Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 164 of 195
Found at i:27272957 original size:29 final size:28
Alignment explanation
Indices: 27272925--27272985 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
27272915 TATTTTTATT
** *
27272925 CAAAAATCGATAAAGTAAAAGTATAATGA
1 CAAAAATAAATAAAGTAAAAG-ACAATGA
* *
27272954 CAAAATTAAATAAAGTCAAAGACAATGA
1 CAAAAATAAATAAAGTAAAAGACAATGA
27272982 CAAA
1 CAAA
27272986 TGAAAACTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.61, C:0.10, G:0.11, T:0.18
Consensus pattern (28 bp):
CAAAAATAAATAAAGTAAAAGACAATGA
Found at i:27277004 original size:15 final size:16
Alignment explanation
Indices: 27276973--27277005 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27276963 CACTCGTCAG
27276973 TATTAGAAAACTTTTT
1 TATTAGAAAACTTTTT
*
27276989 TATTGGAAAA-TTTTT
1 TATTAGAAAACTTTTT
27277004 TA
1 TA
27277006 GTATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (16 bp):
TATTAGAAAACTTTTT
Found at i:27279126 original size:2 final size:2
Alignment explanation
Indices: 27279121--27279145 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27279111 TTTTTATGTG
27279121 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
27279146 CATTTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27280188 original size:95 final size:95
Alignment explanation
Indices: 27280010--27280189 Score: 229
Period size: 95 Copynumber: 1.9 Consensus size: 95
27280000 TAATTCAATC
* * * *
27280010 AAATTATTGGAAGATTTAAATATTTAAATTAAGTTTTACTAAACTATTGAAAGACTTAATAAAAT
1 AAATTATTGGAAGATTTAAATATTCAAATTAAATCTTACCAAACTATTGAAAGACTTAATAAAAT
**
27280075 TTTATGACAATTAAAATTTTCAATTCTACT
66 TTTATGACAAAAAAAATTTTCAATTCTACT
* * * * *
27280105 AAATTATTGGATGATTTAAATCTTCAAATTAAATCTTACCAAACTATT-AGAGTACTTAATGAAT
1 AAATTATTGGAAGATTTAAATATTCAAATTAAATCTTACCAAACTATTGAAAG-ACTTAATAAAA
27280169 TTTTATGA-AAAAAATAATTTT
65 TTTTATGACAAAAAA-AATTTT
27280190 TTTCAATTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
94 7 0.10
95 65 0.90
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (95 bp):
AAATTATTGGAAGATTTAAATATTCAAATTAAATCTTACCAAACTATTGAAAGACTTAATAAAAT
TTTATGACAAAAAAAATTTTCAATTCTACT
Found at i:27280335 original size:22 final size:19
Alignment explanation
Indices: 27280309--27280358 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 19
27280299 ATAAAATCCC
27280309 ATCAAACTATTAAAGTATATGT
1 ATCAAACTATTAAA--ATAT-T
27280331 ATCAAA--A-TAAAATATT
1 ATCAAACTATTAAAATATT
27280347 ATCAAACTATTA
1 ATCAAACTATTA
27280359 GAGGATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 7 0.28
17 4 0.16
18 1 0.04
19 6 0.24
20 1 0.04
22 6 0.24
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (19 bp):
ATCAAACTATTAAAATATT
Found at i:27285206 original size:23 final size:23
Alignment explanation
Indices: 27285164--27285214 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
27285154 TAAGCATTAA
* *
27285164 AATGATGCATAGAATGAAATGAT
1 AATGATGCATAAAATAAAATGAT
*
27285187 AATGATGTATAAAATAAAATGAT
1 AATGATGCATAAAATAAAATGAT
27285210 -ATGAT
1 AATGAT
27285215 AATATGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.51, C:0.02, G:0.18, T:0.29
Consensus pattern (23 bp):
AATGATGCATAAAATAAAATGAT
Found at i:27286850 original size:25 final size:27
Alignment explanation
Indices: 27286788--27286850 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 27
27286778 AATTTAGACA
*
27286788 AAATTTC-TCACTTAAGAATTTTATAG
1 AAATTTCATCATTTAAGAATTTTATAG
* *
27286814 AAATTT-ACCATTTAA-AATTTT-TAT
1 AAATTTCATCATTTAAGAATTTTATAG
27286838 AAATTTCATCATT
1 AAATTTCATCATT
27286851 GGATAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 8 0.26
25 11 0.35
26 12 0.39
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (27 bp):
AAATTTCATCATTTAAGAATTTTATAG
Found at i:27287751 original size:15 final size:15
Alignment explanation
Indices: 27287731--27287806 Score: 68
Period size: 15 Copynumber: 4.9 Consensus size: 15
27287721 ATTATCTTAA
27287731 AATAAAATAAATAAT
1 AATAAAATAAATAAT
*
27287746 AATAAAAGAAATCAA-
1 AATAAAATAAAT-AAT
*
27287761 AATAAAAATCAGAATAAA
1 AAT-AAAAT-A-AATAAT
27287779 AATAAAATAAA-AAT
1 AATAAAATAAATAAT
27287793 AA-ATAAATAAATAA
1 AATA-AAATAAATAA
27287807 ACAGTTGAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
13 1 0.02
14 11 0.22
15 18 0.35
16 7 0.14
17 8 0.16
18 6 0.12
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (15 bp):
AATAAAATAAATAAT
Found at i:27287763 original size:6 final size:6
Alignment explanation
Indices: 27287729--27287795 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
27287719 CTATTATCTT
* * * *
27287729 AAAAT- AAAATA AATAATA ATAAA-A GAAATC AAAATA AAAATC AGAATA
1 AAAATA AAAATA AA-AATA A-AAATA AAAATA AAAATA AAAATA AAAATA
27287777 AAAAT- AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AA
27287796 TAAATAAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
5 13 0.27
6 28 0.57
7 7 0.14
8 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:27287771 original size:12 final size:11
Alignment explanation
Indices: 27287729--27287799 Score: 74
Period size: 12 Copynumber: 6.2 Consensus size: 11
27287719 CTATTATCTT
27287729 AAAATAAAATA
1 AAAATAAAATA
27287740 AATAATAATAA-A
1 AA-AATAA-AATA
27287752 AGAAATCAAAATA
1 A-AAAT-AAAATA
*
27287765 AAAATCAGAATA
1 AAAAT-AAAATA
27287777 AAAATAAAATA
1 AAAATAAAATA
27287788 AAAAT-AAATA
1 AAAATAAAATA
27287798 AA
1 AA
27287800 TAAATAAACA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
10 7 0.13
11 12 0.23
12 27 0.51
13 7 0.13
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:27291800 original size:13 final size:14
Alignment explanation
Indices: 27291784--27291821 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
27291774 TGAAAAAACA
27291784 ATTAAAAAAT-TTT
1 ATTAAAAAATATTT
27291797 ATTAAAAAATATTT
1 ATTAAAAAATATTT
27291811 -TTAAAAAATAT
1 ATTAAAAAATAT
27291822 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 21 0.88
14 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTAAAAAATATTT
Found at i:27293425 original size:22 final size:22
Alignment explanation
Indices: 27293400--27293444 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
27293390 ATATTATTTA
*
27293400 ATCTAATCTTAT-TTATAATATT
1 ATCTAATCATATCTTAT-ATATT
*
27293422 ATCTTATCATATCTTATATATT
1 ATCTAATCATATCTTATATATT
27293444 A
1 A
27293445 AACATGATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (22 bp):
ATCTAATCATATCTTATATATT
Found at i:27295432 original size:53 final size:54
Alignment explanation
Indices: 27295375--27295479 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
27295365 GTTTTAATGC
** * *
27295375 AAGAAATAGAGGTGCTA-GGGCATATTGAGTGCGTTGGCATAGAGCCTTAACTT
1 AAGAAATAGAGGTGCTACAAGCACATTGAGTGCGTTGGCATAAAGCCTTAACTT
* *
27295428 AAGAAATAGAGGTGCTACAAGCACGTTGAGTGTGTTGGCATAAAGCCTTAAC
1 AAGAAATAGAGGTGCTACAAGCACATTGAGTGCGTTGGCATAAAGCCTTAAC
27295480 ACAAAAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
53 17 0.38
54 28 0.62
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (54 bp):
AAGAAATAGAGGTGCTACAAGCACATTGAGTGCGTTGGCATAAAGCCTTAACTT
Found at i:27298349 original size:12 final size:12
Alignment explanation
Indices: 27298334--27298363 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27298324 ATTGAAGTAA
27298334 TTTTTCATTAAT
1 TTTTTCATTAAT
*
27298346 TTTTTCATTGAT
1 TTTTTCATTAAT
27298358 TTTTTC
1 TTTTTC
27298364 CCTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTTCATTAAT
Found at i:27298410 original size:20 final size:22
Alignment explanation
Indices: 27298369--27298416 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
27298359 TTTTCCCTAA
27298369 AAAAAGTCAATAGCTTTTTGTCC
1 AAAAAGTCAATAGC-TTTTGTCC
*
27298392 AAAAA-TCAATAGC-TTTGTCT
1 AAAAAGTCAATAGCTTTTGTCC
27298412 AAAAA
1 AAAAA
27298417 CTTTTCTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 11 0.46
22 8 0.33
23 5 0.21
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (22 bp):
AAAAAGTCAATAGCTTTTGTCC
Found at i:27299872 original size:15 final size:15
Alignment explanation
Indices: 27299827--27299874 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
27299817 AAAAAAAATG
* *
27299827 TATATAGTTCACAAT
1 TATACAGTTCATAAT
*
27299842 TATACTGTTGCATAAT
1 TATACAGTT-CATAAT
27299858 TATACAGTTCATAAT
1 TATACAGTTCATAAT
27299873 TA
1 TA
27299875 CATGCAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (15 bp):
TATACAGTTCATAAT
Found at i:27300172 original size:85 final size:85
Alignment explanation
Indices: 27300029--27300199 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
27300019 TTCAATATCC
*
27300029 TAGTAGTTGAAAAGTTAGAAAATTTTAATATTTTTATAAACAAACTATCATTGAATTCCATCTAC
1 TAGTAGTTGAAAAATTAGAAAATTTTAATATTTTTATAAACAAACTATCATTGAATTCCATCTAC
*
27300094 CTATGGAAATCTTATTTTAA
66 CTATCGAAATCTTATTTTAA
*
27300114 TAGTAGTTGAAAAATTAGAAAATTTTAATATTTTTATACACAAACTATCATTGAATTCCATCTAC
1 TAGTAGTTGAAAAATTAGAAAATTTTAATATTTTTATAAACAAACTATCATTGAATTCCATCTAC
27300179 CTATCGAAATCTTATTTTAA
66 CTATCGAAATCTTATTTTAA
27300199 T
1 T
27300200 GCTGTACCTC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (85 bp):
TAGTAGTTGAAAAATTAGAAAATTTTAATATTTTTATAAACAAACTATCATTGAATTCCATCTAC
CTATCGAAATCTTATTTTAA
Found at i:27300954 original size:303 final size:303
Alignment explanation
Indices: 27300407--27301230 Score: 1418
Period size: 303 Copynumber: 2.7 Consensus size: 303
27300397 TTTTTATCGG
* * * * * *
27300407 TCTTTATTGGATATAAGAATTTGTTATTCATGTACATGGAGTGACTCTATTCTCTCATCTATCTT
1 TCTTTATTGGATATAGGAATTTGTCATTCTTGTACATAGAGTGACTCTACTCTCTTATCTATCTT
27300472 ATCAATACCCTTTGATTATTCTTTGAAATTAAATTTTGATAATGATTTATTTGAATAACTTTATA
66 ATCAATACCCTTTGATTATTCTTTGAAATTAAATTTTGATAATGATTTATTTGAATAACTTTATA
* ** * *
27300537 AAATTTAGAGTGTATTTATTCATAGATTGAGCAATTTGACCTAGTCTGACAAGTGAAGTTTTAGA
131 AAATTTAGAGTGTATTTATTCATAAATTGAGCAGCTTGACCTGGTCCGACAAGTGAAGTTTTAGA
* * * *
27300602 CATAATTTTTAAGCTACAATCAACTGAGTGTGTTTGGTCAAACTTTAGAAATATTGAGATTGTTA
196 CATAACTTTTAAGTTCCAATCAACTGAGTGTGTTTGGTCAAACTTTAGAAATATTGAGATTGGTA
27300667 ATTTTGAACTTTTCTTCATGGTAGTTTGCTTTTTCTCCTTCGC
261 ATTTTGAACTTTTCTTCATGGTAGTTTGCTTTTTCTCCTTCGC
