Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr9
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: 70906002
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.33
Warning! 1642329 characters in sequence are not A, C, G, or T
File 93 of 221
Found at i:27705399 original size:16 final size:15
Alignment explanation
Indices: 27705356--27705412 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
27705346 ATAATCAATG
27705356 AATAAAT-AATATATA
1 AATAAATGAATA-ATA
* *
27705371 AATAAGTAAAATAATA
1 AATAAAT-GAATAATA
*
27705387 AATAAAATGAATAATG
1 AAT-AAATGAATAATA
27705403 AATAAATGAA
1 AATAAATGAA
27705413 CAAGTGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 13 0.37
16 15 0.43
17 7 0.20
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AATAAATGAATAATA
Found at i:27707108 original size:44 final size:48
Alignment explanation
Indices: 27707036--27707171 Score: 190
Period size: 44 Copynumber: 2.9 Consensus size: 48
27707026 GAGATTCGCT
* *
27707036 ATCTTCAATTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT-GGC
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCC
* * *
27707083 -T-TT-AATCTGCTCCACTACAAGTTCAGGGAGATAAGATTTGTAGCC
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCC
27707128 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
1 -ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
27707172 ATATGATCTT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
44 34 0.45
45 4 0.05
46 1 0.01
47 1 0.01
48 2 0.03
49 34 0.45
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (48 bp):
ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCC
Found at i:27707302 original size:44 final size:44
Alignment explanation
Indices: 27707238--27707354 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 44
27707228 ATCTATTCCG
*
27707238 CTGCAACTTCAGGGAAATAAGATTGCTATCTTC-AGTCTGCTCCA
1 CTGCAACTTCAGGGAAATAAGATTGCTAACTTCAAG-CTGCTCCA
* * * *
27707282 CTGCAACTTTAGAGAGATAAGACTTG-TAACTTCAAGCTGTTCCA
1 CTGCAACTTCAGGGAAATAAGA-TTGCTAACTTCAAGCTGCTCCA
* *
27707326 CTGTAACTTCAGGGATATAAGATTCGCTA
1 CTGCAACTTCAGGGAAATAAGATT-GCTA
27707355 CCACTGCAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 2 0.03
44 51 0.85
45 7 0.12
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAAATAAGATTGCTAACTTCAAGCTGCTCCA
Found at i:27707542 original size:89 final size:88
Alignment explanation
Indices: 27707429--27707602 Score: 231
Period size: 89 Copynumber: 2.0 Consensus size: 88
27707419 GATCTGTAAT
** * * * * *
27707429 TTATAGCTTCAATCTGTTCTACTGCAACTTTAGGGAAATAAGGTTCGTTATCTTCAGTCTGCTCC
1 TTATAGCTTCAATCTGCCCCACTGCAAATTTAGGGAAATAAGATTAG-TAGCTTCAGTCTGCTCC
27707494 ACTGCAACTTCAGGGAGATAACAC
65 ACTGCAACTTCAGGGAGATAACAC
* ** * *
27707518 TTATATCTTCAATCTGCCCCACTGCAAATTTAGGGGGATAAGATTAGTGGCTTTAGTCTGCTCCA
1 TTATAGCTTCAATCTGCCCCACTGCAAATTTAGGGAAATAAGATTAGTAGCTTCAGTCTGCTCCA
27707583 CTGCAACTTCAGGGAGATAA
66 CTGCAACTTCAGGGAGATAA
27707603 GATTCGTCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
88 35 0.48
89 38 0.52
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (88 bp):
TTATAGCTTCAATCTGCCCCACTGCAAATTTAGGGAAATAAGATTAGTAGCTTCAGTCTGCTCCA
CTGCAACTTCAGGGAGATAACAC
Found at i:27707603 original size:44 final size:43
Alignment explanation
Indices: 27707429--27707606 Score: 167
Period size: 44 Copynumber: 4.0 Consensus size: 43
27707419 GATCTGTAAT
* * * * * *
27707429 TTATAGCTTCAATCTGTTCTACTGCAACTTTAGGGAAATAAGG
1 TTATAGCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
27707472 TTCGTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAACA
1 TT--ATAGCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * *
27707517 CTTATATCTTCAATCTGCCCCACTGCAAATTTAGGGGGATAAGA
1 -TTATAGCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
27707561 TTAGTGGCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TTA-TAGCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
27707605 TT
1 TT
27707607 CGTCATAATG
Statistics
Matches: 107, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
43 5 0.05
44 68 0.64
45 32 0.30
46 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
TTATAGCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
Found at i:27708514 original size:16 final size:17
Alignment explanation
Indices: 27708493--27708524 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
27708483 GCCTCCCATT
27708493 TTTTCTTTT-TCTTTTA
1 TTTTCTTTTCTCTTTTA
27708509 TTTTCTTTTCTCTTTT
1 TTTTCTTTTCTCTTTT
27708525 TTATATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTCTCTTTTA
Found at i:27708641 original size:14 final size:15
Alignment explanation
Indices: 27708618--27708650 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
27708608 ATCAACGTTT
*
27708618 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
27708632 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
27708647 TTCC
1 TTCC
27708651 CAATTTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:27713684 original size:26 final size:22
Alignment explanation
Indices: 27713631--27713691 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 22
27713621 GGAATATGCA
*
27713631 TAAAAAAATAAACATAAAAGTT
1 TAAAAAAATAAACATAAAAGAT
27713653 TCAAAAAAATAAACAATAAAGAATGAT
1 T-AAAAAAATAAAC-AT-AA-AA-GAT
*
27713680 TAAAATAATAAA
1 TAAAAAAATAAA
27713692 TGAATAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 1 0.03
23 12 0.38
24 2 0.06
25 2 0.06
26 12 0.38
27 3 0.09
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (22 bp):
TAAAAAAATAAACATAAAAGAT
Found at i:27713693 original size:16 final size:15
Alignment explanation
Indices: 27713682--27713729 Score: 59
Period size: 11 Copynumber: 3.4 Consensus size: 15
27713672 AGAATGATTA
27713682 AAATAATAAATGAAT
1 AAATAATAAATGAAT
27713697 AAATAAT--AT--AT
1 AAATAATAAATGAAT
27713708 AAATAAGTAAATGAAT
1 AAATAA-TAAATGAAT
27713724 AAATAA
1 AAATAA
27713730 ATGAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 8 0.29
12 1 0.04
13 2 0.07
14 2 0.07
15 7 0.25
16 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (15 bp):
AAATAATAAATGAAT
Found at i:27713710 original size:27 final size:28
Alignment explanation
Indices: 27713667--27713742 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 28
27713657 AAAAATAAAC
*
27713667 AATAAAGAATGAT-TAAAATAA-TAAATG
1 AATAAATAAT-ATATAAAATAAGTAAATG
27713694 AATAAATAATATAT-AAATAAGTAAATG
1 AATAAATAATATATAAAATAAGTAAATG
27713721 AATAAATAA-ATGAATAAAATAA
1 AATAAATAATAT--ATAAAATAA
27713743 AAGGAATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
26 10 0.23
27 25 0.58
28 2 0.05
29 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (28 bp):
AATAAATAATATATAAAATAAGTAAATG
Found at i:27713730 original size:12 final size:12
Alignment explanation
Indices: 27713686--27713743 Score: 62
Period size: 12 Copynumber: 4.5 Consensus size: 12
27713676 TGATTAAAAT
27713686 AATAAATGAATA
1 AATAAATGAATA
*
27713698 AATAATATATAAATA
1 AAT-A-A-ATGAATA
*
27713713 AGTAAATGAATA
1 AATAAATGAATA
27713725 AATAAATGAATAA
1 AATAAATGAAT-A
27713738 AATAAA
1 AATAAA
27713744 AGGAATAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 19 0.50
13 9 0.24
14 2 0.05
15 8 0.21
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (12 bp):
AATAAATGAATA
Found at i:27713763 original size:4 final size:4
Alignment explanation
Indices: 27713682--27713743 Score: 56
Period size: 4 Copynumber: 15.8 Consensus size: 4
27713672 AGAATGATTA
* * * *
27713682 AAAT -AAT AAAT GAAT AAAT -AAT ATAT AAAT AAGT AAAT GAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
27713728 AAAT GAAT AAAAT AAA
1 AAAT AAAT -AAAT AAA
27713744 AGGAATAATG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
3 6 0.13
4 36 0.80
5 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:27714655 original size:19 final size:18
Alignment explanation
Indices: 27714616--27714656 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
27714606 TGTAAAATAA
*
27714616 AAAATAAAAAGAAACGAG
1 AAAATAAAAAGAAACAAG
*
27714634 AAAATGAAAAGAAACAAGG
1 AAAATAAAAAGAAACAA-G
27714653 AAAA
1 AAAA
27714657 GATCAAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.73, C:0.05, G:0.17, T:0.05
Consensus pattern (18 bp):
AAAATAAAAAGAAACAAG
Found at i:27718132 original size:33 final size:29
Alignment explanation
Indices: 27718095--27718169 Score: 78
Period size: 33 Copynumber: 2.4 Consensus size: 29
27718085 TAATTCAGCT
*
27718095 TAAATATTTAATTTAATTATATTTTATCTATAA
1 TAAATATTTAATTTAATTATA-TGT-T-TA-AA
* * *
27718128 TAAATTTTTAAGTTAATTTTATGTTTAAA
1 TAAATATTTAATTTAATTATATGTTTAAA
27718157 TAAATATTTAATT
1 TAAATATTTAATT
27718170 AGATAAACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 13 0.36
30 2 0.06
31 1 0.03
32 2 0.06
33 18 0.50
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (29 bp):
TAAATATTTAATTTAATTATATGTTTAAA
Found at i:27718166 original size:29 final size:28
Alignment explanation
Indices: 27718105--27718170 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
27718095 TAAATATTTA
27718105 ATTTAATTATATTTTATCTATAATAAAT
1 ATTTAATTATATTTTATCTATAATAAAT
* * *
27718133 TTTTAAGTTA-ATTTTATGTTTAAATAAAT
1 ATTTAA-TTATATTTTATCTAT-AATAAAT
27718162 ATTTAATTA
1 ATTTAATTA
27718171 GATAAACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (28 bp):
ATTTAATTATATTTTATCTATAATAAAT
Found at i:27718201 original size:18 final size:16
Alignment explanation
Indices: 27718178--27718217 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27718168 TTAGATAAAC
27718178 ATAAATTTTAAAAATTAG
1 ATAAATTTT--AAATTAG
*
27718196 ATAAATTTTTAATTAG
1 ATAAATTTTAAATTAG
27718212 ATAAAT
1 ATAAAT
27718218 ACAAATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
ATAAATTTTAAATTAG
Found at i:27718207 original size:40 final size:40
Alignment explanation
Indices: 27718156--27718233 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
27718146 TTATGTTTAA
*
27718156 ATAAATATTTAATTAGATAAACATAAATTTTAAAAATTAG
1 ATAAATATTTAATTAGATAAACACAAATTTTAAAAATTAG
* * *
27718196 ATAAATTTTTAATTAGATAAATACAAATTTTGAAAATT
1 ATAAATATTTAATTAGATAAACACAAATTTTAAAAATT
27718234 TTATTTTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (40 bp):
ATAAATATTTAATTAGATAAACACAAATTTTAAAAATTAG
Found at i:27718278 original size:24 final size:24
Alignment explanation
Indices: 27718251--27718299 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
27718241 TCCATTTAAT
*
