Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 203 of 222
Found at i:64389334 original size:23 final size:23
Alignment explanation
Indices: 64389309--64389351 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
64389299 TTTTTTTTTA
64389309 AAAAAAAGAGAAATC-GAATAAG
1 AAAAAAAGAGAAATCGGAATAAG
*
64389331 AAAAAAAGGGAAATCGGAATA
1 AAAAAAAGAGAAATCGGAATA
64389352 CAAAATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (23 bp):
AAAAAAAGAGAAATCGGAATAAG
Found at i:64389356 original size:22 final size:22
Alignment explanation
Indices: 64389309--64389356 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
64389299 TTTTTTTTTA
*
64389309 AAAAAAAGAGAAATCGAATAAG
1 AAAAAAAGAGAAATCGAATAAC
*
64389331 AAAAAAAGGGAAATCGGAAT-AC
1 AAAAAAAGAGAAATC-GAATAAC
64389353 AAAA
1 AAAA
64389357 TCGAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (22 bp):
AAAAAAAGAGAAATCGAATAAC
Found at i:64390289 original size:3 final size:3
Alignment explanation
Indices: 64390283--64390344 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
64390273 TTTGTTCTTC
* * * *
64390283 TTA TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A
64390330 TTA TTA TTTA TTA TT
1 TTA TTA -TTA TTA TT
64390345 TATTTTTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 40 0.83
4 8 0.17
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64390340 original size:24 final size:22
Alignment explanation
Indices: 64390283--64390351 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 22
64390273 TTTGTTCTTC
*
64390283 TTATTATTATTATTCTCATTATTA
1 TTATTATTATTATT-T-ATTTTTA
*
64390307 TTATTGTTATTATTTATTTTTCA
1 TTATTATTATTATTTATTTTT-A
64390330 TTATTATTTATTATTTATTTTT
1 TTATTA-TTATTATTTATTTTT
64390352 TAAAATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.12
23 7 0.17
24 28 0.70
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (22 bp):
TTATTATTATTATTTATTTTTA
Found at i:64390512 original size:15 final size:16
Alignment explanation
Indices: 64390494--64390523 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
64390484 CGTACATCAT
64390494 CGTTTCA-TTTTTATA
1 CGTTTCACTTTTTATA
64390509 CGTTTCACTTTTTAT
1 CGTTTCACTTTTTAT
64390524 TTTATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.60
Consensus pattern (16 bp):
CGTTTCACTTTTTATA
Found at i:64392731 original size:19 final size:19
Alignment explanation
Indices: 64392707--64392744 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
64392697 TTATTCTTAG
64392707 ATTCATTTGTTCTTTGGAT
1 ATTCATTTGTTCTTTGGAT
64392726 ATTCATTTGTTCTTTGGAT
1 ATTCATTTGTTCTTTGGAT
64392745 CTTCCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.58
Consensus pattern (19 bp):
ATTCATTTGTTCTTTGGAT
Found at i:64399765 original size:44 final size:44
Alignment explanation
Indices: 64399702--64399786 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
64399692 AAAACAAAAA
*
64399702 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCGAACTCAT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
* * *
64399746 TTGAATTCAATCATGAGATCATCTTTGATCTTTCTCCAACT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACT
64399787 TATCTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (44 bp):
TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
Found at i:64399932 original size:14 final size:14
Alignment explanation
Indices: 64399913--64399941 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64399903 TCTTCTTATG
64399913 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
64399927 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
64399941 T
1 T
64399942 ATCAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTTATGTTTGGAC
Found at i:64402252 original size:4 final size:4
Alignment explanation
Indices: 64402243--64402279 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
64402233 TTTCATGAAA
* *
64402243 TTAT TTAT TTAT TTAT TTAT TTAT GTGT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
64402280 CATTGATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:64402365 original size:3 final size:3
Alignment explanation
Indices: 64402359--64402417 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
64402349 GTTCTTCTTC
* * * *
64402359 TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA
64402406 TTA TTTA TTA TT
1 TTA -TTA TTA TT
64402418 TATTTTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
3 37 0.82
4 8 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64417187 original size:45 final size:45
Alignment explanation
Indices: 64417108--64418060 Score: 985
Period size: 45 Copynumber: 21.2 Consensus size: 45
64417098 TAAAAAACAA
* ** *
64417108 CAGATCTTATCTTTTTGTATTGGCAGCGAGGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
64417153 CA-AGTCTTGTCTTCCTGTGTTGGCAGCAAAGTAGA-CTAAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * * * * *
64417198 CAGATATTGTCTTCTTGTATAGGCAGCGAAGTAGGTCAAAAACAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
64417243 CAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
64417288 CA-AGTCTTGTCTTCTTGTATTGGCAGTGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * *
64417333 CAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
64417378 CAGATCTTATCTTCCTATATTGGCAGTGAGGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
64417423 CA-AGTCTTGTCTTCATGTATTGGCAGCGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * *
64417468 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGGTC-AAAAGCAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-TAG
* * * *
64417513 CAGATCTTATCTTCCTATATTGGCAGCGAAATAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
64417558 CA-AGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * * * *
64417603 CAGATCTTGTCTTCCTATATGGGCAGCGAAATAGGTCAAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * ** *
64417648 CAGATCTTATCTTCCTGTATTGGCAACGAAATAGATAAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
64417693 CA-AGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * * *
64417738 CAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCGAAAACAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
64417783 CAGATCTTATCTTCCTGTATTAGTAGCGAAATAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* ** * *
64417828 CAGATCTTGTCTTCCTGTAGTGGCAGTAAAGTAAATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * * *
64417873 CAGGTCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAAAACAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * **
64417918 TAGATCTTATCTTCCTGTATTGGCAACGAAATAGATTAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
64417963 TAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAAATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
64418008 CAGGTCTTGTCTTCCTGTATTGGCAGCGAAGT-GCATCAAAGATTG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCGAAGATAG
64418053 CAGATCTT
1 CAGATCTT
64418061 ATCTCCCTAA
Statistics
Matches: 740, Mismatches: 145, Indels: 46
0.79 0.16 0.05
Matches are distributed among these distances:
44 12 0.02
45 715 0.97
46 13 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
Found at i:64418064 original size:135 final size:135
Alignment explanation
Indices: 64417100--64418039 Score: 1350
Period size: 135 Copynumber: 7.0 Consensus size: 135
64417090 CAGTAGACTA
* ** ** *
64417100 AAAAACAACAGATCTTATCTTTTTGTATTGGCAGCGAGGTAGATCGAAGATAGCAAGTCTTGTCT
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
* * * * *
64417165 TCCTGTGTTGGCAGCAAAGTAGACTAAAGATAGCAGATATTGTCTTCTTGTATAGGCAGCGAAGT
66 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
64417230 AGGTC
131 AGGTC
*
64417235 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGC-AAAGTAGATCGAAGATAGCAAGTCTTGTC
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAA-TAGATCAAAGATAGCAAGTCTTGTC
* **
64417299 TTCTTGTATTGGCAGTGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAG
65 TTCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAG
64417364 TAGGTC
130 TAGGTC
* * * ** *
64417370 AAAAATAGCAGATCTTATCTTCCTATATTGGCAGTGAGGTAGATCGAAGATAGCAAGTCTTGTCT
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
* * *
64417435 TCATGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
66 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
64417500 AGGTC
131 AGGTC
* *
64417505 AAAAGCAGCAGATCTTATCTTCCTATATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
* *
64417570 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTATATGGGCAGCGAAAT
66 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
64417635 AGGTC
131 AGGTC
* * * *
64417640 AAAAATAGCAGATCTTATCTTCCTGTATTGGCAACGAAATAGATAAAAGATAACAAGTCTTGTCT
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
64417705 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
66 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
64417770 AGGTC
131 AGGTC
* * * *
64417775 GAAAACAACAGATCTTATCTTCCTGTATTAGTAGCGAAATAGATCAAAGATAGC-AGATCTTGTC
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAG-TCTTGTC
* * * * *
64417839 TTCCTGTAGTGGCAGTAAAGTA-AATCGAAGATAACAGGTCTTGTCTTCCTGTATGGGCAGCGAA
65 TTCCTGTATTGGCAGCAAAGTAGACT-GAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAA
64417903 GTAGGTC
129 GTAGGTC
* * * *
64417910 AAAAACAGTAGATCTTATCTTCCTGTATTGGCAACGAAATAGATTAAAGATAG-TAGATCTTGTC
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAG-TCTTGTC
** * * *
64417974 TTCCTGTATTGGCAGTGAAGTA-AATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGCAGCGAA
65 TTCCTGTATTGGCAGCAAAGTAGACT-GAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAA
64418038 GT
129 GT
64418040 GCATCAAAGA
Statistics
Matches: 736, Mismatches: 64, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
134 5 0.01
135 730 0.99
136 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (135 bp):
AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
AGGTC
Found at i:64426751 original size:44 final size:44
Alignment explanation
Indices: 64426688--64426772 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
64426678 AAAACAAAAA
*
64426688 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCGAACTCAT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
* * *
64426732 TTGAATTCAATCATGAGATCATCTTTGATCTTTCTCCAACT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACT
