Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015315.1 Kokia drynarioides strain JFW-HI SEQ_130360, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 547892
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 536 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:338492 original size:24 final size:22
Alignment explanation
Indices: 338449--338544 Score: 61
Period size: 23 Copynumber: 4.1 Consensus size: 22
338439 AAGTAGCAGC
* *
338449 AAAAATAACAATAAA-ACAACATT
1 AAAAACAACAA-AAATACAACA-A
338472 AAAAACAACAAAAATAGCAACAA
1 AAAAACAACAAAAATA-CAACAA
* *
338495 AAAAAGGAACAAAAATAACAATAA
1 AAAAA-CAACAAAAAT-ACAACAA
*
338519 AAATAAC-ACGAAAATAGCAATCAA
1 AAA-AACAACAAAAATA-CAA-CAA
338543 AA
1 AA
338545 CAATAAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
22 4 0.07
23 26 0.44
24 26 0.44
25 3 0.05
ACGTcount: A:0.71, C:0.14, G:0.05, T:0.10
Consensus pattern (22 bp):
AAAAACAACAAAAATACAACAA
Found at i:338545 original size:80 final size:79
Alignment explanation
Indices: 338422--338579 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 79
338412 ACATCCAAAC
* * * *
338422 AACAAAAATAACAACCAAAGTAGCAGCAAAAATAACAATAAAACAACATTAAAAACAA-CAAAAA
1 AACAAAAATAACAACAAAAATAACAGCAAAAATAACAATAAAAC-A-ATAAAAAACAACCAAAAA
*
338486 TAGCAACAAAAAAAGG
64 TAGCAAAAAAAAAAGG
* * *
338502 AACAAAAATAACAATAAAAATAACA-CGAAAATAGCAATCAAAACAATAAAAAACAACTCAAAAA
1 AACAAAAATAACAACAAAAATAACAGCAAAAATAACAAT-AAAACAATAAAAAACAAC-CAAAAA
338566 TAGCAAAAAAAAAA
64 TAGCAAAAAAAAAA
338580 AAAAANNNNN
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 10 0.15
79 12 0.18
80 45 0.67
ACGTcount: A:0.70, C:0.15, G:0.06, T:0.09
Consensus pattern (79 bp):
AACAAAAATAACAACAAAAATAACAGCAAAAATAACAATAAAACAATAAAAAACAACCAAAAATA
GCAAAAAAAAAAGG
Found at i:339188 original size:40 final size:40
Alignment explanation
Indices: 339100--339189 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 40
339090 CTTTTGAACT
* * * *
339100 TTATTTAGATAAAATTGTTTTTGAATTTAAATTTTTCAATT
1 TTATTT-GATAAAATTATCTTTGAATTTAAATTTTCCAATA
* *
339141 TTAATTTGATAAAATTATCTTTG-TTTTATATTTTCCAGATA
1 TT-ATTTGATAAAATTATCTTTGAATTTAAATTTTCCA-ATA
339182 TTATTTGA
1 TTATTTGA
339190 CAATTTTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
40 17 0.41
41 20 0.49
42 4 0.10
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (40 bp):
TTATTTGATAAAATTATCTTTGAATTTAAATTTTCCAATA
Found at i:351107 original size:30 final size:29
Alignment explanation
Indices: 351073--351134 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
351063 TATTTAATCA
351073 TTAATTTAAT-TATGTTAGATTTTTTATGAT
1 TTAATTTAATATAT-TTA-ATTTTTTATGAT
* * *
351103 TTAATTTCATATATTTATTTTTTTATTAT
1 TTAATTTAATATATTTAATTTTTTATGAT
351132 TTA
1 TTA
351135 TTTGTTTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.46
30 12 0.43
31 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (29 bp):
TTAATTTAATATATTTAATTTTTTATGAT
Found at i:351135 original size:15 final size:15
Alignment explanation
Indices: 351092--351153 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 15
351082 TTATGTTAGA
* *
351092 TTTTTTATGATTTAA
1 TTTTTTATTATTTAT
**
351107 TTTCATA-TATTTAT
1 TTTTTTATTATTTAT
351121 TTTTTTATTATTTAT
1 TTTTTTATTATTTAT
* * *
351136 TTGTTTGTTATTCAT
1 TTTTTTATTATTTAT
351151 TTT
1 TTT
351154 CTTTGTTAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
14 10 0.28
15 26 0.72
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (15 bp):
TTTTTTATTATTTAT
Found at i:351209 original size:20 final size:19
Alignment explanation
Indices: 351184--351225 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
