Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 168 of 208
Found at i:53945774 original size:28 final size:28
Alignment explanation
Indices: 53945697--53945778 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 28
53945687 CATGGGATTC
* * *
53945697 ATTTGCTCACACAAGTTGTAATATTCAA
1 ATTTGCTCACACAAGCTGTGATATTTAA
* * * *
53945725 ATTTTCTCTCA-GAGCTGTGATATTTGA
1 ATTTGCTCACACAAGCTGTGATATTTAA
53945752 ATTTGCTCACACAAGCTGTGATATTTA
1 ATTTGCTCACACAAGCTGTGATATTTA
53945779 GGCCACTCAC
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 20 0.48
28 22 0.52
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (28 bp):
ATTTGCTCACACAAGCTGTGATATTTAA
Found at i:53946992 original size:6 final size:6
Alignment explanation
Indices: 53946981--53947006 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
53946971 TTATTTTCAT
53946981 ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT
53947007 ATAATTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:53949783 original size:3 final size:3
Alignment explanation
Indices: 53949775--53949799 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
53949765 TGGTGACTCC
53949775 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
53949800 TGTTATTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:53970171 original size:24 final size:24
Alignment explanation
Indices: 53970144--53970190 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
53970134 AGCTCATGCA
53970144 CTTTGTAACACTCATTGCTCGATC
1 CTTTGTAACACTCATTGCTCGATC
*
53970168 CTTTGTAACCCTCATTGCTCGAT
1 CTTTGTAACACTCATTGCTCGAT
53970191 TCAATTGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (24 bp):
CTTTGTAACACTCATTGCTCGATC
Found at i:53974999 original size:131 final size:131
Alignment explanation
Indices: 53974765--53975004 Score: 365
Period size: 131 Copynumber: 1.8 Consensus size: 131
53974755 ATGTAGTATT
* * * *
53974765 ACTTATTTGCAATTGTTGGCAATCTAAGAAAAAAATATAACATGGCTCTTTTTGCTAGGGCGATT
1 ACTTATTTGCAATTGATGACAATCTAAGAAAAAAATATAACATGGCTCTCTTCGCTAGGGCGATT
*
53974830 TTAGTCTTTTTACTCTCGATTGTCTGTGACTCAGTCTCTCTCTCAGTTGTAATGACATATAGCAT
66 ATAGTCTTTTTACTCTCGATTGTCTGTGACTCAGTCTCTCTCTCAGTTGTAATGACATATAGCAT
53974895 C
131 C
* * * *
53974896 ACTTA-TTGCAATTGCATGACACTCTAAGAAAAAGATGTAATATGGCTCTCTTCGCTAGGGCGAT
1 ACTTATTTGCAATTG-ATGACAATCTAAGAAAAAAATATAACATGGCTCTCTTCGCTAGGGCGAT
* *
53974960 TATGGTCTTTTTACTCTCGGTTGTCTGTGACTCAGTCTCTCTCTC
65 TATAGTCTTTTTACTCTCGATTGTCTGTGACTCAGTCTCTCTCTC
53975005 TCAGCCGTTA
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
130 9 0.09
131 88 0.91
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (131 bp):
ACTTATTTGCAATTGATGACAATCTAAGAAAAAAATATAACATGGCTCTCTTCGCTAGGGCGATT
ATAGTCTTTTTACTCTCGATTGTCTGTGACTCAGTCTCTCTCTCAGTTGTAATGACATATAGCAT
C
Found at i:53979756 original size:131 final size:131
Alignment explanation
Indices: 53979521--53979780 Score: 364
Period size: 131 Copynumber: 2.0 Consensus size: 131
53979511 AAGAGTAAGA
* *
53979521 AATGACATGTAGCATTGATTATTTGCAATTGTTGACCGTCTAAGAAAAAGATGTAATATGGCTCT
1 AATGACATGTAGCATGGATTATTTGCAATTGTTGACCGTCTAAGAAAAAGATGTAATATGGCTAT
* * *
53979586 TTTCGTTAGGGCGATTACAGTCGTTTTACTCTCGACTGTCTGTGGCCCAGTCCCTCTCTTAGTCG
66 TTTCGCTAGGGCAATTACAGTCGTTTTACTCTAGACTGTCTGTGGCCCAGTCCCTCTCTTAGTCG
53979651 T
131 T
* *
53979652 AATGACATGTAGCATGGCTTATTTGCAATTGTTGACGGTCTAAGAAAAAGATGTAATATGGCTAT
1 AATGACATGTAGCATGGATTATTTGCAATTGTTGACCGTCTAAGAAAAAGATGTAATATGGCTAT
* * * **
53979717 ATTT-GCTGGGGCAATTA-TGCTCTTTTTACTCTTAG-CTGTCTGTGGCCCAGTTTCTCTCTTAG
66 -TTTCGCTAGGGCAATTACAG-TCGTTTTACTC-TAGACTGTCTGTGGCCCAGTCCCTCTCTTAG
53979779 TC
128 TC
53979781 ATTATGTGAT
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
130 1 0.01
131 108 0.95
132 5 0.04
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (131 bp):
AATGACATGTAGCATGGATTATTTGCAATTGTTGACCGTCTAAGAAAAAGATGTAATATGGCTAT
TTTCGCTAGGGCAATTACAGTCGTTTTACTCTAGACTGTCTGTGGCCCAGTCCCTCTCTTAGTCG
T
Found at i:53982778 original size:9 final size:10
Alignment explanation
Indices: 53982763--53982804 Score: 50
Period size: 9 Copynumber: 4.1 Consensus size: 10
53982753 ATTATTCGTC
53982763 TTTATTATTA
1 TTTATTATTA
53982773 -TTATTATTA
1 TTTATTATTA
53982782 TTTATTATTCA
1 TTTATTATT-A
*
53982793 TGTTAATATTA
1 T-TTATTATTA
53982804 T
1 T
53982805 GATAGTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 9 0.32
10 8 0.29
11 4 0.14
12 7 0.25
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATTATTA
Found at i:53984471 original size:20 final size:20
Alignment explanation
Indices: 53984442--53984488 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
53984432 GCCTGACAGA
*
53984442 GGGATATATGTCAGAATTAT
1 GGGATTTATGTCAGAATTAT
53984462 GGGATTTATGTCAGAATTAT
1 GGGATTTATGTCAGAATTAT
53984482 GGGATTT
1 GGGATTT
53984489 CACTTGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (20 bp):
GGGATTTATGTCAGAATTAT
Found at i:53994099 original size:44 final size:44
Alignment explanation
Indices: 53994034--53994507 Score: 379
Period size: 44 Copynumber: 10.7 Consensus size: 44
53994024 GTCACCGCAC
* * *
53994034 CAAATATTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAACTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTA
* * * * * * *
53994078 CAAATGTTATCTCTCTAAAGTTGCAATGGAGTAGACT-AAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CTA
* * *
53994122 CAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTA
* * *
53994166 CAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAACCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTA
* * *
53994210 CAAATCTTATCTCTCTGAAGCTGCAGTGGAGCAGA-TAAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CTA
* * *
53994254 CAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATT-AAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CTA
* * * ** *
53994298 TCGAATCTTATCTCCCTGGAGCTGCA-T-GAATAGATTGAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTA
* * * *
53994341 CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTA
* ** * *
53994385 CAAATCATATAC-CTTTGAAGTTGTAGTGG-GTCAGA-TAAAATCTA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAA-CTA
* * * *
53994429 CTATAGCGAGTCTCATCTCCATGAAGTTGCAGTAGAGCAGATTGAAGCTA
1 C-A-A---A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTA
* * *
53994479 CGAATCTCATCTTCCTGAAGTTGCAGTGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGG
53994508 GTTAGAATGA
Statistics
Matches: 349, Mismatches: 61, Indels: 40
0.78 0.14 0.09
Matches are distributed among these distances:
42 20 0.06
43 23 0.07
44 246 0.70
45 27 0.08
46 1 0.00
48 1 0.00
49 2 0.01
50 25 0.07
51 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTA
Found at i:54012897 original size:3 final size:3
Alignment explanation
Indices: 54012889--54012917 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
54012879 AACATGCTTA
54012889 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
54012918 TTTACCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:54019480 original size:23 final size:23
Alignment explanation
Indices: 54019454--54019539 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
54019444 AGTTAAAAGG
54019454 GTGAAGAGACTTGAATATGAAGA
1 GTGAAGAGACTTGAATATGAAGA
* *
54019477 GTGAAGAGACTTGAAGATGAAAA
1 GTGAAGAGACTTGAATATGAAGA
* * * *
54019500 GT-TACACAC---ATTATGAAGA
1 GTGAAGAGACTTGAATATGAAGA
*
54019519 GTGATGAGACTTGAATATGAA
1 GTGAAGAGACTTGAATATGAA
54019540 AAGTTATACA
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
19 9 0.20
20 3 0.07
22 4 0.09
23 30 0.65
ACGTcount: A:0.43, C:0.07, G:0.27, T:0.23
Consensus pattern (23 bp):
GTGAAGAGACTTGAATATGAAGA
Found at i:54019528 original size:42 final size:42
Alignment explanation
Indices: 54019469--54019552 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
54019459 GAGACTTGAA
54019469 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* * *
54019511 TATGAAGAGTGATGAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
54019553 GCATGGATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:54024019 original size:23 final size:23
Alignment explanation
Indices: 54023993--54024040 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
54023983 GAAAAGTTAA
*
54023993 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAAGATG
54024016 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAAGATG
54024039 AA
1 AA
54024041 AAGTTACACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.31, T:0.19
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAAGATG
Found at i:54024072 original size:42 final size:42
Alignment explanation
Indices: 54024012--54024095 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
54024002 GAGACTTGAA
* *
54024012 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTAAAAAGACTTGAAGATGAAAAGTTACACACAT
* *
54024054 TATGAAGAGTAAAAAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTAAAAAGACTTGAAGATGAAAAGTTACACACAT
54024096 GCATGGATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTAAAAAGACTTGAAGATGAAAAGTTACACACAT
Found at i:54024573 original size:30 final size:30
Alignment explanation
Indices: 54024537--54024596 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
54024527 TAACAAAGTA
54024537 TGTTTTGAGCTTGCAACAGCGGCAATTTAG
1 TGTTTTGAGCTTGCAACAGCGGCAATTTAG
54024567 TGTTTTGAGCTTGCAACAGCGGCAATTTAG
1 TGTTTTGAGCTTGCAACAGCGGCAATTTAG
54024597 GACGACTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (30 bp):
TGTTTTGAGCTTGCAACAGCGGCAATTTAG
Found at i:54034086 original size:28 final size:28
Alignment explanation
Indices: 54034055--54034108 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
54034045 AACGTGAGGC
*
54034055 GCTGGGGCAGTGGGCAGAGGCGTGCGAT
1 GCTGGGGCAGTAGGCAGAGGCGTGCGAT
*
54034083 GCTGGGGCATTAGGCAGAGGCGTGCG
1 GCTGGGGCAGTAGGCAGAGGCGTGCG
54034109 GTGCCTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.52, T:0.15
Consensus pattern (28 bp):
GCTGGGGCAGTAGGCAGAGGCGTGCGAT
Found at i:54034185 original size:19 final size:19
Alignment explanation
Indices: 54034156--54034192 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
54034146 TAGGCTGATG
54034156 TTAATTTGGGCTTAGGGTTA
1 TTAATTTGGGCTT-GGGTTA
54034176 TTAA-TTGGGCTTGGGTT
1 TTAATTTGGGCTTGGGTT
54034193 GTTGTTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.16, C:0.05, G:0.32, T:0.46
Consensus pattern (19 bp):
TTAATTTGGGCTTGGGTTA
Found at i:54034201 original size:18 final size:19
Alignment explanation
Indices: 54034159--54034204 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
54034149 GCTGATGTTA
54034159 ATTTGGGCTTAGGGTTATT
1 ATTTGGGCTTAGGGTTATT
* *
54034178 AATTGGGCTT-GGGTTGTT
1 ATTTGGGCTTAGGGTTATT
*
54034196 GTTTGGGCT
1 ATTTGGGCT
54034205 GGATTTTGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.11, C:0.07, G:0.37, T:0.46
Consensus pattern (19 bp):
ATTTGGGCTTAGGGTTATT
Found at i:54034680 original size:47 final size:47
Alignment explanation
Indices: 54034628--54034725 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
54034618 TAAAAGATCG
54034628 CTTAGTTATCTTACCTTCCAAGAAAGATTCACATTGTGGAAGATCAA
1 CTTAGTTATCTTACCTTCCAAGAAAGATTCACATTGTGGAAGATCAA
54034675 CTTAGTTATCTTACCTTCCAAGAAAGATTCACATTGTGGAAGATCAA