27300710 TCTTTATTGGATATAGGAATTTGTCATTCTTGTACATAGAGTGACTCTACTCTCTTATCTATCTT
1 TCTTTATTGGATATAGGAATTTGTCATTCTTGTACATAGAGTGACTCTACTCTCTTATCTATCTT
27300775 ATCAATACCCTTTGATTATTCTTTGAAATTAAATTTTGATAATGATTTATTTGAATAACTTTATA
66 ATCAATACCCTTTGATTATTCTTTGAAATTAAATTTTGATAATGATTTATTTGAATAACTTTATA
27300840 AAATTTAGAGTGTATTTATTCATAAATTGAGCAGCTTGACCTGGTCCGACAAGTGAAGTTTTAGA
131 AAATTTAGAGTGTATTTATTCATAAATTGAGCAGCTTGACCTGGTCCGACAAGTGAAGTTTTAGA
27300905 CATAACTTTTAAGTTCCAATCAACTGAGTGTGTTTGGTCAAACTTTAGAAATATTGAGATTGGTA
196 CATAACTTTTAAGTTCCAATCAACTGAGTGTGTTTGGTCAAACTTTAGAAATATTGAGATTGGTA
27300970 ATTTTGAACTTTTCTTCATGGTAGTTTGCTTTTTCTCCTTCGC
261 ATTTTGAACTTTTCTTCATGGTAGTTTGCTTTTTCTCCTTCGC
* * * *
27301013 TCTTTATTGGATATAGGAATTTGTCATTCTTGTACATAGAGTGACTTTGCTCT-TTCGTCGATCT
1 TCTTTATTGGATATAGGAATTTGTCATTCTTGTACATAGAGTGACTCTACTCTCTT-ATCTATCT
27301077 TATCAATACCCTTT-AGTTATTCTTTGAAATTAAATTTTGATAATGATTTATTTGAATAACTTTA
65 TATCAATACCCTTTGA-TTATTCTTTGAAATTAAATTTTGATAATGATTTATTTGAATAACTTTA
* * *
27301141 TAAAATTTGGAGTGCACTTATTCATAAATTGAGCAGCTTGACCTGGTCCGACAAGTGAAGTTTTA
129 TAAAATTTAGAGTGTATTTATTCATAAATTGAGCAGCTTGACCTGGTCCGACAAGTGAAGTTTTA
27301206 GACATAACTTTTAAGTTCCAATCAA
194 GACATAACTTTTAAGTTCCAATCAA
27301231 GTTTGAATAT
Statistics
Matches: 497, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
302 3 0.01
303 494 0.99
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (303 bp):
TCTTTATTGGATATAGGAATTTGTCATTCTTGTACATAGAGTGACTCTACTCTCTTATCTATCTT
ATCAATACCCTTTGATTATTCTTTGAAATTAAATTTTGATAATGATTTATTTGAATAACTTTATA
AAATTTAGAGTGTATTTATTCATAAATTGAGCAGCTTGACCTGGTCCGACAAGTGAAGTTTTAGA
CATAACTTTTAAGTTCCAATCAACTGAGTGTGTTTGGTCAAACTTTAGAAATATTGAGATTGGTA
ATTTTGAACTTTTCTTCATGGTAGTTTGCTTTTTCTCCTTCGC
Found at i:27308169 original size:32 final size:32
Alignment explanation
Indices: 27308106--27308170 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
27308096 TGTTTGGTAG
* *
27308106 TACTTAATTCGAAATTTAAATCCTCCCATCAT
1 TACTTAATTCGAAATTTAAATACTCCAATCAT
* * *
27308138 TACTTATTTTGAAATTTAAATATTCCAATCAT
1 TACTTAATTCGAAATTTAAATACTCCAATCAT
27308170 T
1 T
27308171 TGGTAAGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.43
Consensus pattern (32 bp):
TACTTAATTCGAAATTTAAATACTCCAATCAT
Found at i:27308835 original size:13 final size:13
Alignment explanation
Indices: 27308819--27308857 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
27308809 TTAGTTTTTA
*
27308819 ATTTTTATATATT
1 ATTTTAATATATT
**
27308832 ATTTTAATATAAA
1 ATTTTAATATATT
27308845 ATTTTAATATATT
1 ATTTTAATATATT
27308858 TAAGTATTGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:27309418 original size:19 final size:20
Alignment explanation
Indices: 27309394--27309434 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
27309384 ATCTTGCCAA
**
27309394 AATTTTCATCAAATT-CTAG
1 AATTTTCAAAAAATTCCTAG
27309413 AATTTTCAAAAAATTCCTAG
1 AATTTTCAAAAAATTCCTAG
27309433 AA
1 AA
27309435 AAAAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (20 bp):
AATTTTCAAAAAATTCCTAG
Found at i:27310014 original size:35 final size:34
Alignment explanation
Indices: 27309909--27310029 Score: 101
Period size: 35 Copynumber: 3.6 Consensus size: 34
27309899 AAAAATGATG
*
27309909 ATAAAAATAAA-ATAAAATAAAATAATAACA-ATAAA
1 ATAAAAATAAAGAT-AAATAAAA-ATTAA-ATATAAA
* *
27309944 AGTAAAAA-AGAGATAAAT--AAATTAAGTA-AAGA
1 A-TAAAAATAAAGATAAATAAAAATTAAATATAA-A
27309976 ATAAAAATAAAGATAAATACAAAATTAAATATAAA
1 ATAAAAATAAAGATAAATA-AAAATTAAATATAAA
* *
27310011 ATAAATATCAAGATAAATA
1 ATAAAAATAAAGATAAATA
27310030 TAGGAAATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
31 8 0.11
32 16 0.23
33 2 0.03
35 34 0.49
36 10 0.14
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.21
Consensus pattern (34 bp):
ATAAAAATAAAGATAAATAAAAATTAAATATAAA
Found at i:27310027 original size:23 final size:22
Alignment explanation
Indices: 27309975--27310040 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 22
27309965 TTAAGTAAAG
*
27309975 AATAAAAATAAAGATAAATACAA
1 AATAAATATAAA-ATAAATACAA
27309998 AATTAAATATAAAATAAATATCAA
1 AA-TAAATATAAAATAAATA-CAA
*
27310022 GATAAATATAGGAAATAAA
1 AATAAATATA--AAATAAA
27310041 AAATATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
23 17 0.46
24 13 0.35
25 7 0.19
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (22 bp):
AATAAATATAAAATAAATACAA
Found at i:27310030 original size:12 final size:12
Alignment explanation
Indices: 27309975--27310030 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
27309965 TTAAGTAAAG
*
27309975 AATAAAAAT-AA
1 AATAAATATCAA
27309986 AGATAAATA-CAA
1 A-ATAAATATCAA
27309998 AATTAAATAT-AA
1 AA-TAAATATCAA
27310010 AATAAATATCAA
1 AATAAATATCAA
*
27310022 GATAAATAT
1 AATAAATAT
27310031 AGGAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 9 0.24
12 29 0.76
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (12 bp):
AATAAATATCAA
Found at i:27310693 original size:32 final size:32
Alignment explanation
Indices: 27310656--27310760 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 32
27310646 AACCATAAGT
*
27310656 TAGAAAATTAAATGACCTGAATTGAACCGAGG
1 TAGAAAATTAAATGACCTGAATTGAACAGAGG
* * * *
27310688 TAGAAAA-TAAGTGATC-GAGATTGAACTGTAAGT
1 TAGAAAATTAAATGACCTGA-ATTGAACAG--AGG
* *
27310721 TAGAAAATTAAATGACCTGGATTGAATAGAGG
1 TAGAAAATTAAATGACCTGAATTGAACAGAGG
*
27310753 TAAAAAAT
1 TAGAAAAT
27310761 AAGTGACTAG
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
30 2 0.04
31 15 0.26
32 16 0.28
33 9 0.16
34 14 0.25
35 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.25
Consensus pattern (32 bp):
TAGAAAATTAAATGACCTGAATTGAACAGAGG
Found at i:27310753 original size:65 final size:64
Alignment explanation
Indices: 27310641--27310940 Score: 266
Period size: 65 Copynumber: 4.7 Consensus size: 64
27310631 GAAGTAATTG
** * * ** * *
27310641 GACTGAACCATAAGTTAGAAAATTAAATGACCTGAATTGAACCGAGGTAGAAAATAAGTGATCGA
1 GACTGAACTGTAAGTTAGAAAATTAAATGACCTGGACTGAATAGAGGTAAAAAATAAGTGA-CTA
* *
27310706 GATTGAACTGTAAGTTAGAAAATTAAATGACCTGGATTGAATAGAGGTAAAAAATAAGTGACTA
1 GACTGAACTGTAAGTTAGAAAATTAAATGACCTGGACTGAATAGAGGTAAAAAATAAGTGACTA
* ** * * * *
27310770 GGACTAAAC-ACAAGTCAAAAAATTAAATGACCTGGACTAAATCGAGGTAAAAAATAAG-GACAT
1 -GACTGAACTGTAAGTTAGAAAATTAAATGACCTGGACTGAATAGAGGTAAAAAATAAGTGAC-T
27310833 A
64 A
* * * * * * * *
27310834 AACTGAA-TCGCAAGTTAAAAAATTAAATAACTTGGACTGAATTA-AGATATAAAATAAATGACC
1 GACTGAACT-GTAAGTTAGAAAATTAAATGACCTGGACTGAA-TAGAGGTAAAAAATAAGTGA-C
*
27310897 AA
63 TA
* *
27310899 GACTGAACCGTAAGTCAGAAAATTAAATGACCTGGACTGAAT
1 GACTGAACTGTAAGTTAGAAAATTAAATGACCTGGACTGAAT
27310941 CAAAGTTGAA
Statistics
Matches: 191, Mismatches: 36, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
63 8 0.04
64 85 0.45
65 97 0.51
66 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (64 bp):
GACTGAACTGTAAGTTAGAAAATTAAATGACCTGGACTGAATAGAGGTAAAAAATAAGTGACTA
Found at i:27310807 original size:33 final size:32
Alignment explanation
Indices: 27310724--27310810 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 32
27310714 TGTAAGTTAG
* * * * *
27310724 AAAATTAAATGACCTGGATTGAATAGAGGTAA
1 AAAATTAAATGACCTGGACTAAACACAAGTAA
*
27310756 AAAA-TAAGTGA-CTAGGACTAAACACAAGTCAA
1 AAAATTAAATGACCT-GGACTAAACACAAGT-AA
27310788 AAAATTAAATGACCTGGACTAAA
1 AAAATTAAATGACCTGGACTAAA
27310811 TCGAGGTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
30 2 0.05
31 16 0.36
32 10 0.23
33 14 0.32
34 2 0.05
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (32 bp):
AAAATTAAATGACCTGGACTAAACACAAGTAA
Found at i:27310817 original size:64 final size:62
Alignment explanation
Indices: 27310659--27310941 Score: 226
Period size: 64 Copynumber: 4.4 Consensus size: 62
27310649 CATAAGTTAG
* * * * * * * * * *
27310659 AAAATTAAATGACCTGAATTGAACCGAGGTAGAAAATAAGTGATCGAGATTGAACTGTAAGTTAG
1 AAAATTAAATGACCTGGACTGAATCGAGGTAAAAAATAAGTGA-CTAGACTAAAC--CAAGTCAA
* *
27310724 AAAATTAAATGACCTGGATTGAATAGAGGTAAAAAATAAGTGACTAGGACTAAACACAAGTCAA
1 AAAATTAAATGACCTGGACTGAATCGAGGTAAAAAATAAGTGACTA-GACTAAAC-CAAGTCAA
* * * *
27310788 AAAATTAAATGACCTGGACTAAATCGAGGTAAAAAATAAG-GACATAAACTGAATCGCAAGTTAA
1 AAAATTAAATGACCTGGACTGAATCGAGGTAAAAAATAAGTGAC-TAGACT-AAAC-CAAGTCAA
* * ** * * * * * *
27310852 AAAATTAAATAACTTGGACTGAATTAAGATATAAAATAAATGACCAAGACTGAACCGTAAGTCAG
1 AAAATTAAATGACCTGGACTGAATCGAGGTAAAAAATAAGTGA-CTAGACTAAACC--AAGTCAA
27310917 AAAATTAAATGACCTGGACTGAATC
1 AAAATTAAATGACCTGGACTGAATC
27310942 AAAGTTGAAA
Statistics
Matches: 176, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
63 7 0.04
64 90 0.51
65 78 0.44
66 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (62 bp):
AAAATTAAATGACCTGGACTGAATCGAGGTAAAAAATAAGTGACTAGACTAAACCAAGTCAA
Found at i:27310823 original size:33 final size:32
Alignment explanation
Indices: 27310724--27310824 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 32
27310714 TGTAAGTTAG
* * *
27310724 AAAATTAAATGACCTGGATTGAATAGAGGTAA
1 AAAATTAAATGACCTGGACTAAATCGAGGTAA
* * *
27310756 AAAA-TAAGTGA-CTAGGACTAAA-CACAAGTCAA
1 AAAATTAAATGACCT-GGACTAAATC-GAGGT-AA
27310788 AAAATTAAATGACCTGGACTAAATCGAGGTAA
1 AAAATTAAATGACCTGGACTAAATCGAGGTAA
27310820 AAAAT
1 AAAAT
27310825 AAGGACATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
30 2 0.04
31 15 0.28
32 17 0.31
33 17 0.31
34 3 0.06
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (32 bp):
AAAATTAAATGACCTGGACTAAATCGAGGTAA
Found at i:27310953 original size:129 final size:129
Alignment explanation
Indices: 27310641--27310941 Score: 324
Period size: 129 Copynumber: 2.3 Consensus size: 129
27310631 GAAGTAATTG
* * * *
27310641 GACTGAACCATAAGTTAGAAAATTAAATGACCTGAATTGAACCGAGGTAGAAAATAAGTGATCGA
1 GACTGAACC-TAAGTCAGAAAATTAAATGACCTGGACTGAATCGAGGTAGAAAATAAGTGATCGA
* * * * * * * * * *
27310706 GATTGAACTGTAAGTTAGAAAATTAAATGACCTGGATTGAATAGAGGTAAAAAATAAGTGACTAG
65 AACTGAACTGCAAGTTAAAAAATTAAATAACCTGGACTGAATAGAGATAAAAAATAAATGACCAA
* * * * *
27310771 GACTAAACAC-AAGTCAAAAAATTAAATGACCTGGACTAAATCGAGGTAAAAAATAAG-GA-CAT
1 GACTGAAC-CTAAGTCAGAAAATTAAATGACCTGGACTGAATCGAGGTAGAAAATAAGTGATC-G
* *