27718251 TTAAATTAAATAATTATTTAT-TTA
1 TTAAATTAAAT-ACTATTTATATTA
*
27718275 TTAAATTATATACTATTTATATTA
1 TTAAATTAAATACTATTTATATTA
27718299 T
1 T
27718300 ATATTAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTAAATTAAATACTATTTATATTA
Found at i:27718305 original size:23 final size:23
Alignment explanation
Indices: 27718265--27718322 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
27718255 ATTAAATAAT
27718265 TATTTAT-TTATTAAATTA-TATAC
1 TATTTATATTA-TAAATTAGTAT-C
* *
27718288 TATTTATATTATATATTAGTATT
1 TATTTATATTATAAATTAGTATC
*
27718311 TATTTAAATTAT
1 TATTTATATTAT
27718323 TAGCATTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTTATATTATAAATTAGTATC
Found at i:27718310 original size:19 final size:19
Alignment explanation
Indices: 27718269--27718331 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
27718259 AATAATTATT
*
27718269 TATTTA-TTAAATTATATAC
1 TATTTATTTAAATTAT-TAG
*
27718288 TATTTATATTATA-TATTAG
1 TATTTAT-TTAAATTATTAG
27718307 TATTTATTTAAATTATTAG
1 TATTTATTTAAATTATTAG
*
27718326 CATTTA
1 TATTTA
27718332 CTAAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 4 0.11
19 26 0.70
20 3 0.08
21 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TATTTATTTAAATTATTAG
Found at i:27718338 original size:19 final size:19
Alignment explanation
Indices: 27718301--27718339 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27718291 TTATATTATA
* * *
27718301 TATTAGTATTTATTTAAAT
1 TATTAGCATTTACTAAAAT
27718320 TATTAGCATTTACTAAAAT
1 TATTAGCATTTACTAAAAT
27718339 T
1 T
27718340 TATACCCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTAGCATTTACTAAAAT
Found at i:27733338 original size:11 final size:11
Alignment explanation
Indices: 27733312--27733349 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
27733302 AACTAATCCT
27733312 CTCTCAAATTTC
1 CTCTC-AATTTC
*
27733324 CTCTCAATTTG
1 CTCTCAATTTC
27733335 CTCTCAATTTC
1 CTCTCAATTTC
27733346 CTCT
1 CTCT
27733350 TAAATCCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.18, C:0.34, G:0.03, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:27735117 original size:18 final size:18
Alignment explanation
Indices: 27735094--27735129 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27735084 TGCGTTTCCA
*
27735094 AACCCTTTTATGTATCCT
1 AACCCTTATATGTATCCT
*
27735112 AACCCTTATATGTTTCCT
1 AACCCTTATATGTATCCT
27735130 TTTTCGAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (18 bp):
AACCCTTATATGTATCCT
Found at i:27735679 original size:22 final size:22
Alignment explanation
Indices: 27735654--27736158 Score: 511
Period size: 22 Copynumber: 23.1 Consensus size: 22
27735644 TTTAATTGAC
27735654 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
27735676 AAACCCT-AACCCTAAAAACCCT--
1 AAACCCTAAACCCT--TAA-CTTAA
*** *
27735698 AAACCCT-AATATTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
27735719 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
27735740 AAACCCATAAACCCTTAACCTAA
1 AAACCC-TAAACCCTTAACTTAA
*
27735763 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
27735785 AAACCCT-AACTCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
27735806 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
27735828 AAACCCT-AACCCTTAAATAAA
1 AAACCCTAAACCCTTAACTTAA
*
27735849 AAACACT-AACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
* *
27735869 AAACTCCT-AACCCTTAATTTTA
1 AAAC-CCTAAACCCTTAACTTAA
* *
27735891 AACCCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
27735913 AAACCCTAAACCCTTAACTAAA
1 AAACCCTAAACCCTTAACTTAA
27735935 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
**
27735956 AAATTCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
27735977 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
27735999 AAACCCTAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
27736021 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
27736042 AAACCATAAACCCTTAAGC-TAA
1 AAACCCTAAACCCTTAA-CTTAA
* *
27736064 AAACCCCAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
27736086 AAACCCT-AACCCTTAACTTTAAA
1 AAACCCTAAACCCTTAAC-TT-AA
* ** *
27736109 GCCTTAAAACCCTAACCCTTAACTTTA
1 -----AAACCCTAAACCCTTAACTTAA
27736136 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
27736157 AA
1 AA
27736159 GCGCGTCCAT
Statistics
Matches: 405, Mismatches: 53, Indels: 51
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.00
20 7 0.02
21 164 0.40
22 202 0.50
23 11 0.03
24 2 0.00
27 1 0.00
28 7 0.02
29 10 0.02
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.25
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:27735681 original size:15 final size:16
Alignment explanation
Indices: 27735661--27735706 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
27735651 GACAAACCCT
*
27735661 AAACCCTTAA-CTTAA
1 AAACCCTTAACCCTAA
27735676 AAACCC-TAACCCTAA
1 AAACCCTTAACCCTAA
*
27735691 AAACCCTAAACCCTAA
1 AAACCCTTAACCCTAA
27735707 TATTTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 16 0.59
16 8 0.30
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACCCTTAACCCTAA
Found at i:27735730 original size:65 final size:62
Alignment explanation
Indices: 27735654--27736158 Score: 401
Period size: 65 Copynumber: 7.7 Consensus size: 62
27735644 TTTAATTGAC
* *
27735654 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTAAAAACCCT-AAACCCTAATA-TTTAAATT
1 AAACCCTAAACCCTTAACTT-AAAACCCTAACCCT--TAA-CCTAAAACCCTAA-ACCTTAAATT
27735717 AA
61 AA
**
27735719 AAACCCTAAACCCTTAACTTAAAACCCATAAACCCTTAACCTAAAAACCCTAAACCCTTAACCTA
1 AAACCCTAAACCCTTAACTTAAAACCC-T-AACCCTTAACCT-AAAACCCTAAA-CCTTAAATTA
27735784 A
62 A
* * * * *
27735785 AAACCCT-AACTCTTGACTTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATAAA
1 AAACCCTAAACCCTTAAC-TTAAAACCCT-AACCCTTAACCT-AAAACCCTAAACCTTAAATTAA
* ** * *
27735849 AAACACT-AACCCTTAACTTAAAACTCCTAACCCTTAATTTTAAACCCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAC-CCTAACCCTTAA-CCTAAAACCCTAAACC-TTAAATTAA
* * ** *
27735913 AAACCCTAAACCCTTAACTAAAAAACCCTAACCCTTAACTTAAAAATTCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACT-TAAAACCCTAACCCTTAACCT-AAAACCCTAAA-CCTTAAATTAA
* * * *
27735977 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTTAAAACCCTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTT-AAAACCCT-AACCCTTAAC-CTAAAACCCTAAACCTTAAATTAA
* * * * * *
27736042 AAACCATAAACCCTTAAGCTAAAAACCCCAAACCCTTAACTTTAAAACCCTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAA-CTTAAAA-CCCTAACCCTTAAC-CTAAAACCCTAAACCTTAA-ATT-
27736107 AAGCCTTA
61 -A-----A
*
27736115 AAACCCT-AACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAA
1 AAACCCTAAACCCTTAAC-TTAAAACCCTAACCCTTAACCTAAAA
27736159 GCGCGTCCAT
Statistics
Matches: 374, Mismatches: 37, Indels: 53
0.81 0.08 0.11
Matches are distributed among these distances:
63 30 0.08
64 89 0.24
65 169 0.45
66 45 0.12
70 6 0.02
71 14 0.04
72 14 0.04
73 7 0.02
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.25
Consensus pattern (62 bp):
AAACCCTAAACCCTTAACTTAAAACCCTAACCCTTAACCTAAAACCCTAAACCTTAAATTAA
Found at i:27735823 original size:43 final size:44
Alignment explanation
Indices: 27735654--27736108 Score: 492
Period size: 43 Copynumber: 10.5 Consensus size: 44
27735644 TTTAATTGAC
* * *
27735654 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTAAAAACCCT--
1 AAACCCTAAACCCTTAACTTTAAAACCCTAAACCCT--TAA-CTTAA
* * *
27735698 AAACCCTAATA--TTTAAATTAAAAACCCTAAACCCTTAACTT-A
1 AAACCCTAA-ACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
* * *
27735740 AAACCCATAAACCCTTAACCTAAAAACCCTAAACCCTTAACCTAA
1 AAACCC-TAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
* *
27735785 AAACCCT-AACTCTTGACTTTAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
* ** *
27735828 AAACCCT-AACCCTTAAATAAAAAACACT-AACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
* * *
27735869 AAACTCCT-AACCCTTAATTTTAAACCCCTAAACCTTTAACTTAA
1 AAAC-CCTAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
**
27735913 AAACCCTAAACCCTTAACTAAAAAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
**
27735956 AAATTCTAAACCCTTAAC-TTAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
*
27735999 AAACCCTAAACCCTTAACTTTAAAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
* * * *
27736042 AAACCATAAACCCTTAAGC-TAAAAACCCCAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAA-CTTTAAAACCCTAAACCCTTAACTTAA
27736086 AAACCCT-AACCCTTAACTTTAAA
1 AAACCCTAAACCCTTAACTTTAAA
27736109 GCCTTAAAAC
Statistics
Matches: 353, Mismatches: 42, Indels: 33
0.82 0.10 0.08
Matches are distributed among these distances:
41 7 0.02
42 49 0.14
43 194 0.55
44 95 0.27
45 8 0.02
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.24
Consensus pattern (44 bp):
AAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
Found at i:27736160 original size:50 final size:51
Alignment explanation
Indices: 27736063--27736160 Score: 171
Period size: 50 Copynumber: 1.9 Consensus size: 51
27736053 CCTTAAGCTA
*
27736063 AAAACCCCAAACCCTTAACTTTAAAACCCTAACCCTTAACTTTAAAGCCTT
1 AAAACCCCAAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAGCCTT
*
27736114 AAAA-CCCTAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAGC
1 AAAACCCCAAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAGC
27736161 GCGTCCATGA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 41 0.91
51 4 0.09
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (51 bp):
AAAACCCCAAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAGCCTT
Found at i:27736430 original size:123 final size:126
Alignment explanation
Indices: 27736175--27736463 Score: 343
Period size: 124 Copynumber: 2.3 Consensus size: 126
27736165 CCATGAGGGT
* *
27736175 GCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTCAAGCATTTTTTTTAAAATTATTTGCT
1 GCGATTTCA-AAATTCTTCTCATAA-AGCATCCTGCTTCAAGC--TGTTTTTAAAACTATTTGCT
* * * *
27736239 CAGAAACATCAACTCGAAATTATTTCTTCCAGGACCTACTGTAGCAAAAGCGCATCCACGAGGGC
62 CAGAAACATCAACTCAAAATTATTTCTTCCAGGACCTACTATAGCAAAAGCGCATACACGAGGAC
* * *
27736304 GCGATTTCAAAATTCTTCTCATAAAGCATCTTGCTTGAAGC-GTTTTT-ATACTATTTGCTCAGA
1 GCGATTTCAAAATTCTTCTCATAAAGCATCCTGCTTCAAGCTGTTTTTAAAACTATTTGCTCAGA
* * * * * *
27736367 AACGTCAAGTCAAAATTATTT-TTCCATGACCTATTATAGCAAAAGCGCGTACACGTGGAC
66 AACATCAACTCAAAATTATTTCTTCCAGGACCTACTATAGCAAAAGCGCATACACGAGGAC
* * *
27736427 GCGACTTCAAAAATCCTTCTGATAAAGCATCCTGCTT