64426773 TATCTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (44 bp):
TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
Found at i:64428745 original size:14 final size:14
Alignment explanation
Indices: 64428728--64428757 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64428718 TTATTTAAAT
64428728 ATAATTAAAAATAA
1 ATAATTAAAAATAA
*
64428742 ATAATTATAAATAA
1 ATAATTAAAAATAA
64428756 AT
1 AT
64428758 GTTAAAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTAAAAATAA
Found at i:64428830 original size:20 final size:20
Alignment explanation
Indices: 64428807--64428852 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
64428797 TTATTTATAA
* *
64428807 TAATTATAATTAATTAATAT
1 TAATTATAATTAAATAAAAT
*
64428827 TAATTATATTTAAATAAAAT
1 TAATTATAATTAAATAAAAT
64428847 T-ATTAT
1 TAATTAT
64428853 TTATAGGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATAATTAAATAAAAT
Found at i:64429042 original size:18 final size:19
Alignment explanation
Indices: 64429019--64429057 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
64429009 TAAAATTGAA
64429019 ATAATTAATTAATA-AAAT
1 ATAATTAATTAATAGAAAT
* *
64429037 ATAATTATTTTATAGAAAT
1 ATAATTAATTAATAGAAAT
64429056 AT
1 AT
64429058 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATAATTAATTAATAGAAAT
Found at i:64430065 original size:15 final size:14
Alignment explanation
Indices: 64430047--64430076 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
64430037 ATTCTGGCCA
64430047 AAATAAAATAATAAT
1 AAATAAAATAA-AAT
64430062 AAATAAAATAAAAT
1 AAATAAAATAAAAT
64430076 A
1 A
64430077 TTAAAGTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:64431596 original size:16 final size:16
Alignment explanation
Indices: 64431575--64431612 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
64431565 ACCGGCATGT
64431575 AGCCTGCTAGGCTTGA
1 AGCCTGCTAGGCTTGA
64431591 AGCCTGCTAGGCTTGA
1 AGCCTGCTAGGCTTGA
64431607 AGCCTG
1 AGCCTG
64431613 ATTCAGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (16 bp):
AGCCTGCTAGGCTTGA
Found at i:64431672 original size:41 final size:41
Alignment explanation
Indices: 64431622--64431728 Score: 144
Period size: 41 Copynumber: 2.6 Consensus size: 41
64431612 GATTCAGTAC
*
64431622 ACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAA-ATTTTA
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATA-TTTA
* * *
64431663 ACCGACATTAAGCCTACTAGACATAAAGTCTGAAATATTTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTA
* *
64431704 ACTGGCATTAAGCTTGCTAGACATA
1 ACCGGCATTAAGCCTGCTAGACATA
64431729 GAGCCTGATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 56 0.98
42 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (41 bp):
ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTA
Found at i:64433492 original size:21 final size:22
Alignment explanation
Indices: 64433457--64433503 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
64433447 TTTTTTTAAA
64433457 AAAAAAAGAGAAATCG-AATAC
1 AAAAAAAGAGAAATCGAAATAC
*
64433478 GAAAAAAAG-GCAATCGAAATAC
1 -AAAAAAAGAGAAATCGAAATAC
64433500 AAAA
1 AAAA
64433504 TCGAAAAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.66, C:0.11, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAGAAATCGAAATAC
Found at i:64434348 original size:4 final size:4
Alignment explanation
Indices: 64434339--64434376 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
64434329 CATGAAAGTT
*
64434339 TTTA TTTA TTTA TTTA TTTA TTTA TGTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
64434377 CATTGATTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:64434455 original size:3 final size:3
Alignment explanation
Indices: 64434449--64434506 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
64434439 ACATTTGTTG
* * * * *
64434449 TTA TTA TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA ATA TTTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
64434495 TTCA TTA TTA TT
1 TT-A TTA TTA TT
64434507 TATTTTTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
3 39 0.91
4 4 0.09
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:64439212 original size:18 final size:19
Alignment explanation
Indices: 64439184--64439222 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
64439174 AGTGAAATTT
64439184 ATTTGAAAATCCCTGAAGG
1 ATTTGAAAATCCCTGAAGG
64439203 ATTT-AAAATCCCTGAAGG
1 ATTTGAAAATCCCTGAAGG
64439221 AT
1 AT
64439223 ATAGAGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (19 bp):
ATTTGAAAATCCCTGAAGG
Found at i:64441110 original size:3 final size:3
Alignment explanation
Indices: 64441102--64441203 Score: 82
Period size: 3 Copynumber: 33.0 Consensus size: 3
64441092 TTTAGCAATC
* * * *
64441102 TTA TTA TTA TT- TTAA TTA TT- TTAA TGTA TTA TCA TTTA TCA TTT TTG
1 TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* * *
64441149 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA CTA ATA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
64441195 TTA TTA TTA
1 TTA TTA TTA
64441204 GTTTTATTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
2 4 0.05
3 65 0.81
4 10 0.12
5 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:64444717 original size:30 final size:31
Alignment explanation
Indices: 64444683--64444742 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
64444673 AAACCTTTTA
*
64444683 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
64444713 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
64444743 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:64453506 original size:20 final size:20
Alignment explanation
Indices: 64453483--64453528 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
64453473 TTATTTATAA
* *
64453483 TAATTATAATTAATTAATAT
1 TAATTATAATTAAATAAAAT
*
64453503 TAATTATATTTAAATAAAAT
1 TAATTATAATTAAATAAAAT
64453523 T-ATTAT
1 TAATTAT
64453529 TTATGGGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATAATTAAATAAAAT
Found at i:64454325 original size:29 final size:29
Alignment explanation
Indices: 64454293--64454377 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
64454283 AAATAAAAAT
64454293 TTATTATTTTATTAATAAAATGTTTTAAA
1 TTATTATTTTATTAATAAAATGTTTTAAA
64454322 TTATTATTTTATTAATAAAAT-TTATTAAA
1 TTATTATTTTATTAATAAAATGTT-TTAAA
64454351 TTATTA--TT-TTAATAAAATG-TTTAAA
1 TTATTATTTTATTAATAAAATGTTTTAAA
64454376 TT
1 TT
64454378 TCAGATGAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
25 7 0.13
26 11 0.20
27 2 0.04
28 2 0.04
29 32 0.59
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TTATTATTTTATTAATAAAATGTTTTAAA
Found at i:64454369 original size:55 final size:51
Alignment explanation
Indices: 64454274--64454377 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 51
64454264 TTATTAATCA
64454274 TATTTTATTAAATAAAAATTTATTATTTTATTAATAAAATGTTTTAAATTAT
1 TATTTTATTAAATAAAAATTTATTATTTTATTAATAAAATG-TTTAAATTAT
64454326 TATTTTATT-AAT-AAAATTTATTAAATTATTATTTTAATAAAATGTTTAAATT
1 TATTTTATTAAATAAAAATTTATT--ATT-TTA--TTAATAAAATGTTTAAATT
64454378 TCAGATGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
50 10 0.21
51 3 0.06
52 12 0.26
53 3 0.06
54 8 0.17
55 11 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (51 bp):
TATTTTATTAAATAAAAATTTATTATTTTATTAATAAAATGTTTAAATTAT
Found at i:64454738 original size:25 final size:26
Alignment explanation
Indices: 64454710--64454761 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
64454700 TTATTTGATC
64454710 CTCACTTTCCTTTTTTAATA-AAATT
1 CTCACTTTCCTTTTTTAATATAAATT
* *
64454735 CTCACTTTCTTTTTTTGATATAAATT
1 CTCACTTTCCTTTTTTAATATAAATT
64454761 C
1 C
64454762 ATTATATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.25, C:0.19, G:0.02, T:0.54
Consensus pattern (26 bp):
CTCACTTTCCTTTTTTAATATAAATT
Found at i:64457028 original size:4 final size:4
Alignment explanation
Indices: 64457019--64457052 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
64457009 CATGAAAGTC
*
64457019 TTTA TTTA TTTA TTTA TTTA TGTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
64457053 CATTGATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:64457138 original size:3 final size:3
Alignment explanation
Indices: 64457132--64457183 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
64457122 GTTCTTCTTC
* * * *
64457132 TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA
64457179 TTA TT
1 TTA TT
64457184 TATTTTTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 34 0.87
4 5 0.13
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64461293 original size:15 final size:15
Alignment explanation
Indices: 64461281--64461335 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
64461271 GTTTTTCTTC
64461281 TTATTATTATTCTCA
1 TTATTATTATTCTCA
* *
64461296 TTATTATTATTGTTA
1 TTATTATTATTCTCA
64461311 TTATTTATT-TT-TCA
1 TTA-TTATTATTCTCA
*
64461325 CTATTATTATT
1 TTATTATTATT
64461336 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 18 0.53
16 5 0.15
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTATTATTCTCA
Found at i:64463474 original size:34 final size:35
Alignment explanation
Indices: 64463408--64463474 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
64463398 CAAACACCAG
* *
64463408 AAAATATTTTTCAGTAAACCATTTTATAGAAAAGT
1 AAAACATTTTTCAGTAAACCATTTTACAGAAAAGT
* *
64463443 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTTCAGTAAACCATTTTACAGAAAA
64463475 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTTCAGTAAACCATTTTACAGAAAAGT
Found at i:64464714 original size:6 final size:6
Alignment explanation
Indices: 64464703--64464729 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64464693 TAAAAAAATC
64464703 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
64464730 CCAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:64471024 original size:19 final size:17
Alignment explanation
Indices: 64471000--64471116 Score: 59
Period size: 16 Copynumber: 6.9 Consensus size: 17
64470990 TAATATTAGA
64471000 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
64471019 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
*
64471039 AAAATATATACAATGA-T
1 AAAATATATATAAT-ATT
* * *
64471056 AATATATATAAAAGA-T
1 AAAATATATATAATATT
* *
64471072 -ATATGTATAT-ATAATT
1 AAAATATATATAAT-ATT
*
64471088 -ATATA-ATATAATATT
1 AAAATATATATAATATT