27310833 AAACTGAA-TCGCAAGTTAAAAAATTAAATAACTTGGACTGAATTA-AGATATAAAATAAATGAC
64 AAACTGAACT-GCAAGTTAAAAAATTAAATAACCTGGACTGAA-TAGAGATAAAAAATAAATGAC
27310896 CAA
127 CAA
27310899 GACTGAACCGTAAGTCAGAAAATTAAATGACCTGGACTGAATC
1 GACTGAACC-TAAGTCAGAAAATTAAATGACCTGGACTGAATC
27310942 AAAGTTGAAA
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
127 3 0.02
128 58 0.41
129 72 0.51
130 7 0.05
131 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (129 bp):
GACTGAACCTAAGTCAGAAAATTAAATGACCTGGACTGAATCGAGGTAGAAAATAAGTGATCGAA
ACTGAACTGCAAGTTAAAAAATTAAATAACCTGGACTGAATAGAGATAAAAAATAAATGACCAA
Found at i:27312053 original size:26 final size:26
Alignment explanation
Indices: 27312003--27312051 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
27311993 ACTTAATTTT
*
27312003 TTCTTTTCCTTTCTTTCCATTTTTCA
1 TTCTCTTCCTTTCTTTCCATTTTTCA
*
27312029 TTCTCTTCTTTTCTTT-CATTTTT
1 TTCTCTTCCTTTCTTTCCATTTTT
27312052 TCTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.69
Consensus pattern (26 bp):
TTCTCTTCCTTTCTTTCCATTTTTCA
Found at i:27312054 original size:22 final size:23
Alignment explanation
Indices: 27311998--27312064 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 23
27311988 TTTCAACTTA
* *
27311998 ATTTTTTCTTTTCCTTTCTTTCC
1 ATTTTTTCTATTCTTTTCTTTCC
*
27312021 ATTTTTCATTCTCTTCTTTTCTTT-C
1 A-TTTT--TTCTATTCTTTTCTTTCC
*
27312046 ATTTTTTCTATTTTTTTCT
1 ATTTTTTCTATTCTTTTCT
27312065 ATTTTTTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 12 0.32
23 1 0.03
24 8 0.22
25 2 0.05
26 14 0.38
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (23 bp):
ATTTTTTCTATTCTTTTCTTTCC
Found at i:27312060 original size:10 final size:10
Alignment explanation
Indices: 27312047--27312071 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27312037 TTTTCTTTCA
27312047 TTTTTTCTAT
1 TTTTTTCTAT
27312057 TTTTTTCTAT
1 TTTTTTCTAT
27312067 TTTTT
1 TTTTT
27312072 GGCTTTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTAT
Found at i:27312063 original size:18 final size:17
Alignment explanation
Indices: 27312022--27312071 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
27312012 TTTCTTTCCA
*
27312022 TTTTTCATTCTCTTCTTT
1 TTTTTCATT-TTTTCTTT
*
27312040 TCTTTCATTTTTTCTATT
1 TTTTTCATTTTTTCT-TT
27312058 TTTTTCTATTTTTT
1 TTTTTC-ATTTTTT
27312072 GGCTTTATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.19
18 15 0.56
19 7 0.26
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTTTCTTT
Found at i:27313716 original size:13 final size:14
Alignment explanation
Indices: 27313685--27313726 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
27313675 CATGCCTAGA
27313685 TCATGCTAAAATAT
1 TCATGCTAAAATAT
*
27313699 TCATGCTAGAAT-T
1 TCATGCTAAAATAT
27313712 TCATGC-AAATATAT
1 TCATGCTAAA-ATAT
27313726 T
1 T
27313727 AATTATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 2 0.08
13 9 0.38
14 13 0.54
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (14 bp):
TCATGCTAAAATAT
Found at i:27313737 original size:20 final size:19
Alignment explanation
Indices: 27313708--27313787 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 19
27313698 TTCATGCTAG
27313708 AATT-TCATGCAAATATATT
1 AATTATCATGCAAATATA-T
27313727 AATTATCATGC-AATA-AT
1 AATTATCATGCAAATATAT
*
27313744 AATCAT-AT--AAATATAT
1 AATTATCATGCAAATATAT
27313760 AA-TATCATGCAAATATATT
1 AATTATCATGCAAATATA-T
*
27313779 AATAATCAT
1 AATTATCAT
27313788 TCATACAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
15 6 0.12
16 8 0.16
17 6 0.12
18 8 0.16
19 11 0.22
20 11 0.22
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (19 bp):
AATTATCATGCAAATATAT
Found at i:27313791 original size:24 final size:24
Alignment explanation
Indices: 27313711--27313801 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 24
27313701 ATGCTAGAAT
*
27313711 TTCATGCAAATATATTAATTATCA
1 TTCATGCAAATATATTAATAATCA
* * * *
27313735 TGCAAT-AATAATCATATAAATATATAA
1 TTC-ATGCA-AAT-ATATTAATA-ATCA
27313762 TATCATGCAAATATATTAATAATCA
1 T-TCATGCAAATATATTAATAATCA
*
27313787 TTCATACAAATATAT
1 TTCATGCAAATATAT
27313802 AATCATGAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
24 16 0.31
25 9 0.18
26 15 0.29
27 9 0.18
28 2 0.04
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (24 bp):
TTCATGCAAATATATTAATAATCA
Found at i:27313972 original size:18 final size:19
Alignment explanation
Indices: 27313935--27313973 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
27313925 ACAATATCAT
*
27313935 ATCATGCAATAAATATAAA
1 ATCATGCAATAAATAAAAA
27313954 ATCATGCAAT-AATAAAAA
1 ATCATGCAATAAATAAAAA
27313972 AT
1 AT
27313974 AAATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (19 bp):
ATCATGCAATAAATAAAAA
Found at i:27314098 original size:33 final size:32
Alignment explanation
Indices: 27314061--27314153 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 32
27314051 AATATGTAAT
27314061 CATGCAATTAACAATATAAATTATGCAAATAAA
1 CATGCAATTAA-AATATAAATTATGCAAATAAA
*
27314094 CATGCAATTAAATATATAAATCATGCAAATAAA
1 CATGCAATTAAA-ATATAAATTATGCAAATAAA
* *
27314127 TATACAATT-AAATATATAATTATGCAA
1 CATGCAATTAAAATATA-AATTATGCAA
27314154 TCACACAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
31 5 0.09
32 12 0.22
33 37 0.69
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (32 bp):
CATGCAATTAAAATATAAATTATGCAAATAAA
Found at i:27314120 original size:21 final size:20
Alignment explanation
Indices: 27314089--27314130 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
27314079 AATTATGCAA
*
27314089 ATAAACATGCAATTAAATAT
1 ATAAACATGCAAATAAATAT
27314109 ATAAATCATGCAAATAAATAT
1 ATAAA-CATGCAAATAAATAT
27314130 A
1 A
27314131 CAATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (20 bp):
ATAAACATGCAAATAAATAT
Found at i:27314152 original size:53 final size:53
Alignment explanation
Indices: 27313935--27314154 Score: 147
Period size: 53 Copynumber: 4.2 Consensus size: 53
27313925 ACAATATCAT
* * *
27313935 ATCATGCAA-TAAATATAAAATCATGC-AATAATAA-A-AAA-TAAATAAATA
1 ATCATGCAATTAAATATATAATCATGCAAATAACAATATAAATTAAACAAATA
* * **
27313983 A-CTATGCAAATAAATAAATTAATAATCATAC-AATCACACAA-ATAAA-TAAATTAATA
1 ATC-ATGCAATTAAAT--A-T-ATAATCATGCAAAT-A-ACAATATAAATTAAACAAATA
* * **
27314039 ATCATGCAATTAAATATGTAATCATGCAATTAACAATATAAATTATGCAAATA
1 ATCATGCAATTAAATATATAATCATGCAAATAACAATATAAATTAAACAAATA
* * *
27314092 AACATGCAATTAAATATATAAATCATGCAAAT-A-AATATACAATTAAATATATA
1 ATCATGCAATTAAATATAT-AATCATGCAAATAACAATATA-AATTAAACAAATA
*
27314145 ATTATGCAAT
1 ATCATGCAAT
27314155 CACACAAATA
Statistics
Matches: 136, Mismatches: 21, Indels: 25
0.75 0.12 0.14
Matches are distributed among these distances:
47 1 0.01
48 7 0.05
49 5 0.04
51 5 0.04
52 21 0.15
53 55 0.40
54 13 0.10
55 4 0.03
56 24 0.18
57 1 0.01
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (53 bp):
ATCATGCAATTAAATATATAATCATGCAAATAACAATATAAATTAAACAAATA
Found at i:27314169 original size:33 final size:33
Alignment explanation
Indices: 27314065--27314225 Score: 113
Period size: 33 Copynumber: 5.0 Consensus size: 33
27314055 TGTAATCATG
* * *
27314065 CAATTAACA-ATATAAATTATGCAAATAAACATG
1 CAATTAA-ATATATAAATCATGCAAATAAAAATA
*
27314098 CAATTAAATATATAAATCATGCAAATAAATATA
1 CAATTAAATATATAAATCATGCAAATAAAAATA
*
27314131 CAATTAAATATAT-AATTATGC-AATCACACAAATA
1 CAATTAAATATATAAATCATGCAAAT-A-A-AAATA
* * ** * *
27314165 -AATTAATTA-AT-GATCATGC-AATTGACATG
1 CAATTAAATATATAAATCATGCAAATAAAAATA
* *
27314194 CAATTAAATAAAT-AATCATGCAAATAATAATA
1 CAATTAAATATATAAATCATGCAAATAAAAATA
27314226 TATAAATCAT
Statistics
Matches: 102, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
29 3 0.03
30 8 0.08
31 12 0.12
32 25 0.25
33 50 0.49
34 4 0.04
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (33 bp):
CAATTAAATATATAAATCATGCAAATAAAAATA
Found at i:27314257 original size:24 final size:22
Alignment explanation
Indices: 27314190--27314342 Score: 102
Period size: 24 Copynumber: 6.9 Consensus size: 22
27314180 ATGCAATTGA
* *
27314190 CATGCAATTAAATA-AAT-AAT
1 CATGCAAATAAATATATTAAAT
27314210 CATGCAAAT-AATAATATATAAAT
1 CATGCAAATAAAT-ATAT-TAAAT
27314233 CATGCAAATAAATATATTAGCAAT
1 CATGCAAATAAATATATTA--AAT
* * *
27314257 CAAGCAATTAAATACATTAACAAT
1 CATGCAAATAAATATATT-A-AAT
**
27314281 CATGC-AATCAAATA-AAAATAAT
1 CATGCAAAT-AAATATATTA-AAT
* *
27314303 CGTACAAATAAATATATT-AAT
1 CATGCAAATAAATATATTAAAT
*
27314324 CATGCAAACAAATATATTA
1 CATGCAAATAAATATATTA
27314343 GGCAAATAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.03
20 9 0.09
21 19 0.18
22 15 0.14
23 23 0.22
24 34 0.33
25 1 0.01
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.28
Consensus pattern (22 bp):
CATGCAAATAAATATATTAAAT
Found at i:27314353 original size:17 final size:17
Alignment explanation
Indices: 27314322--27314382 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
27314312 AAATATATTA
* *
27314322 ATCATGCAAACAAATAT
1 ATCAGGCAAATAAATAT
*
27314339 ATTAGGCAAATAAAT-T
1 ATCAGGCAAATAAATAT
*
27314355 ATCATGCAAATATAATA-
1 ATCAGGCAAATA-AATAT
*
27314372 ATCATGCAAAT
1 ATCAGGCAAAT
27314383 TCATGCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 11 0.30
17 26 0.70
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (17 bp):
ATCAGGCAAATAAATAT
Found at i:27314404 original size:27 final size:27
Alignment explanation
Indices: 27314356--27314407 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
27314346 AAATAAATTA
* *
27314356 TCATGCAAATATAATAATCATGCAAAT
1 TCATGCAAAAATAATAACCATGCAAAT
27314383 TCATGCAAAAATAA-ATACCATGCAA
1 TCATGCAAAAATAATA-ACCATGCAA
27314408 TAAATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (27 bp):
TCATGCAAAAATAATAACCATGCAAAT
Found at i:27315007 original size:12 final size:12
Alignment explanation
Indices: 27314990--27315019 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27314980 ACTAAAAAAA
27314990 CAAAAATTAAAC
1 CAAAAATTAAAC
27315002 CAAAAATTAAAC
1 CAAAAATTAAAC
*
27315014 TAAAAA
1 CAAAAA
27315020 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:27315022 original size:14 final size:14
Alignment explanation
Indices: 27314991--27315036 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