1 CTTAGTTATCTTACCTTCCAAGAAAGATTCACATTGTGGAAGATCAA
54034722 CTTA
1 CTTA
54034726 TTTAAGCGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (47 bp):
CTTAGTTATCTTACCTTCCAAGAAAGATTCACATTGTGGAAGATCAA
Found at i:54044448 original size:6 final size:6
Alignment explanation
Indices: 54044437--54044477 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
54044427 ACAAATGGAT
*
54044437 CATTTC CATTTC CATTTC CATTTC CATTTC TATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
54044478 TTTGAAACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:54057312 original size:21 final size:21
Alignment explanation
Indices: 54057286--54057326 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
54057276 AGATGAGCAA
* *
54057286 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
54057307 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
54057327 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:54065111 original size:26 final size:26
Alignment explanation
Indices: 54065082--54065131 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
54065072 GAAAGTGTCG
54065082 TTGCATGGTCTTCGAAAAAATAGCTA
1 TTGCATGGTCTTCGAAAAAATAGCTA
*
54065108 TTGCGTGGTCTTCGAAAAAATAGC
1 TTGCATGGTCTTCGAAAAAATAGC
54065132 CAGTAGTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (26 bp):
TTGCATGGTCTTCGAAAAAATAGCTA
Found at i:54071610 original size:132 final size:131
Alignment explanation
Indices: 54071370--54071627 Score: 372
Period size: 132 Copynumber: 2.0 Consensus size: 131
54071360 TTAGCAGGTT
* * * *
54071370 TAATGACAAGTAATATCGCTTATTTGCAATTGTTGACAATCTAAGAAAAAGATGTAATATGGCTC
1 TAATGACAAGTAACATCACTTATTTGCAATTGATGACAATCTAAGAAAAAGATGTAATATGACTC
* * *
54071435 TTTTCGCTAGGGCGATTATAGTCTTTTTACTCTCGATTGTCTGTGACTCAATCTCTCTCTCAGTT
66 TCTTCGCTAGGGCAATTATAGTCTTTTTACTCTCGATTATCTGTGACTCAATCTCTCTCTCAGTT
54071500 G
131 G
* * * *
54071501 TAATGACATGTAGCATCACTTATTTGCAGTTGCATGACACTCTAAGAAAAAGATGTAATATGACT
1 TAATGACAAGTAACATCACTTATTTGCAATTG-ATGACAATCTAAGAAAAAGATGTAATATGACT
* * * *
54071566 CTCTTCGCTAGGGCAATTATGGTTTTTTTACTCTCGGTTATCTGTGACTCAGTCTCTCTCTC
65 CTCTTCGCTAGGGCAATTATAGTCTTTTTACTCTCGATTATCTGTGACTCAATCTCTCTCTC
54071628 GTAGCCGTTA
Statistics
Matches: 111, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
131 27 0.24
132 84 0.76
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (131 bp):
TAATGACAAGTAACATCACTTATTTGCAATTGATGACAATCTAAGAAAAAGATGTAATATGACTC
TCTTCGCTAGGGCAATTATAGTCTTTTTACTCTCGATTATCTGTGACTCAATCTCTCTCTCAGTT
G
Found at i:54075423 original size:18 final size:18
Alignment explanation
Indices: 54075400--54075435 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
54075390 AAACTTAAGA
54075400 AGAAAACTGTTTACAATT
1 AGAAAACTGTTTACAATT
54075418 AGAAAACTGTTTACAATT
1 AGAAAACTGTTTACAATT
54075436 TTAATTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
AGAAAACTGTTTACAATT
Found at i:54080398 original size:130 final size:131
Alignment explanation
Indices: 54079990--54080505 Score: 759
Period size: 131 Copynumber: 4.0 Consensus size: 131
54079980 GTAGCTTATT
* * ** *
54079990 TAATTACATGCAGCATCGCTTATTTGTAATTGTTGACGGTCTAAG-AAAAGATGTAATATGACTC
1 TAATGACATGCAGCATCGCTTATTTGTAATTTTTGACACTCTAAGAAAAAGATGTAATATGACTA
* * * * * *
54080054 TTTTCT-CTAGGGCGATTATGGTCTTTTTACTCTCGACTGTTTGTGGCCCAGTCTCTCTCTTAGT
66 TTTT-TGCTAGAGTGATTATGCTATTTTTACTCTCGACTGTCTGTAGCCCAGTCTCTCTCTTAGT
54080118 CA
130 CA
* * *
54080120 TAATGACATGTAGCATCTCTTATTTGTAATTTTTGACAATCTAAGAAAAAGATGTAATATGACTA
1 TAATGACATGCAGCATCGCTTATTTGTAATTTTTGACACTCTAAGAAAAAGATGTAATATGACTA
* * *
54080185 TTTTTGCTATAGTGATTGTGCTATTTTTACTCTCGATTGTCTGTAGCCCAGTCTCTCTCTTAGTC
66 TTTTTGCTAGAGTGATTATGCTATTTTTACTCTCGACTGTCTGTAGCCCAGTCTCTCTCTTAGTC
54080250 A
131 A
* * *
54080251 TAATGACATGTAGCATCGTTTATTTGTAATTTTTGACACTCTAAGAAAAAGATATAATA-GACTA
1 TAATGACATGCAGCATCGCTTATTTGTAATTTTTGACACTCTAAGAAAAAGATGTAATATGACTA
* * *
54080315 TTTTTGCTAGAGTGATTATGCTATTTTTACCCTAGACTGTTTGTAGCCCAGTCTCTCTCTTAGTC
66 TTTTTGCTAGAGTGATTATGCTATTTTTACTCTCGACTGTCTGTAGCCCAGTCTCTCTCTTAGTC
54080380 A
131 A
*
54080381 TAATGACATGCACCATCGCTTATTTGTAATTTTTGACACTCTAAGAAAAAGATGTAATATGACTA
1 TAATGACATGCAGCATCGCTTATTTGTAATTTTTGACACTCTAAGAAAAAGATGTAATATGACTA
* * *
54080446 TTTTTGCTAGAGTGATTATGCTATTTTTATTCTCGACTGTCTGTGGCCCAGTCTTTCTCT
66 TTTTTGCTAGAGTGATTATGCTATTTTTACTCTCGACTGTCTGTAGCCCAGTCTCTCTCT
54080506 CTCTCAGTCG
Statistics
Matches: 347, Mismatches: 36, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
130 160 0.46
131 187 0.54
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (131 bp):
TAATGACATGCAGCATCGCTTATTTGTAATTTTTGACACTCTAAGAAAAAGATGTAATATGACTA
TTTTTGCTAGAGTGATTATGCTATTTTTACTCTCGACTGTCTGTAGCCCAGTCTCTCTCTTAGTC
A
Found at i:54080470 original size:261 final size:261
Alignment explanation
Indices: 54079990--54080505 Score: 775
Period size: 261 Copynumber: 2.0 Consensus size: 261
54079980 GTAGCTTATT
* ** * *
54079990 TAATTACATGCAGCATCGCTTATTTGTAATTGTTGACGGTCTAAGAAAAGATGTAATATGACTCT
1 TAATGACATGCAGCATCGCTTATTTGTAATTGTTGACACTCTAAGAAAAGATATAATATGACTAT
* * * * * *
54080055 TTTCTCTAGGGCGATTATGGTCTTTTTACTCTCGACTGTTTGTGGCCCAGTCTCTCTCTTAGTCA
66 TTTCTCTAGAGCGATTATGCTATTTTTACCCTAGACTGTTTGTAGCCCAGTCTCTCTCTTAGTCA
* * *
54080120 TAATGACATGTAGCATCTCTTATTTGTAATTTTTGACAATCTAAGAAAAAGATGTAATATGACTA
131 TAATGACATGCACCATCGCTTATTTGTAATTTTTGACAATCTAAGAAAAAGATGTAATATGACTA
* * *
54080185 TTTTTGCTATAGTGATTGTGCTATTTTTACTCTCGATTGTCTGTAGCCCAGTCTCTCTCTTAGTC
196 TTTTTGCTAGAGTGATTATGCTATTTTTACTCTCGACTGTCTGTAGCCCAGTCTCTCTCTTAGTC
54080250 A
261 A
* * *
54080251 TAATGACATGTAGCATCGTTTATTTGTAATTTTTGACACTCTAAGAAAAAGATATAATA-GACTA
1 TAATGACATGCAGCATCGCTTATTTGTAATTGTTGACACTCTAAG-AAAAGATATAATATGACTA
*
54080315 TTTT-TGCTAGAGTGATTATGCTATTTTTACCCTAGACTGTTTGTAGCCCAGTCTCTCTCTTAGT
65 TTTTCT-CTAGAGCGATTATGCTATTTTTACCCTAGACTGTTTGTAGCCCAGTCTCTCTCTTAGT
*
54080379 CATAATGACATGCACCATCGCTTATTTGTAATTTTTGACACTCTAAGAAAAAGATGTAATATGAC
129 CATAATGACATGCACCATCGCTTATTTGTAATTTTTGACAATCTAAGAAAAAGATGTAATATGAC
* * *
54080444 TATTTTTGCTAGAGTGATTATGCTATTTTTATTCTCGACTGTCTGTGGCCCAGTCTTTCTCT
194 TATTTTTGCTAGAGTGATTATGCTATTTTTACTCTCGACTGTCTGTAGCCCAGTCTCTCTCT
54080506 CTCTCAGTCG
Statistics
Matches: 228, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
260 1 0.00
261 215 0.94
262 12 0.05
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (261 bp):
TAATGACATGCAGCATCGCTTATTTGTAATTGTTGACACTCTAAGAAAAGATATAATATGACTAT
TTTCTCTAGAGCGATTATGCTATTTTTACCCTAGACTGTTTGTAGCCCAGTCTCTCTCTTAGTCA
TAATGACATGCACCATCGCTTATTTGTAATTTTTGACAATCTAAGAAAAAGATGTAATATGACTA
TTTTTGCTAGAGTGATTATGCTATTTTTACTCTCGACTGTCTGTAGCCCAGTCTCTCTCTTAGTC
A
Found at i:54091866 original size:14 final size:13
Alignment explanation
Indices: 54091825--54091869 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
54091815 GTACGGCTCG
54091825 AAACCAAAAATAA
1 AAACCAAAAATAA
*
54091838 ATAAACAAAATATAA
1 A-AACCAAAA-ATAA
54091853 AAACCGAAAAATAA
1 AAACC-AAAAATAA
54091867 AAA
1 AAA
54091870 AGTCCATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 1 0.04
14 17 0.63
15 9 0.33
ACGTcount: A:0.76, C:0.11, G:0.02, T:0.11
Consensus pattern (13 bp):
AAACCAAAAATAA
Found at i:54091870 original size:15 final size:14
Alignment explanation
Indices: 54091825--54091870 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 14
54091815 GTACGGCTCG
54091825 AAACCAAAAATAAA
1 AAACCAAAAATAAA
54091839 TAAA-C-AAAATATAA
1 -AAACCAAAAATA-AA
54091853 AAACCGAAAAATAAA
1 AAACC-AAAAATAAA
54091868 AAA
1 AAA
54091871 GTCCATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.33
14 4 0.15
15 8 0.30
16 6 0.22
ACGTcount: A:0.76, C:0.11, G:0.02, T:0.11
Consensus pattern (14 bp):
AAACCAAAAATAAA
Found at i:54092556 original size:6 final size:6
Alignment explanation
Indices: 54092504--54092556 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
54092494 GGGCTGGAAA
* * * * *
54092504 TTTTCT TCTTCT TCTTCT TCTTCT TTTTTT TTTTTT TTTTGCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT-CT TTTTCT
54092553 TTTT
1 TTTT
54092557 GAATGGTAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:54099250 original size:99 final size:99
Alignment explanation
Indices: 54099088--54099477 Score: 380
Period size: 99 Copynumber: 3.9 Consensus size: 99
54099078 CTTCAATCTG
* * * * *
54099088 TGCATCGCCT-GAGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAA
1 TGCAACGCCTGGA-AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAACTGCAATGTCAGGGAA
* **
54099152 GTGAGATTCACCT-TTGTAGCTTCAATCTGTTCCGT
65 GTAAGA-TCACCTGTTGTAGCTTCAATCTGTTCCAC
* * ** * *
54099187 TGCATCGCCT-GAAAGTGAGATTCGCCGTTGTAGCTTTGATCCTTTAAACTGCAACGTCAGGGAA
1 TGCAACGCCTGGAAAGTAAGATTCGCCGTTGTAGCTTCAAT-CTTTTAACTGCAATGTCAGGGAA
54099251 GTAAGATC-CGCTGTTGTAGCTTCAATCTGTTCCAC
65 GTAAGATCAC-CTGTTGTAGCTTCAATCTGTTCCAC
* * * * * * * *
54099286 TGTAAAGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTTAGGGAGG
1 TGCAACGCCTGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAACTGCAATGTCAGGGAAG
* ** *
54099351 TGAGATCTGCTGTTGTAGCCTCAATCTGTTCCAC
66 TAAGATCACCTGTTGTAGCTTCAATCTGTTCCAC
* * * *
54099385 TGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCT-ACTGCAATGCCTGGG
1 TGCAACGCCT-GGAAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TT-TAACTGCAATGTCAGGG
*
54099448 AAGTAAGATTCACC-GTTGTGGCTTCAATCT
63 AAGTAAGA-TCACCTGTTGTAGCTTCAATCT
54099478 TTTAATTGCA
Statistics
Matches: 236, Mismatches: 46, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
97 1 0.00
98 29 0.12
99 145 0.61
100 57 0.24
101 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (99 bp):
TGCAACGCCTGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAACTGCAATGTCAGGGAAG
TAAGATCACCTGTTGTAGCTTCAATCTGTTCCAC
Found at i:54099300 original size:50 final size:49
Alignment explanation
Indices: 54099165--54099957 Score: 549
Period size: 50 Copynumber: 16.0 Consensus size: 49
54099155 AGATTCACCT
** * * * * *
54099165 TTGTAGCTTCAATCTGTTCCGTTGCATCGCCT-GAAAGTGAGATTCGCCG
1 TTGTAGCTTCAATCTGTTCCACTGCAACG-CTGGGAAGTAAGATCCGCTG
** ** *
54099214 TTGTAGCTTTGATCCT-TTAAACTGCAACGTCAGGGAAGTAAGATCCGCTG
1 TTGTAGCTTCAAT-CTGTTCCACTGCAACG-CTGGGAAGTAAGATCCGCTG
* * * * *
54099264 TTGTAGCTTCAATCTGTTCCACTGTAAAGCCTGGGAAGTAAGATTCACCG
1 TTGTAGCTTCAATCTGTTCCACTGCAACG-CTGGGAAGTAAGATCCGCTG
* ** * * * * * *
54099314 TTGTGGCTTCAATCT-TTTAATTGCAATGTTAGGGAGGTGAGATCTGCTG
1 TTGTAGCTTCAATCTGTTCCACTGCAACGCT-GGGAAGTAAGATCCGCTG
* *
54099363 TTGTAGCCTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
1 TTGTAGCTTCAATCTGTTCCACTGCAACGCT-GGGAAGTAAGATCCGCTG
* * * * * *
54099413 TTGTAGCTTCAATCTATTCTACTGCAATGCCTGGGAAGTAAGATTCACCG
1 TTGTAGCTTCAATCTGTTCCACTGCAACG-CTGGGAAGTAAGATCCGCTG
* ** * * * * * * **
54099463 TTGTGGCTTCAATCT-TTTAATTGCAATGTTAGAAAGGTGAGATCCGCCA
1 TTGTAGCTTCAATCTGTTCCACTGCAACGCTGGGAA-GTAAGATCCGCTG
** * * * * **
54099512 TTGTAGCTTCAATCTGTTCTGCTGCACCGCTTGAAAGTAAGATTCGCCA
1 TTGTAGCTTCAATCTGTTCCACTGCAACGCTGGGAAGTAAGATCCGCTG
* * ** * *
54099561 TTGTGGCTTCGATCCT-TTAAACTGCAACGTCAGGGAAATAAGATCCGCTG
1 TTGTAGCTTCAAT-CTGTTCCACTGCAACG-CTGGGAAGTAAGATCCGCTG
* * * *
54099611 TTGTAGCTTCAATCTGTTCCACTGTAACGCCTGGGAAGTAAGATTCACCG
1 TTGTAGCTTCAATCTGTTCCACTGCAACG-CTGGGAAGTAAGATCCGCTG