64471103 AAAATATA-ATAATA
1 AAAATATATATAATA
64471117 CGACATAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.01
15 16 0.20
16 19 0.24
17 17 0.21
18 2 0.03
19 8 0.10
20 9 0.11
21 2 0.03
22 6 0.08
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:64471328 original size:3 final size:3
Alignment explanation
Indices: 64471313--64471351 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
64471303 AAGCATAAAC
* *
64471313 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64471352 CATTGGAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:64471509 original size:6 final size:6
Alignment explanation
Indices: 64471467--64471500 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
64471457 ATAAAAATAT
*
64471467 ATACTA ATACATA ATAGTA ATACTA ATACTA ATA
1 ATACTA ATAC-TA ATACTA ATACTA ATACTA ATA
64471501 ATACTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (6 bp):
ATACTA
Found at i:64472000 original size:11 final size:11
Alignment explanation
Indices: 64471986--64472021 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
64471976 AAAAAAAAAA
64471986 GAAGAGAGAGG
1 GAAGAGAGAGG
*
64471997 GAAGAGAGAAG
1 GAAGAGAGAGG
64472008 GAAGAGAGAAGG
1 GAAGAGAG-AGG
64472020 GA
1 GA
64472022 GGGGGGGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:64472179 original size:15 final size:17
Alignment explanation
Indices: 64472159--64472195 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
64472149 AGGTAAAAAA
*
64472159 TTTATTTTTTGT-T-TT
1 TTTATTTGTTGTATATT
64472174 TTTATTTGTTGTATATT
1 TTTATTTGTTGTATATT
64472191 TTTAT
1 TTTAT
64472196 GTTAAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 11 0.58
16 1 0.05
17 7 0.37
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (17 bp):
TTTATTTGTTGTATATT
Found at i:64473133 original size:44 final size:43
Alignment explanation
Indices: 64472967--64473622 Score: 330
Period size: 44 Copynumber: 15.0 Consensus size: 43
64472957 CTACTTCATG
* * *
64472967 CCAATACATG-AGACAAGATCTACTTTCTTCGATCTACTTTACCA
1 CCAATACAGGAAGACAAGATCTGCTTTCTGCGATCTAC-TT-CCA
** * * *
64473011 CCAATATGGGAAGACAAAATCTGC-GTC-GTCGATCCACTTCCAA
1 CCAATACAGGAAGACAAGATCTGCTTTCTG-CGATCTACTTCC-A
* * * * * * ** *
64473054 TCATTATAGGAAGATAGGACCTG-TTATCTTTGATCTACTTCACG
1 CCAATACAGGAAGACAAGATCTGCTT-TCTGCGATCTACTTC-CA
* *
64473098 CCAATACATGAAGACAATATCTGCTTTCTGCGATCTACTTCGCCA
1 CCAATACAGGAAGACAAGATCTGCTTTCTGCGATCTACTT--CCA
* ** * *
64473143 CCAACATGGGAAGACAAGATCTGC-GTC-GTCGATCCACTTCCAA
1 CCAATACAGGAAGACAAGATCTGCTTTCTG-CGATCTACTTCC-A
* * * * * * ** *
64473186 TCATTATAGGAAGATAGGACCTG-TTATCTTTGATCTACTTCACG
1 CCAATACAGGAAGACAAGATCTGCTT-TCTGCGATCTACTTC-CA
* *
64473230 CCAATACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCA
1 CCAATACAGGAAGACAAGATCTGCTTTCTGCGATCTACTT--CCA
** * *
64473275 CCAATATGGGAAGACAAGATCTGC-ATCTTG-GATCCACTTCCTA
1 CCAATACAGGAAGACAAGATCTGCTTTC-TGCGATCTACTTCC-A
* * * * * * * *
64473318 TCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACG
1 CCAATACAGGAAGACAAGATCTGCTTTCTGCGATCTACTTC-CA
* *
64473362 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CCAATACAGGAAGACAAGATCTGCTTTCTGCGATCTACTT--CCA
** * *
64473407 CCAATATGGGAAGACAAGATCTG-TATCTTG-GATCCACTTCCTA
1 CCAATACAGGAAGACAAGATCTGCTTTC-TGCGATCTACTTCC-A
* * * * * * * *
64473450 TCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACG
1 CCAATACAGGAAGACAAGATCTGCTTTCTGCGATCTACTTC-CA
* *
64473494 CCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCGCCA
1 CCAATACAGGAAGACAAGATCTGCTTTCTGCGATCTACTT--CCA
** * *
64473539 CCAATATGGGAAGACAAGATCTGC-GTC-GTCGATCCACTTCCTA
1 CCAATACAGGAAGACAAGATCTGCTTTCTG-CGATCTACTTCC-A
* * * * * *
64473582 CCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTC
1 CCAATACAGGAAGACAAGATCTGCTTTCTGCGATCTACTTC
64473623 TTGCCCCGGG
Statistics
Matches: 458, Mismatches: 117, Indels: 74
0.71 0.18 0.11
Matches are distributed among these distances:
42 10 0.02
43 100 0.22
44 238 0.52
45 106 0.23
46 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
CCAATACAGGAAGACAAGATCTGCTTTCTGCGATCTACTTCCA
Found at i:64473152 original size:132 final size:132
Alignment explanation
Indices: 64472948--64473622 Score: 1073
Period size: 132 Copynumber: 5.1 Consensus size: 132
64472938 AAGATCTGTA
* * * * **
64472948 ATCTTCAATCTACTTCATGCCAATACATG-AGACAAGATCTACTTTCTTCGATCTACTTTACCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * *
64473012 CAATATGGGAAGACAAAATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
*
64473077 TT
131 CT
* *
64473079 ATCTTTGATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * *
64473144 CAACATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
*
64473209 TT
131 CT
* *
64473211 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * *
64473276 CAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
64473341 CT
131 CT
*
64473343 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
** * *
64473408 CAATATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
64473473 CT
131 CT
*
64473475 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * *
64473540 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
64473605 CT
131 CT
64473607 ATCTTCGATCTACTTC
1 ATCTTCGATCTACTTC
64473623 TTGCCCCGGG
Statistics
Matches: 511, Mismatches: 32, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
131 26 0.05
132 485 0.95
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
CT
Found at i:64473841 original size:95 final size:95
Alignment explanation
Indices: 64473735--64473928 Score: 336
Period size: 95 Copynumber: 2.0 Consensus size: 95
64473725 AAGATCTACA
*
64473735 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-CAT
1 ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCAC-T
64473799 GTAGTCAGGGAAGTAAAATCTGCCATCTTTG
65 GTAGTCAGGGAAGTAAAATCTGCCATCTTTG
* *
64473830 ATCTTCAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
64473895 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAAGTAAAATCTGCCATCTTTG
64473925 ATCT
1 ATCT
64473929 GCTTCGCTGC
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 93 0.99
96 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAAGTAAAATCTGCCATCTTTG
Found at i:64474130 original size:97 final size:95
Alignment explanation
Indices: 64473964--64474158 Score: 336
Period size: 97 Copynumber: 2.0 Consensus size: 95
64473954 AAGATCTGCA
64473964 ATCTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
64474029 TAGTCACATGGAGGTAAAATCTGCCATCCTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCCTTG
* *
64474061 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
64474126 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCCTTG
64474156 ATC
1 ATC
64474159 AGCTTCGCTG
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 27 0.29
97 67 0.71
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCCTTG
Found at i:64474153 original size:231 final size:229
Alignment explanation
Indices: 64473630--64474293 Score: 1132
Period size: 231 Copynumber: 2.9 Consensus size: 229
64473620 TTCTTGCCCC
** * * *
64473630 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
* *
64473695 GATCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
* *
64473760 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-CATGTAGTCAGGGAAGTAAAATCTGCCA
131 TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCAC-TGTAGTCAGGGAGGTAAAATCTGCCA
*
64473824 TCTTTGATCTTCAATCTATTCCACTGCCAAATGCA
195 TCTTTGATCTTCAATCTATTCCACTGCCAAATACA
* *
64473859 GAGAGATAGAGTTATCGGCTTTAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
*
64473924 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
64473989 TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCC
131 TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCC
*
64474054 ATCCTTGATCTTCAATCTATTCCACTGCCAAATACA
194 ATCTTTGATCTTCAATCTATTCCACTGCCAAATACA
64474090 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
* *
64474155 GATCAGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
64474220 TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
64474285 CTTTGATCT
196 CTTTGATCT
64474294 ACTTCGCTGC
Statistics
Matches: 409, Mismatches: 23, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
229 189 0.46
230 1 0.00
231 219 0.54
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (229 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
CTTTGATCTTCAATCTATTCCACTGCCAAATACA
Found at i:64474216 original size:46 final size:46
Alignment explanation
Indices: 64474166--64474359 Score: 150
Period size: 46 Copynumber: 4.3 Consensus size: 46
64474156 ATCAGCTTCG
* *
64474166 CTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
* * * ** * *
64474212 CTGCCAAATACAGGGAGAT-AGAAT-TATC-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGTAAG-ATCT-GCAATCTTCAATCTATTCCA
*** * * * ** *
64474257 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTACTT-CG
1 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTA-TTCCA
64474300 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
64474346 CTGCCAAATACAGG
1 CTGCCAAATACAGG
64474360 GAGATAGAAT
Statistics
Matches: 107, Mismatches: 31, Indels: 20
0.68 0.20 0.13
Matches are distributed among these distances:
42 11 0.10
43 14 0.13
44 1 0.01
45 22 0.21
46 59 0.55
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
Found at i:64474221 original size:134 final size:133
Alignment explanation
Indices: 64474061--64474470 Score: 705
Period size: 134 Copynumber: 3.1 Consensus size: 133
64474051 GCCATCCTTG
*
64474061 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
64474126 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCAGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCAGCTTCGCTGCCAAATACAGGAAGGCAAGATC
64474191 TGTA
131 TG-A
64474195 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
* *
64474260 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTA-CTTCGCTGCCAAATACAGGAAGGTAAGAT
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATC-AGCTTCGCTGCCAAATACAGGAAGGCAAGAT
64474324 CTGCA
130 CTG-A
64474329 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
* * * * *
64474394 TTGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCAGCTTCGCTGCCAAATACAGGAAGGCAAGATC
64474459 TGA
131 TGA
64474462 TATCTTCAA
1 -ATCTTCAA
64474471 CCAGCTCTGC
