT
11974695 TTTGTATTA-AATATTATAT
1 TTTGTATTATAATATTATAT
11974714 GAATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTGTATTATAATATTATAT
Found at i:11974904 original size:19 final size:19
Alignment explanation
Indices: 11974856--11974904 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
11974846 ACATAACATA
* *
11974856 ATACAATTAATATAATTAT
1 ATACGATTAATATAATTAG
* *
11974875 ATATGAATAATATAATTAG
1 ATACGATTAATATAATTAG
11974894 ATACGATTAAT
1 ATACGATTAAT
11974905 TTATTTATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (19 bp):
ATACGATTAATATAATTAG
Found at i:11974967 original size:30 final size:31
Alignment explanation
Indices: 11974910--11974976 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
11974900 TTAATTTATT
*
11974910 TATTTAAATAAAAAATATCATTTAAATT-AA
1 TATTTAAACAAAAAATATCATTTAAATTAAA
11974940 TATTTAAACAAAAAAT-T-ATTTAAAAATTAAA
1 TATTTAAACAAAAAATATCATTT--AAATTAAA
11974971 TATTTA
1 TATTTA
11974977 TAATCTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 4 0.12
29 1 0.03
30 20 0.61
31 8 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (31 bp):
TATTTAAACAAAAAATATCATTTAAATTAAA
Found at i:11975677 original size:17 final size:18
Alignment explanation
Indices: 11975655--11975689 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11975645 TCGAATTTTA
*
11975655 TTTTTT-TAATTTAAATT
1 TTTTTTATAATTAAAATT
11975672 TTTTTTATAATTAAAATT
1 TTTTTTATAATTAAAATT
11975690 GAACTATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTATAATTAAAATT
Found at i:11978950 original size:3 final size:3
Alignment explanation
Indices: 11978942--11978979 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11978932 AAAAAACCTT
11978942 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11978980 TATTTGTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11988317 original size:22 final size:22
Alignment explanation
Indices: 11988289--11988330 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11988279 TATTTTTTCC
*
11988289 TTTAAAAATATAACATATATTT
1 TTTAAAAATATAAAATATATTT
*
11988311 TTTAAAATTATAAAATATAT
1 TTTAAAAATATAAAATATAT
11988331 ATTTAAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAAAAATATAAAATATATTT
Found at i:11988750 original size:12 final size:12
Alignment explanation
Indices: 11988728--11988758 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
11988718 CGTGTCATTT
11988728 TTTTATTTTTTCC
1 TTTT-TTTTTTCC
11988741 TTTTTTTTTTCC
1 TTTTTTTTTTCC
11988753 TTTTTT
1 TTTTTT
11988759 CTCTATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTCC
Found at i:11989116 original size:17 final size:16
Alignment explanation
Indices: 11989063--11989109 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
11989053 TTTTCTTTTC
11989063 ATTTTTTCATTTTTATA
1 ATTTTTTC-TTTTTATA
*
11989080 ATTTTTTCTATTTATA
1 ATTTTTTCTTTTTATA
11989096 ATTTTTTCTTTTTA
1 ATTTTTTCTTTTTA
11989110 AATATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 20 0.71
17 8 0.29
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTTTCTTTTTATA
Found at i:11989303 original size:21 final size:21
Alignment explanation
Indices: 11989242--11989304 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
11989232 ATTATATTTT
* *
11989242 ATTATTTATTTAATTTTACACATA
1 ATTATTT-TTT-ATTTTA-ATAAA
* * *
11989266 ATTATATATTATATTAATAAA
1 ATTATTTTTTATTTTAATAAA
11989287 ATTATTTTTTATTTTAAT
1 ATTATTTTTTATTTTAAT
11989305 TTAATAAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 18 0.58