1 GCGATTTC-AAAATTCTTCTCATAAAGCATCCTGCTT
27736464 TGATTTTATC
Statistics
Matches: 139, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
123 39 0.28
124 57 0.41
125 5 0.04
128 27 0.19
129 11 0.08
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (126 bp):
GCGATTTCAAAATTCTTCTCATAAAGCATCCTGCTTCAAGCTGTTTTTAAAACTATTTGCTCAGA
AACATCAACTCAAAATTATTTCTTCCAGGACCTACTATAGCAAAAGCGCATACACGAGGAC
Found at i:27737824 original size:6 final size:6
Alignment explanation
Indices: 27737813--27737845 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
27737803 TAATTTACTC
27737813 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
27737846 GTAGAGGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:27742713 original size:19 final size:19
Alignment explanation
Indices: 27742691--27742729 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27742681 TACGTCACAT
*
27742691 TAAATTACAAAAGTCGTTA
1 TAAATTACAAAAGTAGTTA
27742710 TAAATTACAAAAGTAGTTA
1 TAAATTACAAAAGTAGTTA
27742729 T
1 T
27742730 TTTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (19 bp):
TAAATTACAAAAGTAGTTA
Found at i:27744897 original size:34 final size:34
Alignment explanation
Indices: 27744853--27744919 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
27744843 CATCTCTCTC
* *
27744853 AATTAAAAATTCAGAAGAGAAATTGGGCAAGGTT
1 AATTAAAAATTCAAAAGAGAAACTGGGCAAGGTT
*
27744887 AATTACAAATTCAAAAGAGAAACTGGGCAAGGT
1 AATTAAAAATTCAAAAGAGAAACTGGGCAAGGT
27744920 CAAGTCTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.21
Consensus pattern (34 bp):
AATTAAAAATTCAAAAGAGAAACTGGGCAAGGTT
Found at i:27751775 original size:3 final size:3
Alignment explanation
Indices: 27751769--27751833 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
27751759 TCATTAGCTT
27751769 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
27751817 TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TT
27751834 TTTGTATTTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:27754383 original size:16 final size:15
Alignment explanation
Indices: 27754339--27754375 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
27754329 TATTAAACTC
27754339 TTTTTTTCTTTTTCT
1 TTTTTTTCTTTTTCT
27754354 TTTTTTTCTTTTTCT
1 TTTTTTTCTTTTTCT
27754369 TTTTTTT
1 TTTTTTT
27754376 TCTCTTTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTTCTTTTTCT
Found at i:27760247 original size:18 final size:16
Alignment explanation
Indices: 27760224--27760258 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
27760214 CTTCTGCTGC
27760224 TTTCTTTTCTTTTTCTTT
1 TTTCTTTT-TTTTT-TTT
27760242 TTTCTTTTTTTTTTTT
1 TTTCTTTTTTTTTTTT
27760258 T
1 T
27760259 GGTTTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTCTTTTTTTTTTTT
Found at i:27760257 original size:13 final size:13
Alignment explanation
Indices: 27760228--27760256 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27760218 TGCTGCTTTC
27760228 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
27760241 TTTTCTTTTT-TT
1 TTTTCTTTTTCTT
27760253 TTTT
1 TTTT
27760257 TTGGTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:27769497 original size:24 final size:22
Alignment explanation
Indices: 27769470--27769534 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
27769460 CCCCTTATTT
27769470 TTTCACAAACAAATATTCTCTCAA
1 TTTC-CAAACAAA-ATTCTCTCAA
***
27769494 TTTCCTTCCAAAATTCTCTCAA
1 TTTCCAAACAAAATTCTCTCAA
***
27769516 TTTCCTTCCAAAATTCTCT
1 TTTCCAAACAAAATTCTCT
27769535 TAAACTCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 29 0.76
23 5 0.13
24 4 0.11
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTCCAAACAAAATTCTCTCAA
Found at i:27769512 original size:22 final size:22
Alignment explanation
Indices: 27769479--27769534 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
27769469 TTTTCACAAA
27769479 CAAATATTCTCTCAATTTCCTTC
1 CAAA-ATTCTCTCAATTTCCTTC
27769502 CAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
27769524 CAAAATTCTCT
1 CAAAATTCTCT
27769535 TAAACTCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
CAAAATTCTCTCAATTTCCTTC
Found at i:27769551 original size:52 final size:52
Alignment explanation
Indices: 27769487--27769586 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
27769477 AACAAATATT
* * * *
27769487 CTCTCAATTTCCTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
27769539 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
27769587 CAAATCCATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (52 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
Found at i:27769578 original size:21 final size:22
Alignment explanation
Indices: 27769539--27769591 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
27769529 TTCTCTTAAA
27769539 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
27769561 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
27769583 CTCTCAAAT
1 CTCTCAAAT
27769592 CCATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:27769661 original size:29 final size:29
Alignment explanation
Indices: 27769623--27769681 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
27769613 ATTCAATTTC
*
27769623 ATTTTTTTAAGAA-AATTTTAAATATTTTT
1 ATTTTTTTAAAAATAATTTTAAA-ATTTTT
27769652 ATTTTTTTAAAAATAATTTTAAAATTTTT
1 ATTTTTTTAAAAATAATTTTAAAATTTTT
27769681 A
1 A
27769682 ATATTTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
ATTTTTTTAAAAATAATTTTAAAATTTTT
Found at i:27769688 original size:29 final size:29
Alignment explanation
Indices: 27769627--27769688 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
27769617 AATTTCATTT
* * *
27769627 TTTTAAGAAAATTTTAAATATTTTTATTT
1 TTTTAAAAAAATTTTAAATATTTTTAATA
27769656 TTTTAAAAATAATTTTAAA-ATTTTTAATA
1 TTTTAAAAA-AATTTTAAATATTTTTAATA
27769685 TTTT
1 TTTT
27769689 CAACAATGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTAAAAAAATTTTAAATATTTTTAATA
Found at i:27769808 original size:14 final size:15
Alignment explanation
Indices: 27769779--27769812 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27769769 AAATTTTAAA
27769779 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
27769794 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
27769808 TTTTA
1 TTTTA
27769813 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:27771757 original size:21 final size:21
Alignment explanation
Indices: 27771732--27771781 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
27771722 CAGATGCCGA
* *
27771732 ACCGGAAGAACAACAATCACC
1 ACCGGAAGAACAAAAACCACC
* *
27771753 ACCGGAGGAAGAAAAACCACC
1 ACCGGAAGAACAAAAACCACC
*
27771774 GCCGGAAG
1 ACCGGAAG
27771782 CTAGAGGAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.30, G:0.24, T:0.02
Consensus pattern (21 bp):
ACCGGAAGAACAAAAACCACC
Found at i:27771992 original size:29 final size:28
Alignment explanation
Indices: 27771951--27772088 Score: 168
Period size: 29 Copynumber: 4.6 Consensus size: 28
27771941 TTTTGATATT
*
27771951 ATTTGATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
27771979 ATTTTAATTAAAAACCCTAACCCTAATTTA
1 A-TTTAATTAAAAACCCTAA-CCTAATTTA
27772009 ATTTAATTAAAAACCCTAAACCCCAACCTAATTTA
1 ATTTAATTAAAAACCCT-------AACCTAATTTA
*
27772044 ATTTATTTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
27772072 ATTTTAATTAAAAACCC
1 A-TTTAATTAAAAACCC
27772089 GAACTTGTAC
Statistics
Matches: 97, Mismatches: 3, Indels: 19
0.82 0.03 0.16
Matches are distributed among these distances:
28 13 0.13
29 47 0.48
30 10 0.10
35 25 0.26
36 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAATTTA
Found at i:27772001 original size:35 final size:34
Alignment explanation
Indices: 27771962--27772064 Score: 135
Period size: 35 Copynumber: 3.1 Consensus size: 34
27771952 TTTGATTAAA
27771962 AACCCTAACCTAATTTAATTTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAA-TTTAATTAAAAACCCT
27771997 AA--C---CCTAATTTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTTAATTAAAAACCCT
* *
27772026 AAACCCCAACCTAATTTAATTTATTTAAAAACCCT
1 -AACCCTAACCTAATTTAATTTAATTAAAAACCCT
27772061 AACC
1 AACC
27772065 TAATTTAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 13
0.81 0.01 0.17
Matches are distributed among these distances:
29 16 0.26
30 12 0.20
32 1 0.02
33 1 0.02
34 4 0.07
35 27 0.44
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (34 bp):
AACCCTAACCTAATTTAATTTAATTAAAAACCCT
Found at i:27773723 original size:41 final size:41
Alignment explanation
Indices: 27773668--27773835 Score: 221
Period size: 41 Copynumber: 4.1 Consensus size: 41
27773658 TTAATATAAA
* * * * *
27773668 CAGATTCACTAGCACTTAGCTTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCAGCACTTAGCCTGCTAGGCTTATAGCCTAATT
*
27773710 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTAATC
1 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTAATT
* *
27773751 CAGTTCACC-GACACTTAGCCTGCTAGGTTTATAGCCTAATT
1 CAGATCACCAG-CACTTAGCCTGCTAGGCTTATAGCCTAATT
* *
27773792 CAAATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATT
1 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTAATT
27773833 CAG
1 CAG
27773836 NNNNNNNNNN
Statistics
Matches: 111, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 105 0.95
42 5 0.05
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (41 bp):
CAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTAATT
Found at i:27775617 original size:72 final size:72
Alignment explanation
Indices: 27775500--27775645 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
27775490 TTAACAACTA
*
27775500 ACTAGCCACTTTTACATTTTACGTAATTAAGTCCTTTTATCAAATTAAACACACAAATAGTCAAA
1 ACTAGCCACTTTTACATTTTACGCAATTAAGTCCTTTTATCAAATTAAACACACAAATAGTCAAA
27775565 TTAATTT
66 TTAATTT
*
27775572 ACTAGCCACTTTTGCATTTTACGCAATTAAGTCCTTTTATCAAATTAAACACACAAATAGTCAAA
1 ACTAGCCACTTTTACATTTTACGCAATTAAGTCCTTTTATCAAATTAAACACACAAATAGTCAAA
27775637 TTAATTT
66 TTAATTT
27775644 AC
1 AC
27775646 GAAAATTTCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.36
Consensus pattern (72 bp):
ACTAGCCACTTTTACATTTTACGCAATTAAGTCCTTTTATCAAATTAAACACACAAATAGTCAAA
TTAATTT
Found at i:27776014 original size:124 final size:123
Alignment explanation
Indices: 27775792--27776021 Score: 338
Period size: 124 Copynumber: 1.9 Consensus size: 123
27775782 ACCGCTACTG
* * **
27775792 TGACCAACTGTAGCGAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCATATAGCATC
1 TGACCAACTGTACCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCATATAGCATC
**
27775857 CTGGTATCAGCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAATTATTTCTTACA
66 CTGGTAGAAGCGATTTTATACTATTTGCTCAG-AAACGTCAAAAAAATTATTTCTTACA
* * *
27775916 TGACCAACTGTACCAAAATTGCGTCCACGAGGGCACGATTTTACAATTTCTTCT-TTGATAGCAT
1 TGACCAACTGTACCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAT-ATAGCAT
27775980 CCTGGTAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
65 CCTGGTAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
27776022 CTCGAAATAA
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
123 10 0.11
124 84 0.88
125 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (123 bp):
TGACCAACTGTACCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCATATAGCATC
CTGGTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACA
Found at i:27776832 original size:20 final size:20
Alignment explanation
Indices: 27776807--27776846 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27776797 CGTAAAATGA
*
27776807 TTTCTAGAAAATGTTTTACT
1 TTTCTAGAAAATGATTTACT
*
27776827 TTTCTATAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
27776847 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:27776970 original size:20 final size:20
Alignment explanation
Indices: 27776945--27776983 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27776935 GTTTTTACAT
27776945 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
27776965 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
27776984 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:27787013 original size:58 final size:59
Alignment explanation
Indices: 27786944--27787059 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 59
27786934 TTAAAGTTAA
* *
27786944 TATTAAGTTAATATAATACTTATC-AAGATAAATA-TTAGATTAAATTTAATATTAAACC
1 TATTAAATTAATAGAATACTTATCTAAGATAAATATTTA-ATTAAATTTAATATTAAACC
* *
27787002 TATTAAATTAATAGAATATTTATCTATAAGATAAATATTTAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATACTTATC--TAAGATAAATATTTAATTAAATTTAATATTAA
27787060 GATAAATACT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 21 0.42
61 26 0.52
62 3 0.06
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATCTAAGATAAATATTTAATTAAATTTAATATTAAACC
Found at i:27787083 original size:25 final size:25
Alignment explanation
Indices: 27787044--27787094 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
27787034 AAATATTTAA
*
27787044 TTTAATTTAATATTAAGATAAATAC
1 TTTAATTTAATATTAAGAAAAATAC
*
27787069 TTTAATATTAA-ATTAATAAAAATAC
1 TTTAAT-TTAATATTAAGAAAAATAC
27787094 T
1 T
27787095 ATCAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAAATAC
Found at i:27790367 original size:153 final size:155
Alignment explanation
Indices: 27790188--27790470 Score: 457
Period size: 153 Copynumber: 1.8 Consensus size: 155
27790178 AAATCAAATC
*
27790188 TTTCTTTTAAAAAAAATCACTACTTTTCTTAAATATCAAAACTTT-ATTTCGAAATAATTGA-AA
1 TTTCTTTT-AAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCGAAATAATTGACAA
*
27790251 AACATCAAAACTTTGTTTTAAAATTTTAAACTTTTCCTTTAAAATGACT-AAAAAATAGATTTTT
65 AA-ATCAAAACTTTGTTTTAAAATTTTAAA-ATTTCCTTTAAAATGACTAAAAAAATAGATTTTT
27790315 AAGAATAAAAATCTAAACTTTCTCTTTT
128 AAGAATAAAAATCTAAACTTTCTCTTTT
* *
27790343 TTTCTTTT-AAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCTAAATAGTTGACAAA
1 TTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCGAAATAATTGACAAA
*
27790407 AATCAAAATTTTGTTTTAAAATTTTAAAATTTCCTTTAAAATGACTCAAAAAAATAGATTTTTA
66 AATCAAAACTTTGTTTTAAAATTTTAAAATTTCCTTTAAAATGACT-AAAAAAATAGATTTTTA
27790471 TTTTTACAAT
Statistics
Matches: 119, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
153 51 0.43
154 40 0.34
155 28 0.24
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (155 bp):
TTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCGAAATAATTGACAAA
AATCAAAACTTTGTTTTAAAATTTTAAAATTTCCTTTAAAATGACTAAAAAAATAGATTTTTAAG
AATAAAAATCTAAACTTTCTCTTTT
Found at i:27790490 original size:154 final size:154
Alignment explanation
Indices: 27790188--27790497 Score: 448
Period size: 154 Copynumber: 2.0 Consensus size: 154
27790178 AAATCAAATC
*
27790188 TTTCTTTTAAAAAAAATCACTACTTTTCTTAAATATCAAAACTTTATTTCGAAATAATTGAAAAA
1 TTTCTTTT-AAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTATTTCGAAATAATTGAAAAA
*
27790253 CATCAAAACTTTGTTTTAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAATAGATTTTTAAG
65 CATCAAAACTTTGTTTTAAAATTTTAAACATTTCCTTTAAAATGACTAAAAAATAGATTTTTAAG
*
27790318 AATAAAAATCTAAACTTTCTCTTTT
130 AATAAAAATATAAACTTTCTCTTTT
* *
27790343 TTTCTTTT-AAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCTAAATAGTTGACAAA
1 TTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTT-ATTTCGAAATAATTGA-AAA
*
27790407 A-ATCAAAATTTTGTTTTAAAATTTTAAA-ATTTCCTTTAAAATGACTCAAAAAAATAGATTTTT
64 ACATCAAAACTTTGTTTTAAAATTTTAAACATTTCCTTTAAAATGACT--AAAAAATAGATTTTT
*** * *
27790470 -ATTTTTACAATATAAACTTTCTCTTTT
127 AAGAATAAAAATATAAACTTTCTCTTTT
27790497 T
1 T
27790498 AAAAAAAAAT
Statistics
Matches: 140, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
153 51 0.36
154 62 0.44
155 27 0.19
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (154 bp):
TTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTATTTCGAAATAATTGAAAAAC
ATCAAAACTTTGTTTTAAAATTTTAAACATTTCCTTTAAAATGACTAAAAAATAGATTTTTAAGA
ATAAAAATATAAACTTTCTCTTTT
Found at i:27794543 original size:633 final size:633
Alignment explanation
Indices: 27793372--27794639 Score: 2536
Period size: 633 Copynumber: 2.0 Consensus size: 633
27793362 AGAGGTGTCC
27793372 AATTGTTATGAAATTTTAAATTGGAGGTCCTTATGTGGTAATTAGACTATTAGTTGATTGAAGGA
1 AATTGTTATGAAATTTTAAATTGGAGGTCCTTATGTGGTAATTAGACTATTAGTTGATTGAAGGA
27793437 CAAAAATGGGCATAGGATTAGTAAAATAGATTTTTTTAAGTAAGGTCATTTTAGTCATTAGTAAA
66 CAAAAATGGGCATAGGATTAGTAAAATAGATTTTTTTAAGTAAGGTCATTTTAGTCATTAGTAAA
27793502 TAAATAGAATTAAAATGGGAAAAAGATGGAAAAATGGTGTCCATCTTCATAACTTGTTGCTGAAA
131 TAAATAGAATTAAAATGGGAAAAAGATGGAAAAATGGTGTCCATCTTCATAACTTGTTGCTGAAA
27793567 TTTGAAGGAAGCCATAGCTAGGGTTTCTTCACTTTCTCAAGCTCATAGTAAGTGCATCCTAGCCC
196 TTTGAAGGAAGCCATAGCTAGGGTTTCTTCACTTTCTCAAGCTCATAGTAAGTGCATCCTAGCCC
27793632 CGTTTTTAATGTTCTTCGCATTTTTGAGATCCTTGTAGCTCGGTTTAGCTTATTCTACCATTAAT
261 CGTTTTTAATGTTCTTCGCATTTTTGAGATCCTTGTAGCTCGGTTTAGCTTATTCTACCATTAAT
27793697 TCATGTTAGGGTTCATATTTGGAAAAATAACCATATTATTTTTCTATTTTATGGTAGAATATGAA
326 TCATGTTAGGGTTCATATTTGGAAAAATAACCATATTATTTTTCTATTTTATGGTAGAATATGAA
27793762 GCTAGAAATTATGTTAAACAACTTTTGCTAAGCGATCTTAAGCGGAAACGGGTAAATTGACATAA
391 GCTAGAAATTATGTTAAACAACTTTTGCTAAGCGATCTTAAGCGGAAACGGGTAAATTGACATAA
27793827 CTGGTAAAATATTTAATGTTCAAAAGTTCATGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGA
456 CTGGTAAAATATTTAATGTTCAAAAGTTCATGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGA
27793892 AAAAGTGTTTAGCATGTTGTAAAACATAAGAATAAGGAGTGAAATTTAATTTTCGAGCTTTGGGA
521 AAAAGTGTTTAGCATGTTGTAAAACATAAGAATAAGGAGTGAAATTTAATTTTCGAGCTTTGGGA
27793957 CAAAAATGTAAATATGCAAAAATTTAGGGATAAAATCGTAATTTTTGT
586 CAAAAATGTAAATATGCAAAAATTTAGGGATAAAATCGTAATTTTTGT
27794005 AATTGTTATGAAATTTTAAATTGGAGGTCCTTATGTGGTAATTAGACTATTAGTTGATTGAAGGA
1 AATTGTTATGAAATTTTAAATTGGAGGTCCTTATGTGGTAATTAGACTATTAGTTGATTGAAGGA
27794070 CAAAAATGGGCATAGGATTAGTAAAATAGATTTTTTTAAGTAAGGTCATTTTAGTCATTAGTAAA
66 CAAAAATGGGCATAGGATTAGTAAAATAGATTTTTTTAAGTAAGGTCATTTTAGTCATTAGTAAA
27794135 TAAATAGAATTAAAATGGGAAAAAGATGGAAAAATGGTGTCCATCTTCATAACTTGTTGCTGAAA
131 TAAATAGAATTAAAATGGGAAAAAGATGGAAAAATGGTGTCCATCTTCATAACTTGTTGCTGAAA
27794200 TTTGAAGGAAGCCATAGCTAGGGTTTCTTCACTTTCTCAAGCTCATAGTAAGTGCATCCTAGCCC
196 TTTGAAGGAAGCCATAGCTAGGGTTTCTTCACTTTCTCAAGCTCATAGTAAGTGCATCCTAGCCC
27794265 CGTTTTTAATGTTCTTCGCATTTTTGAGATCCTTGTAGCTCGGTTTAGCTTATTCTACCATTAAT
261 CGTTTTTAATGTTCTTCGCATTTTTGAGATCCTTGTAGCTCGGTTTAGCTTATTCTACCATTAAT
27794330 TCATGTTAGGGTTCATATTTGGAAAAATAACCATATTATTTTTCTATTTTATGGTAGAATATGAA
326 TCATGTTAGGGTTCATATTTGGAAAAATAACCATATTATTTTTCTATTTTATGGTAGAATATGAA
27794395 GCTAGAAATTATGTTAAACAACTTTTGCTAAGCGATCTTAAGCGGAAACGGGTAAATTGACATAA
391 GCTAGAAATTATGTTAAACAACTTTTGCTAAGCGATCTTAAGCGGAAACGGGTAAATTGACATAA
27794460 CTGGTAAAATATTTAATGTTCAAAAGTTCATGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGA
456 CTGGTAAAATATTTAATGTTCAAAAGTTCATGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGA
27794525 AAAAGTGTTTAGCATGTTGTAAAACATAAGAATAAGGAGTGAAATTTAATTTTCGAGCTTTGGGA
521 AAAAGTGTTTAGCATGTTGTAAAACATAAGAATAAGGAGTGAAATTTAATTTTCGAGCTTTGGGA
27794590 CAAAAATGTAAATATGCAAAAATTTAGGGATAAAATCGTAATTTTTGT
586 CAAAAATGTAAATATGCAAAAATTTAGGGATAAAATCGTAATTTTTGT
27794638 AA
1 AA
27794640 AAAGTTGAGT
Statistics
Matches: 635, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
633 635 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (633 bp):
AATTGTTATGAAATTTTAAATTGGAGGTCCTTATGTGGTAATTAGACTATTAGTTGATTGAAGGA
CAAAAATGGGCATAGGATTAGTAAAATAGATTTTTTTAAGTAAGGTCATTTTAGTCATTAGTAAA
TAAATAGAATTAAAATGGGAAAAAGATGGAAAAATGGTGTCCATCTTCATAACTTGTTGCTGAAA
TTTGAAGGAAGCCATAGCTAGGGTTTCTTCACTTTCTCAAGCTCATAGTAAGTGCATCCTAGCCC
CGTTTTTAATGTTCTTCGCATTTTTGAGATCCTTGTAGCTCGGTTTAGCTTATTCTACCATTAAT
TCATGTTAGGGTTCATATTTGGAAAAATAACCATATTATTTTTCTATTTTATGGTAGAATATGAA
GCTAGAAATTATGTTAAACAACTTTTGCTAAGCGATCTTAAGCGGAAACGGGTAAATTGACATAA
CTGGTAAAATATTTAATGTTCAAAAGTTCATGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGA
AAAAGTGTTTAGCATGTTGTAAAACATAAGAATAAGGAGTGAAATTTAATTTTCGAGCTTTGGGA
CAAAAATGTAAATATGCAAAAATTTAGGGATAAAATCGTAATTTTTGT
Found at i:27795028 original size:42 final size:41
Alignment explanation
Indices: 27794981--27795207 Score: 181
Period size: 42 Copynumber: 5.4 Consensus size: 41
27794971 AATAAAAATG
* * *
27794981 GGTTGCTAAGTGATGATTCCCTGAATTATTGACTTTAAAGAT
1 GGTTGCTAAGTGCTGATTCCCTGTATTATTGAATTTAAAG-T
* * *
27795023 GGTTGCTAAGTGCCGATTCCACTGTATCT-TTGATTGTTAAAGG
1 GGTTGCTAAGTGCTGATTCC-CTGTAT-TATTGAAT-TTAAAGT
* * *
27795066 GGTTGCTATGTGCTGATTACCC-GTATTACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATT-CCCTGTATTATTGAATTTAAA-GT
* * * * *
27795108 GGTTGCTAAGTGTTGATTCCACCGTATCT-TTGACTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CTGTAT-TATTGAAT-TTAAAGT
* * * * *
27795151 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAGGT
1 GGTTGCTAAGTGCTGATTCCCTGTATTATTGAATTTAAAGT
27795192 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
27795208 ATCCACCGAG
Statistics
Matches: 147, Mismatches: 27, Indels: 23
0.75 0.14 0.12