Statistics
Matches: 263, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
133 1 0.00
134 261 0.99
135 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (133 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCAGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGA
Found at i:64474556 original size:86 final size:86
Alignment explanation
Indices: 64474418--64474767 Score: 547
Period size: 86 Copynumber: 4.1 Consensus size: 86
64474408 AAATCTGCCA
* * * * *
64474418 TCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
64474483 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
64474505 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
64474570 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
64474591 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
64474656 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
64474677 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
64474742 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
64474763 TCTTC
1 TCTTC
64474768 AATTTTTACT
Statistics
Matches: 245, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
86 225 0.92
87 20 0.08
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:64474627 original size:42 final size:42
Alignment explanation
Indices: 64474493--64474713 Score: 98
Period size: 42 Copynumber: 5.2 Consensus size: 42
64474483 CAAACGAGAG
*
64474493 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
64474535 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
64474578 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
64474621 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
* *
64474664 GTGGCAAGGTTTGTCTTTGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
64474707 AGGCAAG
1 AGGCAAG
64474714 ATCTGATAAC
Statistics
Matches: 121, Mismatches: 38, Indels: 40
0.61 0.19 0.20
Matches are distributed among these distances:
41 23 0.19
42 33 0.27
43 16 0.13
44 25 0.21
45 24 0.20
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:64478908 original size:19 final size:20
Alignment explanation
Indices: 64478884--64478927 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
64478874 CGTGAAAGTC
* *
64478884 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
64478903 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
64478923 -AATGC
1 TAATGC
64478928 CAAAAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:64481045 original size:38 final size:38
Alignment explanation
Indices: 64480986--64481091 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
64480976 CATTTTTAAG
*
64480986 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
64481023 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
64481061 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
64481092 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:64481484 original size:19 final size:17
Alignment explanation
Indices: 64481460--64481576 Score: 59
Period size: 16 Copynumber: 6.9 Consensus size: 17
64481450 TAATATTAGA
64481460 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
64481479 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
*
64481499 AAAATATATACAATGA-T
1 AAAATATATATAAT-ATT
* * *
64481516 AATATATATAAAAGA-T
1 AAAATATATATAATATT
* *
64481532 -ATATGTATAT-ATAATT
1 AAAATATATATAAT-ATT
*
64481548 -ATATA-ATATAATATT
1 AAAATATATATAATATT
64481563 AAAATATA-ATAATA
1 AAAATATATATAATA
64481577 CGACATAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.01
15 16 0.20
16 19 0.24
17 17 0.21
18 2 0.03
19 8 0.10
20 9 0.11
21 2 0.03
22 6 0.08
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:64481782 original size:3 final size:3
Alignment explanation
Indices: 64481774--64481809 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
64481764 AAGCATAAAC
*
64481774 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64481810 CATTGGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:64481967 original size:6 final size:6
Alignment explanation
Indices: 64481925--64481958 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
64481915 ATAAAAATAT
*
64481925 ATACTA ATACATA ATAGTA ATACTA ATACTA ATA
1 ATACTA ATAC-TA ATACTA ATACTA ATACTA ATA
64481959 ATACTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (6 bp):
ATACTA
Found at i:64482458 original size:11 final size:11
Alignment explanation
Indices: 64482442--64482477 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
64482432 AGAAAAAAAA
64482442 GAAGAGAGAGG
1 GAAGAGAGAGG
*
64482453 GAAGAGAGAAG
1 GAAGAGAGAGG
64482464 GAAGAGAGAAGG
1 GAAGAGAG-AGG
64482476 GA
1 GA
64482478 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:64482605 original size:16 final size:17
Alignment explanation
Indices: 64482584--64482621 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
64482574 AGGTAAAAAA
* *
64482584 TTTATTTTTTGT-TTTT
1 TTTATTTGTTGTATATT
64482600 TTTATTTGTTGTATATT
1 TTTATTTGTTGTATATT
64482617 TTTAT
1 TTTAT
64482622 GTTAAATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (17 bp):
TTTATTTGTTGTATATT
Found at i:64484008 original size:23 final size:23
Alignment explanation
Indices: 64483973--64484017 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
64483963 TGGAGTATAA
* *
64483973 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
64483996 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
64484018 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:64484742 original size:41 final size:42
Alignment explanation
Indices: 64484589--64484802 Score: 258
Period size: 42 Copynumber: 5.1 Consensus size: 42
64484579 TGAGATTTTA
64484589 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
1 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
* * * *
64484631 GGTGAAATAATTTCAAACTTTACGTCTAGCAGGTTTAATGCC
1 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
64484673 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
1 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
* * *
64484715 GGTGAAAC-ATTTCAGACTATATGTCTAGCAGGC-TAAGTGCC
1 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAA-TGCC
* * * *
64484756 GGTG-TACTGA-ATCAGGCTTTAAGTCTAGCAGGC-TAAGTGCC
1 GGTGAAAC-AATATCAGACTTTACGTCTAGCAGGCTTAA-TGCC
*
64484797 AGTGAA
1 GGTGAA
64484803 TCTGTTTAAA
Statistics
Matches: 150, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
40 5 0.03
41 60 0.40
42 85 0.57
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (42 bp):
GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
Found at i:64486647 original size:14 final size:14
Alignment explanation
Indices: 64486628--64486668 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
64486618 ATGAAAAAAC
64486628 AAAAAAAAATC-AA
1 AAAAAAAAATCAAA
*
64486641 AATAAAAAA-CAAA
1 AAAAAAAAATCAAA
64486654 AAAGAAAAAATCAAA
1 AAA-AAAAAATCAAA
64486669 GTCAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.04
13 12 0.52
14 6 0.26
15 4 0.17
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.07
Consensus pattern (14 bp):
AAAAAAAAATCAAA
Found at i:64486674 original size:33 final size:30
Alignment explanation
Indices: 64486621--64486682 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 30
64486611 CAAAAAAATG
64486621 AAAAAACAAAAAAAAATCAAAATAAAAAAC
1 AAAAAACAAAAAAAAATCAAAATAAAAAAC
*
64486651 AAAAAAGAAAAAATCAAAGTCAAAATAAAAAA
1 AAAAAACAAAAAA--AAA-TCAAAATAAAAAA
64486683 TATGAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 12 0.43
32 3 0.11
33 13 0.46
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (30 bp):
AAAAAACAAAAAAAAATCAAAATAAAAAAC
Found at i:64489125 original size:44 final size:44
Alignment explanation
Indices: 64489055--64489176 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 44
64489045 AGATACCAAT
* * ** *
64489055 TCTATCTCCCTAGGCAGCAGTAGAATAGATTGAAGATTGTG-AG
1 TCTATCTCCCTGGGAAGCAGCGGAATAGATTGAAGATGGTGAAG
* ** * * *
64489098 TCATATTTCCCTGGTCAGTAGCGGAATAGGTTGAAGATGGTGAAT
1 TC-TATCTCCCTGGGAAGCAGCGGAATAGATTGAAGATGGTGAAG
*
64489143 TCTATCTCCCTGGGAAGCAGTGGAATAGATTGAA
1 TCTATCTCCCTGGGAAGCAGCGGAATAGATTGAA
64489177 AATCACAGAT
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
43 2 0.03
44 57 0.92
45 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (44 bp):
TCTATCTCCCTGGGAAGCAGCGGAATAGATTGAAGATGGTGAAG
Found at i:64489282 original size:18 final size:18
Alignment explanation
Indices: 64489259--64489296 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
64489249 AGGGAAGCAG
64489259 ATTTAAGCCACAAGTCCT
1 ATTTAAGCCACAAGTCCT
64489277 ATTTAAGCCACAAGTCCT
1 ATTTAAGCCACAAGTCCT
64489295 AT
1 AT
64489297 CTCCTTGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (18 bp):
ATTTAAGCCACAAGTCCT
Found at i:64489414 original size:149 final size:157
Alignment explanation
Indices: 64489144--64489594 Score: 526
Period size: 149 Copynumber: 2.9 Consensus size: 157
64489134 ATGGTGAATT
** * * * *
64489144 CTATCTCCCTGGGAAGCAGTGGAATAGATTGAAAATCACAGATCTTATCTCCCTAAGCAGTAGTG
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAATAGTG
* *
64489209 GAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCACAAGT
66 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
*
64489274 CCTAT-T-T-A-AG-CCACA-A-G-T-C
131 CCTATCTGTCAGAGTCCA-ATAGGTTGA
* *
64489293 CTATCTCCTTGGTCAGCAGTGGAATAGGTTGGAAATTATAGATCTTATCTCCCTAAGCAATAGTG
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAATAGTG
* * * * * * *
64489358 AAGCAGATCGAAGACGACGAATCTTATCTTCCCTAGGAGTAGGGAAGTAAAATTAAGCCACAAAT
66 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
**
64489423 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGA
131 CCTA--T--CT-GTCAG-AGTCCAATAGGTTGA
** * *
64489456 AAAT-TACAGCCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATA
1 CTATCT-C--CCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAATA
64489520 GTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACA
63 GTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACA
64489585 AGTCCTATCT
128 AGTCCTATCT
64489595 CCCTGGTCAG
Statistics
Matches: 251, Mismatches: 33, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
149 117 0.47
151 1 0.00
154 1 0.00
156 1 0.00
157 1 0.00
159 3 0.01
160 2 0.01
161 3 0.01
162 2 0.01
163 4 0.02
165 116 0.46
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (157 bp):
CTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAATAGTG
GAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
CCTATCTGTCAGAGTCCAATAGGTTGA
Found at i:64489474 original size:34 final size:34
Alignment explanation
Indices: 64489431--64489498 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
64489421 ATCCTATCTC
64489431 CCTGGTCAGTAGTGGAATAGGTTGAAAATTACAG
1 CCTGGTCAGTAGTGGAATAGGTTGAAAATTACAG
*
64489465 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAG
1 CCTGGTCAGTAGTGGAATAGGTTGAAAATTACAG
64489499 ATCTTATCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (34 bp):
CCTGGTCAGTAGTGGAATAGGTTGAAAATTACAG
Found at i:64489581 original size:165 final size:165
Alignment explanation
Indices: 64489302--64489629 Score: 557
Period size: 165 Copynumber: 2.0 Consensus size: 165
64489292 CCTATCTCCT
* *
64489302 TGGTCAGCAGTGGAATAGGTTGGAAATTATAGATCTTATCTCCCTAAGCAATAGTGAAGCAGATC
1 TGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGAAGCAGATC
* *
64489367 GAAGACGACGAATCTTATCTTCCCTAGGAGTAGGGAAGTAAAATTAAGCCACAAATCCTATCTCC
66 GAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAAATTAAGCCACAAATCCTATCTCC
64489432 CTGGTCAGTAGTGGAATAGGTTGAAAATTACAGCC
131 CTGGTCAGTAGTGGAATAGGTTGAAAATTACAGCC
* *
64489467 TGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGGAGCAGATC
1 TGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGAAGCAGATC
* * * *
64489532 GAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCTCC
66 GAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAAATTAAGCCACAAATCCTATCTCC
*
64489597 CTGGTCAGTAGTGGAATAGGTTGGAAATTACAG
131 CTGGTCAGTAGTGGAATAGGTTGAAAATTACAG
64489630 ATCTTATCTC
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
165 152 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (165 bp):
TGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGAAGCAGATC
GAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAAATTAAGCCACAAATCCTATCTCC
CTGGTCAGTAGTGGAATAGGTTGAAAATTACAGCC
Found at i:64489699 original size:131 final size:131
Alignment explanation
Indices: 64489465--64489816 Score: 609
Period size: 131 Copynumber: 2.7 Consensus size: 131
64489455 AAAATTACAG
* *
64489465 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGGAGCAGA
1 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
64489530 TCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCT
66 TCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCT
64489595 C
131 C
64489596 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
64489661 TCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCTTATCT
66 TCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCT
64489726 C
131 C
* * *
64489727 CCTGGTCAGCAGTGGAATAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
1 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
**
64489792 TCGACA-ATAGCGAATCTTA-CTTCCC
66 TCGA-AGACGGCGAATCTTATCTTCCC
64489817 AGGCGGTGTA
Statistics
Matches: 212, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
130 6 0.03
131 205 0.97
132 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (131 bp):
CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
TCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCT
C
Found at i:64489785 original size:44 final size:44
Alignment explanation
Indices: 64489471--64489786 Score: 125
Period size: 44 Copynumber: 7.2 Consensus size: 44
64489461 ACAGCCTGGT
* * * *
64489471 CAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAG
1 CAGTAGTGGAACAGATTGAAAACTACAGATCTTATCTCCCTAAG
* * * * * ** *
64489515 AAATAGTGGAGCAGATCGAAGACGGC-GAATCTTATCTTCCC-CAG
1 CAGTAGTGGAACAGATTGAAAACTACAG-ATCTTATC-TCCCTAAG
* * * * * *
64489559 GAGTAG-GGAAGCAGATT-TAAGCCACA-AGTCCTATCTCCCT-GG
1 CAGTAGTGGAA-CAGATTGAAAACTACAGA-TCTTATCTCCCTAAG
* * * *
64489601 TCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAG
1 -CAGTAGTGGAACAGATTGAAAACTACAGATCTTATCTCCCTAAG
* * * ** *
64489646 CAGTAGTGGAGCAGATCGAAGACGGC-GAATCTTATCTTCCC-CAG
1 CAGTAGTGGAACAGATTGAAAACTACAG-ATCTTATC-TCCCTAAG
* * * * *
64489690 GAGTAG-GGAAGCAGATT-TAAGCCACA-AGTCTTATCTCCCT-GG
1 CAGTAGTGGAA-CAGATTGAAAACTACAGA-TCTTATCTCCCTAAG
* * * *
64489732 TCAGCAGTGGAATAGGTTGAAAATTACAGATCTTATCTCCCTAAG
1 -CAGTAGTGGAACAGATTGAAAACTACAGATCTTATCTCCCTAAG
64489777 CAGTAGTGGA
1 CAGTAGTGGA
64489787 GTAGATCGAC
Statistics
Matches: 189, Mismatches: 61, Indels: 44
0.64 0.21 0.15
Matches are distributed among these distances:
42 12 0.06
43 44 0.23
44 121 0.64
45 12 0.06
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
CAGTAGTGGAACAGATTGAAAACTACAGATCTTATCTCCCTAAG
Found at i:64489948 original size:49 final size:50
Alignment explanation
Indices: 64489826--64490061 Score: 219
Period size: 49 Copynumber: 4.8 Consensus size: 50
64489816 CAGGCGGTGT
* * * * *
64489826 AGTGGAACAGATTAAAGCCACAACGGCAAATCTCGCTTCCTCGATATTGC
1 AGTGGAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCTCGATAGTGC
** * * * * *
64489876 AGTTAAAAATATTAAAGCTACAACAGCGAATCTTATTTCCT-GGTAGTGC
1 AGTGGAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCTCGATAGTGC
* * * * * * **
64489925 AGTGGAACAGATTAAAGCCACAACGGCCAATATTGCTTCCTCGACATTAT
1 AGTGGAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCTCGATAGTGC
* * * * *
64489975 AGT-TAA-AGATTAAAGTTACAACAGCGAATCTTATTTCCTGGA-AGTGC
1 AGTGGAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCTCGATAGTGC
64490022 AGTGGAACAGATTAAAGCTACAACGGCGAATCTTGTTTCC
1 AGTGGAACAGATTAAAGCTACAACGGCGAATCTTGTTTCC
64490062 CCAACATTGC
Statistics
Matches: 140, Mismatches: 43, Indels: 7
0.74 0.23 0.04
Matches are distributed among these distances:
47 5 0.04
48 30 0.21
49 68 0.49
50 37 0.26
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (50 bp):
AGTGGAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCTCGATAGTGC
Found at i:64490069 original size:97 final size:98
Alignment explanation
Indices: 64489826--64490084 Score: 349
Period size: 97 Copynumber: 2.6 Consensus size: 98
64489816 CAGGCGGTGT
* * * *
64489826 AGTGGAACAGATTAAAGCCACAACGGCAAATCTCGCTTCCTCGATATTGCAGTTAAAAATATTAA
1 AGTGGAACAGATTAAAGCCACAACGGCAAATCTTGCTTCCTCGACATTACAGTT-AAAAGATTAA
*
64489891 AGCTACAACAGCGAATCTTATTTCCTGGTAGTGC
65 AGCTACAACAGCGAATCTTATTTCCTGGAAGTGC
* * *
64489925 AGTGGAACAGATTAAAGCCACAACGGCCAATATTGCTTCCTCGACATTATAGTT-AAAGATTAAA
1 AGTGGAACAGATTAAAGCCACAACGGCAAATCTTGCTTCCTCGACATTACAGTTAAAAGATTAAA
*
64489989 GTTACAACAGCGAATCTTATTTCCTGGAAGTGC
66 GCTACAACAGCGAATCTTATTTCCTGGAAGTGC
* * * * * * *
64490022 AGTGGAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAATAGATT
1 AGTGGAACAGATTAAAGCCACAACGGCAAATCTTGCTTCCTCGACATTACAGTTAAA-AGATT
64490085 GAAGACAGTA
Statistics
Matches: 140, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
97 85 0.61
98 2 0.01
99 53 0.38
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (98 bp):
AGTGGAACAGATTAAAGCCACAACGGCAAATCTTGCTTCCTCGACATTACAGTTAAAAGATTAAA
GCTACAACAGCGAATCTTATTTCCTGGAAGTGC
Found at i:64490293 original size:45 final size:47
Alignment explanation
Indices: 64490244--64490374 Score: 123
Period size: 48 Copynumber: 2.9 Consensus size: 47
64490234 CTGAAGTTAC
**
64490244 AGTGGGA-CAGACTGAAGATGGTGAA-T-CTTTTCTCCCTGAGTTTGT
1 AGTGGGAGCAGACTGAAGACAGT-AACTACTTTTCTCCCTGAGTTTGT
* *
64490289 AGT-GGAGCAGATTGAAGCCAGTAATCCTACTTTTCTCCCTGAGTTTGT
1 AGTGGGAGCAGACTGAAGACAGTAA--CTACTTTTCTCCCTGAGTTTGT
* * *
64490337 AGT-GGAGCAGATTGAAGCCAGTAA-T-CTTATCTCCCTGA
1 AGTGGGAGCAGACTGAAGACAGTAACTACTTTTCTCCCTGA
64490375 AGTTGCAGTA
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
44 17 0.22
45 15 0.20
47 1 0.01
48 43 0.57
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (47 bp):
AGTGGGAGCAGACTGAAGACAGTAACTACTTTTCTCCCTGAGTTTGT
Found at i:64490327 original size:48 final size:48
Alignment explanation
Indices: 64490270--64490362 Score: 186
Period size: 48 Copynumber: 1.9 Consensus size: 48
64490260 GATGGTGAAT
64490270 CTTTTCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATCCTA
1 CTTTTCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATCCTA
64490318 CTTTTCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATC
1 CTTTTCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATC
64490363 TTATCTCCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (48 bp):
CTTTTCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATCCTA
Found at i:64490389 original size:44 final size:44
Alignment explanation
Indices: 64490080--64490872 Score: 276
Period size: 44 Copynumber: 18.1 Consensus size: 44
64490070 GCAATTAAAT
* * * *
64490080 AGATTGAAGACAGTAATCCTATCTCTCTGAAGTTGCAGTAGAGT
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * *
64490124 GGATT-AAAATAATAGATCTTATCTCTCTAAAGTTGCAGT--AG-
1 AGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
* ** *
64490165 AG-TAGATCACA-TCAAGTCTTATCTCCCT-AAGGTTGCAGCGGAGC
1 AGATTGAAGACAGT-AA-TCTTATCTCCCTGAA-GTTGCAGTGGAGC
* * * * *
64490209 AGACTG-AGAAAGCAAGT-TTATCCCCCTGAAGTTACAGTGG-GAC
1 AGATTGAAGACAGTAA-TCTTATCTCCCTGAAGTTGCAGTGGAG-C
* ** * *
64490252 AGACTGAAGATGGTGAATCTTTTCTCCCTG-AGTTTGTAGTGGAGC
1 AGATTGAAGACAGT-AATCTTATCTCCCTGAAG-TTGCAGTGGAGC
* * *
64490297 AGATTGAAGCCAGTAATCCTACTTTTCTCCCTG-AGTTTGTAGTGGAGC
1 AGATTGAAGACAGTAA---T-CTTATCTCCCTGAAG-TTGCAGTGGAGC
* *
64490345 AGATTGAAGCCAGTAATCTTATCTCCCTGAAGTTGCAGTAGAGC
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * * *
64490389 AAATTCAA-ATAATAGATCTTCTCTCTCTGAATTTGCAGT--A-C
1 AGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * *
64490430 AG-TGGATCG-CA-TAAGGTCTTATCTCCCTGAGGTTGCAGCGGAGC
1 AGATTGA-AGACAGTAA--TCTTATCTCCCTGAAGTTGCAGTGGAGC
** * * * * * *
64490474 AGA-CCAATAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGT
1 AGATTGAAGACAGTAA-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* ** *
64490518 AGACTGAAGATGGTGAATCTTATCTCCTTG-AGTTTGCAGTGGAGC
1 AGATTGAAGACAGT-AATCTTATCTCCCTGAAG-TTGCAGTGGAGC
* * * *
64490563 AAATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGC
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * ** *
64490607 AGATTCAA-ATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGT
1 AGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * * *
64490651 GGATCGCA-TCAG--GTCTTATCTCCCTGAGGTTGCAGCGGAGC
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