27314981 CTAAAAAAAC
*
27314991 AAAAATTAAAC--C
1 AAAAATTAAACTAA
27315003 AAAAATTAAACTAA
1 AAAAATTAAACTAA
*
27315017 AAAAATTAAAATACA
1 AAAAATTAAACTA-A
27315032 AAAAA
1 AAAAA
27315037 ATTTAGGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 11 0.38
14 12 0.41
15 6 0.21
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATTAAACTAA
Found at i:27315356 original size:43 final size:43
Alignment explanation
Indices: 27315300--27315645 Score: 254
Period size: 43 Copynumber: 8.1 Consensus size: 43
27315290 TTTTTTTGGC
* * *
27315300 AAAATACTCCCCCAAAATTGAGGCTTTGGAATTTTTGAAAAAT
1 AAAATGCTCCCCCAAAACTGAGGCTTTGGAACTTTTGAAAAAT
* * * *
27315343 -AAATGCTCCCCC-CAATTAAAGCTTTGGAACTTTTG-AAAAT
1 AAAATGCTCCCCCAAAACTGAGGCTTTGGAACTTTTGAAAAAT
* * * * * * *
27315383 GAAATGCTTCCTCACAACTAAGGCTTTGAAAATTTTGAAAAAT
1 AAAATGCTCCCCCAAAACTGAGGCTTTGGAACTTTTGAAAAAT
* * * * *
27315426 AAAATCCTCCCCCATAACTGAGGCATTGAAACTTTTGGAAAAT
1 AAAATGCTCCCCCAAAACTGAGGCTTTGGAACTTTTGAAAAAT
* * ** *
27315469 AAAATACTCCCCTACAAA-TGAGGCTTTATAATTTTTGAAAAAT
1 AAAATGCTCCCCCA-AAACTGAGGCTTTGGAACTTTTGAAAAAT
** * * * *
27315512 AAAATGCTTGCCCATAATTGATGCTTTGGAGC-TTTGAAAAAAT
1 AAAATGCTCCCCCAAAACTGAGGCTTTGGAACTTTTG-AAAAAT
* ** * * * * *
27315555 AAACTGCT-CCTTACAACTGAAGCTTTGGAACTTTAGAGAAGT
1 AAAATGCTCCCCCAAAACTGAGGCTTTGGAACTTTTGAAAAAT
* * *
27315597 AGAATGCTCCCCTAAAACTGAGGCTTTGAAACTTTTGAAAAAT
1 AAAATGCTCCCCCAAAACTGAGGCTTTGGAACTTTTGAAAAAT
*
27315640 CAAATG
1 AAAATG
27315646 AGATCATTCT
Statistics
Matches: 235, Mismatches: 60, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
40 5 0.02
41 29 0.12
42 62 0.26
43 137 0.58
44 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (43 bp):
AAAATGCTCCCCCAAAACTGAGGCTTTGGAACTTTTGAAAAAT
Found at i:27315639 original size:85 final size:83
Alignment explanation
Indices: 27315322--27315645 Score: 244
Period size: 85 Copynumber: 3.8 Consensus size: 83
27315312 CAAAATTGAG
* * ** * * * *
27315322 GCTTTGGAATTTTTGAAAAAT-AAATGCTCCCCCCAATTAAAGCTTTGGAACTTTTG-AAAATGA
1 GCTTTGAAAATTTTGAAAAATAAAATGCTCCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT-A
*
27315385 AATGCTTCCTCACAACT-AA
65 AATGC-TCCTTACAACTGAA
* * *
27315404 GGCTTTGAAAATTTTGAAAAATAAAATCCTCCCCCATAACTGAGGCATTGAAACTTTTGGAAAAT
1 -GCTTTGAAAATTTTGAAAAATAAAATGCT-CCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * *
27315469 AAAATACTCCCCTACAAATGAG
64 -AAATGCT-CCTTACAACTGAA
* * * * * *
27315491 GCTTT-ATAATTTTTGAAAAATAAAATGCTTGCCCATAATTGATGCTTTGGAGC-TTTGAAAAAA
1 GCTTTGA-AAATTTTGAAAAATAAAATGC-TCCCCATAACTGAGGCTTTGAAACTTTTG-AAAAA
27315554 TAAACTGCTCCTTACAACTGAA
63 TAAA-TGCTCCTTACAACTGAA
* * * * * * *
27315576 GCTTTGGAACTTTAGAGAAGTAGAATGCTCCCCTAAAACTGAGGCTTTGAAACTTTTGAAAAATC
1 GCTTTGAAAATTTTGAAAAATAAAATGCTCCCC-ATAACTGAGGCTTTGAAACTTTTGAAAAAT-
27315641 AAATG
64 AAATG
27315646 AGATCATTCT
Statistics
Matches: 187, Mismatches: 41, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
83 19 0.10
84 10 0.05
85 83 0.44
86 73 0.39
87 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (83 bp):
GCTTTGAAAATTTTGAAAAATAAAATGCTCCCCATAACTGAGGCTTTGAAACTTTTGAAAAATAA
ATGCTCCTTACAACTGAA
Found at i:27318062 original size:7 final size:7
Alignment explanation
Indices: 27318050--27318085 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
27318040 AAAGAGGGTA
27318050 AAAAAAG
1 AAAAAAG
27318057 AAAAAAG
1 AAAAAAG
27318064 --AAAAG
1 AAAAAAG
27318069 AAAAAAG
1 AAAAAAG
27318076 -AAAAAG
1 AAAAAAG
27318082 AAAA
1 AAAA
27318086 GGAAAGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.19
6 6 0.23
7 15 0.58
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:27318067 original size:12 final size:13
Alignment explanation
Indices: 27318051--27318085 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
27318041 AAGAGGGTAA
27318051 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
27318064 -AAAAGAAAAAAG
1 AAAAAGAAAAAAG
27318076 AAAAAGAAAA
1 AAAAAGAAAA
27318086 GGAAAGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:27318090 original size:19 final size:19
Alignment explanation
Indices: 27318050--27318086 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
27318040 AAAGAGGGTA
27318050 AAAAAAGAAAAAAGAAAAG
1 AAAAAAGAAAAAAGAAAAG
27318069 AAAAAAG-AAAAAGAAAAG
1 AAAAAAGAAAAAAGAAAAG
27318087 GAAAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAAAGAAAAG
Found at i:27318678 original size:18 final size:17
Alignment explanation
Indices: 27318643--27318719 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 17
27318633 TGGTATTCTC
*
27318643 TTTCTATTTTTCACTTTAT
1 TTTCTA-TTTTGA-TTTAT
27318662 TTTCTATTTTGATTTTATT
1 TTTCTATTTTGA-TTTA-T
27318681 TTTCTTATTTT-ATTTA-
1 TTTC-TATTTTGATTTAT
27318697 TTT-TATTTTG-TTTAT
1 TTTCTATTTTGATTTAT
27318712 TTT-TATTT
1 TTTCTATTT
27318720 ATTCTTATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
14 10 0.19
15 8 0.15
16 3 0.06
18 13 0.25
19 12 0.23
20 6 0.12
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTCTATTTTGATTTAT
Found at i:27318692 original size:14 final size:14
Alignment explanation
Indices: 27318666--27318719 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
27318656 CTTTATTTTC
27318666 TATTTTGATTTTATT
1 TATTTT-ATTTTATT
27318681 T-TTCTTATTTTATT
1 TATT-TTATTTTATT
*
27318695 TATTTTATTTTGTT
1 TATTTTATTTTATT
27318709 TATTTTTATTT
1 TA-TTTTATTT
27318720 ATTCTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:27318720 original size:10 final size:10
Alignment explanation
Indices: 27318647--27318739 Score: 52
Period size: 10 Copynumber: 9.1 Consensus size: 10
27318637 ATTCTCTTTC
27318647 TATTTTTCACTT
1 TATTTTT-A-TT
27318659 TATTTTCTATT
1 TATTTT-TATT
27318670 T-TGATTTTATT
1 TAT--TTTTATT
*
27318681 T-TTCTTATT
1 TATTTTTATT
*
27318690 T-TATTTATT
1 TATTTTTATT
*
27318699 T-TATTTTGTT
1 TAT-TTTTATT
27318709 TATTTTTATT
1 TATTTTTATT
*
27318719 TATTCTTA-T
1 TATTTTTATT
27318728 TATTTCTTATT
1 TATTT-TTATT
27318739 T
1 T
27318740 TAAATTGAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
9 20 0.30
10 23 0.35
11 12 0.18
12 10 0.15
13 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (10 bp):
TATTTTTATT
Found at i:27322628 original size:8 final size:8
Alignment explanation
Indices: 27322591--27322646 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
27322581 AAAAACAATG
27322591 AAAAG-AA
1 AAAAGAAA
*
27322598 AAAGGAAA
1 AAAAGAAA
*
27322606 AAAAGAAT
1 AAAAGAAA
*
27322614 AATAGAAA
1 AAAAGAAA
27322622 AAAAGAAA
1 AAAAGAAA
*
27322630 GAAAGGAAA
1 -AAAAGAAA
27322639 AATAAGAA
1 AA-AAGAA
27322647 GAAATTGATG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 4 0.11
8 23 0.61
9 11 0.29
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (8 bp):
AAAAGAAA
Found at i:27322638 original size:17 final size:17
Alignment explanation
Indices: 27322598--27322650 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
27322588 ATGAAAAGAA
27322598 AAAGGAAAAAAAGAATA-
1 AAAGGAAAAAAAGAA-AG
*
27322615 ATA-GAAAAAAAGAAAG
1 AAAGGAAAAAAAGAAAG
27322631 AAAGGAAAAATAAG-AAG
1 AAAGGAAAAA-AAGAAAG
27322648 AAA
1 AAA
27322651 TTGATGAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 1 0.03
16 13 0.42
17 14 0.45
18 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (17 bp):
AAAGGAAAAAAAGAAAG
Found at i:27324054 original size:127 final size:127
Alignment explanation
Indices: 27323785--27324073 Score: 337
Period size: 127 Copynumber: 2.3 Consensus size: 127
27323775 TGACTCGTGG
* ** * ***
27323785 TTCGATCTTGGTCATTCATCTTCGACCTCGACTCAGTCCTGGTTGCTTTGTTTTTTTGGCTCGCA
1 TTCGATCTTGGTCATTCATCTTTGACCTCGACTTGGTCCTGGTTGCTTTATTTTTTAAACTCGCA
* * *
27323850 ATTCGATCTCGATCACTCATTTTTGCTCTCAGCTTAGTCTAGATCATCTTTCTAACGTACAT
66 ATCCGATCTCGATCACTCATTTTTGATCTCAGCTCAGTCTAGATCATCTTTCTAACGTACAT
* * * *
27323912 TTTGATCTTGGTCATTCATCTTTAACCTCAACTTGGTCTTGGTTGCTTTATTTTTTAAACTCGCA
1 TTCGATCTTGGTCATTCATCTTTGACCTCGACTTGGTCCTGGTTGCTTTATTTTTTAAACTCGCA
* * * * * * * *
27323977 GTCCGATTTCGATCACTCATTTTTTATCTCAGCTCGGTTTAGATCATCTTTCTGACTTATGA-
66 ATCCGATCTCGATCACTCATTTTTGATCTCAGCTCAGTCTAGATCATCTTTCTAACGTA-CAT
* * *
27324039 TTCGATCCTGATCATTCATATTTGACCTCGACTTG
1 TTCGATCTTGGTCATTCATCTTTGACCTCGACTTG
27324074 ATTTTAGTCA
Statistics
Matches: 133, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
127 132 0.99
128 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (127 bp):
TTCGATCTTGGTCATTCATCTTTGACCTCGACTTGGTCCTGGTTGCTTTATTTTTTAAACTCGCA
ATCCGATCTCGATCACTCATTTTTGATCTCAGCTCAGTCTAGATCATCTTTCTAACGTACAT
Found at i:27324088 original size:127 final size:126
Alignment explanation
Indices: 27323844--27324227 Score: 383
Period size: 127 Copynumber: 3.0 Consensus size: 126
27323834 GTTTTTTTGG
* ** * *
27323844 CTCGCAATTCGATCTCGATCACTCATTTTTGCTCTCAGCTTAGTCTAGATCATCTTTCTAACGTA
1 CTCGCAGTTCGATCTCGATCACTCATTTTTTATCTCAGCTTAGTCTAGATCATCTTTCTGACTTA
* * * * * **
27323909 CATTTTGATCTTGGTCATTCATCTTTAACCTCAACTTGGTCTTGGTTGCTTTAT-TTTTTAAA
66 CA-TTCGATCTTGATCATTCATCTTTGACCTCAACTTGATCTTAGTCACTTTATCTTTTT-AA
* * ** *
27323971 CTCGCAGTCCGATTTCGATCACTCATTTTTTATCTCAGCTCGGTTTAGATCATCTTTCTGACTTA
1 CTCGCAGTTCGATCTCGATCACTCATTTTTTATCTCAGCTTAGTCTAGATCATCTTTCTGACTTA
* * * * * *
27324036 TGATTCGATCCTGATCATTCATATTTGACCTCGACTTGATTTTAGTCACTTTATCTTTTTGA
66 -CATTCGATCTTGATCATTCATCTTTGACCTCAACTTGATCTTAGTCACTTTATCTTTTTAA
*** ** * * * * *
27324098 CTCATGGTTTAATCTAGGTCACTTATTTTTTATCTCAACTTAGTCTAGATCATCTTTCTGACTCA
1 CTCGCAGTTCGATCTCGATCACTCATTTTTTATCTCAGCTTAGTCTAGATCATCTTTCTGACT-T
* * * * *
27324163 ACATTCGATCTTAATCATTCATCTTCGACCTCAACTTGATCCTAGTCATTTTGTCTTTTTAA
65 ACATTCGATCTTGATCATTCATCTTTGACCTCAACTTGATCTTAGTCACTTTATCTTTTTAA
27324225 CTC
1 CTC
27324228 ATGATTCAAT
Statistics
Matches: 205, Mismatches: 49, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
127 198 0.97
128 7 0.03
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (126 bp):
CTCGCAGTTCGATCTCGATCACTCATTTTTTATCTCAGCTTAGTCTAGATCATCTTTCTGACTTA
CATTCGATCTTGATCATTCATCTTTGACCTCAACTTGATCTTAGTCACTTTATCTTTTTAA
Found at i:27324228 original size:127 final size:127
Alignment explanation