Matches are distributed among these distances:
41 26 0.18
42 54 0.37
43 54 0.37
44 13 0.09
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCCTGTATTATTGAATTTAAAGT
Found at i:27795126 original size:85 final size:83
Alignment explanation
Indices: 27794980--27795215 Score: 301
Period size: 85 Copynumber: 2.8 Consensus size: 83
27794970 GAATAAAAAT
* * * * * * *
27794980 GGGTTGCTAAGTGATGATTCCCTGAATTATTGACTTTAAAGATGGTTGCTAAGTGCCGATTCCAC
1 GGGTTGCTATGTGCTGATTCCC-GTATTACTGA-ATTAAAGGTGGTTGCTAAGTGCTGATTCCAC
* * *
27795045 TGTATCTTTGATTGTTAAAG
64 CGTATCTTTGACTGTGAAAG
*
27795065 GGGTTGCTATGTGCTGATTACCCGTATTACTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCAC
1 GGGTTGCTATGTGCTGATT-CCCGTATTACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCCAC
27795130 CGTATCTTTGACTGTGAAAG
64 CGTATCTTTGACTGTGAAAG
* * *
27795150 GGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAGGTGGTTGCTAAGTGCTGAATCCACC
1 GGGTTGCTATGTGCTGATT-CCCGTATTACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCACC
27795215 G
65 G
27795216 AGTAACGAAT
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
84 29 0.22
85 101 0.76
86 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (83 bp):
GGGTTGCTATGTGCTGATTCCCGTATTACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCACCG
TATCTTTGACTGTGAAAG
Found at i:27795134 original size:43 final size:42
Alignment explanation
Indices: 27794981--27795207 Score: 203
Period size: 43 Copynumber: 5.4 Consensus size: 42
27794971 AATAAAAATG
* * * * *
27794981 GGTTGCTAAGTGATGATTCCCTGAATTATTGACTTTAAAGAT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGAATTTAAAGGT
* * *
27795023 GGTTGCTAAGTGCCGATTCCACTGTATCT-TTGATTGTTAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGAAT-TTAAAGGT
* * * *
27795066 GGTTGCTATGTGCTGATTACCCGTATTACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGAATTTAAAGGT
* * *
27795108 GGTTGCTAAGTGTTGATTCCACCGTATCT-TTGACTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGAAT-TTAAAGGT
* * *
27795151 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATTT-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGAATTTAAAGGT
27795192 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
27795208 ATCCACCGAG
Statistics
Matches: 149, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
40 4 0.03
41 23 0.15
42 54 0.36
43 55 0.37
44 13 0.09
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGAATTTAAAGGT
Found at i:27800782 original size:22 final size:21
Alignment explanation
Indices: 27800749--27800790 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
27800739 ACATATTACC
27800749 ATTTAGTCATTTAAACTTTAAG
1 ATTTAGTCATTTAAA-TTTAAG
*
27800771 ATTTA-TCAATTTTAATTTAA
1 ATTTAGTC-ATTTAAATTTAA
27800791 CAAAGCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
ATTTAGTCATTTAAATTTAAG
Found at i:27807421 original size:129 final size:129
Alignment explanation
Indices: 27807191--27807448 Score: 498
Period size: 129 Copynumber: 2.0 Consensus size: 129
27807181 CTACAAAACC
* *
27807191 AAAAGGCGAGAGAGTGATACTATCAAAAGATATGTGAAAACAGTAACTGCAGAAACATATTTGTC
1 AAAAGGCGAGAGAGTGATACTATCAAAAGATACGTGAAAACAGGAACTGCAGAAACATATTTGTC
27807256 ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
66 ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
27807320 AAAAGGCGAGAGAGTGATACTATCAAAAGATACGTGAAAACAGGAACTGCAGAAACATATTTGTC
1 AAAAGGCGAGAGAGTGATACTATCAAAAGATACGTGAAAACAGGAACTGCAGAAACATATTTGTC
27807385 ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
66 ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
27807449 GTAGAGAGAG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (129 bp):
AAAAGGCGAGAGAGTGATACTATCAAAAGATACGTGAAAACAGGAACTGCAGAAACATATTTGTC
ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
Found at i:27812774 original size:16 final size:16
Alignment explanation
Indices: 27812753--27812820 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
27812743 TTTGGTTCGC
27812753 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
27812769 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
27812785 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27812801 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27812817 TGTA
1 TGTA
27812821 AGAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27813077 original size:18 final size:17
Alignment explanation
Indices: 27813056--27813090 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27813046 TTATTATTAA
*
27813056 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27813074 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27813091 TCTTAATAAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27813197 original size:18 final size:17
Alignment explanation
Indices: 27813176--27813210 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27813166 TTATTATTAA
*
27813176 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27813194 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27813211 TCTTAATAAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27813252 original size:120 final size:120
Alignment explanation
Indices: 27813039--27813551 Score: 990
Period size: 120 Copynumber: 4.3 Consensus size: 120
27813029 ATCATATTTA
27813039 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
27813104 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
27813159 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
27813224 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
27813279 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
27813344 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
27813399 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
27813464 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
27813519 AACATAATTATTATTAAATATATTTTAATTAAA
1 AACATAATTATTATTAAATATATTTTAATTAAA
27813552 TTTTCTAAAT
Statistics
Matches: 388, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 388 1.00
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:27813324 original size:14 final size:15
Alignment explanation
Indices: 27813275--27813326 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
27813265 ATAAAATATA
27813275 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
27813290 TATTAAATATATTAT
1 AATTAAATATATTAT
27813305 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
27813318 AATTTAATA
1 AATTAAATA
27813327 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:27813359 original size:51 final size:51
Alignment explanation
Indices: 27813304--27813479 Score: 145
Period size: 51 Copynumber: 3.1 Consensus size: 51
27813294 AAATATATTA
27813304 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
1 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
* * * *
27813355 TAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATAT
1 TAA-TTA---AAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTT-A-ATAATTAATATT--CT-T
*
27813420 ATTT
48 ATAT
27813424 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
1 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
27813475 TAATT
1 TAATT
27813480 TACTCAAATC
Statistics
Matches: 97, Mismatches: 10, Indels: 36
0.68 0.07 0.25
Matches are distributed among these distances:
51 12 0.12
52 4 0.04
54 11 0.11
55 5 0.05
56 4 0.04
57 3 0.03
58 3 0.03
59 9 0.09
61 9 0.09
62 3 0.03
63 3 0.03
64 4 0.04
65 5 0.05
66 11 0.11
68 4 0.04
69 7 0.07
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (51 bp):
TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
Found at i:27813437 original size:18 final size:17
Alignment explanation
Indices: 27813416--27813450 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27813406 TTATTATTAA
*
27813416 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27813434 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27813451 TCTTAATAAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27816963 original size:33 final size:33
Alignment explanation
Indices: 27816924--27817033 Score: 166
Period size: 33 Copynumber: 3.3 Consensus size: 33
27816914 ATTATAAAGC
27816924 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
27816957 ATGTATAATTGACCTAAAATTAATTCTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* * * *
27816990 ATTTTTATTTGCCCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
27817023 ATGTATAATTG
1 ATGTATAATTG
27817034 TTATAATTGA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:27818427 original size:28 final size:28
Alignment explanation
Indices: 27818394--27818506 Score: 75
Period size: 28 Copynumber: 3.6 Consensus size: 28
27818384 TTTTTATTAT
27818394 AATATTTTATTATTTCAGTTTATTTCAC
1 AATATTTTATTATTTCAGTTTATTTCAC
* * *
27818422 AATATTTATTTTAAGTATT-AGATATATTATACATT
1 AATATTT-TATT-A-T-TTCAG-TTTATT-T-CA-C
*
27818457 AATATTTATTTTATTATTTCAGTTCATTTCAC
1 AATA--T--TTTATTATTTCAGTTTATTTCAC
27818489 AATATTTTATTATTTCAG
1 AATATTTTATTATTTCAG
27818507 CTTTTATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 26
0.66 0.07 0.27
Matches are distributed among these distances:
28 20 0.31
29 3 0.05
30 2 0.03
31 3 0.05
32 11 0.17
33 3 0.05
34 3 0.05
35 10 0.15
36 3 0.05
37 2 0.03
38 3 0.05
39 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (28 bp):
AATATTTTATTATTTCAGTTTATTTCAC
Found at i:27818432 original size:32 final size:32
Alignment explanation
Indices: 27818396--27818495 Score: 105
Period size: 32 Copynumber: 3.0 Consensus size: 32
27818386 TTTATTATAA
27818396 TATTTTATTATTTCAGTTTATTTCACAATATT
1 TATTTTATTATTTCAGTTTATTTCACAATATT
* * *
27818428 TATTTTAAGTA-TT-AGATATATTATACATTAATATT
1 TATTTT-ATTATTTCAG-TTTATT-T-CA-CAATATT
*
27818463 TATTTTATTATTTCAGTTCATTTCACAATATT
1 TATTTTATTATTTCAGTTTATTTCACAATATT
27818495 T
1 T
27818496 TATTATTTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
31 2 0.04
32 20 0.37
33 6 0.11
34 6 0.11
35 18 0.33
36 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (32 bp):
TATTTTATTATTTCAGTTTATTTCACAATATT
Found at i:27818513 original size:15 final size:15
Alignment explanation
Indices: 27818493--27818521 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27818483 TTTCACAATA
27818493 TTTTATTATTTCAGC
1 TTTTATTATTTCAGC
27818508 TTTTATTATTTCAG
1 TTTTATTATTTCAG
27818522 TTTATTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTTATTATTTCAGC
Found at i:27818528 original size:110 final size:110
Alignment explanation