** * * * *
64490692 AGA-CCAAGA-AATCAAGTCTTATCCCCCTGAAGTTGCTGTGGGGC
1 AGATTGAAGACAGT-AA-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* * ** * *
64490736 AGACTGAATATGGTGAATCTTATCTCCCTG-AGTTTGTAGTGGAGT
1 AGATTGAAGACAGT-AATCTTATCTCCCTGAAG-TTGCAGTGGAGC
* * * * * * *
64490781 AAATTGAGGCCACTAATCCTATCTCCCTGAAGTTACAGTCGAGC
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * * * *
64490825 GGATTCAA-ATAATAGATCTTATCTCTCTGAGGTTGCAGTAGAGT
1 AGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
64490869 AGAT
1 AGAT
64490873 CGCATCAGAT
Statistics
Matches: 546, Mismatches: 155, Indels: 96
0.69 0.19 0.12
Matches are distributed among these distances:
39 1 0.00
40 12 0.02
41 70 0.13
42 4 0.01
43 42 0.08
44 265 0.49
45 102 0.19
46 6 0.01
47 1 0.00
48 43 0.08
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
Found at i:64490502 original size:129 final size:128
Alignment explanation
Indices: 64490106--64490512 Score: 311
Period size: 129 Copynumber: 3.1 Consensus size: 128
64490096 TCCTATCTCT
** * * *
64490106 CTGAAGTTGCAGTAGAGTGGATTAAAATAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGA
1 CTGAAGTTGCAGTAGAGCAGATTAAAATAATAGATCTTATCTCTCTGAATTTGCAGTACAGTAGA
* * **
64490171 TCACATCAAGTCTTATCTCCCTAAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGT-TTATCCCC
66 TCGCAT-AAGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
* * * * ** * * * *
64490234 CTGAAGTTACAGT-GGGACAGACTGAAGATGGT-GAATCTTTTCTCCCTGAGTTTGTAGTGGAGC
1 CTGAAGTTGCAGTAGAG-CAGA-TTAAAATAATAG-ATCTTATCTCTCTGAATTTGCAGT--A-C
* * * * * * * ** ** *
64490297 AGATTGA-AGCCAGTAATCCTACTTTTCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAA
60 AG-TAGATCG-CA-TAA--GT-CTTATCTCCCTGAGGTTGCAGCGGAGCAGA-CCAAGAAAGCAA
*
64490361 -TCTTATCTCC
118 GTCTTATCCCC
* * * *
64490371 CTGAAGTTGCAGTAGAGCAAATTCAAATAATAGATCTTCTCTCTCTGAATTTGCAGTACAGTGGA
1 CTGAAGTTGCAGTAGAGCAGATTAAAATAATAGATCTTATCTCTCTGAATTTGCAGTACAGTAGA
*
64490436 TCGCATAAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAATAAAGCAAGTCTTATCCCC
66 TCGCATAA-GTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
64490500 CTGAAGTTGCAGT
1 CTGAAGTTGCAGT
64490513 GGGGTAGACT
Statistics
Matches: 203, Mismatches: 58, Indels: 35
0.69 0.20 0.12
Matches are distributed among these distances:
127 2 0.01
128 21 0.10
129 72 0.35
130 1 0.00
131 4 0.02
132 7 0.03
133 11 0.05
134 2 0.01
135 1 0.00
136 51 0.25
137 29 0.14
138 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (128 bp):
CTGAAGTTGCAGTAGAGCAGATTAAAATAATAGATCTTATCTCTCTGAATTTGCAGTACAGTAGA
TCGCATAAGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
Found at i:64490588 original size:218 final size:218
Alignment explanation
Indices: 64490322--64490886 Score: 905
Period size: 218 Copynumber: 2.6 Consensus size: 218
64490312 ATCCTACTTT
* * *
64490322 TCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATCTTATCTCCCTGAAGTTGCAGTAGA
1 TCTCCCTGAGTTTGTAGTGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTAGA
* * * * *
64490387 GCAAATTCAAATAATAGATCTTCTCTCTCTGAATTTGCAGTACAGTGGATCGCATAAGGTCTTAT
66 GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTAT
*
64490452 CTCCCTGAGGTTGCAGCGGAGCAGACCAATAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGG
131 CTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGG
*
64490517 TAGACTGAAGATGGTGAATCTTA
196 CAGACTGAAGATGGTGAATCTTA
* * *
64490540 TCTCCTTGAGTTTGCAGTGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGA
1 TCTCCCTGAGTTTGTAGTGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTAGA
*
64490605 GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTGGATCGCATCAGGTCTTAT
66 GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTAT
* *
64490670 CTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAATCAAGTCTTATCCCCCTGAAGTTGCTGTGGGG
131 CTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGG
*
64490735 CAGACTGAATATGGTGAATCTTA
196 CAGACTGAAGATGGTGAATCTTA
* * * *
64490758 TCTCCCTGAGTTTGTAGTGGAGTAAATTGAGGCCACTAATCCTATCTCCCTGAAGTTACAGTCGA
1 TCTCCCTGAGTTTGTAGTGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTAGA
* * * *
64490823 GCGGATTCAAATAATAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATCGCATCAGATCTTA
66 GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTA
64490887 CTTCCTAGAC
Statistics
Matches: 319, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
218 319 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (218 bp):
TCTCCCTGAGTTTGTAGTGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTAGA
GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTAT
CTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGG
CAGACTGAAGATGGTGAATCTTA
Found at i:64490964 original size:50 final size:50
Alignment explanation
Indices: 64490910--64491048 Score: 143
Period size: 50 Copynumber: 2.8 Consensus size: 50
64490900 GCAGTGGAAC
* * **
64490910 AGATTTAAGCTACAACGGCGAATCTTTCTTCCCCGACATTGTAGTTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGTAGGGAAAA
** * * ** * *
64490960 AGATTGAAGCTACAACAACGAATCATACTTCCCTGACGGTGTAGGGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGTAGGGAAAA
* * *
64491010 AGATTGAAGTTACAATGGCGAATCTTGCTTCCCCGACAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
64491049 CACAGTTAAG
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGTAGGGAAAA
Found at i:64498522 original size:26 final size:25
Alignment explanation
Indices: 64498493--64498552 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
64498483 TATTAACACT
*
64498493 TATTTATAATAATTACAATTAATTAA
1 TATTTATAATAATTA-AATAAATTAA
* * *
64498519 TATTTACTTATATTTAAATAAATTAT
1 TATTTA-TAATAATTAAATAAATTAA
64498545 TATTTATA
1 TATTTATA
64498553 GATTTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.04
26 20 0.71
27 7 0.25
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTATAATAATTAAATAAATTAA
Found at i:64499028 original size:17 final size:15
Alignment explanation
Indices: 64498993--64499031 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
64498983 TCTGTCTCTC
*
64498993 TAAAATATAAAATTT
1 TAAAATAAAAAATTT
64499008 TAAAATAAAATAATATT
1 TAAAATAAAA-AAT-TT
64499025 TAAAATA
1 TAAAATA
64499032 GTATATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAATAAAAAATTT
Found at i:64503399 original size:12 final size:12
Alignment explanation
Indices: 64503384--64503413 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
64503374 AATAATTAAA
64503384 TAAATTAGAAAT
1 TAAATTAGAAAT
*
64503396 TAAATTGGAAAT
1 TAAATTAGAAAT
64503408 TAAATT
1 TAAATT
64503414 CGAATTTTGT
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:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:64506554 original size:23 final size:23
Alignment explanation
Indices: 64506527--64506602 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
64506517 AGTGTAATTG
*
64506527 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
64506550 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
64506573 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
64506596 ATCAGTG
1 ATCAGTG
64506603 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:64513928 original size:23 final size:23
Alignment explanation
Indices: 64513901--64513976 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
64513891 AGTGTTATTG
*
64513901 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
64513924 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
64513947 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
64513970 ATCAGTG
1 ATCAGTG
64513977 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:64517930 original size:24 final size:24
Alignment explanation
Indices: 64517898--64517997 Score: 130
Period size: 24 Copynumber: 4.1 Consensus size: 24
64517888 ATGCTTCCCA
64517898 TTAAGTGCTCTTCGGAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTACCCG
64517922 TTAAGTGCTCTTCGGAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTACCCG
* **
64517946 TTAATTGCTCTTCAAAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTACCCG
* *
64517970 TTATAG-GCTCTTTGTGAGCTTCCCG
1 TTA-AGTGCTCTTCG-GAGCTACCCG
64517995 TTA
1 TTA
64517998 TTATGCTCGG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 54 0.82
25 12 0.18
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (24 bp):
TTAAGTGCTCTTCGGAGCTACCCG
Found at i:64517957 original size:48 final size:49
Alignment explanation
Indices: 64517829--64517997 Score: 136
Period size: 48 Copynumber: 3.5 Consensus size: 49
64517819 TCCAGACTAA
* * * *
64517829 AGGCTCTTTGTGAGCTTCCCGTT-AGTGCTCGCTT-GAA-CTTCCCGTTAT
1 AGGCTCTTCGTGAGCTACCCGTTAAGTGCT--CTTCAAAGCTACCCGTTAT
* * * **
64517877 ATGGCTATT--TGATGCTTCCCATTAAGTGCTCTTCGGAGCTACCCGTTA-
1 A-GGCTCTTCGTGA-GCTACCCGTTAAGTGCTCTTCAAAGCTACCCGTTAT
*
64517925 AGTGCTCTTCG-GAGCTACCCGTTAATTGCTCTTCAAAGCTACCCGTTAT
1 AG-GCTCTTCGTGAGCTACCCGTTAAGTGCTCTTCAAAGCTACCCGTTAT
* *
64517974 AGGCTCTTTGTGAGCTTCCCGTTA
1 AGGCTCTTCGTGAGCTACCCGTTA
64517998 TTATGCTCGG
Statistics
Matches: 99, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
47 7 0.07
48 55 0.56
49 37 0.37
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.36
Consensus pattern (49 bp):
AGGCTCTTCGTGAGCTACCCGTTAAGTGCTCTTCAAAGCTACCCGTTAT
Found at i:64519304 original size:18 final size:19
Alignment explanation
Indices: 64519263--64519309 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
64519253 GTACCTTAGA
64519263 AAAAATTTTAAATTTTGCG
1 AAAAATTTTAAATTTTGCG
64519282 AAAAATTTTAAATTTTGCG
1 AAAAATTTTAAATTTTGCG
64519301 AAAAATTTT
1 AAAAATTTT
64519310 CTGAGTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (19 bp):
AAAAATTTTAAATTTTGCG
Found at i:64523891 original size:35 final size:35
Alignment explanation
Indices: 64523852--64524052 Score: 271
Period size: 35 Copynumber: 5.8 Consensus size: 35
64523842 TTCACTTGTC
* *
64523852 TTTTGTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
64523887 TTTTGTTGCAGGGAATCTCTCATGTTCACACATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
64523922 -TTTCTTGCAGGGAATCTCTCTTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
64523956 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
64523991 -TTTCTTGCAGGGAATCTCTCATGTTCATGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
64524025 TGTTGTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