* * * * * * * *
54099661 TTGTGGCTTCAATCT-TT-AATTGCAATGTTAGGGAGGTGAGATCTGCTG
1 TTGTAGCTTCAATCTGTTCCACTGCAACGCT-GGGAAGTAAGATCCGCTG
* *
54099709 TTGTAGCCTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
1 TTGTAGCTTCAATCTGTTCCACTGCAACGCT-GGGAAGTAAGATCCGCTG
** * * * * *
54099759 TTGTAGCTTCAATCT-TCTTAATTTCAATGTCAGGGAATTAAGATCCGCTG
1 TTGTAGCTTCAATCTGT-TCCACTGCAACG-CTGGGAAGTAAGATCCGCTG
*
54099809 TTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
1 TTGTAGCTTCAATCTGTTCCACTGCAACGCT-GGGAAGTAAGATCCGCTG
* * ** * * *
54099859 TTGTAGCTTCATTCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
1 TTGTAGCTTCAATCTGTTCCACTGCAACG-CTGGGAAGTAAGATCCGCTG
* * *
54099909 TTGCAGCTTCATTCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCT
1 TTGTAGCTTCAATCTGTTCCACTGCAACGCT-GGGAAGTAAGATCCGCT
54099958 ATCTTCATTG
Statistics
Matches: 567, Mismatches: 157, Indels: 39
0.74 0.21 0.05
Matches are distributed among these distances:
47 1 0.00
48 36 0.06
49 128 0.23
50 397 0.70
51 5 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (49 bp):
TTGTAGCTTCAATCTGTTCCACTGCAACGCTGGGAAGTAAGATCCGCTG
Found at i:54099328 original size:149 final size:148
Alignment explanation
Indices: 54099147--54099869 Score: 498
Period size: 149 Copynumber: 4.9 Consensus size: 148
54099137 TGCAATGTCG
* * * **
54099147 GGGAAGTGAGATTCACCTTTGTAGCTTCAATCTGTTCCGTTGC-ATCGCCT-GAAAGTGAGAT-T
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCT-TTCAATTGCAAT-G-CTAGAAAGTGAGATCT
* ** *
54099209 CGCCGTTGTAGCTTTGATCCT-TTAAACTGCAACG-TCAGGGAAGTAAGATCCGCTGTTGTAGCT
63 -GCCGTTGTAGCCTCAAT-CTGTTAAACTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTAGCT
* *
54099272 TCAATCTGTTCCACTGTAAAGCCT
125 TCAATCTATTCCACTGCAAAGCCT
* * * *
54099296 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTTAGGGAGGTGAGATCTGC
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTCAATTGCAATGCTA-GAAAGTGAGATCTGC
* **
54099361 TGTTGTAGCCTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAAT
65 CGTTGTAGCCTCAATCTGTTAAACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAAT
* *
54099426 CTATTCTACTGCAATGCCT
130 CTATTCCACTGCAAAGCCT
* * *
54099445 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTTAGAAAGGTGAGATCCGC
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTCAATTGCAATGCTAGAAA-GTGAGATCTGC
* * *** * * * ** * *
54099510 CATTGTAGCTTCAATCTGTTCTGCTGCACCGCT-TGAAAGTAAGATTCGCCATTGTGGCTTCGAT
65 CGTTGTAGCCTCAATCTGTTAAACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAAT
** * * *
54099574 CCT-TTAAACTGCAACGTCA
130 -CTATTCCACTGCAAAGCCT
* * * * * * * * * * * *
54099593 GGGAAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGTAACGCCTGGGAAGTAAGAT-TC
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCT-TTCAATTGCAATG-CTAGAAAGTGAGATCT-
* * * * * * * * * * *
54099657 ACCGTTGTGGCTTCAATCT-TT-AATTGCAATGTTAGGGAGGTGAGATCTGCTGTTGTAGCCTCA
63 GCCGTTGTAGCCTCAATCTGTTAAACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCA
* *
54099720 ATCTGTTCCACTGCAACG-CT
128 ATCTATTCCACTGCAAAGCCT
* * * * * * * * * *
54099740 AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTTCAATG-TCAGGGAATTAAGATC
1 -GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTT-TCAATTGCAATGCT-A-GAAAGTGAGATC
* * * **
54099804 CGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTC
62 TGCCGTTGTAGCCTCAATCTGTTAAACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTC
54099869 A
127 A
54099870 TTCTTTTTAA
Statistics
Matches: 453, Mismatches: 101, Indels: 39
0.76 0.17 0.07
Matches are distributed among these distances:
146 1 0.00
147 11 0.02
148 171 0.38
149 231 0.51
150 39 0.09
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (148 bp):
GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTCAATTGCAATGCTAGAAAGTGAGATCTGCC
GTTGTAGCCTCAATCTGTTAAACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
TATTCCACTGCAAAGCCT
Found at i:54099523 original size:198 final size:196
Alignment explanation
Indices: 54099314--54099953 Score: 648
Period size: 198 Copynumber: 3.2 Consensus size: 196
54099304 AGATTCACCG
* * * * * * *
54099314 TTGTGGCTTCAATCT-TTTAATTGCAATGTTAGGGAGGTGAGATCTGCTGTTGTAGCCTCAATCT
1 TTGTAGCTTCAATCTGTTT-ACTGCAACGTTAGGAAAGTAAGATCTGCTGTTGTAGCTTCAATCT
** * * *
54099378 GTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCTACTGCAATG
65 -TTAAACTGCAACGTC-AGGAAA-TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG
54099442 CCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTTAGAAAGGTGAGATC
127 CCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTTAGAAAGGTGAGATC
54099507 CGCCA
192 CGCCA
* * ** * *
54099512 TTGTAGCTTCAATCTGTTCTGCTGCACCGCTT--GAAAGTAAGAT-TCGCCATTGTGGCTTCGAT
1 TTGTAGCTTCAATCTGTT-TACTGCAACG-TTAGGAAAGTAAGATCT-GCTGTTGTAGCTTCAAT
*
54099574 CCTTTAAACTGCAACGTCAGGGAAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGTAAC
63 -CTTTAAACTGCAACGTCA-GGAAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAC
**
54099639 GCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATC-TTTAATTGCAATGTTAGGGAGGTGAGAT
126 GCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTTAGAAAGGTGAGAT
* **
54099703 CTGCTG
191 CCGCCA
* * * *
54099709 TTGTAGCCTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTGTT-TACTGCAACGTTAGGAAAGTAAGATCTGCTGTTGTAGCTTCAATCT
* * * * *
54099774 TCTTAATTTCAATGTCAGGGAATTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-
65 T-TAAACTGCAACGTCA-GGAAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGC
* * * * * * * * *
54099838 CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCATTCTTTTTAATTGCAATGTCAGGGAA-GTAAGA
128 CT-GGGAAGTAAGATTCACCGTTGTGGCTTCAATC-TTTTAATTGCAATGTTA-GAAAGGTGAGA
**
54099902 TCCGCTG
190 TCCGCCA
* * * *
54099909 TTGCAGCTTCATTCTGTTCCACTGCAACGCTAGGAAAGTAAGATC
1 TTGTAGCTTCAATCTGTT-TACTGCAACGTTAGGAAAGTAAGATC
54099954 CGCTATCTTC
Statistics
Matches: 374, Mismatches: 53, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
196 1 0.00
197 60 0.16
198 224 0.60
199 15 0.04
200 71 0.19
201 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (196 bp):
TTGTAGCTTCAATCTGTTTACTGCAACGTTAGGAAAGTAAGATCTGCTGTTGTAGCTTCAATCTT
TAAACTGCAACGTCAGGAAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCCTG
GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTTAGAAAGGTGAGATCCGCC
A
Found at i:54099957 original size:100 final size:98
Alignment explanation
Indices: 54099398--54099956 Score: 663
Period size: 100 Copynumber: 5.6 Consensus size: 98
54099388 AACGCTAGGA
* * * * * *
54099398 AAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCTACTGCAATGCCTGGGAAGTAAGATTCACCG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTGGAAAGTAAGATCCGCCG
* *
54099463 TTGTGGCTTCAATCTTTTAATTGCAATGTTA-GA
65 TTGTGGCTTCAATCTTTTAATTGCAATGTCAGGG
* ** ** * * * *
54099496 AAGGTGAGATCCGCCATTGTAGCTTCAATCTGTTCTGCTGCACCGCTTGAAAGTAAGATTCGCCA
1 AA-GTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTGGAAAGTAAGATCCGCCG
* * * *
54099561 TTGTGGCTTCGATCCTTTAAACTGCAACGTCAGGG
65 TTGTGGCTTCAAT-CTTTTAATTGCAATGTCAGGG
* * * * *
54099596 AAATAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGTAACGCCTGGGAAGTAAGATTCACCG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTGGAAAGTAAGATCCGCCG
*
54099661 TTGTGGCTTCAATC-TTTAATTGCAATGTTAGGG
65 TTGTGGCTTCAATCTTTTAATTGCAATGTCAGGG
* * * * *
54099694 AGGTGAGATCTGCTGTTGTAGCCTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCT-GGAAAGTAAGATCCGCCG
* *
54099759 TTGTAGCTTCAATCTTCTTAATTTCAATGTCAGGG
65 TTGTGGCTTCAATCTT-TTAATTGCAATGTCAGGG
* *
54099794 AATTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCT-GGAAAGTAAGATCCGCCG
* *
54099859 TTGTAGCTTCATTCTTTTTAATTGCAATGTCAGGG
65 TTGTGGCTTCAATC-TTTTAATTGCAATGTCAGGG
* *
54099894 AAGTAAGATCCGCTGTTGCAGCTTCATTCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGC
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCT-GGAAAGTAAGATCCGC
54099957 TATCTTCATT
Statistics
Matches: 396, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
97 2 0.01
98 110 0.28
99 85 0.21
100 197 0.50
101 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (98 bp):
AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTGGAAAGTAAGATCCGCCGT
TGTGGCTTCAATCTTTTAATTGCAATGTCAGGG
Found at i:54105769 original size:13 final size:13
Alignment explanation
Indices: 54105751--54105775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54105741 TAATGGTATA
54105751 TTGAATCCATGAC
1 TTGAATCCATGAC
54105764 TTGAATCCATGA
1 TTGAATCCATGA
54105776 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:54106355 original size:27 final size:27
Alignment explanation
Indices: 54106324--54106501 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
54106314 TAAATTGTAC
54106324 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54106351 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54106377 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54106405 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
54106433 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
54106460 AGCACTAAGTGTGCGAGTCGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54106487 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54106502 GGCTCAATAA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54106438 original size:82 final size:81
Alignment explanation
Indices: 54106325--54106475 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
54106315 AAATTGTACA
* *
54106325 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
54106389 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
54106406 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
54106471 TGCGA
65 TGCGA
54106476 GTCGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:54106492 original size:82 final size:81
Alignment explanation
Indices: 54106321--54106501 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
54106311 GATTAAATTG
* *
54106321 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
54106386 GTGTGCGAATTGACCA
66 GTGTGCGAATCGACCA
* * ** *
54106402 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
54106466 AAGTGTGCGAGTCGATTA
64 AAGTGTGCGAATCGACCA
* *
54106484 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54106502 GGCTCAATAA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATCGACCA
Found at i:54114931 original size:8 final size:8
Alignment explanation
Indices: 54114918--54114981 Score: 83
Period size: 8 Copynumber: 7.5 Consensus size: 8
54114908 TAGTTGATTA
54114918 CTTAATGT
1 CTTAATGT
54114926 CTTAATGT
1 CTTAATGT
54114934 CTTAATGT
1 CTTAATGT
*
54114942 CTTAGTTGATT
1 CTTA-ATG--T
54114953 ACTTAATGT
1 -CTTAATGT
54114962 CTTAATGT
1 CTTAATGT
54114970 CTTAATGT
1 CTTAATGT
54114978 CTTA
1 CTTA
54114982 GTTGATTACT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
8 40 0.80
9 3 0.06
11 3 0.06
12 4 0.08
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (8 bp):
CTTAATGT
Found at i:54114948 original size:36 final size:36
Alignment explanation
Indices: 54114908--54114991 Score: 168
Period size: 36 Copynumber: 2.3 Consensus size: 36
54114898 AATTGGTACC
54114908 TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