22 5 0.16
23 2 0.06
24 6 0.19
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTTTTTATTTTAATAAA
Found at i:11989789 original size:26 final size:26
Alignment explanation
Indices: 11989758--11989816 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
11989748 ATGATTAATT
** *
11989758 AAAATTATTGTAATATTCATCTTAAC
1 AAAATTATTAAAATACTCATCTTAAC
*
11989784 AAAATTATTAAAATACTCTTCTTAAC
1 AAAATTATTAAAATACTCATCTTAAC
*
11989810 ATAATTA
1 AAAATTA
11989817 GCCAAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.41
Consensus pattern (26 bp):
AAAATTATTAAAATACTCATCTTAAC
Found at i:11989958 original size:48 final size:48
Alignment explanation
Indices: 11989902--11989997 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
11989892 AATGTCATTC
*
11989902 CTATTATATTTA-CATAAACACCCCTCATATTATAATTTATCAAAATTA
1 CTATTATATTTATCA-AAACACCCATCATATTATAATTTATCAAAATTA
* * *
11989950 CTATTATATTTATGAAAACATCCATCATATTATAATTTGTCAAAATTA
1 CTATTATATTTATCAAAACACCCATCATATTATAATTTATCAAAATTA
11989998 TTATCATACC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 42 0.98
49 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.41
Consensus pattern (48 bp):
CTATTATATTTATCAAAACACCCATCATATTATAATTTATCAAAATTA
Found at i:11993118 original size:2 final size:2
Alignment explanation
Indices: 11993111--11993144 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11993101 TGAACATGTA
11993111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11993145 GCAGATGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11999720 original size:16 final size:15
Alignment explanation
Indices: 11999694--11999723 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11999684 TAATTTTGAT
11999694 ATAATTTTGATTTTA
1 ATAATTTTGATTTTA
11999709 ATAATCTTTGATTTT
1 ATAAT-TTTGATTTT
11999724 TTTTATTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (15 bp):
ATAATTTTGATTTTA
Found at i:11999806 original size:21 final size:21
Alignment explanation
Indices: 11999758--11999932 Score: 105
Period size: 21 Copynumber: 8.6 Consensus size: 21
11999748 TTCATAACCG
*
11999758 TTAATAAAATTTTGGTAATTT
1 TTAATATAATTTTGGTAATTT
11999779 TTAATATAATTTTGGTAATTT
1 TTAATATAATTTTGGTAATTT
* * * *
11999800 TTTATATTAGTTTAGTAA--T
1 TTAATATAATTTTGGTAATTT
***
11999819 TT-ATGAT--TTTT--TAACCA
1 TTAAT-ATAATTTTGGTAATTT
* *
11999836 TTGATATAATTTTGATAATCTT
1 TTAATATAATTTTGGTAAT-TT
* * *
11999858 TTAATGTAATTTTGATAATCT
1 TTAATATAATTTTGGTAATTT
*
11999879 TTCATATAATTTTGGTAATTT
1 TTAATATAATTTTGGTAATTT
* * *
11999900 ATAATATACTTTTGATAATTAT
1 TTAATATAATTTTGGTAATT-T
*
11999922 TT-ATAAAATTT
1 TTAATATAATTT
11999933 GTGCCATCAT
Statistics
Matches: 120, Mismatches: 24, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
15 3 0.03
17 7 0.06
18 4 0.03
19 9 0.08
21 78 0.65
22 19 0.16
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.54
Consensus pattern (21 bp):
TTAATATAATTTTGGTAATTT
Found at i:12000212 original size:22 final size:22
Alignment explanation
Indices: 12000187--12000400 Score: 146
Period size: 22 Copynumber: 9.7 Consensus size: 22
12000177 ATAATTGATA
* *
12000187 ATTAAATTATTATTGATTTATT
1 ATTAAATTATTAATGATTTACT
* * *
12000209 ATTATATAATAAATGATTTACT
1 ATTAAATTATTAATGATTTACT
* ** * *
12000231 ACTAAGCTATCAAAGATTTACT
1 ATTAAATTATTAATGATTTACT
* * * *
12000253 AGTAAATTATCAATAATTCACT
1 ATTAAATTATTAATGATTTACT
* * *
12000275 ATTAATTTATGAATGATTTATT
1 ATTAAATTATTAATGATTTACT
* *