64524053 TGTATCATTT
Statistics
Matches: 143, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
34 59 0.41
35 84 0.59
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:64524065 original size:69 final size:69
Alignment explanation
Indices: 64523857--64524052 Score: 329
Period size: 69 Copynumber: 2.8 Consensus size: 69
64523847 TTGTCTTTTG
* * * *
64523857 TTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACACATCA
1 TTGCAGGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
64523922 TTTC
66 TTTC
*
64523926 TTGCAGGGAATCTCTCTTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTGCAGGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
64523991 TTTC
66 TTTC
* *
64523995 TTGCAGGGAATCTCTCATGTTCATGCATTATGTTGTTGCAGGGAATCTCTCCTGTTCA
1 TTGCAGGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCA
64524053 TGTATCATTT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 120 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (69 bp):
TTGCAGGGAATCTCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
TTTC
Found at i:64529152 original size:111 final size:110
Alignment explanation
Indices: 64528932--64529237 Score: 444
Period size: 111 Copynumber: 2.8 Consensus size: 110
64528922 ATATTTGACA
* * *
64528932 ATTTGGTTAAACGA-G-AAATCGAA-ACCCAGCACCTTAGGGCACG-TTCCTCGAATTT-CCAAA
1 ATTTGGTTTAACGAGGAAAATC-AACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAA
* * * *
64528992 TGCAAAACATTGCCTTATTTTGAAATTTTTAGAAGGATATTAAGCC
65 CGCAAAACATTGCCTTATTTTAAAAGTTTTAAAAGGATATTAAGCC
64529038 ATTTGGTTTAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTTAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
64529103 GCAAAACATTGCCTTATTCTTAAAAGTTTTAAAAGGATATTAAGCC
66 GCAAAACATTGCCTTATT-TTAAAAGTTTTAAAAGGATATTAAGCC
* *
64529149 ATTT-GTTTGGACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAA
1 ATTTGGTTT-AACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAA
* *
64529213 CGCGAAATATTGCCTTATTTTAAAA
65 CGCAAAACATTGCCTTATTTTAAAA
64529238 CATTTTCCTT
Statistics
Matches: 182, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
106 13 0.07
107 3 0.02
108 24 0.13
109 11 0.06
110 33 0.18
111 98 0.54
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (110 bp):
ATTTGGTTTAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
GCAAAACATTGCCTTATTTTAAAAGTTTTAAAAGGATATTAAGCC
Found at i:64531778 original size:21 final size:22
Alignment explanation
Indices: 64531748--64531792 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
64531738 GAACAAATTG
64531748 TTGATTCTATTTCTTTCTTG-AT
1 TTGATTCTA-TTCTTTCTTGTAT
*
64531770 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCTTTCTTGTAT
64531791 TT
1 TT
64531793 CTCTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCTTTCTTGTAT
Found at i:64536721 original size:24 final size:24
Alignment explanation
Indices: 64536689--64536800 Score: 145
Period size: 24 Copynumber: 4.7 Consensus size: 24
64536679 TCCGGTGCTT
64536689 CCCGTTAAGTGCTCTTCGAAGCTA
1 CCCGTTAAGTGCTCTTCGAAGCTA
*
64536713 CCCGTTAAGTGCTCTTTGAAGCTA
1 CCCGTTAAGTGCTCTTCGAAGCTA
* * *
64536737 CCCATTAATTGCTCTTCAAAGCTA
1 CCCGTTAAGTGCTCTTCGAAGCTA
* * *
64536761 CCCATTAATTGCTCTTCGGAGCTA
1 CCCGTTAAGTGCTCTTCGAAGCTA
64536785 CCCGTTATAG-GCTCTT
1 CCCGTTA-AGTGCTCTT
64536801 TGTGAGCTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
24 77 0.99
25 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (24 bp):
CCCGTTAAGTGCTCTTCGAAGCTA
Found at i:64551251 original size:20 final size:19
Alignment explanation
Indices: 64551226--64551264 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
64551216 AATTTTGATA
64551226 TTTTTAGGTGTATATCTTTT
1 TTTTTAGGTGTATAT-TTTT
**
64551246 TTTTTATTTGTATATTTTT
1 TTTTTAGGTGTATATTTTT
64551265 GTTTGAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTTTAGGTGTATATTTTT
Found at i:64552541 original size:11 final size:11
Alignment explanation
Indices: 64552527--64552584 Score: 68
Period size: 10 Copynumber: 5.5 Consensus size: 11
64552517 GTTTTGAGTT
64552527 TTTTTTATATA
1 TTTTTTATATA
**
64552538 TTTTTTA-AGC
1 TTTTTTATATA
64552548 TTTTTTATATA
1 TTTTTTATATA
*
64552559 TTTTTTAGAT-
1 TTTTTTATATA
64552569 TTTTTTATA-A
1 TTTTTTATATA
64552579 TTTTTT
1 TTTTTT
64552585 GAGATGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
10 22 0.56
11 17 0.44
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:64552551 original size:21 final size:20
Alignment explanation
Indices: 64552527--64552589 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 20
64552517 GTTTTGAGTT
*
64552527 TTTTTTATATATTTTTTAAGC
1 TTTTTTATATATTTTTT-AGA
64552548 TTTTTTATATATTTTTTAGA
1 TTTTTTATATATTTTTTAGA
64552568 TTTTTT-TATAATTTTTTGAGA
1 TTTTTTATAT-ATTTTTT-AGA
64552589 T
1 T
64552590 GTAAAGTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 3 0.08
20 15 0.38
21 21 0.54
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTTTTATATATTTTTTAGA
Found at i:64566407 original size:25 final size:25
Alignment explanation
Indices: 64566379--64566431 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
64566369 AACAAAATAT
* * * *
64566379 AAAAAAATAACAAGAAAATAGCAAC
1 AAAAAAATAAAAAAAAAACAACAAC
*
64566404 AAAACAATAAAAAAAAAACAACAAC
1 AAAAAAATAAAAAAAAAACAACAAC
64566429 AAA
1 AAA
64566432 GCAGTAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.77, C:0.13, G:0.04, T:0.06
Consensus pattern (25 bp):
AAAAAAATAAAAAAAAAACAACAAC
Found at i:64573122 original size:29 final size:30
Alignment explanation
Indices: 64573063--64573120 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
64573053 TCCGAGCCTT
*
64573063 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
64573093 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
64573121 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:64573350 original size:13 final size:13
Alignment explanation
Indices: 64573332--64573363 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
64573322 TTTCCAGCAA
64573332 TTATGAATTTATT
1 TTATGAATTTATT
64573345 TTATGAATTTATT
1 TTATGAATTTATT
*
64573358 TGATGA
1 TTATGA
64573364 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:64573571 original size:50 final size:50
Alignment explanation
Indices: 64573458--64573699 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
64573448 ATTTGGGTAA
* * * *
64573458 AGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
64573514 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * **
64573564 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGTTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
64573614 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
64573664 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
64573700 TTTGGCATGT
Statistics
Matches: 163, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:64573647 original size:100 final size:104
Alignment explanation
Indices: 64573458--64573707 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
64573448 ATTTGGGTAA
*
64573458 AGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TAAGAT-ATGAGAGGTCCC
* *
64573523 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
64 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
64573564 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-T-TGAGAGGTCCCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATATGAGAGGTCCCCT
64573625 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
64573664 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
64573708 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 37 0.28
102 1 0.01
103 2 0.02
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (104 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATATGAGAGGTCCCCT
ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:64575618 original size:17 final size:17
Alignment explanation
Indices: 64575598--64575632 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64575588 ATACAAATTG
64575598 GAAAAA-AAAGAAAGAAA
1 GAAAAAGAAAG-AAGAAA
64575615 GAAAAAGAAAGAAGAAA
1 GAAAAAGAAAGAAGAAA
64575632 G
1 G
64575633 GAGAAAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
GAAAAAGAAAGAAGAAA
Found at i:64575639 original size:14 final size:14
Alignment explanation
Indices: 64575598--64575631 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
64575588 ATACAAATTG
64575598 GAAA-AAAAAGAAA
1 GAAAGAAAAAGAAA
64575611 GAAAGAAAAAGAAA
1 GAAAGAAAAAGAAA
64575625 G-AAGAAA
1 GAAAGAAA
64575632 GGAGAAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAAGAAA
Found at i:64579420 original size:19 final size:18
Alignment explanation
Indices: 64579389--64579424 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
64579379 TAAATCTATC
64579389 TTATACTAGTTTTTTATT
1 TTATACTAGTTTTTTATT
*
64579407 TTATCACTATTTTTTTAT
1 TTAT-ACTAGTTTTTTAT
64579425 ATTGGTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATACTAGTTTTTTATT
Found at i:64579467 original size:24 final size:22
Alignment explanation
Indices: 64579439--64579490 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
64579429 GTTTGTTTAT
*
64579439 TTTATTTTTCTTGCCAATATTAG
1 TTTATTTTTATT-CCAATATTAG
*
64579462 TGTTA-TTTTATTCCATTATTAG
1 T-TTATTTTTATTCCAATATTAG
64579484 TTTATTT
1 TTTATTT
64579491 GTTTTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 3 0.12
22 12 0.48
23 7 0.28
24 3 0.12
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (22 bp):
TTTATTTTTATTCCAATATTAG
Found at i:64580636 original size:19 final size:19
Alignment explanation
Indices: 64580614--64580655 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
64580604 TGAGTTGTTT
*
64580614 AATGCTCGAGCATGTAGGA
1 AATGCTAGAGCATGTAGGA
*
64580633 AATGGTAGAGCATGTAGGA
1 AATGCTAGAGCATGTAGGA
64580652 AATG
1 AATG
64580656 GTAATTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (19 bp):
AATGCTAGAGCATGTAGGA
Found at i:64580656 original size:19 final size:19
Alignment explanation
Indices: 64580621--64580658 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
64580611 TTTAATGCTC
64580621 GAGCATGTAGGAAATGGTA
1 GAGCATGTAGGAAATGGTA
64580640 GAGCATGTAGGAAATGGTA
1 GAGCATGTAGGAAATGGTA
64580659 ATTTGTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (19 bp):
GAGCATGTAGGAAATGGTA
Found at i:64590692 original size:15 final size:14