Indices: 27323989--27324265 Score: 349
Period size: 127 Copynumber: 2.2 Consensus size: 127
27323979 CCGATTTCGA
* * * * ** *
27323989 TCACTCATTTTTTATCTCAGCTCGGTTTAGATCATCTTTCTGACTTATGATTCGATCCTGATCAT
1 TCACTCATTTTTTATCTCAACTCAGTCTAGATCATCTTTCTGACTCAACATTCGATCCTAATCAT
* * ** * * *
27324054 TCATATTTGACCTCGACTTGATTTTAGTCACTTTATCTTTTTGACTCATGGTTTAAT-CTAGG
66 TCATATTCGACCTCAACTTGATCCTAGTCACTTTATCTTTTTAACTCATGATTCAATCCTA-G
* * *
27324116 TCACTTATTTTTTATCTCAACTTAGTCTAGATCATCTTTCTGACTCAACATTCGATCTTAATCAT
1 TCACTCATTTTTTATCTCAACTCAGTCTAGATCATCTTTCTGACTCAACATTCGATCCTAATCAT
* * *
27324181 TCATCTTCGACCTCAACTTGATCCTAGTCATTTTGTCTTTTTAACTCATGATTCAATCCTAG
66 TCATATTCGACCTCAACTTGATCCTAGTCACTTTATCTTTTTAACTCATGATTCAATCCTAG
*
27324243 TCACTCATTTTTTATCTAAACTC
1 TCACTCATTTTTTATCTCAACTC
27324266 GATCCAGATC
Statistics
Matches: 126, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
127 123 0.98
128 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (127 bp):
TCACTCATTTTTTATCTCAACTCAGTCTAGATCATCTTTCTGACTCAACATTCGATCCTAATCAT
TCATATTCGACCTCAACTTGATCCTAGTCACTTTATCTTTTTAACTCATGATTCAATCCTAG
Found at i:27324589 original size:86 final size:87
Alignment explanation
Indices: 27324432--27324595 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 87
27324422 TATTCTTGCG
* ** ** *
27324432 AACCTGAAACCTTTGCAAATCTAAAACCTTTGTGAAACTTGAAATCCTATGAACCTTTCATTTTT
1 AACCTGAAACATTTGCAAATCTAAAACCTTTACGAAACTTGAAATCCTACAAACCTTCCATTTTT
27324497 ACGAATCT-AAAAGTCCTTGTA
66 ACGAATCTGAAAAGTCCTTGTA
* * *
27324518 AACCTGAAACATTTGCGAATCTAAAACCTTTACGAAACTT-AGAATCTTACAAATCTTCCATTTT
1 AACCTGAAACATTTGCAAATCTAAAACCTTTACGAAACTTGA-AATCCTACAAACCTTCCATTTT
**
27324582 TGTGAATCTGAAAA
65 TACGAATCTGAAAA
27324596 TCTTTGTGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 1 0.02
86 60 0.92
87 4 0.06
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (87 bp):
AACCTGAAACATTTGCAAATCTAAAACCTTTACGAAACTTGAAATCCTACAAACCTTCCATTTTT
ACGAATCTGAAAAGTCCTTGTA
Found at i:27324773 original size:65 final size:65
Alignment explanation
Indices: 27324703--27324951 Score: 243
Period size: 65 Copynumber: 3.8 Consensus size: 65
27324693 TTCGACCCAT
* * * * * * * * *
27324703 GGTTCAATCTTGGTCACTTATTTTAATCTTGGTTCAATCTAGATCATTTTATTTTTCTAACTTGA
1 GGTTCAATCTCGATCACTCATTTTGATCTCGGTTCAATCCAAATCATTTTATTTTTTTGACTTGA
* *
27324768 GGTTCAATCTCAATCACTCATTTTGATCTCAGG-TCAATCCAAATCATTTTATTTTTTTGTCTTG
1 GGTTCAATCTCGATCACTCATTTTGATCTC-GGTTCAATCCAAATCATTTTATTTTTTTGACTTG
*
27324832 G
65 A
* * * * * * *
27324833 GGTTCAATC-CTGGTCACTCGTTTTGTTCTCAGCTCAATCTAAATCATTTTATTTTTTTGACTCG
1 GGTTCAATCTC-GATCACTCATTTTGATCTCGGTTCAATCCAAATCATTTTATTTTTTTGACTTG
*
27324897 T
65 A
* * *
27324898 GGTTCAATCTCGATCAC-CTGTTTTGATCTCGGTTCAGTCCAGATCATTTTATTT
1 GGTTCAATCTCGATCACTC-ATTTTGATCTCGGTTCAATCCAAATCATTTTATTT
27324952 CTTATTTTAT
Statistics
Matches: 151, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
64 3 0.02
65 145 0.96
66 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (65 bp):
GGTTCAATCTCGATCACTCATTTTGATCTCGGTTCAATCCAAATCATTTTATTTTTTTGACTTGA
Found at i:27324847 original size:130 final size:130
Alignment explanation
Indices: 27324703--27324951 Score: 313
Period size: 130 Copynumber: 1.9 Consensus size: 130
27324693 TTCGACCCAT
* * ** * * *
27324703 GGTTCAATCTTGGTCACTTATTTTAATCTTGGTTCAATCTAGATCATTTTATTTTTCTAACTTGA
1 GGTTCAATCCTGGTCACTCATTTTAATCTCAGCTCAATCTAAATCATTTTATTTTTCTAACTCGA
27324768 GGTTCAATCTCAATCA-CTCATTTTGATCTCAGG-TCAATCCAAATCATTTTATTTTTTTGTCTT
66 GGTTCAATCTCAATCACCT-ATTTTGATCTC-GGTTCAATCCAAATCATTTTATTTTTTTGTCTT
27324831 GG
129 GG
* ** * * *
27324833 GGTTCAATCCTGGTCACTCGTTTTGTTCTCAGCTCAATCTAAATCATTTTATTTTTTTGACTCGT
1 GGTTCAATCCTGGTCACTCATTTTAATCTCAGCTCAATCTAAATCATTTTATTTTTCTAACTCGA
* * * *
27324898 GGTTCAATCTCGATCACCTGTTTTGATCTCGGTTCAGTCCAGATCATTTTATTT
66 GGTTCAATCTCAATCACCTATTTTGATCTCGGTTCAATCCAAATCATTTTATTT
27324952 CTTATTTTAT
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
129 2 0.02
130 96 0.96
131 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (130 bp):
GGTTCAATCCTGGTCACTCATTTTAATCTCAGCTCAATCTAAATCATTTTATTTTTCTAACTCGA
GGTTCAATCTCAATCACCTATTTTGATCTCGGTTCAATCCAAATCATTTTATTTTTTTGTCTTGG
Found at i:27325244 original size:17 final size:18
Alignment explanation
Indices: 27325224--27325260 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
27325214 AAAAAGGGTT
27325224 AGAAAAAAGAAAAA-AAA
1 AGAAAAAAGAAAAAGAAA
27325241 AGAAAAAAGAAAAAGAAA
1 AGAAAAAAGAAAAAGAAA
27325259 AG
1 AG
27325261 GACAAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AGAAAAAAGAAAAAGAAA
Found at i:27325941 original size:16 final size:16
Alignment explanation
Indices: 27325905--27325942 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27325895 TCTGTTTTCA
27325905 TTTTATTTTATTATTT
1 TTTTATTTTATTATTT
*
27325921 ATTTATTTTATT-TTGT
1 TTTTATTTTATTATT-T
27325937 TTTTAT
1 TTTTAT
27325943 CTATTTACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTATTTTATTATTT
Found at i:27325947 original size:24 final size:24
Alignment explanation
Indices: 27325907--27325966 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
27325897 TGTTTTCATT
* *
27325907 TTATTTTATTATTTATTTA-TTTTA
1 TTATTTT-TTATCTATTTACTCTTA
*
27325931 TTTTGTTTTTATCTATTTACTCTTA
1 TTAT-TTTTTATCTATTTACTCTTA
27325956 TTATTTTTTAT
1 TTATTTTTTAT
27325967 TTTAAATTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (24 bp):
TTATTTTTTATCTATTTACTCTTA
Found at i:27328817 original size:8 final size:8
Alignment explanation
Indices: 27328804--27328836 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
27328794 ATGTTTACGT
27328804 ATGAATGC
1 ATGAATGC
27328812 ATGAATGC
1 ATGAATGC
*
27328820 ATAAATGC
1 ATGAATGC
27328828 ATGAATGC
1 ATGAATGC
27328836 A
1 A
27328837 ATAAAGAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.24
Consensus pattern (8 bp):
ATGAATGC
Found at i:27328828 original size:16 final size:17
Alignment explanation
Indices: 27328807--27328841 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
27328797 TTTACGTATG
27328807 AATGCATGAATGC-ATA
1 AATGCATGAATGCAATA
27328823 AATGCATGAATGCAATA
1 AATGCATGAATGCAATA
27328840 AA
1 AA
27328842 GAGGATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (17 bp):
AATGCATGAATGCAATA
Found at i:27329217 original size:25 final size:25
Alignment explanation
Indices: 27329188--27329238 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
27329178 TACCCATTTG
*
27329188 TGTTTCAATTTTGACCACTACCCTA
1 TGTTTCAATTTCGACCACTACCCTA
27329213 TGTTTCAATTTCGACCACTACCCTA
1 TGTTTCAATTTCGACCACTACCCTA
27329238 T
1 T
27329239 TGAGCATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (25 bp):
TGTTTCAATTTCGACCACTACCCTA
Found at i:27331105 original size:145 final size:145
Alignment explanation
Indices: 27330835--27331108 Score: 313
Period size: 145 Copynumber: 1.9 Consensus size: 145
27330825 ATTTTAAATA
* * * * * * *
27330835 TTAATTTTATAGTATTTTATGATTTTTTGTGCATTTAAAATTATAGCAGTACCCCGAAAGGTGTG
1 TTAATTTCATAATATTTCATAATTTTTCGTGCATTTAAAATCACAGCAGTACCCCGAAAGGTGTG
* * * * * *
27330900 AAATTACCAAAATATCAATTTAGGAGTAATTTTGTAATTTTACCTTCTTGAGGTTGAATTTCATT
66 AAATTACCAAAATACCAATTAAGGAGTAATTTTGTAATTTGACCTTCCTGAGATCGAATTTCATT
27330965 AAACCCTTTAGGATC
131 AAACCCTTTAGGATC
* * *
27330980 TTAATTTCATAATATTTCATAATTTTTCGTGCATTTGAAATCACAGCAGTACCTTC-AGAGGTGT
1 TTAATTTCATAATATTTCATAATTTTTCGTGCATTTAAAATCACAGCAGTACC-CCGAAAGGTGT
* * *
27331044 GAAATTACTAAAATACCCATTAAGG-G-CATTTTCGTAATTTGACCTTCCCT-AGATCGAAATTT
65 GAAATTACCAAAATACCAATTAAGGAGTAATTTT-GTAATTTGACCTT-CCTGAGATCG-AATTT
27331106 CAT
127 CAT
27331109 GAAATTTTCT
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
143 5 0.05
144 17 0.16
145 83 0.78
146 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (145 bp):
TTAATTTCATAATATTTCATAATTTTTCGTGCATTTAAAATCACAGCAGTACCCCGAAAGGTGTG
AAATTACCAAAATACCAATTAAGGAGTAATTTTGTAATTTGACCTTCCTGAGATCGAATTTCATT
AAACCCTTTAGGATC
Found at i:27341531 original size:18 final size:19
Alignment explanation
Indices: 27341480--27341542 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
27341470 AATGTCGTGA
* *
27341480 AAATATATTAATTATCAAAC
1 AAATATA-TAATGATCATAC
*
27341500 -AATA-ATAATGATCATAT
1 AAATATATAATGATCATAC
27341517 AAATATATAAT-ATCATAC
1 AAATATATAATGATCATAC
27341535 AAATATAT
1 AAATATAT
27341543 TATCATTCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 9 0.24
18 19 0.51
19 9 0.24
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (19 bp):
AAATATATAATGATCATAC
Found at i:27341546 original size:16 final size:17
Alignment explanation
Indices: 27341510--27341548 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
27341500 AATAATAATG
*
27341510 ATCATATAAATATATAAT
1 ATCATACAAATATAT-AT
27341528 ATCATACAAATATAT-T
1 ATCATACAAATATATAT
27341544 ATCAT
1 ATCAT
27341549 TCAGTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (17 bp):
ATCATACAAATATATAT
Found at i:27341728 original size:24 final size:24
Alignment explanation
Indices: 27341700--27341757 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
27341690 TATCATTTAA
27341700 ATAATATTA-ATAATGCAATAACAT
1 ATAATATTATATAATGCAATAA-AT
* *
27341724 ATAATATCATATCATGCAATAAAT
1 ATAATATTATATAATGCAATAAAT
*
27341748 ATAAAATTAT
1 ATAATATTAT
27341758 GCAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (24 bp):
ATAATATTATATAATGCAATAAAT
Found at i:27341861 original size:106 final size:106
Alignment explanation
Indices: 27341751--27341952 Score: 261
Period size: 106 Copynumber: 1.9 Consensus size: 106
27341741 AATAAATATA
* * *
27341751 AAATTATGCAA-T-AATA-ATAAA-TAAATAAATAACTATG-CAAATAAATATATTAATAATCAT
1 AAATTATGCAATTAAATATATAAACCAAACAAATAAATA-GACAAATAAATATA-TAAT--T-AT
27341811 ACAATCACACAAATAAATAAATTAATAATCATGCAATTAACAATGT
61 ACAATCACACAAATAAATAAATTAATAATCATGCAATTAACAATGT
* * *
27341857 AAATTATGCAATTAAATATATAAACCAAGCAAATAAATAGACAATTAAATATATAATTATGCAAT
1 AAATTATGCAATTAAATATATAAACCAAACAAATAAATAGACAAATAAATATATAATTATACAAT
*
27341922 CACACTAATAAATAAATTAATAATCATGCAA
66 CACACAAATAAATAAATTAATAATCATGCAA
27341953 CTAGACATGT
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