351174 CTTTTATTTA
*
351184 ATTTTATTTATTTATTATGT
1 ATTTTATTCATTTATTAT-T
*
351204 ATTTTATTCATTTTTTATT
1 ATTTTATTCATTTATTATT
351223 ATT
1 ATT
351226 ATGCTAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTATTCATTTATTATT
Found at i:351244 original size:26 final size:25
Alignment explanation
Indices: 351184--351244 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 25
351174 CTTTTATTTA
* *
351184 ATTTTATTTATTTATTATGTATTTT
1 ATTTTTTTTATTTATTATGTATTAT
351209 ATTCATTTTTTA-TTATTATGCTAGTTAT
1 ATT--TTTTTTATTTATTATG-TA-TTAT
351237 ATTTTTTT
1 ATTTTTTT
351245 CCTTTACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 3 0.10
26 13 0.43
27 8 0.27
28 6 0.20
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (25 bp):
ATTTTTTTTATTTATTATGTATTAT
Found at i:354068 original size:12 final size:12
Alignment explanation
Indices: 354051--354100 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
354041 TATAATTATA
*
354051 TTTTTTATCTTT
1 TTTTTTACCTTT
354063 TTTTTTACCTTT
1 TTTTTTACCTTT
354075 TTTTTTACCTTT
1 TTTTTTACCTTT
*
354087 TTTATT-CCTTT
1 TTTTTTACCTTT
354098 TTT
1 TTT
354101 GAATAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
11 8 0.22
12 28 0.78
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTACCTTT
Found at i:355299 original size:24 final size:23
Alignment explanation
Indices: 355272--355316 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
355262 TATGTCCATG
* *
355272 TTATATATTATAAAAATAATGTAC
1 TTATATA-TAAAAAAAAAATGTAC
*
355296 TTATTTATAAAAAAAAAATGT
1 TTATATATAAAAAAAAAATGT
355317 TATAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
TTATATATAAAAAAAAAATGTAC
Found at i:357467 original size:20 final size:20
Alignment explanation
Indices: 357442--357482 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
357432 TCTCTCTTGC
357442 TTTCTCAATCGTTTCAAACT
1 TTTCTCAATCGTTTCAAACT
357462 TTTCTCAATCGTTTCAAACT
1 TTTCTCAATCGTTTCAAACT
357482 T
1 T
357483 CCCAATCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTCTCAATCGTTTCAAACT
Found at i:359865 original size:20 final size:20
Alignment explanation
Indices: 359837--359875 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
359827 CAAATGTGTT
*
359837 AAAATTATTAATTTAAAATA
1 AAAAATATTAATTTAAAATA
**
359857 AAAAATATTTTTTTAAAAT
1 AAAAATATTAATTTAAAAT
359876 TATACAACTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATATTAATTTAAAATA
Found at i:360026 original size:30 final size:30
Alignment explanation
Indices: 359970--360026 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
359960 TTTTATAAAT
*
359970 AATTAATATTAAATATTTAGATATATTTAA
1 AATTAATATTAAATATTTAGAAATATTTAA
**
360000 AATTAATATTTCATATATTA-AAATATT
1 AATTAATATTAAATAT-TTAGAAATATT
360027 AACAAGAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 20 0.87
31 3 0.13
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
AATTAATATTAAATATTTAGAAATATTTAA
Found at i:367312 original size:20 final size:20
Alignment explanation
Indices: 367287--367334 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
367277 TTCGAAAAAA
367287 GTCAACGATCAAAGTCAACG
1 GTCAACGATCAAAGTCAACG
* *
367307 GTCAACGATTAAGGTCAACG
1 GTCAACGATCAAAGTCAACG
367327 GTCAACGA
1 GTCAACGA
367335 CCGATCAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (20 bp):
GTCAACGATCAAAGTCAACG
Found at i:367422 original size:15 final size:15
Alignment explanation
Indices: 367380--367431 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
367370 GAGTTTGGAC
**
367380 TTGGTTCAATTGAAT
1 TTGGTTCAATTGGGT
367395 TTGGTTCAATTGGGT
1 TTGGTTCAATTGGGT
*