1 TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
54114944 TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
1 TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
54114980 TAGTTGATTACT
1 TAGTTGATTACT
54114992 GAAAACTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (36 bp):
TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
Found at i:54115916 original size:3 final size:3
Alignment explanation
Indices: 54115908--54115946 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
54115898 AATAGTGAAG
*
54115908 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
54115947 CAATGTGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:54119010 original size:26 final size:24
Alignment explanation
Indices: 54118979--54119034 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
54118969 ATTTTATGAT
*
54118979 TTTTATCTATTTTCCTTTATTGTTA
1 TTTTATCTATTTTACTTTATT-TTA
* *
54119004 TTATTATTTATTTTATTTTATTTTA
1 TT-TTATCTATTTTACTTTATTTTA
54119029 TTTTAT
1 TTTTAT
54119035 TTTACTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 7 0.26
26 16 0.59
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTATCTATTTTACTTTATTTTA
Found at i:54119016 original size:4 final size:4
Alignment explanation
Indices: 54119007--54119108 Score: 71
Period size: 4 Copynumber: 23.5 Consensus size: 4
54118997 ATTGTTATTA
54119007 TTAT TTATT TTATT TTATT TTATT TTATT TTACT TTAT GTTCAT TTAT TTAT
1 TTAT TTA-T TTA-T TTA-T TTA-T TTA-T TTA-T TTAT -TT-AT TTAT TTAT
* ** * *
54119059 TTAT TTAT ATAT CCAT TTTT TTAT GT-T TTAGT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT
54119107 TT
1 TT
54119109 GTTGTTGTAT
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
3 2 0.02
4 43 0.52
5 36 0.43
6 2 0.02
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:54119020 original size:5 final size:5
Alignment explanation
Indices: 54118994--54119064 Score: 69
Period size: 5 Copynumber: 14.4 Consensus size: 5
54118984 TCTATTTTCC
*
54118994 TTTAT TGTTAT TATTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAC TTTAT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
54119045 GTTCA- TTTA- TTTA- TTTAT TT
1 -TTTAT TTTAT TTTAT TTTAT TT
54119065 ATATATCCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
4 14 0.25
5 32 0.56
6 11 0.19
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:54120847 original size:19 final size:20
Alignment explanation
Indices: 54120807--54120850 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
54120797 GTCTCTTTAG
* *
54120807 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
54120826 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
54120845 GCATTA
1 GCATTA
54120851 GATTTTCACG
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:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:54123192 original size:7 final size:7
Alignment explanation
Indices: 54123180--54123212 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
54123170 TCAGACTCAA
54123180 AAAAAAC
1 AAAAAAC
54123187 AAAAAAC
1 AAAAAAC
54123194 AAAAAA-
1 AAAAAAC
54123200 ACAAAAAC
1 A-AAAAAC
54123208 AAAAA
1 AAAAA
54123213 TAAAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 22 0.92
8 1 0.04
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:54123199 original size:15 final size:14
Alignment explanation
Indices: 54123179--54123212 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
54123169 TTCAGACTCA
54123179 AAAAAAACAAAAAAC
1 AAAAAAAC-AAAAAC
54123194 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
54123208 AAAAA
1 AAAAA
54123213 TAAAAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAAC
Found at i:54123219 original size:14 final size:13
Alignment explanation
Indices: 54123180--54123224 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
54123170 TCAGACTCAA
54123180 AAAAAACAAAAAAC
1 AAAAAA-AAAAAAC
54123194 AAAAAAACAAAAAC
1 AAAAAAA-AAAAAC
*
54123208 AAAAATAAAAAATC
1 AAAAA-AAAAAAAC
54123222 AAA
1 AAA
54123225 GTCAAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.89
15 2 0.07
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:54123231 original size:20 final size:20
Alignment explanation
Indices: 54123181--54123224 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
54123171 CAGACTCAAA
54123181 AAAAACAAAAAACAAAAAAAC
1 AAAAAC-AAAAACAAAAAAAC
* *
54123202 AAAAACAAAAATAAAAAATC
1 AAAAACAAAAACAAAAAAAC
54123222 AAA
1 AAA
54123225 GTCAAAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAACAAAAACAAAAAAAC
Found at i:54125857 original size:49 final size:49
Alignment explanation
Indices: 54125647--54125961 Score: 344
Period size: 49 Copynumber: 6.4 Consensus size: 49
54125637 GAAACCATAG
*
54125647 ATTGCAATTAAGAAGA-TGAAGCTACAACAGCGGATC-TACTTTCCT-AGC
1 ATTGCAGTTAA-AAGATTGAAGCTACAACAGCGGATCTTAC-TTCCTGAGC
** *
54125695 ATTGCAGTGGAAAGATTGAAGCTACAACAGCAGATCTTACTTCCTGA-C
1 ATTGCAGTTAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCTGAGC
*
54125743 ATTGCA-ATAAGAAGA-TGAAGCTACAACAGCGGATCTTACTTTCCT-AGC
1 ATTGCAGTTAA-AAGATTGAAGCTACAACAGCGGATCTTAC-TTCCTGAGC
* * *
54125791 ATTGCAGTGGAATAGATTGAAGCTACAACAGCAGATCTTACTTCCTGA-C
1 ATTGCAGT-TAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCTGAGC
* * *
54125840 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGC
1 ATTGCAGTTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTCCTGAGC
* * *
54125890 -GTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-C
1 ATTGCAGT-TAAAAGATTGAAGCTACAACAGCGGATCTTACTT-CCTGAGC
*
54125939 ATTGCAGTTAAAAAGATTAAAGC
1 ATTGCAGTT-AAAAGATTGAAGC
54125962 CACATCGGTG
Statistics
Matches: 223, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
47 29 0.13
48 57 0.26
49 88 0.39
50 49 0.22
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (49 bp):
ATTGCAGTTAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCTGAGC
Found at i:54125956 original size:99 final size:97
Alignment explanation
Indices: 54125647--54125955 Score: 516
Period size: 99 Copynumber: 3.2 Consensus size: 97
54125637 GAAACCATAG
54125647 ATTGCAATTAAGAAGATGAAGCTACAACAGCGGATC-TACTTTCCTAGCATTGCAGTGGAAAGAT
1 ATTGCAATTAAGAAGATGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAAGAT
54125711 TGAAGCTACAACAGCAGATCTTACTTCCTGAC
66 TGAAGCTACAACAGCAGATCTTACTTCCTGAC
54125743 ATTGCAA-TAAGAAGATGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAATAGA
1 ATTGCAATTAAGAAGATGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAA-AGA
54125807 TTGAAGCTACAACAGCAGATCTTACTTCCTGAC
65 TTGAAGCTACAACAGCAGATCTTACTTCCTGAC
* *
54125840 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGC-GTGCAGTGGAACAG
1 ATTGCAATTAAGAAGA-TGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAA-AG
*
54125904 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
64 ATTGAAGCTACAACAGCAGATCTTACTT-CCTGAC
* *
54125939 ATTGCAGTTAAAAAGAT
1 ATTGCAATTAAGAAGAT
54125956 TAAAGCCACA
Statistics
Matches: 202, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
95 28 0.14
96 31 0.15
97 43 0.21
98 48 0.24
99 52 0.26
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (97 bp):
ATTGCAATTAAGAAGATGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAAGAT
TGAAGCTACAACAGCAGATCTTACTTCCTGAC
Found at i:54126372 original size:25 final size:25
Alignment explanation
Indices: 54126326--54126375 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54126316 CAGTTAAAAA
* * *
54126326 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
54126351 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
54126376 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:54126476 original size:24 final size:25
Alignment explanation
Indices: 54126449--54126497 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54126439 CAGTTGAAAA
* *
54126449 GATT-AAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
*
54126473 GATTAAAGCTACAACAGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
54126498 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (25 bp):
GATTAAAGCCACAACAGTGAATCTT
Found at i:54126619 original size:25 final size:25
Alignment explanation
Indices: 54126573--54126622 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54126563 CAGTTAAAAA
* * *
54126573 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
54126598 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
54126623 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:54126642 original size:495 final size:500
Alignment explanation
Indices: 54125936--54127459 Score: 2651
Period size: 495 Copynumber: 3.1 Consensus size: 500
54125926 TTACTTCCCT
*
54125936 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAAAAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
*
54126001 TTACGCCCCAAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACAT
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACAT
* *
54126066 TGTAGTTAAAAAGATTAAAGCCACATTGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACG
131 TGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACG
*
54126131 CCCTAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAG
196 CCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAG
54126196 TTAAAAAGATTAAAGCCACA-CGGTGAATCTTGATTAAAGCTACAACAGCGAATC-TACGCCCCA
261 TTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCA
* *
54126259 AGCAATGCAGTGGAACAGATTAAAGCCAGATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAA
326 AGCAATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAA
54126324 AAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGA
391 AAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGA
54126389 TGCAGTGGAATAGATTAAAGCCAAA-TGGTGAATC-TGTTTCTCC
456 TGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* *
54126432 GACATTGCAGTTGAAAAGATT-AAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGTGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
*
54126496 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCTGACAT
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACAT
54126561 TGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACG
131 TGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACG
* *
54126626 CCCCAAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCCCCGACATTGCAG
196 CCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAG
54126691 TTAAAAA-A-TAAAGCCACATCGGTGAATCTTGATT-AAGCTACAACAGCGAATCTTACG-CCCA
261 TTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCA
*
54126752 AGCGATGCAGTGGAATAGATTTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTT-A
326 AGCAATGCAGTGGAATAGA-TTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAA
54126816 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCG
390 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCG
* *
54126881 GTGCAGTGAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
455 ATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* * *
54126927 GACATTGCAGTTAAAAAGATTAAAGTCACATCGGTGAATCTTGATTAAAACCTACAACAACGAAT
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATT-AAAGCTACAACAGCGAAT
* *
54126992 C-TACGCCCCAAGCAATGCAGT-GAATAGATTGAAGCCAAATTGGTGAATCTTGGTTTCTCCGAC
65 CTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTT-GTTTCTCCGAC