106 47 0.56
107 2 0.02
108 4 0.05
109 10 0.12
110 21 0.25
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (106 bp):
AAATTATGCAATTAAATATATAAACCAAACAAATAAATAGACAAATAAATATATAATTATACAAT
CACACAAATAAATAAATTAATAATCATGCAATTAACAATGT
Found at i:27341880 original size:21 final size:21
Alignment explanation
Indices: 27341841--27341880 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27341831 ATTAATAATC
*
27341841 ATGCAATTAACAATGTAAATT
1 ATGCAATTAACAATATAAATT
27341862 ATGCAATTAA-ATATATAAA
1 ATGCAATTAACA-ATATAAA
27341881 CCAAGCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
ATGCAATTAACAATATAAATT
Found at i:27342011 original size:44 final size:43
Alignment explanation
Indices: 27341958--27342114 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 43
27341948 TGCAACTAGA
* *
27341958 CATGTAATTAAATATATAATCATGAAAATAATAATATATAAAAC
1 CATGCAATTAAATATATAATCAT-AAAATAATAATATATAAAAT
* *
27342002 CATGCAATTAAATATATAATTATACAAATAAACATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAATCATA-AAAT--A-AT--AA-T--ATATAAAAT
*
27342054 CATGCAATTAAATATATAATCATTCAAAT-A-AATATATTAATAAT
1 CATGCAATTAAATATATAATCA-TAAAATAATAATATA-TAA-AAT
*
27342098 CAAGCAATTAAATATAT
1 CATGCAATTAAATATAT
27342115 TAATAATCAT
Statistics
Matches: 93, Mismatches: 8, Indels: 24
0.74 0.06 0.19
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 45 0.48
45 2 0.02
46 1 0.01
47 2 0.02
48 1 0.01
49 2 0.02
50 1 0.01
52 32 0.34
53 1 0.01
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (43 bp):
CATGCAATTAAATATATAATCATAAAATAATAATATATAAAAT
Found at i:27342018 original size:24 final size:25
Alignment explanation
Indices: 27341969--27342175 Score: 126
Period size: 24 Copynumber: 8.7 Consensus size: 25
27341959 ATGTAATTAA
* *
27341969 ATAT-ATAATCATGAAAAT-AATAAT
1 ATATAATAATCATGCAATTAAAT-AT
*
27341993 ATATAA-AACCATGCAATTAAATATAT
1 ATATAATAATCATGCAATT-AA-ATAT
*
27342019 AATTATACAAATAAACATGCAATT-AA-AT
1 -A-TAT--AA-TAATCATGCAATTAAATAT
27342047 ATAT-A--ATCATGCAATT-AA-A-
1 ATATAATAATCATGCAATTAAATAT
* *
27342066 -TAT-ATAATCATTCAAATAAATAT
1 ATATAATAATCATGCAATTAAATAT
*
27342089 AT-TAATAATCAAGCAATTAAATAT
1 ATATAATAATCATGCAATTAAATAT
27342113 AT-TAATAATCATGCAATTAAAT-T
1 ATATAATAATCATGCAATTAAATAT
* * *
27342136 AAAT-ATAATCATACAAATAAATAT
1 ATATAATAATCATGCAATTAAATAT
27342160 AT-TAATAATCATGCAA
1 ATATAATAATCATGCAA
27342176 ATATATTAAT
Statistics
Matches: 147, Mismatches: 16, Indels: 40
0.72 0.08 0.20
Matches are distributed among these distances:
18 4 0.03
20 22 0.15
21 2 0.01
22 1 0.01
23 21 0.14
24 66 0.45
25 1 0.01
26 6 0.04
27 4 0.03
28 5 0.03
29 1 0.01
30 3 0.02
32 11 0.07
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (25 bp):
ATATAATAATCATGCAATTAAATAT
Found at i:27342021 original size:32 final size:32
Alignment explanation
Indices: 27341985--27342053 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
27341975 AATCATGAAA
* *
27341985 ATAATAATATATAA-AACCATGCAATTAAATAT
1 ATAATAATACA-AATAAACATGCAATTAAATAT
*
27342017 ATAATTATACAAATAAACATGCAATTAAATAT
1 ATAATAATACAAATAAACATGCAATTAAATAT
27342049 ATAAT
1 ATAAT
27342054 CATGCAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 2 0.06
32 31 0.94
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.32
Consensus pattern (32 bp):
ATAATAATACAAATAAACATGCAATTAAATAT
Found at i:27342046 original size:16 final size:19
Alignment explanation
Indices: 27342029--27342089 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
27342019 AATTATACAA
*
27342029 ATAAACATGCAATTAAATAT
1 ATAATCATGCAATTAAA-AT
27342049 ATAATCATGCAATTAAATAT
1 ATAATCATGCAATTAAA-AT
* *
27342069 ATAATCATTCAAAT-AAAT
1 ATAATCATGCAATTAAAAT
27342087 ATA
1 ATA
27342090 TTAATAATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 5 0.13
19 2 0.05
20 31 0.82
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (19 bp):
ATAATCATGCAATTAAAAT
Found at i:27342176 original size:24 final size:24
Alignment explanation
Indices: 27342049--27342228 Score: 154
Period size: 24 Copynumber: 8.0 Consensus size: 24
27342039 AATTAAATAT
*
27342049 ATAATCATGC-AATTAA-ATA-T-
1 ATAATCATGCAAATAAATATATTA
*
27342069 ATAATCATTCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
27342093 ATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
27342117 ATAATCATGCAATTAAAT-TA-AA
1 ATAATCATGCAAATAAATATATTA
*
27342139 TATAATCATACAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
27342164 ATAATCATGC----AAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
27342184 ATAA--AT-CACAA-AAATAAATTA
1 ATAATCATGCA-AATAAATATATTA
* *
27342205 TTAATCACGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
27342229 GGCCAATAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.01
18 2 0.02
20 23 0.18
21 17 0.13
22 4 0.03
23 22 0.17
24 60 0.46
25 1 0.01
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.33
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:27342177 original size:20 final size:20
Alignment explanation
Indices: 27342083--27342219 Score: 76
Period size: 20 Copynumber: 6.2 Consensus size: 20
27342073 TCATTCAAAT
*
27342083 AAATATATTAATAATCAAGC
1 AAATATATTAATAATCATGC
27342103 AATTAAATATATTAATAATCATGC
1 ----AAATATATTAATAATCATGC
* * *
27342127 AATTAAATTAAATATAATCATAC
1 AAATATATT--A-ATAATCATGC
27342150 AAATAAATATATTAATAATCATGC
1 ----AAATATATTAATAATCATGC
***
27342174 AAATATATTAATAAATCACAA
1 AAATATATTAAT-AATCATGC
* * *
27342195 AAATAAATTATTAATCACGC
1 AAATATATTAATAATCATGC
27342215 AAATA
1 AAATA
27342220 AATATATTAG
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
20 30 0.33
21 15 0.16
22 1 0.01
23 9 0.10
24 28 0.31
25 1 0.01
27 7 0.08
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.32
Consensus pattern (20 bp):
AAATATATTAATAATCATGC
Found at i:27342207 original size:91 final size:88
Alignment explanation
Indices: 27342028--27342209 Score: 208
Period size: 91 Copynumber: 2.0 Consensus size: 88
27342018 TAATTATACA
* * * *
27342028 AATAAACATGCAATTAAATATATAATCATGCAATTAAATATATAATCATTCAAATAAATATATTA
1 AATAAACATGCAATTAAATATATAATCATACAAATAAATATATAATCAATCAAACAAATATATTA
* *
27342093 ATAATCAAGCAATTAAATATATT
66 ATAATCAAGAAAATAAATATATT
* **
27342116 AATAATCATGCAATTAAATTAAATATAATCATACAAATAAATATATTAAT-AATCATGCAAATAT
1 AATAAACATGCAATTAAA-T--ATATAATCATACAAATAAATATA-TAATCAATCAAACAAATAT
27342180 ATTAATAAATCACA-AAAATAAAT-TATT
62 ATTAAT-AATCA-AGAAAATAAATATATT
27342207 AAT
1 AAT
27342210 CACGCAAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
88 17 0.22
89 1 0.01
91 44 0.56
92 16 0.20
93 1 0.01
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.34
Consensus pattern (88 bp):
AATAAACATGCAATTAAATATATAATCATACAAATAAATATATAATCAATCAAACAAATATATTA
ATAATCAAGAAAATAAATATATT
Found at i:27342208 original size:71 final size:68
Alignment explanation
Indices: 27342067--27342228 Score: 172
Period size: 71 Copynumber: 2.4 Consensus size: 68
27342057 GCAATTAAAT
* *** *
27342067 ATATAATCATTCAAATAAATATATTAATAATCAAGCAATTAAATATATTAATAATCATGCAATTA
1 ATATAATCATACAAATAAATATATTAATAATCAAGC-A--AAATATATTAATAATCAAAAAATAA
27342132 AATTAA
63 AATTAA
*
27342138 ATATAATCATACAAATAAATATATTAATAATCATGC-AAATATATTAATAAATCACAAAAAT-AA
1 ATATAATCATACAAATAAATATATTAATAATCAAGCAAAATATATTAAT-AATCA-AAAAATAAA
27342201 ATT--
64 ATTAA
**
27342204 AT-TAATCACGCAAATAAATATATTA
1 ATATAATCATACAAATAAATATATTA
27342229 GGCCAATAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
65 21 0.26
66 2 0.02
67 12 0.15
68 10 0.12
69 3 0.04
71 34 0.41
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.33
Consensus pattern (68 bp):
ATATAATCATACAAATAAATATATTAATAATCAAGCAAAATATATTAATAATCAAAAAATAAAAT
TAA
Found at i:27342220 original size:20 final size:20
Alignment explanation
Indices: 27342154--27342228 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
27342144 TCATACAAAT
* * *
27342154 AAATATATTAATAATCATGC
1 AAATAAATTATTAATCACGC
* * **
27342174 AAATATATTAATAAATCACAA
1 AAATAAATT-ATTAATCACGC
27342195 AAATAAATTATTAATCACGC
1 AAATAAATTATTAATCACGC
27342215 AAATAAATATATTA
1 AAATAAAT-TATTA
27342229 GGCCAATAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 25 0.57
21 19 0.43
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (20 bp):
AAATAAATTATTAATCACGC
Found at i:27342897 original size:12 final size:12
Alignment explanation
Indices: 27342880--27342909 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27342870 ACTAAACAAA
27342880 CAAAAATTAAAC
1 CAAAAATTAAAC
27342892 CAAAAATTAAAC
1 CAAAAATTAAAC
*
27342904 TAAAAA
1 CAAAAA
27342910 AATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:27347005 original size:20 final size:19
Alignment explanation
Indices: 27346959--27347006 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
27346949 ACATTTTATG
*
27346959 AAAATTTAAAAAATATATT
1 AAAATTTAAAAAATATAGT
* * *
27346978 AAATTTTACAATAATTTAGT
1 AAAATTTA-AAAAATATAGT
27346998 AAAATTTAA
1 AAAATTTAA
27347007 CTAAGAAAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAATTTAAAAAATATAGT
Found at i:27347500 original size:14 final size:14
Alignment explanation
Indices: 27347480--27347518 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
27347470 TCAATTCTAA
*
27347480 AATAAAATAAAATT
1 AATAAAATAAAATC
*
27347494 TATAAAATAAAATC
1 AATAAAATAAAATC
27347508 AATAAAATAAA
1 AATAAAATAAA
27347519 TAACAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATAAAATC
Found at i:27348416 original size:14 final size:14
Alignment explanation
Indices: 27348397--27348426 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
27348387 ATGAAAGAAT
27348397 AAAATTAAAATTAA
1 AAAATTAAAATTAA
27348411 AAAATTAAAATTAA
1 AAAATTAAAATTAA
27348425 AA
1 AA
27348427 TAATGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATTAAAATTAA
Found at i:27348479 original size:12 final size:12
Alignment explanation
Indices: 27348462--27348494 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
27348452 ATAAAAAAAT
27348462 AAAGATAAATAC
1 AAAGATAAATAC
*
27348474 AAAGATAAATAT
1 AAAGATAAATAC
27348486 AAAGATAAA
1 AAAGATAAA
27348495 GATAGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.70, C:0.03, G:0.09, T:0.18