367410 TTGGTTTAATTGGGT
1 TTGGTTCAATTGGGT
367425 TTAGGTT
1 TT-GGTT
367432 TGGGCTATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 29 0.88
16 4 0.12
ACGTcount: A:0.17, C:0.04, G:0.29, T:0.50
Consensus pattern (15 bp):
TTGGTTCAATTGGGT
Found at i:369662 original size:30 final size:30
Alignment explanation
Indices: 369626--369685 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
369616 ATGTTTAACA
*
369626 TAATATACATCATTTTTGTCTATATACTAT
1 TAATATACACCATTTTTGTCTATATACTAT
369656 TAATATACACCATTTTTGTCTATATACTAT
1 TAATATACACCATTTTTGTCTATATACTAT
369686 CTTTCTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (30 bp):
TAATATACACCATTTTTGTCTATATACTAT
Found at i:373055 original size:23 final size:23
Alignment explanation
Indices: 373008--373056 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
372998 AGCATGATTT
*
373008 AAATACTCATATTTATATTATTA
1 AAATACTCATATTTATATCATTA
*
373031 AAATATTCATATTT-TATCATATA
1 AAATACTCATATTTATATCAT-TA
373054 AAA
1 AAA
373057 CATTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATACTCATATTTATATCATTA
Found at i:373241 original size:25 final size:26
Alignment explanation
Indices: 373202--373267 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 26
373192 AATTTATTAA
* * *
373202 AATAATAAATCATATGAATTATAT-T
1 AATAATTAATTATATGAATTAAATAT
* *
373227 AATAATTTATTATAT-TATTAAATAT
1 AATAATTAATTATATGAATTAAATAT
373252 AATAATTAATTA-ATGA
1 AATAATTAATTATATGA
373268 TATTGAAGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
24 8 0.25
25 24 0.75
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (26 bp):
AATAATTAATTATATGAATTAAATAT
Found at i:373329 original size:13 final size:13
Alignment explanation
Indices: 373306--373337 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
373296 ATTTTAATAT
373306 ATTTAAAATTTTAA
1 ATTT-AAATTTTAA
373320 ATTTAAATTTTAA
1 ATTTAAATTTTAA
373333 ATTTA
1 ATTTA
373338 TTATTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTAAATTTTAA
Found at i:373807 original size:66 final size:65
Alignment explanation
Indices: 373702--373829 Score: 175
Period size: 66 Copynumber: 2.0 Consensus size: 65
373692 CATCGATGTT
* * *
373702 TTTAAATATTTTTCACATATATATTTATAATCTAATTTTTAATTTCTTGATAAATTATATATGCA
1 TTTAAATATTTTTCAAATATATATTTATAATATAATTTTTAATTTCTTAATAAATTATATATGCA
* * * **
373767 TTTAAATATTTTTTTAAATATATATTTATAGTATTATTTTTTGTTTCTTAATAAATTATATAT
1 TTTAAATA-TTTTTCAAATATATATTTATAATATAATTTTTAATTTCTTAATAAATTATATAT
373830 TATTTTGGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
65 8 0.15
66 46 0.85
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (65 bp):
TTTAAATATTTTTCAAATATATATTTATAATATAATTTTTAATTTCTTAATAAATTATATATGCA
Found at i:383779 original size:24 final size:24
Alignment explanation
Indices: 383752--383810 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 24
383742 AGAAGATGCT
*
383752 CCAAAAGCAGGAGTGCTTGAACCC
1 CCAAAAGCAGGAGTACTTGAACCC
* *
383776 CCAAAAGCA-GA--ACTTGAAGCT
1 CCAAAAGCAGGAGTACTTGAACCC
383797 CCAAAAGCAGGAGT
1 CCAAAAGCAGGAGT
383811 TGTGGAAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 16 0.55
22 2 0.07
23 2 0.07
24 9 0.31
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.12
Consensus pattern (24 bp):
CCAAAAGCAGGAGTACTTGAACCC
Found at i:383984 original size:48 final size:48
Alignment explanation
Indices: 383931--384083 Score: 180
Period size: 48 Copynumber: 3.2 Consensus size: 48
383921 TTCCAGTTGA
* * *
383931 ACCAAATGCAGGGGTGCTCGTGGCACCAAACGCAGGGGTGCTTGTGGC
1 ACCAAAAGCAGGAGTGCTCGAGGCACCAAACGCAGGGGTGCTTGTGGC
* * * * *
383979 ACCAAAAGAAGGTGTACTCGAGGCACCAAATGCAGGGGTGCTTGTGGT