*
54127055 ATTGCAGTTAAAAAGATTAAAGCCACATCGATGAATCTTGATTAAAGCTTACAACAGCGAATCTT
129 ATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGC-TACAACAGCGAATCTT
54127120 ACGCCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATT
193 ACG-CCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATT
* * *
54127185 GCAGTTAAAAAGATTAAAGTCACATCGGTGAATCTTGATTAAAAACTACAACAACGAATCTTACG
257 GCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATT-AAAGCTACAACAGCGAATCTTACG
* *
54127250 CCCCAAGCAATGCAGTGAAATAGATTGAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAG
321 CCCCAAGCAATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAG
54127315 TTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAAGCT-CAACAGCGAATCTTACGCCCC
386 TTAAAAAGATTAAAGCCACATCGGTGAATCTTGATT-AAAGCTACAACAGCGAATCTTACGCCCC
*
54127379 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCT
450 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54127430 GACATTGCAGTTAAAAAGATTAAAGCCACA
1 GACATTGCAGTTAAAAAGATTAAAGCCACA
54127460 ATGACGAATC
Statistics
Matches: 975, Mismatches: 36, Indels: 27
0.94 0.03 0.03
Matches are distributed among these distances:
493 139 0.14
494 71 0.07
495 294 0.30
496 119 0.12
497 35 0.04
498 70 0.07
499 1 0.00
500 25 0.03
502 63 0.06
503 152 0.16
504 6 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (500 bp):
GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACAT
TGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACG
CCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAG
TTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCA
AGCAATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAA
AAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGA
TGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
Found at i:54126865 original size:25 final size:25
Alignment explanation
Indices: 54126819--54126868 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54126809 GCAGTTAAAA
* * *
54126819 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
54126844 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
54126869 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:54127471 original size:125 final size:125
Alignment explanation
Indices: 54125936--54127459 Score: 2642
Period size: 125 Copynumber: 12.2 Consensus size: 125
54125926 TTACTTCCCT
*
54125936 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAAAAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
*
54126001 TTACGCCCCAAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* *
54126061 GACATTGTAGTTAAAAAGATTAAAGCCACATTGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
*
54126126 TTACGCCCTAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54126186 GACATTGCAGTTAAAAAGATTAAAGCCACA-CGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
* * *
54126250 -TACGCCCCAAGCAATGCAGTGGAACAGATTAAAGCCAGATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54126309 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
54126374 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAA-TGGTGAATC-TGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* *
54126432 GACATTGCAGTTGAAAAGATT-AAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGTGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
*
54126496 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCT
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54126556 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
* *
54126621 TTACGCCCCAAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCCCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54126681 GACATTGCAGTTAAAAA-A-TAAAGCCACATCGGTGAATCTTGATT-AAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
54126743 TTACG-CCCAAGCGATGCAGTGGAATAGATTTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGA-TTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54126803 GACATTGCAGTT-AAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
* *
54126867 TTACGCCCCAAGCGGTGCAGTGAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* * *
54126927 GACATTGCAGTTAAAAAGATTAAAGTCACATCGGTGAATCTTGATTAAAACCTACAACAACGAAT
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATT-AAAGCTACAACAGCGAAT
* *
54126992 C-TACGCCCCAAGCAATGCAGT-GAATAGATTGAAGCCAAATTGGTGAATCTTGGTTTCTCC
65 CTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTT-GTTTCTCC
*
54127052 GACATTGCAGTTAAAAAGATTAAAGCCACATCGATGAATCTTGATTAAAGCTTACAACAGCGAAT
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGC-TACAACAGCGAAT
54127117 CTTACGCCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
65 CTTACG-CCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* * *
54127179 GACATTGCAGTTAAAAAGATTAAAGTCACATCGGTGAATCTTGATTAAAAACTACAACAACGAAT
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATT-AAAGCTACAACAGCGAAT
* * *
54127244 CTTACGCCCCAAGCAATGCAGTGAAATAGATTGAAGCCAAATTGGTGAATCTTGTTTCTCC
65 CTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54127305 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAAGCT-CAACAGCGAAT
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATT-AAAGCTACAACAGCGAAT
*
54127369 CTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCT
65 CTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54127430 GACATTGCAGTTAAAAAGATTAAAGCCACA
1 GACATTGCAGTTAAAAAGATTAAAGCCACA
54127460 ATGACGAATC
Statistics
Matches: 1328, Mismatches: 53, Indels: 36
0.94 0.04 0.03
Matches are distributed among these distances:
121 26 0.02
122 148 0.11
123 175 0.13
124 203 0.15
125 534 0.40
126 124 0.09
127 85 0.06
128 33 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (125 bp):
GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
Found at i:54128950 original size:8 final size:8
Alignment explanation
Indices: 54128939--54128982 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
54128929 ATTATTATAG
54128939 TTTTATTT
1 TTTTATTT
54128947 TTTTATTT
1 TTTTATTT
*
54128955 TTTTTTTT
1 TTTTATTT
54128963 TTATTAATTT
1 TT-TT-ATTT
54128973 TTTATATTT
1 TTT-TATTT
54128982 T
1 T
54128983 GTTTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 17 0.55
9 8 0.26
10 6 0.19
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTATTT
Found at i:54128973 original size:25 final size:28
Alignment explanation
Indices: 54128943--54128996 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
54128933 TTATAGTTTT
*
54128943 ATTTTTT-TATTTT-TTTTTTTTTATTA
1 ATTTTTTATATTTTGTTTTATTTTATTA
54128969 ATTTTTTATATTTTGTTTTAATTTTATT
1 ATTTTTTATATTTTGTTTT-ATTTTATT
54128997 CATTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 6 0.25
28 4 0.17
29 7 0.29
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.80
Consensus pattern (28 bp):
ATTTTTTATATTTTGTTTTATTTTATTA
Found at i:54128975 original size:20 final size:20
Alignment explanation
Indices: 54128946--54128993 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
54128936 TAGTTTTATT
*
54128946 TTTTTATTTTTT-T-TTTT-
1 TTTTAATTTTTTATATTTTG
54128963 TTATTAATTTTTTATATTTTG
1 TT-TTAATTTTTTATATTTTG
54128984 TTTTAATTTT
1 TTTTAATTTT
54128994 ATTCATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 9 0.35
19 1 0.04
20 12 0.46
21 2 0.08
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTAATTTTTTATATTTTG
Found at i:54128987 original size:14 final size:14
Alignment explanation
Indices: 54128933--54128987 Score: 51
Period size: 13 Copynumber: 4.0 Consensus size: 14
54128923 ACTATTATTA
54128933 TTATAGTTTTATTTT
1 TTATA-TTTTATTTT
*
54128948 TT-TATTTTTTTTT
1 TTATATTTTATTTT
* *
54128961 TTTTA-TTAATTTT
1 TTATATTTTATTTT
*
54128974 TTATATTTTGTTTT
1 TTATATTTTATTTT
54128988 AATTTTATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
13 20 0.62
14 10 0.31
15 2 0.06
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (14 bp):
TTATATTTTATTTT
Found at i:54129123 original size:21 final size:23
Alignment explanation
Indices: 54129097--54129140 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
54129087 TACAAATATA
*
54129097 TAATAAT-AACAT-ATATATTTT
1 TAATAATCAAAATAATATATTTT
54129118 TAATAATCAAAATAATATATTTT
1 TAATAATCAAAATAATATATTTT
54129141 CCTTATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 9 0.45
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATCAAAATAATATATTTT
Found at i:54140177 original size:27 final size:27
Alignment explanation
Indices: 54140146--54140323 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
54140136 TAAATTGTAC
54140146 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54140173 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54140199 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54140227 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
54140255 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
54140282 AGCACTAAGTGTGCGAGTCGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54140309 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54140324 GGCTCAATAA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54140260 original size:82 final size:81
Alignment explanation
Indices: 54140147--54140297 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
54140137 AAATTGTACA
* *
54140147 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
54140211 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
54140228 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
54140293 TGCGA
65 TGCGA
54140298 GTCGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:54140314 original size:82 final size:81
Alignment explanation
Indices: 54140143--54140323 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
54140133 GATTAAATTG
* *
54140143 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
54140208 GTGTGCGAATTGACCA
66 GTGTGCGAATCGACCA
* * ** *
54140224 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
54140288 AAGTGTGCGAGTCGATTA
64 AAGTGTGCGAATCGACCA
* *
54140306 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54140324 GGCTCAATAA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATCGACCA
Found at i:54148701 original size:8 final size:8
Alignment explanation
Indices: 54148688--54148751 Score: 83
Period size: 8 Copynumber: 7.5 Consensus size: 8
54148678 TAGTTGATTA
54148688 CTTAATGT
1 CTTAATGT
54148696 CTTAATGT
1 CTTAATGT
54148704 CTTAATGT
1 CTTAATGT
*
54148712 CTTAGTTGATT
1 CTTA-ATG--T
54148723 ACTTAATGT
1 -CTTAATGT
54148732 CTTAATGT
1 CTTAATGT
54148740 CTTAATGT
1 CTTAATGT
54148748 CTTA
1 CTTA
54148752 GTTGATTACT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
8 40 0.80
9 3 0.06
11 3 0.06
12 4 0.08
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (8 bp):
CTTAATGT
Found at i:54148718 original size:36 final size:36
Alignment explanation
Indices: 54148678--54148761 Score: 168
Period size: 36 Copynumber: 2.3 Consensus size: 36
54148668 AATTGGTACC
54148678 TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
1 TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
54148714 TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
1 TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
54148750 TAGTTGATTACT
1 TAGTTGATTACT