Consensus pattern (12 bp):
AAAGATAAATAC
Found at i:27348487 original size:6 final size:6
Alignment explanation
Indices: 27348460--27348498 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
27348450 GAATAAAAAA
* * *
27348460 ATAAAG ATAAAT ACAAAG ATAAAT ATAAAG ATAAAG ATA
1 ATAAAG ATAAAG ATAAAG ATAAAG ATAAAG ATAAAG ATA
27348499 GTAAATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (6 bp):
ATAAAG
Found at i:27354779 original size:8 final size:8
Alignment explanation
Indices: 27354766--27354796 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
27354756 AACTAATACT
27354766 AAAAAATA
1 AAAAAATA
27354774 AAAAAATA
1 AAAAAATA
27354782 AAAAAATA
1 AAAAAATA
*
27354790 AAGAAAT
1 AAAAAAT
27354797 TATAATGCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:27355685 original size:27 final size:28
Alignment explanation
Indices: 27355629--27355693 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
27355619 AGATATAAAG
27355629 AATTATTTATTTATATTCAAATATGAAT
1 AATTATTTATTTATATTCAAATATGAAT
**
27355657 AATTATTTATTTCAT-TT-AAATATTTAT
1 AATTATTTATTT-ATATTCAAATATGAAT
*
27355684 AATCATTTAT
1 AATTATTTAT
27355694 CATAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.52
28 14 0.42
29 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (28 bp):
AATTATTTATTTATATTCAAATATGAAT
Found at i:27355735 original size:15 final size:16
Alignment explanation
Indices: 27355696--27355737 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
27355686 TCATTTATCA
*
27355696 TAAAATAATTATTATTT
1 TAAAAT-ATAATTATTT
*
27355713 TTAAATATAATTA-TT
1 TAAAATATAATTATTT
27355728 TAAAATATAA
1 TAAAATATAA
27355738 ATAAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 11 0.50
16 6 0.27
17 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATAATTATTT
Found at i:27355740 original size:21 final size:21
Alignment explanation
Indices: 27355713--27355760 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
27355703 ATTATTATTT
* *
27355713 TTAAATATAATT-ATTTAAAA
1 TTAAATAAAATTAATATAAAA
27355733 TATAAATAAAATTAATATAAAA
1 T-TAAATAAAATTAATATAAAA
27355755 TTAAAT
1 TTAAAT
27355761 CAATTCATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 15 0.62
22 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATAAAATTAATATAAAA
Found at i:27355744 original size:11 final size:10
Alignment explanation
Indices: 27355713--27355760 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
27355703 ATTATTATTT
*
27355713 TTAAATATAA
1 TTAAATAAAA
**
27355723 TTATTTAAAA
1 TTAAATAAAA
27355733 TATAAATAAAA
1 T-TAAATAAAA
27355744 TTAATATAAAA
1 TTAA-ATAAAA
27355755 TTAAAT
1 TTAAAT
27355761 CAATTCATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 13 0.42
11 18 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TTAAATAAAA
Found at i:27356043 original size:22 final size:22
Alignment explanation
Indices: 27356018--27356061 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
27356008 TGCTGAACCC
27356018 TTTGCGTATTCAGGATCCATAT
1 TTTGCGTATTCAGGATCCATAT
*
27356040 TTTGTGTATTCAGGATCCATAT
1 TTTGCGTATTCAGGATCCATAT
27356062 AACGAAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (22 bp):
TTTGCGTATTCAGGATCCATAT
Found at i:27358064 original size:51 final size:52
Alignment explanation
Indices: 27357981--27358086 Score: 142
Period size: 51 Copynumber: 2.1 Consensus size: 52
27357971 CTAAAAATTT
* *
27357981 TGGGCATTATTAAAGGCATCTTCTACTGTAAAATGCCTTCAATATACCTCGA
1 TGGGCATTATTAAAGGCATCTTCTACTATAAAATGCCTTCAATATACCACGA
** * * *
27358033 TGGG-ATTATTAAAGGTGTCTTTTATTATAAAATGCCTTCAATATTCCACGA
1 TGGGCATTATTAAAGGCATCTTCTACTATAAAATGCCTTCAATATACCACGA
27358084 TGG
1 TGG
27358087 TTATAGAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 43 0.91
52 4 0.09
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
TGGGCATTATTAAAGGCATCTTCTACTATAAAATGCCTTCAATATACCACGA
Found at i:27360305 original size:60 final size:63
Alignment explanation
Indices: 27360241--27360503 Score: 225
Period size: 60 Copynumber: 4.4 Consensus size: 63
27360231 TTTTGTGCAG
*
27360241 GGAAAATTGAAACTTTCAAATTTTTTTCC-CAAAAA-T-ATTCTTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAAATTTTTTTCCTCAAAAATTGATTCTTTTGAAACTTTAATTTCGA
* *
27360301 GGAAAATTGATATTTTCAAA---TTTTCCTCAAAAATTGATTTTTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAAATTTTTTTCCTCAAAAATTGATTCTTTTGAAACTTTAATTTCGA
* * * * * **
27360361 GGAAAATTGATACTTTC-AA--CTTTTCCTCAAAAATTTATTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAAATTTTTTTCCTCAAAAATTGA-TTCTTTTGAAACTTTAATTTCGA
* * * * * **
27360422 GAAAAATTGATATTTTC-AA--CTTTTCCTCAAAAACCT--TT-TTTTGCAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAAATTTTTTTCCTCAAAAA-TTGATTCTTTTG-AAACTTTAATTTCGA
*
27360480 GGAAAATTGATACTTTCAACTTTT
1 GGAAAATTGATACTTTCAAATTTT
27360504 CCCCAAAGAT
Statistics
Matches: 177, Mismatches: 16, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
57 6 0.03
58 37 0.21
59 9 0.05
60 73 0.41
61 51 0.29
62 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (63 bp):
GGAAAATTGATACTTTCAAATTTTTTTCCTCAAAAATTGATTCTTTTGAAACTTTAATTTCGA
Found at i:27360427 original size:17 final size:18
Alignment explanation
Indices: 27360389--27360429 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
27360379 ACTTTTCCTC
**
27360389 AAAAATTTATTTTTTTTG
1 AAAAATTTATTTTTTAAG
27360407 -AAAATTTA-TTTTTAAG
1 AAAAATTTATTTTTTAAG
27360423 AAAAATT
1 AAAAATT
27360430 GATATTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
AAAAATTTATTTTTTAAG
Found at i:27360433 original size:61 final size:61
Alignment explanation
Indices: 27360281--27360524 Score: 282
Period size: 60 Copynumber: 4.1 Consensus size: 61
27360271 AAAAATATTC
* * ** * * *
27360281 TTTTGAAACTTTAATTTCGAGGAAAATTGATATTTTCAAATTTTCCTCAAAAATTGA-TTT
1 TTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTT
* * **
27360341 TTTTGAAACTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTT
1 TTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTT
* * **
27360402 TTTTGAAAATTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCCTCAAAAA---CCTTT
1 TTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTT
* * * *
27360460 TTTTGCAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAGATAT-TTTT
1 TTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTT
27360520 TTTTG
1 TTTTG
27360525 GATTTTATTT
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
58 51 0.31
60 62 0.38
61 50 0.31
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (61 bp):
TTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTT
Found at i:27360616 original size:17 final size:17
Alignment explanation
Indices: 27360591--27360629 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
27360581 ATAAATAAAG
*
27360591 AAAAGTAAAACAAAAAT
1 AAAAATAAAACAAAAAT
* *
27360608 AAAAATAAAATAAAGAT
1 AAAAATAAAACAAAAAT
27360625 AAAAA
1 AAAAA
27360630 AACATTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAATAAAACAAAAAT
Found at i:27360626 original size:11 final size:11
Alignment explanation
Indices: 27360539--27360642 Score: 63
Period size: 11 Copynumber: 9.2 Consensus size: 11
27360529 TTATTTAAAG
27360539 AAAATAAAATAA
1 AAAATAAAAT-A
*
27360551 TAAAACAAAATA
1 -AAAATAAAATA
27360563 AAAATGAGAAATA
1 AAAAT-A-AAATA
27360576 AATAA-ATAAATA
1 AA-AATA-AAATA
* *
27360588 AAGA-AAAGTA
1 AAAATAAAATA
27360598 AAACA-AAAATA
1 AAA-ATAAAATA
27360609 AAAATAAAATA
1 AAAATAAAATA
*
27360620 AAGATAAAA-A
1 AAAATAAAATA
* *
27360630 AACATTAAATA
1 AAAATAAAATA
27360641 AA
1 AA
27360643 CCTAATCTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
10 15 0.20
11 32 0.43
12 10 0.13
13 16 0.21
14 2 0.03
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:27360640 original size:32 final size:30
Alignment explanation
Indices: 27360579--27360642 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 30
27360569 AGAAATAAAT
27360579 AAATAAATAAAGAAAAGTAAAACAAAAATAA
1 AAATAAATAAAGAAAAG-AAAACAAAAATAA
*
27360610 AAATAAAATAAAGATAAA-AAAACATTAAATAA
1 AAAT-AAATAAAGA-AAAGAAAACA-AAAATAA
27360642 A
1 A
27360643 CCTAATCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 10 0.34
32 16 0.55
33 3 0.10
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.16
Consensus pattern (30 bp):
AAATAAATAAAGAAAAGAAAACAAAAATAA
Found at i:27361236 original size:9 final size:10
Alignment explanation
Indices: 27361213--27361237 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27361203 TTCCAGAAAA
27361213 AAAAATCTCC
1 AAAAATCTCC
27361223 AAAAATCTCC
1 AAAAATCTCC
27361233 AAAAA
1 AAAAA
27361238 ATTTTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATCTCC
Found at i:27361706 original size:12 final size:11
Alignment explanation
Indices: 27361675--27361735 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
27361665 AAAAAATAAT
*
27361675 AATAATAAAAG
1 AATAATAAAAA
*
27361686 AA-AAGAAAAA
1 AATAATAAAAA
*
27361696 AATATATAAAAT
1 AATA-ATAAAAA
27361708 AATAATAACAAA
1 AATAATAA-AAA
27361720 AATAA-AAATAA
1 AATAATAAA-AA
27361731 AATAA
1 AATAA
27361736 AAATGTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 9 0.22
11 16 0.39
12 16 0.39
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (11 bp):
AATAATAAAAA
Found at i:27361709 original size:30 final size:31
Alignment explanation
Indices: 27361658--27361735 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 31
27361648 ATAAATACCC
*
27361658 AAGATAAAAAA-AATAATAATAATAA-AAGAA
1 AAGA-AAAAAATAATAATAATAATAATAACAA
27361688 AAGAAAAAAATATATAA-AATAATAATAACAA
1 AAGAAAAAAATA-ATAATAATAATAATAACAA
*
27361719 AA-ATAAAAATAA-AATAA
1 AAGAAAAAAATAATAATAA
27361736 AAATGTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
28 2 0.05
29 9 0.21
30 21 0.50
31 10 0.24
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (31 bp):
AAGAAAAAAATAATAATAATAATAATAACAA
Found at i:27361714 original size:33 final size:32
Alignment explanation
Indices: 27361672--27361799 Score: 86
Period size: 33 Copynumber: 4.0 Consensus size: 32
27361662 TAAAAAAAAT
*
27361672 AATAATAATAAAAGAAAAGAAAAAAATATATAA
1 AATAATAATAAAAGAAAA-AAAAAAAAATATAA