Indices: 27818398--27818656 Score: 518
Period size: 110 Copynumber: 2.4 Consensus size: 110
27818388 TATTATAATA
27818398 TTTTATTATTTCAGTTTATTTCACAATATTTATTTTAAGTATTAGATATATTATACATTAATATT
1 TTTTATTATTTCAGTTTATTTCACAATATTTATTTTAAGTATTAGATATATTATACATTAATATT
27818463 TATTTTATTATTTCAGTTCATTTCACAATATTTTATTATTTCAGC
66 TATTTTATTATTTCAGTTCATTTCACAATATTTTATTATTTCAGC
27818508 TTTTATTATTTCAGTTTATTTCACAATATTTATTTTAAGTATTAGATATATTATACATTAATATT
1 TTTTATTATTTCAGTTTATTTCACAATATTTATTTTAAGTATTAGATATATTATACATTAATATT
27818573 TATTTTATTATTTCAGTTCATTTCACAATATTTTATTATTTCAGC
66 TATTTTATTATTTCAGTTCATTTCACAATATTTTATTATTTCAGC
27818618 TTTTATTATTTCAGTTTATTTCACAATATTTATTTTAAG
1 TTTTATTATTTCAGTTTATTTCACAATATTTATTTTAAG
27818657 CATATTTTGC
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 149 1.00
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.56
Consensus pattern (110 bp):
TTTTATTATTTCAGTTTATTTCACAATATTTATTTTAAGTATTAGATATATTATACATTAATATT
TATTTTATTATTTCAGTTCATTTCACAATATTTTATTATTTCAGC
Found at i:27818623 original size:15 final size:15
Alignment explanation
Indices: 27818603--27818631 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27818593 TTTCACAATA
27818603 TTTTATTATTTCAGC
1 TTTTATTATTTCAGC
27818618 TTTTATTATTTCAG
1 TTTTATTATTTCAG
27818632 TTTATTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTTATTATTTCAGC
Found at i:27822156 original size:41 final size:41
Alignment explanation
Indices: 27822052--27822161 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 41
27822042 CATAAGATGC
*
27822052 CAAGTTACTGTATTTTCATACATTATATTAGTTTGTTTGTT
1 CAAGTTACTGTATTTTCATACATTATATTAGTTTGTTCGTT
**
27822093 CAAGTTGAAGGAGAAGTATTTTCATACATTATATTAGTTTGTTCGTT
1 CAAGTT-----A-CTGTATTTTCATACATTATATTAGTTTGTTCGTT
27822140 CAAGTTACTGTATTTTCATACA
1 CAAGTTACTGTATTTTCATACA
27822162 CAAGCTTTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
41 19 0.33
42 1 0.02
46 1 0.02
47 37 0.64
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (41 bp):
CAAGTTACTGTATTTTCATACATTATATTAGTTTGTTCGTT
Found at i:27823415 original size:15 final size:15
Alignment explanation
Indices: 27823395--27823428 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
27823385 TAAGGTTGCT
27823395 GAACCAAATAAAACA
1 GAACCAAATAAAACA
*
27823410 GAACCAAGTAAAACA
1 GAACCAAATAAAACA
27823425 GAAC
1 GAAC
27823429 TAGTTCTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.62, C:0.21, G:0.12, T:0.06
Consensus pattern (15 bp):
GAACCAAATAAAACA
Found at i:27824241 original size:16 final size:16
Alignment explanation
Indices: 27824220--27824271 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
27824210 TTTGGTTCGC
27824220 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
27824236 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
* *
27824252 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
27824268 TGTA
1 TGTA
27824272 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27824318 original size:45 final size:44
Alignment explanation
Indices: 27824252--27824341 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
27824242 GGATTGGAGG
*
27824252 TGTAATGGAATAGAGGTGTAATAGCAAATCA-ACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCACA-TGTTTGGTTGAA
* *
27824297 TGTAATGGAATAGAGGCGTAATAGTAATCTCATGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCACATGTTTGGTTGAA
27824341 T
1 T
27824342 AGAATAGAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
44 17 0.41
45 24 0.59
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCACATGTTTGGTTGAA
Found at i:27824358 original size:39 final size:43
Alignment explanation
Indices: 27824253--27824361 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
27824243 GATTGGAGGT
27824253 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 GTAA-GGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * *
27824297 TGTAATGGAATAGAGGCGTAATAG-TAATC-TCATGTTTGGTTGAA
1 -GTAA-GGAATAGAGGTGTAATAGCAAATCAAC-TGTTTGGTTGAA
27824341 -T-A-GAATAGAGGTGTAATAGCA
1 GTAAGGAATAGAGGTGTAATAGCA
27824362 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
39 16 0.28
41 1 0.02
42 1 0.02
43 1 0.02
44 16 0.28
45 22 0.39
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (43 bp):
GTAAGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:27824524 original size:16 final size:16
Alignment explanation
Indices: 27824487--27824528 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27824477 TTAATCATAT
*
27824487 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
27824503 TT-AAATATATTATAA
1 TTAAAATATATTATAA
27824518 TTAAAATATAT
1 TTAAAATATAT
27824529 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:27824535 original size:14 final size:15
Alignment explanation
Indices: 27824496--27824537 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27824486 TTTAAACATA
*
27824496 ATTATTATTAAATAT
1 ATTATAATTAAATAT
27824511 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
27824525 A-TATAATTTAATA
1 ATTATAATTAAATA
27824538 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:27825406 original size:13 final size:13
Alignment explanation
Indices: 27825388--27825414 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27825378 TGAATAAAAG
27825388 TATATGGTTGGAT
1 TATATGGTTGGAT
27825401 TATATGGTTGGAT
1 TATATGGTTGGAT
27825414 T
1 T
27825415 TCTAAGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TATATGGTTGGAT
Found at i:27829219 original size:187 final size:188
Alignment explanation
Indices: 27828904--27829281 Score: 722
Period size: 187 Copynumber: 2.0 Consensus size: 188
27828894 GCCATAGATG
* *
27828904 GAACACACATAAAAGCATGCATTTCGCCTTCTTGTCAAATACCTTATATCGGACGGAAAGGTGAA
1 GAACACACATAAAAGCATGCATTTCGCCTTCTTGTCAAATACCTTATATCGGACGAAAAGGTAAA
27828969 CCAACTCAAAATATTATGGCAGTTTGTGACTTCAACATGTGCTTTATTTTTGCATATCCTGGTTG
66 CCAACTCAAAATATTATGGCAGTTTGTGACTTCAACATGTGCTTTATTTTTGCATATCCTGGTTG
27829034 GGAAGGAACAGTACATGATAGTAGAA-TTTTTTTGCAAGCACTTAGAAAACAAGAGTT
131 GGAAGGAACAGTACATGATAGTAGAATTTTTTTTGCAAGCACTTAGAAAACAAGAGTT
27829091 GAACACACATAAAAGCATGCATTTCGCCTTCTTGTCAAATACCTTATATCGGACGAAAAGGTAAA
1 GAACACACATAAAAGCATGCATTTCGCCTTCTTGTCAAATACCTTATATCGGACGAAAAGGTAAA
27829156 CCAACTCAAAATATTATGGCAGTTTGTGACTTCAACATGTGCTTTATTTTTGCATATCCTGGTTG
66 CCAACTCAAAATATTATGGCAGTTTGTGACTTCAACATGTGCTTTATTTTTGCATATCCTGGTTG
*
27829221 GGAAGGAACAGTACATGATAGTAGAATTTTTTTTGCAAGCACTTAGAAAATAAGAGTT
131 GGAAGGAACAGTACATGATAGTAGAATTTTTTTTGCAAGCACTTAGAAAACAAGAGTT
27829279 GAA
1 GAA
27829282 GTTTCCACAC
Statistics
Matches: 187, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
187 154 0.82
188 33 0.18
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (188 bp):
GAACACACATAAAAGCATGCATTTCGCCTTCTTGTCAAATACCTTATATCGGACGAAAAGGTAAA
CCAACTCAAAATATTATGGCAGTTTGTGACTTCAACATGTGCTTTATTTTTGCATATCCTGGTTG
GGAAGGAACAGTACATGATAGTAGAATTTTTTTTGCAAGCACTTAGAAAACAAGAGTT
Found at i:27830318 original size:21 final size:21
Alignment explanation
Indices: 27830294--27830346 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
27830284 CATTGTTTCT
*
27830294 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
27830315 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
27830336 AATCTCACCGC
1 AATCTCACCGC
27830347 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:27834038 original size:4 final size:4
Alignment explanation
Indices: 27834014--27834052 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
27834004 AATGGCATAA
* *
27834014 AAAT AATAT AAAT AAAC AAAT AAAT AAAT AAAT CAAT AA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
27834053 CATGCAAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:27834870 original size:21 final size:19
Alignment explanation
Indices: 27834834--27834944 Score: 161
Period size: 19 Copynumber: 5.6 Consensus size: 19
27834824 AATCATATCT
27834834 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
27834853 TCCAAGATTGCACATATCATA
1 TCTAAGATTG--CATATCATA
27834874 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
27834893 TCTAAGATTGCATAT-ATCA
1 TCTAAGATTGCATATCAT-A
27834912 TTACTAAGATTGCATATCATA
1 -T-CTAAGATTGCATATCATA
27834933 TCTAAGATTGCA
1 TCTAAGATTGCA
27834945 CATCCTCAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
18 2 0.02
19 45 0.54
20 2 0.02
21 33 0.39
22 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:27834882 original size:40 final size:39
Alignment explanation
Indices: 27834827--27834947 Score: 199
Period size: 40 Copynumber: 3.1 Consensus size: 39
27834817 ATTACAAAAT
*
27834827 CATATC-TTCTAAGATTGCATATCATATCCAAGATTGCA
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTGCA
27834865 CATATCATATCTAAGATTGCATATCATATCTAAGATTGCA
1 CATATCAT-TCTAAGATTGCATATCATATCTAAGATTGCA
*
27834905 TATATCATTACTAAGATTGCATATCATATCTAAGATTGCA
1 CATATCATT-CTAAGATTGCATATCATATCTAAGATTGCA
27834945 CAT
1 CAT
27834948 CCTCAAAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
38 6 0.08
39 2 0.03
40 69 0.90
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (39 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTGCA
Found at i:27834907 original size:59 final size:57
Alignment explanation
Indices: 27834827--27834944 Score: 161
Period size: 59 Copynumber: 2.0 Consensus size: 57
27834817 ATTACAAAAT
27834827 CATATCTTCTAAGATTGC--ATATCA-TATCCAAGATTGCACATATCATATCTAAGATTG
1 CATATCTTCTAAGATTGCATATATCATTA-CCAAGATTG--CATATCATATCTAAGATTG
*
27834884 CATATCATATCTAAGATTGCATATATCATTACTAAGATTGCATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTGCATATATCATTACCAAGATTGCATATCATATCTAAGATTG
27834943 CA
1 CA
27834945 CATCCTCAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
57 6 0.11
58 1 0.02
59 32 0.58
61 14 0.25
62 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (57 bp):
CATATCTTCTAAGATTGCATATATCATTACCAAGATTGCATATCATATCTAAGATTG
Found at i:27835854 original size:132 final size:132
Alignment explanation
Indices: 27835157--27835832 Score: 1052
Period size: 132 Copynumber: 5.1 Consensus size: 132
27835147 CTGCAACTGC
* * * * * *
27835157 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGGATTATTGG
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TAGAATTACTGG
* *
27835220 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
*
27835285 GTTT
129 GCTT
* * * *
27835289 AGGGAGATAATATTTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACCGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