Alignment explanation
Indices: 64590672--64590708 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
64590662 ATCATTTTTT
*
64590672 TTGTTATTGTTATTA
1 TTGTTATTGTTA-GA
64590687 TTGTTATTGTTAGA
1 TTGTTATTGTTAGA
64590701 TTGTTATT
1 TTGTTATT
64590709 TGCATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (14 bp):
TTGTTATTGTTAGA
Found at i:64593632 original size:3 final size:3
Alignment explanation
Indices: 64593620--64593674 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
64593610 TCATTGCTGC
* *
64593620 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
64593667 TTT TAT TA
1 TAT TAT TA
64593675 CGATTTATCT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:64595006 original size:16 final size:16
Alignment explanation
Indices: 64594981--64595014 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64594971 TATGTTTTGC
* *
64594981 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
64594997 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
64595013 TT
1 TT
64595015 CATCCTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:64598580 original size:17 final size:17
Alignment explanation
Indices: 64598554--64598695 Score: 135
Period size: 17 Copynumber: 8.4 Consensus size: 17
64598544 ACGATATTTT
64598554 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
64598572 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* * **
64598589 TTTTGAAAACAAGAGGA
1 TTTTTAAAACACGAAAA
* *
64598606 TTTTTGAAATACGAAAA
1 TTTTTAAAACACGAAAA
*
64598623 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
64598640 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
64598657 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
64598673 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
64598690 TTTTTA
1 TTTTTA
64598696 GAAGACACTA
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
16 16 0.16
17 79 0.78
18 6 0.06
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:64598582 original size:38 final size:37
Alignment explanation
Indices: 64598465--64598592 Score: 120
Period size: 35 Copynumber: 3.4 Consensus size: 37
64598455 GATCCGATTG
*
64598465 AAACACGAGAATTTCTTGTTTTGAAAACACGAGAATTTTA
1 AAACACGA-AATTT-TT-TTTTGAAAACACGAAAATTTTA
* * *
64598505 AGACA-TAATATTTTTTTTT-AAAAC-C-AAAATTTATG
1 AAACACGAA-ATTTTTTTTTGAAAACACGAAAATTT-TA
*
64598540 AAACACGATATTTTTTTTTGAAAACACGAAAATTTTCA
1 AAACACGAAATTTTTTTTTGAAAACACGAAAATTTT-A
64598578 AAACACCGAAATTTT
1 AAACA-CGAAATTTT
64598593 GAAAACAAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
34 6 0.08
35 16 0.23
36 11 0.15
37 6 0.08
38 15 0.21
39 13 0.18
40 4 0.06
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (37 bp):
AAACACGAAATTTTTTTTTGAAAACACGAAAATTTTA
Found at i:64598598 original size:34 final size:34
Alignment explanation
Indices: 64598555--64598693 Score: 158
Period size: 34 Copynumber: 4.1 Consensus size: 34
64598545 CGATATTTTT
**
64598555 TTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* ** *
64598589 TTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTGAAAACACGAAAATTTTTGAAACACCG-AAA
*
64598623 TTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTGAAAACACGAAAATTTTTGAAACACCGAAA
**
64598657 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 -TTTTGAAAACACGAAAATTTTTGAAACACCGAAA
64598690 TTTT
1 TTTT
64598694 TAGAAGACAC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
32 4 0.04
33 24 0.27
34 55 0.62
35 6 0.07
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.29
Consensus pattern (34 bp):
TTTTGAAAACACGAAAATTTTTGAAACACCGAAA
Found at i:64598632 original size:51 final size:50
Alignment explanation
Indices: 64598554--64598694 Score: 155
Period size: 51 Copynumber: 2.8 Consensus size: 50
64598544 ACGATATTTT
* *
64598554 TTTTTGAAAACACGAAAATTTTCAAAACACCG-AAA-TTTTGAAAACAA-GAGGA
1 TTTTTG-AAA-ACGAAAATTTTGAAAACA-CGAAAATTTTTG-AAACAAGGA-AA
*
64598606 TTTTTGAAATACGAAAATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAA-ACGAAAATTTTGAAAACACGAAAATTTTTGAAACAAGGAAA
*
64598657 TTTTTGAAAACGAAAATTTTTG-AAACACAAAAATTTTT
1 TTTTTGAAAACGAAAA-TTTTGAAAACACGAAAATTTTT
64598695 AGAAGACACT
Statistics
Matches: 80, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
50 24 0.30
51 43 0.54
52 13 0.16
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (50 bp):
TTTTTGAAAACGAAAATTTTGAAAACACGAAAATTTTTGAAACAAGGAAA
Found at i:64598929 original size:20 final size:19
Alignment explanation
Indices: 64598891--64598937 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
64598881 GAATATATTT
64598891 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
64598911 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
64598930 -TTTTGAAA
1 TTTTTGAAA
64598938 AATAGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:64599313 original size:10 final size:10
Alignment explanation
Indices: 64599298--64599362 Score: 53
Period size: 10 Copynumber: 6.7 Consensus size: 10
64599288 AATTGAACCC
64599298 CCTTTTTCTT
1 CCTTTTTCTT
64599308 CCTTTTT-TT
1 CCTTTTTCTT
** *
64599317 TTTTTTTTTT
1 CCTTTTTCTT
** *
64599327 TTTTTTTTTT
1 CCTTTTTCTT
*
64599337 CTTTTTTCTT
1 CCTTTTTCTT
64599347 -CTTTTTCTT
1 CCTTTTTCTT
64599356 CCTTTTT
1 CCTTTTT
64599363 TTTCTGCTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
9 15 0.31
10 33 0.69
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
CCTTTTTCTT
Found at i:64599351 original size:16 final size:14
Alignment explanation
Indices: 64599309--64599365 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
64599299 CTTTTTCTTC
64599309 CTTTTTTTTTTTTT
1 CTTTTTTTTTTTTT
*
64599323 TTTTTTTTTTTTTT
1 CTTTTTTTTTTTTT
64599337 CTTTTTTCTTCTTTTT
1 CTTTTTT-TT-TTTTT
64599353 CTTCCTTTTTTTT
1 CTT--TTTTTTTT
64599366 CTGCTGGGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
14 19 0.51
15 2 0.05
16 10 0.27
17 2 0.05
18 4 0.11
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
CTTTTTTTTTTTTT
Found at i:64599356 original size:9 final size:8
Alignment explanation
Indices: 64599299--64599355 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 8
64599289 ATTGAACCCC
64599299 CTTTTTCTT
1 CTTTTT-TT
*
64599308 CCTTTTTT
1 CTTTTTTT
64599316 -TTTTTTT
1 CTTTTTTT
64599323 -TTTTTTT
1 CTTTTTTT
64599330 -TTTTTTT
1 CTTTTTTT
64599337 C-TTTTTT
1 CTTTTTTT
64599344 CTTCTTTTT
1 CTT-TTTTT
64599353 CTT
1 CTT
64599356 CCTTTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 27 0.63
8 3 0.07
9 13 0.30
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
CTTTTTTT
Found at i:64599363 original size:1 final size:1
Alignment explanation
Indices: 64599310--64599343 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
64599300 TTTTTCTTCC
*
64599310 TTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
64599344 CTTCTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:64599651 original size:3 final size:3
Alignment explanation
Indices: 64599645--64599703 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
64599635 TTTCTTTTTT
64599645 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TT-C TTC
64599692 TTC TTC TTC TTC
1 TTC TTC TTC TTC
64599704 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 37 0.71
4 14 0.27
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:64599656 original size:16 final size:16
Alignment explanation
Indices: 64599635--64599702 Score: 91
Period size: 16 Copynumber: 4.1 Consensus size: 16
64599625 TTAAAATTTT
* *
64599635 TTTCTTTTTTTTCTTC
1 TTTCTTCTTCTTCTTC
64599651 TTTCTTCTTCTCTCTTTC
1 TTTCTTCTTCT-TC-TTC
64599669 TTTCTTCTTCTTCTTC
1 TTTCTTCTTCTTCTTC
*
64599685 TTCCTTCTTCTTCTTC
1 TTTCTTCTTCTTCTTC
64599701 TT
1 TT
64599703 CAAAACCGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
16 29 0.62
17 4 0.09
18 14 0.30
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTCTTCTTCTTCTTC
Found at i:64599683 original size:34 final size:33
Alignment explanation
Indices: 64599635--64599699 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
64599625 TTAAAATTTT
* * *
64599635 TTTCTTTTTTTTCTTCTTTCTTCTTCTCTCTTTC
1 TTTCTTCTTCTTCTTCTTCCTTCTTCT-TCTTTC
64599669 TTTCTTCTTCTTCTTCTTCCTTCTTCTTCTT
1 TTTCTTCTTCTTCTTCTTCCTTCTTCTTCTT
64599700 CTTCAAAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (33 bp):
TTTCTTCTTCTTCTTCTTCCTTCTTCTTCTTTC
Found at i:64599691 original size:13 final size:13
Alignment explanation
Indices: 64599645--64599700 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
64599635 TTTCTTTTTT
*
64599645 TTCTTCTTTCTTC
1 TTCTTCCTTCTTC
*
64599658 TTCTCTCTTTC-T-
1 TTCT-TCCTTCTTC
64599670 TTCTT-CTTCTTC
1 TTCTTCCTTCTTC
64599682 TTCTTCCTTCTTC
1 TTCTTCCTTCTTC
64599695 TTCTTC
1 TTCTTC
64599701 TTCAAAACCG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 3 0.08
11 2 0.05
12 9 0.24
13 18 0.47
14 6 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTCTTCCTTCTTC
Found at i:64600110 original size:30 final size:30
Alignment explanation
Indices: 64600055--64600171 Score: 139
Period size: 30 Copynumber: 3.9 Consensus size: 30
64600045 TGTAATTTTT
* *
64600055 AGAAAATTTA-GGGTTAAAATGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
64600084 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
*
64600114 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
64600143 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
64600172 TTATTTTTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.14
30 64 0.86
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:64600171 original size:60 final size:59
Alignment explanation
Indices: 64600055--64600171 Score: 155
Period size: 60 Copynumber: 2.0 Consensus size: 59
64600045 TGTAATTTTT
* * * *
64600055 AGAAAATTTAGGGTTAAAATGAAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
64600114 AGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
64600172 TTATTTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 10 0.20
60 40 0.80
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:64600191 original size:13 final size:15
Alignment explanation
Indices: 64600167--64600200 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
64600157 GTCAAAATGC
64600167 AATTTTTATTTTT-A
1 AATTTTTATTTTTGA
64600181 AATTTTT-TTTTTGA
1 AATTTTTATTTTTGA
64600195 AATTTT
1 AATTTT
64600201 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Done.