54148762 GAAAACTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (36 bp):
TAGTTGATTACTTAATGTCTTAATGTCTTAATGTCT
Found at i:54149683 original size:3 final size:3
Alignment explanation
Indices: 54149675--54149713 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
54149665 AATAGTGAAG
*
54149675 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
54149714 CAATGTGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:54152656 original size:5 final size:5
Alignment explanation
Indices: 54152637--54152675 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
54152627 CCTTTTTTTA
*
54152637 TTATT ATTA-T TTATT TTATT TTATT TTATT TTACT TTAT
1 TTATT -TTATT TTATT TTATT TTATT TTATT TTATT TTAT
54152676 GTTCATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
4 3 0.10
5 24 0.80
6 3 0.10
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:54154460 original size:19 final size:20
Alignment explanation
Indices: 54154420--54154463 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
54154410 GTCTCTTTAG
* *
54154420 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
54154439 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
54154458 GCATTA
1 GCATTA
54154464 GATTTTCACG
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:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:54156798 original size:14 final size:14
Alignment explanation
Indices: 54156759--54156791 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
54156749 TCAGACTCAA
54156759 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
54156773 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
54156787 AAAAA
1 AAAAA
54156792 TAAAAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAAC
Found at i:54156810 original size:20 final size:20
Alignment explanation
Indices: 54156757--54156803 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
54156747 GTTCAGACTC
54156757 AAAA-AAAAACAAAAACAAA
1 AAAACAAAAACAAAAACAAA
*
54156776 AAAACAAAAACAAAAATAAA
1 AAAACAAAAACAAAAACAAA
*
54156796 AAATCAAA
1 AAAACAAA
54156804 GTCAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAACAAAAACAAAAACAAA
Found at i:54159556 original size:50 final size:50
Alignment explanation
Indices: 54159218--54159540 Score: 391
Period size: 50 Copynumber: 6.5 Consensus size: 50
54159208 GAAACCATAG
* * *
54159218 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGC
1 ATTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-C
** * *
54159268 ATTGCAGTGGAATAGATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
1 ATTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * *
54159318 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGC
1 ATTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-C
** * *
54159368 ATTGCAGTGGAATAGATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
1 ATTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * *
54159418 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTT-TCTTAGC
1 ATTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-C
* ** *
54159468 GTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
1 ATTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
*
54159518 ATTGCAGTTAAAAAGATTAAAGC
1 ATTGCAGTTAAAAAGATTGAAGC
54159541 CACATCGGTG
Statistics
Matches: 226, Mismatches: 42, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
49 4 0.02
50 217 0.96
51 5 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (50 bp):
ATTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
Found at i:54159556 original size:100 final size:100
Alignment explanation
Indices: 54159218--54159540 Score: 583
Period size: 100 Copynumber: 3.2 Consensus size: 100
54159208 GAAACCATAG
54159218 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAATAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAATAG
54159283 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
54159318 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAATAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAATAG
54159383 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
* * *
54159418 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAATAG
*
54159483 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
* * *
54159518 ATTGCAGTTAAAAAGATTAAAGC
1 ATTGCAATTAAGAAGATTGAAGC
54159541 CACATCGGTG
Statistics
Matches: 216, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 216 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (100 bp):
ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAATAG
ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
Found at i:54159827 original size:25 final size:25
Alignment explanation
Indices: 54159781--54159830 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54159771 CAGTTAAAAA
* * *
54159781 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
54159806 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
54159831 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:54159952 original size:25 final size:25
Alignment explanation
Indices: 54159906--54159955 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54159896 CAGTTAAAAA
* * *
54159906 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
54159931 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
54159956 ACGCCCAAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:54160058 original size:25 final size:25
Alignment explanation
Indices: 54160030--54160079 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
54160020 CAGTTGAAAA
* *
54160030 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
*
54160055 GATTAAAGCTACAACAGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
54160080 ACGCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (25 bp):
GATTAAAGCCACAACAGTGAATCTT
Found at i:54160200 original size:25 final size:25
Alignment explanation
Indices: 54160154--54160203 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54160144 CAGTTAAAAA
* * *
54160154 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
54160179 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
54160204 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:54160325 original size:25 final size:25
Alignment explanation
Indices: 54160279--54160328 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54160269 CAGTTAAAAA
* * *
54160279 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
54160304 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
54160329 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:54160450 original size:25 final size:25
Alignment explanation
Indices: 54160404--54160453 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54160394 CAGTTAAAAA
* * *
54160404 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
54160429 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
54160454 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:54160950 original size:25 final size:25
Alignment explanation
Indices: 54160904--54160953 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54160894 CAGTTAAAAA
* * *
54160904 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
54160929 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
54160954 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:54161053 original size:125 final size:125
Alignment explanation
Indices: 54159515--54161041 Score: 2772
Period size: 125 Copynumber: 12.2 Consensus size: 125
54159505 TTACTTCCCT
*
54159515 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAAAAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
*
54159580 TTACGCCCCAAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* *
54159640 GACATTGTAGTT-AAAAGATTAAAGCCACATTGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
*
54159704 TTACGCCCTAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54159764 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
* * *
54159829 TTACGCCCCAAGCAATGCAGTGGAACAGATTAAAGCCAGATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54159889 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
54159954 TTACG-CCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* *
54160013 GACATTGCAGTTGAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGTGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
*
54160078 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTG-TTCTCT
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54160137 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
* *
54160202 TTACGCCCCAAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCCCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54160262 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
54160327 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54160387 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
* *
54160452 TTACGCCCCAAGCGGTGCAGTGAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* * *
54160512 GACATTGCAGTTAAAAAGATTAAAGTCACATCGGTGAATCTTGATTAAAACTACAACAACGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
* * *
54160577 TTACGCCCCAAGCAATGCAGTGAAATAGATTGAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
*
54160637 GACATTGCAGTTAAAAAGATTAAAGCCACATCGATGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
54160702 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
* * *
54160762 GACATTGCAGTTAAAAAGATTAAAGTCACATCGGTGAATCTTGATTAAAACTACAACAACGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
* * *
54160827 TTACGCCCCAAGCAATGCAGTGAAATAGATTGAAGCCAAATTGGTGAATCTTGTTTCTCC
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54160887 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
1 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
*
54160952 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCT
66 TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
54161012 GACATTGCAGTTAAAAAGATTAAAGCCACA
1 GACATTGCAGTTAAAAAGATTAAAGCCACA
54161042 ATGACGAATC
Statistics
Matches: 1346, Mismatches: 53, Indels: 6
0.96 0.04 0.00
Matches are distributed among these distances:
124 358 0.27
125 988 0.73
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (125 bp):
GACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATC
TTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCC
Found at i:54162933 original size:26 final size:24
Alignment explanation
Indices: 54162902--54162957 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
54162892 ATTTTATGAT
*
54162902 TTTTATCTATTTTCCTTTATTGTTA
1 TTTTATCTATTTTACTTTATT-TTA
* *
54162927 TTATTATTTATTTTATTTTATTTTA
1 TT-TTATCTATTTTACTTTATTTTA
54162952 TTTTAT
1 TTTTAT
54162958 TTTACTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 7 0.26
26 16 0.59
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTATCTATTTTACTTTATTTTA
Found at i:54162939 original size:4 final size:4
Alignment explanation
Indices: 54162930--54163035 Score: 79
Period size: 4 Copynumber: 24.5 Consensus size: 4
54162920 ATTGTTATTA
54162930 TTAT TTATT TTATT TTATT TTATT TTATT TTACT TTAT GTTCAT TTAT TTAT
1 TTAT TTA-T TTA-T TTA-T TTA-T TTA-T TTA-T TTAT -TT-AT TTAT TTAT
* ** * *
54162982 TTAT TTAT TTAT ATAT CCAT TTTT TTAT GT-T TTAGT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT
54163030 TTAT TT
1 TTAT TT
54163036 GTTGTTGTAT
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
3 2 0.02
4 47 0.54
5 36 0.41
6 2 0.02
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:54162943 original size:5 final size:5
Alignment explanation
Indices: 54162917--54162991 Score: 70
Period size: 5 Copynumber: 15.4 Consensus size: 5
54162907 TCTATTTTCC
*
54162917 TTTAT TGTTAT TATTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAC TTTAT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
54162968 GTTCA- TTTA- TTTA- TTTA- TTTAT TT
1 -TTTAT TTTAT TTTAT TTTAT TTTAT TT
54162992 ATATATCCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
4 18 0.30
5 32 0.52
6 11 0.18
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:54162951 original size:15 final size:14
Alignment explanation
Indices: 54162917--54162993 Score: 79
Period size: 15 Copynumber: 5.4 Consensus size: 14
54162907 TCTATTTTCC
54162917 TTTATTGTTATTATTA
1 TTTATT-TTATT-TTA
54162933 TTTATTTTATTTTA
1 TTTATTTTATTTTA
54162947 TTTTATTTTATTTTA
1 -TTTATTTTATTTTA
*
54162962 CTTTATGTTCA-TTTA
1 -TTTAT-TTTATTTTA
54162977 TTTA-TTTA-TTTA
1 TTTATTTTATTTTA
54162989 TTTAT
1 TTTAT
54162994 ATATCCATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
12 11 0.20
14 7 0.13
15 28 0.51
16 9 0.16
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:54163004 original size:44 final size:42
Alignment explanation
Indices: 54162930--54163035 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 42
54162920 ATTGTTATTA
**
54162930 TTATTTATTTTATTTTATTTTATTTTATTTTACTTTATG-TTCA-T
1 TTATTTA-TTTA-TTTATTTTATTCCATTTT--TTTATGTTTCAGT
*
54162974 TTATTTATTTATTTATTTATATATCCATTTTTTTATGTTTTAGT
1 TTATTTATTTATTTATTT-TAT-TCCATTTTTTTATGTTTCAGT
54163018 TTATTTATTTATTTATTT
1 TTATTTATTTATTTATTT
54163036 GTTGTTGTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
42 13 0.24
43 10 0.18
44 32 0.58
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (42 bp):
TTATTTATTTATTTATTTTATTCCATTTTTTTATGTTTCAGT
Found at i:54169875 original size:27 final size:27
Alignment explanation
Indices: 54169837--54169913 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
54169827 TAGTATTGGC
54169837 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
54169864 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
54169891 GCC-ATTCTGAGAGGCGCCAATGG
1 GCCTA-TCTGGGAGGCGCCAATGG
54169914 GCCGGGCCGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.17, C:0.25, G:0.39, T:0.19
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:54170155 original size:19 final size:19
Alignment explanation
Indices: 54170133--54170170 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
54170123 AATTTAATTT
*
54170133 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
54170152 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
54170171 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:54170293 original size:19 final size:20
Alignment explanation
Indices: 54170293--54170377 Score: 80
Period size: 21 Copynumber: 3.8 Consensus size: 20
54170283 AAATTATAAT
54170293 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC-AAAA
*
54170314 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC---A--A-AA
54170340 TATTACAATATTCATACAAAAA
1 -ATTACAATATTCATAC-AAAA
54170362 ATTACAATATTCATAC
1 ATTACAATATTCATAC
54170378 TAAATATAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
21 31 0.55
22 2 0.04
23 3 0.05
25 3 0.05
26 2 0.04
27 15 0.27
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (20 bp):
ATTACAATATTCATACAAAA
Found at i:54170302 original size:27 final size:27
Alignment explanation
Indices: 54170266--54170360 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
54170256 ATATACCGAC
54170266 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
54170293 ATTACAATATTCATAC--AA--A-AA-
1 ATTACAATATTCATACAAAATTATAAT
*
54170314 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
54170341 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
54170361 AATTACAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
21 15 0.25
22 2 0.03
23 3 0.05
25 3 0.05
26 2 0.03
27 35 0.58
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTATAAT
Found at i:54170333 original size:48 final size:48
Alignment explanation
Indices: 54170213--54170382 Score: 238
Period size: 48 Copynumber: 3.5 Consensus size: 48
54170203 AATTAATTAT
*
54170213 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-ATAC
1 AAAA-AATTACAATATTCATAC--AAAATTATAATATTACAATATTCATAC
** *
54170262 -CGACATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
54170309 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
54170357 AAAAAATTACAATATTCATACTAAAT
1 AAAAAATTACAATATTCATACAAAAT
54170383 ATAGATAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
45 19 0.18
46 1 0.01
47 20 0.19
48 68 0.63
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (48 bp):
AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
Found at i:54170372 original size:29 final size:27
Alignment explanation
Indices: 54170266--54170372 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
54170256 ATATACCGAC
*
54170266 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
54170293 ATTACAATATTCATAC--AA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* *
54170314 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
54170341 ATTACAATATTCATACAAAAAATTACAAT
1 ATTACAATATTCATAC--AAAATTACAAT
54170370 ATT
1 ATT
54170373 CATACTAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
21 15 0.22
22 2 0.03
23 3 0.04
25 3 0.04
26 2 0.03
27 31 0.45
29 13 0.19
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:54170457 original size:27 final size:27
Alignment explanation
Indices: 54170425--54170496 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
54170415 AAAATATTGC
* * *
54170425 AATTTTATATGAATATTGTAATTTTGT
1 AATTTTGTATGAATATTGTAATATTAT
54170452 AATTTTGTATGAATATTGTAATATTAT
1 AATTTTGTATGAATATTGTAATATTAT
54170479 AATTTTGTATGAATATTG
1 AATTTTGTATGAATATTG
54170497 AATGTCGGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
AATTTTGTATGAATATTGTAATATTAT
Found at i:54170837 original size:22 final size:20
Alignment explanation
Indices: 54170809--54170853 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 20
54170799 TATATTTTTA
54170809 TTTTTTATTTTTAAAATACTTT
1 TTTTTTATTTTTAAAA-A-TTT
54170831 TTTTTTATTTTTAAAAATTT
1 TTTTTTATTTTTAAAAATTT
54170851 TTT
1 TTT
54170854 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.26
21 1 0.04
22 16 0.70
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTATTTTTAAAAATTT
Found at i:54171764 original size:23 final size:23
Alignment explanation
Indices: 54171734--54171780 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
54171724 GCGGGTTAAA
54171734 ATGGAAAAGAAATAAAATTTCAT
1 ATGGAAAAGAAATAAAATTTCAT
54171757 ATGGAAAAGAAATAAAATTTCAT
1 ATGGAAAAGAAATAAAATTTCAT
54171780 A
1 A
54171781 GGCAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (23 bp):
ATGGAAAAGAAATAAAATTTCAT
Found at i:54172755 original size:13 final size:13
Alignment explanation
Indices: 54172739--54172766 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
54172729 TTTTTATTTA
54172739 TTATTTTTTGGTT
1 TTATTTTTTGGTT
54172752 TTATTTTTTGGTT
1 TTATTTTTTGGTT
54172765 TT
1 TT
54172767 GGCACTGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (13 bp):
TTATTTTTTGGTT
Found at i:54173040 original size:14 final size:14
Alignment explanation
Indices: 54173021--54173047 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54173011 TACTTACATC
54173021 AAAGTGTACATAAT
1 AAAGTGTACATAAT
54173035 AAAGTGTACATAA
1 AAAGTGTACATAA
54173048 AAGATCGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (14 bp):
AAAGTGTACATAAT
Found at i:54181681 original size:3 final size:3
Alignment explanation
Indices: 54181673--54181769 Score: 122
Period size: 3 Copynumber: 32.3 Consensus size: 3
54181663 TTTAATACTC
54181673 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
54181721 TTA TTA GTA CTA CTA CTA CTA CTA TTA TTA TTA GTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
54181769 T
1 T
54181770 CAATTTACCT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:54181843 original size:32 final size:34
Alignment explanation
Indices: 54181799--54181864 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 34
54181789 ATATACATTA
54181799 TTTTATTCTATTAT-GTACTATTA-T-TTTAATTT
1 TTTTATTCTATTATCGTA-TATTATTATTTAATTT
54181831 TTTTATAT-TATTATCGTATATTATTATTTAATTT
1 TTTTAT-TCTATTATCGTATATTATTATTTAATTT
54181865 CATAATGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
32 17 0.57
33 5 0.17
34 8 0.27
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (34 bp):
TTTTATTCTATTATCGTATATTATTATTTAATTT
Found at i:54184403 original size:152 final size:152
Alignment explanation
Indices: 54184128--54184404 Score: 325
Period size: 152 Copynumber: 1.8 Consensus size: 152
54184118 ACACCGAAAC
* **
54184128 TTTATTTCAAAATAGTTGAAAAAAATCAAAACTTTGTTCTAAAAAATGTAAACTTTTCCTTTAAA
1 TTTATTTCAAAATAGTTGAAAAAAATAAAAAAATTGTTCTAAAAAATGTAAACTTTTCCTTTAAA
* **
54184193 ATGACTAAAAAAAGATTTTTATTTTAAAAATCTAAACTCTCTCTGTTTTTTTTTAAAAAAGGAGC
66 ATGACTAAAAAAAGATTTTTATTTTAAAAATATAAACTCTCTC-GTTTTTTTAAAAAAAAGGAGC
54184258 TATTTTTCTTAAAGTTCAAAGGT
130 TATTTTTCTTAAAGTTCAAAGGT
** * *
54184281 TTTATTTTGAAATAGTT-AAAAAAATAAAAAAAATTGTT-TCAAAAATTTAAAC-TTTCCTTTTA
1 TTTATTTCAAAATAGTTGAAAAAAAT-AAAAAAATTGTTCTAAAAAATGTAAACTTTTCC-TTTA
* *
54184343 AAATGA-TGAAAAAAAACATATTTTTATTTTTTAAAATATAAACT-T-TC-TTTTTTTAAAAAAA
64 AAATGACT---AAAAAA-AGATTTTTA-TTTTAAAAATATAAACTCTCTCGTTTTTTTAAAAAAA
54184404 A
124 A
54184405 TCAAAACATT
Statistics
Matches: 105, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
151 6 0.06
152 43 0.41
153 24 0.23
154 8 0.08
155 9 0.09
156 15 0.14
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (152 bp):
TTTATTTCAAAATAGTTGAAAAAAATAAAAAAATTGTTCTAAAAAATGTAAACTTTTCCTTTAAA
ATGACTAAAAAAAGATTTTTATTTTAAAAATATAAACTCTCTCGTTTTTTTAAAAAAAAGGAGCT
ATTTTTCTTAAAGTTCAAAGGT
Found at i:54184631 original size:3 final size:3
Alignment explanation
Indices: 54184623--54184653 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
54184613 AGCATGCTTA
54184623 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
54184654 GCCTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:54187579 original size:15 final size:15
Alignment explanation
Indices: 54187559--54187589 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
54187549 AAAACAACAT
54187559 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
54187574 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
54187589 A
1 A
54187590 CATACATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:54194317 original size:5 final size:5
Alignment explanation
Indices: 54194307--54194377 Score: 65
Period size: 5 Copynumber: 13.4 Consensus size: 5
54194297 AAAGGGGGGG
*
54194307 AAAGA AAAGA AAAGA AAAGA AAAGA AAGAGAA AAAGAA AAAGA AGAACA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AA-AG-A AAAG-A AAAGA A-AAGA
54194356 AAA-A ACAA-A AAAGAA AAAGA AA