27835354 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
27835419 TT
131 TT
*
27835421 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG-CCTAGAGAAGTAGAATTACTGGC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCC-AGGGAAGTAGAATTACTGGC
*
27835485 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
65 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
27835550 CTT
130 CTT
* *
27835553 AGGGGGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGAGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * *
27835618 TCAATGTACTCCACTATAACCACAGGGAAGTAAAATCCGCCATCTTCTATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
27835683 TT
131 TT
*
27835685 AGGGAAATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * * * * * *
27835750 TCGATGTACTCCACTGTAACCACATGTAGGTAAAATCCGCAATCTACGATATGCTCCGCTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
27835815 TT
131 TT
27835817 AGGGAGATAAGATCTG
1 AGGGAGATAAGATCTG
27835833 CTATTTTTAA
Statistics
Matches: 506, Mismatches: 34, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
131 2 0.00
132 498 0.98
133 6 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:27837147 original size:11 final size:11
Alignment explanation
Indices: 27837133--27837165 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
27837123 TTGGCCTCTC
27837133 CTTTTTCTTTT
1 CTTTTTCTTTT
27837144 C-TTTTCTTTTT
1 CTTTTTC-TTTT
27837155 CTTTTTCTTTT
1 CTTTTTCTTTT
27837166 TTTATCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.25
11 10 0.50
12 5 0.25
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:27837154 original size:6 final size:6
Alignment explanation
Indices: 27837133--27837166 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
27837123 TTGGCCTCTC
27837133 CTTTTT C-TTTT C-TTTT CTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
27837167 TTATCACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:27837177 original size:22 final size:22
Alignment explanation
Indices: 27837133--27837188 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
27837123 TTGGCCTCTC
**
27837133 CTTTTTCTTTTCTTTTCTTTTT
1 CTTTTTCTTTTCTTTTCACTTT
27837155 CTTTTTCTTTT-TTTATCACTTT
1 CTTTTTCTTTTCTTT-TCACTTT
*
27837177 CATTTTTATTTT
1 C-TTTTTCTTTT
27837189 GATTTTGACC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.10
22 17 0.59
23 9 0.31
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (22 bp):
CTTTTTCTTTTCTTTTCACTTT
Found at i:27839793 original size:24 final size:24
Alignment explanation
Indices: 27839764--27839809 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
27839754 ATCATCTTTT
* *
27839764 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
27839788 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
27839810 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:27842818 original size:21 final size:19
Alignment explanation
Indices: 27842782--27842856 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
27842772 AATCATATCT
27842782 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
27842801 TCCAAGATTGCACATATCATA
1 TCTAAGATTG--CATATCATA
27842822 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
27842841 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
27842857 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:27842830 original size:40 final size:38
Alignment explanation
Indices: 27842775--27842852 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 38
27842765 ATTACAAAAT
27842775 CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
1 CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
*
27842813 CATATCATATCTAAGATTGCATATCATATCTAAGATTGCA
1 CATATC-T-TCTAAGATTGCATATCATATCCAAGATTGCA
27842853 TATCCTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 6 0.16
39 1 0.03
40 30 0.81
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (38 bp):
CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
Found at i:27847147 original size:25 final size:25
Alignment explanation
Indices: 27847119--27847168 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
27847109 CAGGTAAGGC
**
27847119 TCCTTCTCCTTCTTCTGTTCTTCAT
1 TCCTTCTCCTTCTTCCATTCTTCAT
*
27847144 TCCTTTTCCTTCTTCCATTCTTCAT
1 TCCTTCTCCTTCTTCCATTCTTCAT
27847169 CTTCTCTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.06, C:0.36, G:0.02, T:0.56
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCATTCTTCAT
Found at i:27855618 original size:19 final size:19
Alignment explanation
Indices: 27855594--27855631 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27855584 TGGGCCACGT
27855594 TGGGCCAAAATGGGC-CGTG
1 TGGGCC-AAATGGGCTCGTG
*
27855613 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
27855632 GGCCCCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:27855872 original size:27 final size:26
Alignment explanation
Indices: 27855842--27855983 Score: 126
Period size: 27 Copynumber: 5.3 Consensus size: 26
27855832 GTGGGGTCAA
*
27855842 TAAAATGACCGAAATACCTTCGAAGGG
1 TAAAATGACCGAAATACC-TCAAAGGG
*
27855869 TAAAATAACCGAAATAATCC-CAAAGGG
1 TAAAATGACCGAAAT-A-CCTCAAAGGG
* * * *
27855896 CAAAATGATCGAAATACCTCAAAAGA
1 TAAAATGACCGAAATACCTCAAAGGG
* *
27855922 TAAAATGACCGAAAT-CCCCTAAAGGA
1 TAAAATGACCGAAATACCTC-AAAGGG
* * *
27855948 TAAAATAACCAAAATACCCTCATAGGG
1 TAAAATGACCGAAATA-CCTCAAAGGG
27855975 TAAAATGAC
1 TAAAATGAC
27855984 TGTTATACCC
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
25 5 0.05
26 37 0.40
27 44 0.48
28 4 0.04
29 2 0.02
ACGTcount: A:0.49, C:0.20, G:0.15, T:0.17
Consensus pattern (26 bp):
TAAAATGACCGAAATACCTCAAAGGG
Found at i:27855926 original size:26 final size:26
Alignment explanation
Indices: 27855897--27855967 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
27855887 CCCAAAGGGC
* *
27855897 AAAATGATCGAAAT-ACCTCAAAAGAT
1 AAAATGACCGAAATCCCCT-AAAAGAT
*
27855923 AAAATGACCGAAATCCCCTAAAGGAT
1 AAAATGACCGAAATCCCCTAAAAGAT
* * *
27855949 AAAATAACCAAAATACCCT
1 AAAATGACCGAAATCCCCT
27855968 CATAGGGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 35 0.92
27 3 0.08
ACGTcount: A:0.52, C:0.21, G:0.10, T:0.17
Consensus pattern (26 bp):
AAAATGACCGAAATCCCCTAAAAGAT
Found at i:27856350 original size:28 final size:28
Alignment explanation
Indices: 27856318--27856382 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
27856308 GGTTGCATTA
*
27856318 CCACACTGTTACTGTATTGGGCTAAGGC
1 CCACACTGTTACTGTATCGGGCTAAGGC
27856346 CCACACTGTTACTGTATCGGGCTAAGGC
1 CCACACTGTTACTGTATCGGGCTAAGGC
27856374 CCACACTGT
1 CCACACTGT
27856383 ACTATCACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (28 bp):
CCACACTGTTACTGTATCGGGCTAAGGC
Found at i:27858876 original size:5 final size:5
Alignment explanation
Indices: 27858866--27858891 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
27858856 TTGAAGTTGG
27858866 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
27858892 GTTATTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:27866834 original size:3 final size:3
Alignment explanation
Indices: 27866826--27866886 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
27866816 ACTGAAAAAG
*
27866826 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAG AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
27866874 AAC AAC AAC AAC A
1 AAC AAC AAC AAC A
27866887 GTATGATCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.67, C:0.31, G:0.02, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:27870941 original size:17 final size:17
Alignment explanation
Indices: 27870919--27870951 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27870909 TTTGGCATTA
*
27870919 TATGTCTTGCATTTTAG
1 TATGTCATGCATTTTAG
27870936 TATGTCATGCATTTTA
1 TATGTCATGCATTTTA
27870952 TTTATGTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (17 bp):
TATGTCATGCATTTTAG
Found at i:27872805 original size:41 final size:39
Alignment explanation
Indices: 27872718--27872812 Score: 97
Period size: 41 Copynumber: 2.4 Consensus size: 39
27872708 ATACCTATAT
* *
27872718 ATATATAAAAATATAAAGTATTATTATTAGAAATTAACT
1 ATATATAAAAATATAAAGTATTATTATTAGAAATAAACA
* *
27872757 TTCTATAAAAATATAAAGTTAATTA-TATATAGAAA-AAACAA
1 ATATATAAAAATATAAAG-T-ATTATTAT-TAGAAATAAAC-A
27872798 ATATATAAAAA-ATAA
1 ATATATAAAAATATAA
27872813 TAATAATACA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
39 16 0.35
40 11 0.24
41 19 0.41
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (39 bp):
ATATATAAAAATATAAAGTATTATTATTAGAAATAAACA
Found at i:27874429 original size:44 final size:43
Alignment explanation
Indices: 27874330--27874555 Score: 147
Period size: 44 Copynumber: 5.2 Consensus size: 43
27874320 AAGTCTGATG
* * * *** *
27874330 TGATCTACTCTACTGCAACTTCAGAGAGATGAGATCCATTATTT
1 TGATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGTT-TCT
* *
27874374 TGATAC-GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT
1 TGAT-CTACTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCT
* * * * *
27874417 TGTGTCTACTCCACTGCAAATTTAGGGAGATAAGACTGGTTGC-
1 TG-ATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCT
* * *
27874460 -GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-GTAGTT-T
1 TGATCTACTCCACTGCAACTTCAGGGAGATAAGAT-TGGT--TTCT
* * * * **
27874503 TAATCCACTCCACTGCAACTTTAGGGAGATAGGATTGGGGTCT
1 TGATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCT
27874546 TCGATCTACT
1 T-GATCTACT
27874556 TCGCTGTTAT
Statistics
Matches: 136, Mismatches: 35, Indels: 22
0.70 0.18 0.11
Matches are distributed among these distances:
41 28 0.21
42 3 0.02
43 9 0.07
44 95 0.70
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (43 bp):
TGATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCT
Found at i:27874930 original size:24 final size:24
Alignment explanation
Indices: 27874891--27874947 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
27874881 CGGATTGCCC
*
27874891 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCCTCAAGGTTCAAT
*
27874915 CCATTGTAATCCTCAAGGTTCAAT
1 CCACTGTAATCCTCAAGGTTCAAT
27874939 CCACTGTAA
1 CCACTGTAA
27874948 CCTTTGGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (24 bp):
CCACTGTAATCCTCAAGGTTCAAT
Found at i:27880363 original size:45 final size:45
Alignment explanation
Indices: 27880300--27880435 Score: 188
Period size: 44 Copynumber: 3.1 Consensus size: 45
27880290 TTCTGGCCAC