12000297 ACTAAATTATTCATGATTTACT
1 ATTAAATTATTAATGATTTACT
* *
12000319 ATTAAATTATTGATGATTTATT
1 ATTAAATTATTAATGATTTACT
* *
12000341 ATAAAATTA-TAACTTATTTACT
1 ATTAAATTATTAA-TGATTTACT
* *
12000363 ACTAATTTA-TAGATGATTTACT
1 ATTAAATTATTA-ATGATTTACT
*
12000385 -TCAAAATTATTAATGA
1 AT-TAAATTATTAATGA
12000401 ATAACTAATT
Statistics
Matches: 145, Mismatches: 43, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
21 2 0.01
22 140 0.97
23 3 0.02
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (22 bp):
ATTAAATTATTAATGATTTACT
Found at i:12000465 original size:25 final size:23
Alignment explanation
Indices: 12000414--12000473 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
12000404 ACTAATTTAC
*
12000414 TACTAAATTATCATTGATTTATA
1 TACTAAATTATCAGTGATTTATA
*
12000437 -ACTAAATTATTAGTGATTTACTA
1 TACTAAATTATCAGTGATTTA-TA
*
12000460 TTACTAAGTTATCA
1 -TACTAAATTATCA
12000474 ATAATTTCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 18 0.60
23 2 0.07
25 10 0.33
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (23 bp):
TACTAAATTATCAGTGATTTATA
Found at i:12000798 original size:19 final size:19
Alignment explanation
Indices: 12000733--12000798 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 19
12000723 TTAAGTTTTC
12000733 TATGA-TTAGCTACTAAATT
1 TATGATTTA-CTACTAAATT
*
12000752 ATAATTGATTTACTAGTAAATTATT
1 -T-A-TGATTTACTACT-AA--ATT
12000777 TATGATTTACTACTAAATT
1 TATGATTTACTACTAAATT
12000796 TAT
1 TAT
12000799 CAATTAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
19 6 0.16
20 1 0.03
21 3 0.08
22 18 0.47
23 6 0.16
24 1 0.03
25 3 0.08
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (19 bp):
TATGATTTACTACTAAATT
Found at i:12001231 original size:22 final size:22
Alignment explanation
Indices: 12001215--12001299 Score: 111
Period size: 22 Copynumber: 3.9 Consensus size: 22
12001205 TATTTACTAA
12001215 TAAATTATGAATGATTTATCAT
1 TAAATTATGAATGATTTATCAT
*
12001237 TAAATTATGAATTATTTATCAT
1 TAAATTATGAATGATTTATCAT
* *
12001259 TAAGTTATAAATGATTTA-CTAT
1 TAAATTATGAATGATTTATC-AT
12001281 TAAATTATTG-ATGATTTAT
1 TAAATTA-TGAATGATTTAT
12001300 TGTCAAGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
21 1 0.02
22 52 0.96
23 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (22 bp):
TAAATTATGAATGATTTATCAT
Found at i:12001252 original size:44 final size:44
Alignment explanation
Indices: 12001202--12001288 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
12001192 CTATGTTTTC
*
12001202 AATTATTTA-CTAATAAATTATGAATGATTTA-TCATTAAATTATG
1 AATTATTTATC-AATAAATTATAAATGATTTACT-ATTAAATTATG
* *
12001246 AATTATTTATCATTAAGTTATAAATGATTTACTATTAAATTAT
1 AATTATTTATCAATAAATTATAAATGATTTACTATTAAATTAT
12001289 TGATGATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (44 bp):
AATTATTTATCAATAAATTATAAATGATTTACTATTAAATTATG
Found at i:12001318 original size:44 final size:44
Alignment explanation
Indices: 12001219--12001310 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
12001209 TACTAATAAA
* * *
12001219 TTATGAATGATTTATCATTAAATTATGAATTATTTATCATTAAG
1 TTATAAATGATTTATCATTAAATTATGAATGATTTATCATCAAG
**
12001263 TTATAAATGATTTA-CTATTAAATTATTG-ATGATTTATTGTCAAG
1 TTATAAATGATTTATC-ATTAAATTA-TGAATGATTTATCATCAAG
12001307 TTAT
1 TTAT
12001311 TGATGATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.02
44 38 0.93
45 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (44 bp):
TTATAAATGATTTATCATTAAATTATGAATGATTTATCATCAAG
Done.