1 AAAGA A-AAGA AAAG-A AAAGA AA
54194378 CAAAAACCTC
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
4 4 0.07
5 33 0.56
6 19 0.32
7 3 0.05
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:54194338 original size:26 final size:27
Alignment explanation
Indices: 54194309--54194377 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
54194299 AGGGGGGGAA
* *
54194309 AGAAAAGAAAAGAAAAGAA-AAGAAAG
1 AGAAAAGAAAAGAAAAGAACAAAAAAC
*
54194335 AGAAAAAGAAAA-AGAAGAACAAAAAAC
1 AG-AAAAGAAAAGAAAAGAACAAAAAAC
*
54194362 AAAAAAGAAAAAGAAA
1 AGAAAAG-AAAAGAAA
54194378 CAAAAACCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 13 0.38
27 19 0.56
28 2 0.06
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (27 bp):
AGAAAAGAAAAGAAAAGAACAAAAAAC
Found at i:54194344 original size:6 final size:6
Alignment explanation
Indices: 54194307--54194377 Score: 62
Period size: 6 Copynumber: 12.2 Consensus size: 6
54194297 AAAGGGGGGG
*
54194307 AAAG-A AAAG-A AAAG-A AAAG-A AAAGAA AGAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
54194351 GAACA-AA AAACAAA AAAGAA AAAGAA A
1 -AA-AGAA AAA-GAA AAAGAA AAAGAA A
54194378 CAAAAACCTC
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
5 20 0.34
6 28 0.48
7 9 0.16
8 1 0.02
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:54194896 original size:21 final size:21
Alignment explanation
Indices: 54194872--54194920 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
54194862 AAAGATGTAA
54194872 AAAAATGAAAACAT-GAAAA-T
1 AAAAATGAAAA-ATGGAAAAGT
54194892 GAAAAATGAAAAATGGAAAAGT
1 -AAAAATGAAAAATGGAAAAGT
54194914 AAAAATG
1 AAAAATG
54194921 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.08
21 23 0.88
22 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.16, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAATGGAAAAGT
Found at i:54194897 original size:7 final size:7
Alignment explanation
Indices: 54194872--54194920 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
54194862 AAAGATGTAA
54194872 AAAAATG
1 AAAAATG
54194879 AAAACATG
1 AAAA-ATG
54194887 -AAAATG
1 AAAAATG
54194893 AAAAATG
1 AAAAATG
54194900 AAAAATG
1 AAAAATG
*
54194907 GAAAA-G
1 AAAAATG
54194913 TAAAAATG
1 -AAAAATG
54194921 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 4 0.11
7 28 0.78
8 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:54196278 original size:88 final size:88
Alignment explanation
Indices: 54196166--54196333 Score: 237
Period size: 88 Copynumber: 1.9 Consensus size: 88
54196156 AACCTCAGCT
* * * * * *
54196166 TTGTCTCCTTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTTCCTGTATTGGGAAC
1 TTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTGGCAAC
*
54196231 GAAGTAGATCGAAGATACTAGCC
66 GAAGCAGATCGAAGATACTAGCC
* * *
54196254 TTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTGGCAGC
1 TTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTGGCAAC
*
54196319 GAAGCAGATTGAAGA
66 GAAGCAGATCGAAGA
54196334 CACCAGTCTT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (88 bp):
TTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTGGCAAC
GAAGCAGATCGAAGATACTAGCC
Found at i:54196686 original size:50 final size:50
Alignment explanation
Indices: 54196527--54196943 Score: 262
Period size: 50 Copynumber: 8.4 Consensus size: 50
54196517 TTTGGCATTA
* * ** * *
54196527 CAGTGGAATAGATTCAAACTGCAACGGCGAATCTTACTTCCCTGGCGGTG
1 CAGTGGAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCAGTG
* * * * * ** *** * *
54196577 TAAG-GGAATAGATTGAAGTCACGA-CGCAAATCTTGTTTCCCCCACATTA
1 -CAGTGGAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCAGTG
** * *
54196626 CAGTTAAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTAGCGGTG
1 CAGTGGAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCAGTG
* * * * ** * * *
54196676 TAGTGGAATAGATTGAAGCGACGATGGTGAATCTTGTTTCCCCGACATTG
1 CAGTGGAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCAGTG
** * *
54196726 CAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTG
1 CAGTGGAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCAGTG
* * ** ** * * *
54196776 TAGTGGAATAGATTGAAGCTATGATGGCGAATCTTGTTTCCCTGACATTA
1 CAGTGGAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCAGTG
** * * * *
54196826 CAGTTAAATATATTGAAGCCACAACGGCGAATCTTACTTCTCTGGCTGTG
1 CAGTGGAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCAGTG
* * * * ** * * *
54196876 CGGTGGAACAGATTGAAGCTACGATGGCGAATCTTGTTTCCCAGACATTG
1 CAGTGGAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCAGTG
**
54196926 CAGTTAAATAGATTGAAG
1 CAGTGGAATAGATTGAAG
54196944 ATGGCGAATC
Statistics
Matches: 259, Mismatches: 105, Indels: 5
0.70 0.28 0.01
Matches are distributed among these distances:
48 2 0.01
49 31 0.12
50 224 0.86
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (50 bp):
CAGTGGAATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCAGTG
Found at i:54196746 original size:100 final size:100
Alignment explanation
Indices: 54196548--54196943 Score: 591
Period size: 100 Copynumber: 4.0 Consensus size: 100
54196538 ATTCAAACTG
* *
54196548 CAACGGCGAATCTTACTTCCCTGGCGGTGTAAG-GGAATAGATTGAAG-TCACGA-CGCAAATCT
1 CAACGGCGAATCTTACTTCCCTGGCGGTGT-AGTGGAATAGATTGAAGCT-ACGATGGCGAATCT
*
54196610 TGTTTCCCCCACATTACAGTTAAATAGATTGAAGCCA
64 TGTTTCCCCGACATTACAGTTAAATAGATTGAAGCCA
* * * *
54196647 CAATGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAATAGATTGAAGCGACGATGGTGAATCTTG
1 CAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACGATGGCGAATCTTG
*
54196712 TTTCCCCGACATTGCAGTTAAATAGATTGAAGCCA
66 TTTCCCCGACATTACAGTTAAATAGATTGAAGCCA
*
54196747 CAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTATGATGGCGAATCTTG
1 CAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACGATGGCGAATCTTG
* *
54196812 TTTCCCTGACATTACAGTTAAATATATTGAAGCCA
66 TTTCCCCGACATTACAGTTAAATAGATTGAAGCCA
* * ** *
54196847 CAACGGCGAATCTTACTTCTCTGGCTGTGCGGTGGAACAGATTGAAGCTACGATGGCGAATCTTG
1 CAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACGATGGCGAATCTTG
* *
54196912 TTTCCCAGACATTGCAGTTAAATAGATTGAAG
66 TTTCCCCGACATTACAGTTAAATAGATTGAAG
54196944 ATGGCGAATC
Statistics
Matches: 269, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
98 2 0.01
99 46 0.17
100 221 0.82
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (100 bp):
CAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACGATGGCGAATCTTG
TTTCCCCGACATTACAGTTAAATAGATTGAAGCCA
Found at i:54198718 original size:3 final size:3
Alignment explanation
Indices: 54198710--54198766 Score: 87
Period size: 3 Copynumber: 18.3 Consensus size: 3
54198700 ACTATCGCTC
*
54198710 TTA TTA TTA TTA TTA GTA TGGTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA
54198757 TTA TTA TTA T
1 TTA TTA TTA T
54198767 AGGCATGTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 47 0.94
5 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:54198950 original size:19 final size:19
Alignment explanation
Indices: 54198923--54198961 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
54198913 TTAAAAAAAT
54198923 TATTATAAATATATACATA
1 TATTATAAATATATACATA
* *
54198942 TATTTTAAATATATATATA
1 TATTATAAATATATACATA
54198961 T
1 T
54198962 TTCATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATAAATATATACATA
Found at i:54198973 original size:17 final size:16
Alignment explanation
Indices: 54198953--54198984 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
54198943 ATTTTAAATA
54198953 TATATATATTTCATTTT
1 TATATATATTT-ATTTT
54198970 TATATATATTTATTT
1 TATATATATTTATTT
54198985 ACATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATATATTTATTTT
Found at i:54199379 original size:5 final size:5
Alignment explanation
Indices: 54199369--54199404 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
54199359 GTTGACTCGT
*
54199369 TTTTA TTTTA TGTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
54199405 CTTTTATTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:54219502 original size:17 final size:18
Alignment explanation
Indices: 54219482--54219516 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
54219472 ATCAAGATTT
*
54219482 TATTTTATATTT-TTATA
1 TATTTTAAATTTATTATA
54219499 TATTTTAAATTTATTATA
1 TATTTTAAATTTATTATA
54219517 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTTAAATTTATTATA
Found at i:54222372 original size:24 final size:24
Alignment explanation
Indices: 54222340--54222388 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
54222330 AATTCATGCA
*
54222340 CTTTGTAACAC-CCATTGCTCGATC
1 CTTTCTAACACTCC-TTGCTCGATC
54222364 CTTTCTAACACTCCTTGCTCGATC
1 CTTTCTAACACTCCTTGCTCGATC
54222388 C
1 C
54222389 AATTGCCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.18, C:0.37, G:0.10, T:0.35
Consensus pattern (24 bp):
CTTTCTAACACTCCTTGCTCGATC
Found at i:54237347 original size:44 final size:44
Alignment explanation
Indices: 54237299--54237705 Score: 351
Period size: 44 Copynumber: 9.3 Consensus size: 44
54237289 TACAGTCTTG
* * *
54237299 AAGTTACAGTGGAGTAGATTGAAGCTACAAATCTTATCTTCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTA
* * * * * *
54237343 AAGTTACAGTGGAGTAGATTAAAGCTGCAAATTTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTA
* * * * *
54237387 AAGTTGTAGTGGAGTAGACTGAAGC-ACCAATCTTAT-TAACCTGA
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCT-CCCT-A
* * * *
54237431 AA-TTGCAGTGGAGCATATTAAAACCACAAATCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTA
* * *
54237474 AA-TTGCAGCGGAGCAGATTAAAGCTACAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTA
* ** * * *
54237517 GAGTTATAGTGGAGCAGATTGAAGATAACGAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCT-ACAAATCTTATCTCCCTA
* * * * *
54237562 GAGTTGCAGTGGAACGGATTGAAGCTACAAATCTTATCTTCTTA
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTA
* ** * *
54237606 AAGTTGCAGTGGATCAGATTGAAGAGACAAATCGTA--TACCTA
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTA
* * *
54237648 TGAAGTTGCAGTGGAGCAGATTGAAGCGACAAATCATATAC-CTCTA
1 --AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTAT-CTCCCTA
54237694 AAGTTGCAGTGG
1 AAGTTGCAGTGG
54237706 GTCAGACTAA
Statistics
Matches: 296, Mismatches: 56, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
42 5 0.02
43 67 0.23
44 182 0.61
45 39 0.13
46 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTA
Found at i:54238330 original size:12 final size:12
Alignment explanation
Indices: 54238313--54238342 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
54238303 AAGACAGAAG
54238313 CAAAAAAAAACA
1 CAAAAAAAAACA
*
54238325 CAAAAACAAACA
1 CAAAAAAAAACA
54238337 CAAAAA
1 CAAAAA
54238343 TTTGTAATCA
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:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAACA
Found at i:54249113 original size:29 final size:29
Alignment explanation
Indices: 54249080--54249137 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
54249070 AGGCGCATAG
*
54249080 CAGATAATAGAATATTAAGCAGGGATTGT
1 CAGATAATAGAATATTAAGCAAGGATTGT
54249109 CAGATAATAGAATATTAAGCAAGGATTGT
1 CAGATAATAGAATATTAAGCAAGGATTGT
54249138 TCTCAGAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (29 bp):
CAGATAATAGAATATTAAGCAAGGATTGT
Done.