* *
27880300 TTTCAT-ATGATGCCATAATGTCTTTCAACTATGGTATTACAT-AT
1 TTTCATCATGATGCCATAATATCTTTCAACTATGGTCTTAC-TCAT
*
27880344 TTTCATCATGATGCCATAATATCTTTC-AGTATGGTCTTACTCAT
1 TTTCATCATGATGCCATAATATCTTTCAACTATGGTCTTACTCAT
* * *
27880388 TTTCATCATGATTCCATAACATCTTTCAGCTATGGTCTTACTCAT
1 TTTCATCATGATGCCATAATATCTTTCAACTATGGTCTTACTCAT
27880433 TTT
1 TTT
27880436 TGGCGTATAA
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
43 1 0.01
44 44 0.54
45 37 0.45
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (45 bp):
TTTCATCATGATGCCATAATATCTTTCAACTATGGTCTTACTCAT
Found at i:27880392 original size:21 final size:21
Alignment explanation
Indices: 27880367--27880435 Score: 52
Period size: 23 Copynumber: 3.1 Consensus size: 21
27880357 CCATAATATC
27880367 TTTCAGTATGGTCTTACTCAT
1 TTTCAGTATGGTCTTACTCAT
* * *
27880388 TTTCA-TCATGATTCCATA-ACAT
1 TTTCAGT-ATG-GT-CTTACTCAT
27880410 CTTTCAGCTATGGTCTTACTCAT
1 -TTTCAG-TATGGTCTTACTCAT
27880433 TTT
1 TTT
27880436 TGGCGTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
20 1 0.03
21 8 0.23
22 10 0.29
23 12 0.34
24 3 0.09
25 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTCAGTATGGTCTTACTCAT
Found at i:27888855 original size:50 final size:50
Alignment explanation
Indices: 27888796--27889081 Score: 276
Period size: 50 Copynumber: 5.7 Consensus size: 50
27888786 ACATTTGGGT
* **
27888796 AAAGAGGTCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAGA
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
* *
27888846 AAAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGA
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
* * * **
27888896 TAAGAGGTCCCATGTAAGACTATGTGTGGGACATGGCATTGAAACCGAGA
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
** ** * * * * *
27888946 TGAGAGGTCCCCCGTAAGACCATATCTGGGATATGGAATGGGCACCGATA
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
* * * * *
27888996 TGAAA-A-CTCCCATGTAAGACCATATCTGGTATATGGCATTGGCAGTAC-AGA
1 --AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGA
*
27889047 AAACA--TCCCATGTAAGACCATGTCTGGGACATGGC
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
27889082 TTTAGCATGT
Statistics
Matches: 197, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
49 30 0.15
50 162 0.82
51 3 0.02
52 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.21
Consensus pattern (50 bp):
AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
Found at i:27893427 original size:27 final size:26
Alignment explanation
Indices: 27893389--27893505 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 26
27893379 GCTTGGGCCA
*
27893389 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
27893416 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * * *
27893443 TAAAATTATCAAAATACCCCAAAAGAGG
1 TAAAATGACCGAAATACCCC-GAAG-GG
* * *
27893471 -AAAATGACTGAAATACCCCTATGGGG
1 TAAAATGACCGAAATACCCCGA-AGGG
27893497 TAAAATGAC
1 TAAAATGAC
27893506 TGTTATGCCC
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
26 4 0.05
27 69 0.92
28 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCCGAAGGG
Found at i:27893516 original size:27 final size:27
Alignment explanation
Indices: 27893471--27893537 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
27893461 CCAAAAGAGG
** *
27893471 AAAATGACTGAAATACCCCTATGG-GGT
1 AAAATGACTGTTATACCCCTA-GGAGAT
*
27893498 AAAATGACTGTTATGCCCCTAGGAGAT
1 AAAATGACTGTTATACCCCTAGGAGAT
*
27893525 GAAATGACTGTTA
1 AAAATGACTGTTA
27893538 AGGCATTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (27 bp):
AAAATGACTGTTATACCCCTAGGAGAT
Found at i:27893766 original size:26 final size:26
Alignment explanation
Indices: 27893666--27893766 Score: 98
Period size: 26 Copynumber: 3.9 Consensus size: 26
27893656 TTGCCACAAA
* * *
27893666 TACTGTTA-TGGCAGCTTTGCTGTGA
1 TACTATTACTGGCAGCTTTGCTGCGT
* * **
27893691 TACTGA-TACTGGCAGCTCTACTATGT
1 TACT-ATTACTGGCAGCTTTGCTGCGT
* *
27893717 TACTGTTACTGGTAGCTTTGCTGCGT
1 TACTATTACTGGCAGCTTTGCTGCGT
27893743 TACTATTACTGGCAGCTTTGCTGC
1 TACTATTACTGGCAGCTTTGCTGC
27893767 AATATTGGTG
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
25 6 0.10
26 54 0.90
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.39
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGCTGCGT
Found at i:27903327 original size:20 final size:20
Alignment explanation
Indices: 27903302--27903340 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27903292 GCTACTCATA
27903302 TTTTTA-AAAACTTATCAGAG
1 TTTTTAGAAAACTTA-CAGAG
*
27903322 TTTTTAGAACACTTACAGA
1 TTTTTAGAAAACTTACAGA
27903341 ATCGGTGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
TTTTTAGAAAACTTACAGAG
Found at i:27910661 original size:44 final size:44
Alignment explanation
Indices: 27910598--27910685 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
27910588 AGAGGTGTCC
* *
27910598 TGAACCGCTAGACGATGGGGGCATACTTGCCTGACCGCGACCAT
1 TGAACCGCTAGACAATGGGGGCATACTTGCCTGACCGAGACCAT
27910642 TGAACCGCTAGACAATGGGGGCATACTTGCCTGACCGAGACCAT
1 TGAACCGCTAGACAATGGGGGCATACTTGCCTGACCGAGACCAT
27910686 ACTATGCTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.18
Consensus pattern (44 bp):
TGAACCGCTAGACAATGGGGGCATACTTGCCTGACCGAGACCAT
Found at i:27914660 original size:24 final size:24
Alignment explanation
Indices: 27914612--27914658 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
27914602 ACTGATCATA
*
27914612 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
27914636 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
27914659 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:27916266 original size:207 final size:207
Alignment explanation
Indices: 27915911--27916323 Score: 817
Period size: 207 Copynumber: 2.0 Consensus size: 207
27915901 TATTTTTTTA
*
27915911 TAGAATTTTTGGTAGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACAGGGATCG
1 TAGAATTTTTGATAGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACAGGGATCG
27915976 ACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTCCACAGAGCTTCAATACTGATGCT
66 ACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTCCACAGAGCTTCAATACTGATGCT
27916041 GTTTGTTTCTATAGAAACTAGACTCAGAGAGAAATCTATCCATATATGGTATGACTCCTAATTGT
131 GTTTGTTTCTATAGAAACTAGACTCAGAGAGAAATCTATCCATATATGGTATGACTCCTAATTGT
27916106 CTCTGGTTAATC
196 CTCTGGTTAATC
27916118 TAGAATTTTTGATAGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACAGGGATCG
1 TAGAATTTTTGATAGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACAGGGATCG
27916183 ACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTCCACAGAGCTTCAATACTGATGCT
66 ACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTCCACAGAGCTTCAATACTGATGCT
27916248 GTTTGTTTCTATAGAAACTAGACTCAGAGAGAAATCTATCCATATATGGTATGACTCCTAATTGT
131 GTTTGTTTCTATAGAAACTAGACTCAGAGAGAAATCTATCCATATATGGTATGACTCCTAATTGT
27916313 CTCTGGTTAAT
196 CTCTGGTTAAT
27916324 TTATAATGAA
Statistics
Matches: 205, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 205 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (207 bp):
TAGAATTTTTGATAGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACAGGGATCG
ACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTCCACAGAGCTTCAATACTGATGCT
GTTTGTTTCTATAGAAACTAGACTCAGAGAGAAATCTATCCATATATGGTATGACTCCTAATTGT
CTCTGGTTAATC
Found at i:27916810 original size:72 final size:72
Alignment explanation
Indices: 27916693--27916835 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 72
27916683 TTAGAAGCTG
27916693 AATAAATTATTTAATTAAAGATTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAAG
1 AATAAATTATTTAATTAAAGATTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAAG
27916758 AATTGCA
66 AATTGCA
**
27916765 AATAAATTATTTAATTAAATCTTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAAG
1 AATAAATTATTTAATTAAAGATTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAAG
27916830 AATTGC
66 AATTGC
27916836 TGATAATGAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (72 bp):
AATAAATTATTTAATTAAAGATTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAAG
AATTGCA
Found at i:27918999 original size:57 final size:57
Alignment explanation
Indices: 27918074--27918985 Score: 1779
Period size: 57 Copynumber: 16.0 Consensus size: 57
27918064 AAGTGAACAT
* * *
27918074 AGGCACTGTGTGTGTGAGTTCCGTAATCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918131 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918188 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918245 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918302 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918359 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918416 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918473 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918530 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918587 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918644 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918701 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918758 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918815 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918872 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
27918929 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
27918986 GGGAACTAAG
Statistics
Matches: 850, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 850 1.00
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.28
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:27921137 original size:21 final size:20
Alignment explanation
Indices: 27921100--27921138 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27921090 AAATAGATGA
*
27921100 ATATTCTGAAGGCATGATTC
1 ATATTCTGAAGACATGATTC
*
27921120 ATATTCTAGAAGATATGAT
1 ATATTCT-GAAGACATGAT
27921139 ACAGAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (20 bp):
ATATTCTGAAGACATGATTC
Found at i:27923974 original size:28 final size:28
Alignment explanation
Indices: 27923937--27924043 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
27923927 GCAATCAAAT
*
27923937 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
27923965 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
27923993 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
27924021 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
27924044 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Done.