*
27361705 AATAATAATAACAA-AAATAAAAATAAAATA-AA
1 AATAATAATAA-AAGAAA-AAAAAAAAAATATAA
* * * *
27361737 AAT-GTAA-AATACAAAACAAAAAAAAATAAACA
1 AATAATAATAAAAGAAAA-AAAAAAAAATATA-A
* * *
27361769 AATAA-AATGGAGAGAAAAAAAAAAATATATA
1 AATAATAAT-AAAAGAAAAAAAAAAAAATATA
27361800 TATATATATA
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
29 2 0.03
30 15 0.20
31 4 0.05
32 11 0.15
33 34 0.45
34 9 0.12
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.16
Consensus pattern (32 bp):
AATAATAATAAAAGAAAAAAAAAAAAATATAA
Found at i:27361720 original size:26 final size:26
Alignment explanation
Indices: 27361664--27361737 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
27361654 ACCCAAGATA
*
27361664 AAAAAAATAATAATAATAAAAGAAAAG
1 AAAAAAATAATAA-AATAAAAGAAAAC
* *
27361691 AAAAAAATATATAAAATAATA-ATAAC
1 AAAAAAATA-ATAAAATAAAAGAAAAC
*
27361717 AAAAATAAAAATAAAATAAAA
1 AAAAA-AATAATAAAATAAAA
27361738 ATGTAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 18 0.45
27 18 0.45
28 4 0.10
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (26 bp):
AAAAAAATAATAAAATAAAAGAAAAC
Found at i:27361745 original size:24 final size:24
Alignment explanation
Indices: 27361718--27361763 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
27361708 AATAATAACA
*
27361718 AAAATA-AAAATAAAATAAAAATGT
1 AAAATACAAAACAAAA-AAAAATGT
27361742 AAAATACAAAACAAAAAAAAAT
1 AAAATACAAAACAAAAAAAAAT
27361764 AAACAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.15
Consensus pattern (24 bp):
AAAATACAAAACAAAAAAAAATGT
Found at i:27361745 original size:39 final size:36
Alignment explanation
Indices: 27361667--27361766 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 36
27361657 CAAGATAAAA
* * * *
27361667 AAAATAATAATAATAAAAGAAAAGAAAAAAATATAT
1 AAAATAATAATAACAAAAAAAAATAAAAAAAAATAT
*
27361703 AAAATAATAATAACAAAAATAAAAATAAAATAAAAATGT
1 AAAATAATAATAAC-AAAA-AAAAATAAAA-AAAAATAT
*
27361742 AAAAT-ACAA-AACAAAAAAAAATAAA
1 AAAATAATAATAACAAAAAAAAATAAA
27361767 CAAATAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
35 9 0.16
36 17 0.31
37 7 0.13
38 11 0.20
39 11 0.20
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (36 bp):
AAAATAATAATAACAAAAAAAAATAAAAAAAAATAT
Found at i:27362126 original size:42 final size:42
Alignment explanation
Indices: 27361988--27362586 Score: 740
Period size: 42 Copynumber: 14.1 Consensus size: 42
27361978 TTTTATCAAA
** * * * *
27361988 GCTCCTCTAGGCAGAGGCTCAATGACTTTGAGAAACA-TAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-AGTAAATT
* * * * * *
27362031 GCTCCTCTAATCAGAGGCTCAACAACTTTAAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAAGTAAATT
**
27362074 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
27362116 GCTCCTCTAAATAG-GGCACCACGACTTTG-AAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * *
27362155 GTTCCTCTAAACAGAGGCATCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * *
27362197 GCTCTTCTAAATAGAGGTACCACGACTTTTG-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAAGTAAATT
*
27362239 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* *
27362281 GCTCCTCTAAACAGAGGCACCACAACTTTTAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * *
27362323 GCTCCTCTAAATAGAGGTACCATGACTTTTGGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-GAAAAAGTAAATT
* *
27362367 GTTCCTCTAAATAGAGGCACCACGACTTTTGAAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTG-AAAAAGTAAATT
* *
27362411 GCTCTTCTAAATAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * * *
27362453 GCTCATCTAAACAGAAGCACCACGACTTTTAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* *
27362495 ACTCCTCTAAACAGAGGCACCATGACTTTTGGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-GAAAAAGTAAATT
27362539 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
27362581 GCTCCT
1 GCTCCT
27362587 TGACAATCAT
Statistics
Matches: 489, Mismatches: 55, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
39 18 0.04
40 17 0.03
41 21 0.04
42 246 0.50
43 76 0.16
44 111 0.23
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
Found at i:27362265 original size:84 final size:84
Alignment explanation
Indices: 27361988--27362586 Score: 733
Period size: 86 Copynumber: 7.1 Consensus size: 84
27361978 TTTTATCAAA
** * * * * * * *
27361988 GCTCCTCTAGGCAGAGGCTCAATGACTTTGAGAAACA-TAAATGGCTCCTCTAATCAGAGGCTCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
* ** *
27362052 ACAACTTTAAAAAAAATAAATT
64 ACGACTTT-TGAAAAGTAAATT
** *
27362074 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAGTAAATTGCTCCTCTAAATAG-GGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
27362138 GAC-TTTGAAAA-TAAATT
66 GACTTTTGAAAAGTAAATT
* * * * * *
27362155 GTTCCTCTAAACAGAGGCATCACGACTTTGAGAAAGTAAATTGCTCTTCTAAATAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
27362220 GACTTTTGAAAAGTAAATT
66 GACTTTTGAAAAGTAAATT
*
27362239 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
27362304 AACTTTTAAAAAGTAAATT
66 GACTTTTGAAAAGTAAATT
* * * * *
27362323 GCTCCTCTAAATAGAGGTACCATGACTTTTGGAAAAAGTAAATTGTTCCTCTAAATAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-GAAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
27362388 ACGACTTTTGAAAAAAGTAAATT
64 ACGACTTTTG--AAAAGTAAATT
* * * *
27362411 GCTCTTCTAAATAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCATCTAAACAGAAGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
27362476 GACTTTT-AGAAAGTAAATT
66 GACTTTTGA-AAAGTAAATT
* *
27362495 ACTCCTCTAAACAGAGGCACCATGACTTTTGGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-GAAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
27362560 ACGAC-TTTGAAAAAGTAAATT
64 ACGACTTTTG-AAAAGTAAATT
27362581 GCTCCT
1 GCTCCT
27362587 TGACAATCAT
Statistics
Matches: 449, Mismatches: 51, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
81 58 0.13
82 14 0.03
83 11 0.02
84 145 0.32
85 28 0.06
86 155 0.35
87 4 0.01
88 34 0.08
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (84 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTTGAAAAGTAAATT
Found at i:27362860 original size:21 final size:21
Alignment explanation
Indices: 27362834--27362883 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
27362824 TATGCTATGT
27362834 AATGCATATGAATTTCAATGC
1 AATGCATATGAATTTCAATGC
27362855 AATGCATATGAATTTCAATGC
1 AATGCATATGAATTTCAATGC
27362876 -ATGC-TATG
1 AATGCATATG
27362884 CAAATGTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
21 21 0.72
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (21 bp):
AATGCATATGAATTTCAATGC
Found at i:27363873 original size:22 final size:22
Alignment explanation
Indices: 27363822--27363898 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
27363812 AGGTTTTCTC
**
27363822 TTTTTTTTCA--TTTTCTCATT
1 TTTTTTTTCATTTTTTCTTTTT
**
27363842 TTTTCATTCATTTTTTCTTTTT
1 TTTTTTTTCATTTTTTCTTTTT
** *
27363864 TTTTTTTTCATCATCTCTTTTT
1 TTTTTTTTCATTTTTTCTTTTT
*
27363886 CTTTTTTCTCATT
1 -TTTTTTTTCATT
27363899 GTTCATCCAT
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
20 8 0.19
22 25 0.58
23 10 0.23
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTTTCATTTTTTCTTTTT
Found at i:27364795 original size:23 final size:24
Alignment explanation
Indices: 27364759--27364836 Score: 69
Period size: 23 Copynumber: 3.4 Consensus size: 24
27364749 AGTTGCAGGG
* *
27364759 ATTTTTATTCATTTTTAT-TTTAT-
1 ATTTTT-TTTATTTTCATATTTATC
27364782 ATTTTTGTTTA-TTTCATATTTATC
1 ATTTTT-TTTATTTTCATATTTATC
27364806 ATTTTTTTTATTTT-ATGATTTAT-
1 ATTTTTTTTATTTTCAT-ATTTATC
27364829 -TTTTTTTT
1 ATTTTTTTT
27364837 CTTTCTTTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 13 0.27
23 20 0.42
24 15 0.31
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (24 bp):
ATTTTTTTTATTTTCATATTTATC
Found at i:27364826 original size:24 final size:22
Alignment explanation
Indices: 27364777--27364841 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
27364767 TCATTTTTAT
27364777 TTTATATTTTTGTTTATTTCATA
1 TTTATATTTTT-TTTATTTCATA
*
27364800 TTTATCATTTTTTTTATTTTATGA
1 TTTAT-ATTTTTTTTATTTCAT-A
*
27364824 TTTAT-TTTTTTTTCTTTC
1 TTTATATTTTTTTTATTTC
27364842 TTTTGATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.30
23 14 0.38
24 12 0.32
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (22 bp):
TTTATATTTTTTTTATTTCATA
Found at i:27367041 original size:16 final size:17
Alignment explanation
Indices: 27367010--27367042 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27367000 TGAAAGTATC
*
27367010 AATTTTCCTTAAAAATA
1 AATTTTCCTAAAAAATA
27367027 AATTTTCC-AAAAAATA
1 AATTTTCCTAAAAAATA
27367043 TTTTTGGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (17 bp):
AATTTTCCTAAAAAATA
Found at i:27367127 original size:12 final size:12
Alignment explanation
Indices: 27367110--27367134 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27367100 CCTTCCTTTC
27367110 TATTTTGATTTT
1 TATTTTGATTTT
27367122 TATTTTGATTTT
1 TATTTTGATTTT
27367134 T
1 T
27367135 CTTTAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TATTTTGATTTT
Found at i:27370296 original size:11 final size:11
Alignment explanation
Indices: 27370283--27370328 Score: 74
Period size: 11 Copynumber: 4.2 Consensus size: 11
27370273 GATGAAAATG
**
27370283 AAAAAAAGATG
1 AAAAAAAGAAA
27370294 AAAAAAAGAAA
1 AAAAAAAGAAA
27370305 AAAAAAAGAAA
1 AAAAAAAGAAA
27370316 AAAAAAAGAAA
1 AAAAAAAGAAA
27370327 AA
1 AA
27370329 TGAAGAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:27370304 original size:8 final size:8
Alignment explanation
Indices: 27370293--27370361 Score: 63
Period size: 8 Copynumber: 8.9 Consensus size: 8
27370283 AAAAAAAGAT
27370293 GAAAAAAA
1 GAAAAAAA
27370301 GAAAAAAA
1 GAAAAAAA
*
27370309 -AAAGAAA
1 GAAAAAAA
27370316 -AAAAAAA
1 GAAAAAAA
*
27370323 G-AAAAAT
1 GAAAAAAA
*
27370330 GAAGAAAAT
1 GAA-AAAAA
*
27370339 GAAAAAAT
1 GAAAAAAA
*
27370347 GAAAAAAT
1 GAAAAAAA
27370355 GAAAAAA
1 GAAAAAA
27370362 GAGATCCAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
7 18 0.33
8 29 0.53
9 8 0.15
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (8 bp):
GAAAAAAA
Done.