1 ACCAAAAGCAGGAGTGCTCGAGGCACCAAACGCAGGGGTGCTTGTGGC
* * * * * *
384027 ACCAAAACCTGGAGTGCTTGAGGCTCCAAACGCAGGTGTGCTTGTCGC
1 ACCAAAAGCAGGAGTGCTCGAGGCACCAAACGCAGGGGTGCTTGTGGC
384075 ACCAAAAGC
1 ACCAAAAGC
384084 CGGGCTACTA
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.18
Consensus pattern (48 bp):
ACCAAAAGCAGGAGTGCTCGAGGCACCAAACGCAGGGGTGCTTGTGGC
Found at i:384044 original size:72 final size:72
Alignment explanation
Indices: 383931--384065 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 72
383921 TTCCAGTTGA
* *
383931 ACCAAATGCAGGGGTGCTCGTGGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGAAGGTGTAC
1 ACCAAATGCAGGGGTGCTCGTGGCACCAAACGCAGGAGTGCTTGAGGCACCAAAAGAAGGTGTAC
383996 TCGAGGC
66 TCGAGGC
* * * * * *
384003 ACCAAATGCAGGGGTGCTTGTGGTACCAAAAC-CTGGAGTGCTTGAGGCTCCAAACGCAGGTGT
1 ACCAAATGCAGGGGTGCTCGTGGCACC-AAACGCAGGAGTGCTTGAGGCACCAAAAGAAGGTGT
384066 GCTTGTCGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
72 50 0.93
73 4 0.07
ACGTcount: A:0.26, C:0.23, G:0.33, T:0.18
Consensus pattern (72 bp):
ACCAAATGCAGGGGTGCTCGTGGCACCAAACGCAGGAGTGCTTGAGGCACCAAAAGAAGGTGTAC
TCGAGGC
Found at i:384067 original size:24 final size:24
Alignment explanation
Indices: 383931--384080 Score: 140
Period size: 24 Copynumber: 6.2 Consensus size: 24
383921 TTCCAGTTGA
* *
383931 ACCAAATGCAGGGGTGCTCGTGGC
1 ACCAAACGCAGGGGTGCTTGTGGC
383955 ACCAAACGCAGGGGTGCTTGTGGC
1 ACCAAACGCAGGGGTGCTTGTGGC
* * * * * *
383979 ACCAAAAGAAGGTGTACTCGAGGC
1 ACCAAACGCAGGGGTGCTTGTGGC
* *
384003 ACCAAATGCAGGGGTGCTTGTGGT
1 ACCAAACGCAGGGGTGCTTGTGGC
* * *
384027 ACCAAAAC-CTGGAGTGCTTGAGGC
1 ACC-AAACGCAGGGGTGCTTGTGGC
* * *
384051 TCCAAACGCAGGTGTGCTTGTCGC
1 ACCAAACGCAGGGGTGCTTGTGGC
384075 ACCAAA
1 ACCAAA
384081 AGCCGGGCTA
Statistics
Matches: 98, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
23 4 0.04
24 91 0.93
25 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.18
Consensus pattern (24 bp):
ACCAAACGCAGGGGTGCTTGTGGC
Found at i:384104 original size:48 final size:48
Alignment explanation
Indices: 383952--384110 Score: 160
Period size: 48 Copynumber: 3.3 Consensus size: 48
383942 GGGTGCTCGT
** * *
383952 GGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGAAGGTGTACTCGA
1 GGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCCGGAGTACTAGA
* * * *
384000 GGCACCAAATGCAGGGGTGCTTGTGGTACCAAAA-CCTGGAGTGCTTGA
1 GGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCC-GGAGTACTAGA
* * * *
384048 GGCTCCAAACGCAGGTGTGCTTGTCGCACCAAAAGCCGG-GCTACTAGT
1 GGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCCGGAG-TACTAGA
* *
384096 GGAACCAAAGGCAGG
1 GGCACCAAACGCAGG
384111 ACTAGAACCA
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
47 1 0.01
48 87 0.97
49 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16
Consensus pattern (48 bp):
GGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCCGGAGTACTAGA
Found at i:386912 original size:14 final size:15
Alignment explanation
Indices: 386882--386924 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
386872 ATTTTTATAT
386882 AATAATATAATATTAA
1 AATAA-ATAATATTAA
386898 AATAAATAA-ATTAA
1 AATAAATAATATTAA
*
386912 ATTAAA-AATATTA
1 AATAAATAATATTA
386925 TCCATTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 14 0.56
15 4 0.16
16 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAATAATATTAA
Found at i:392020 original size:16 final size:16
Alignment explanation
Indices: 391989--392037 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
391979 GTAGAGACAT
*
391989 AGATGTATACATTGGA-
1 AGATG-ATATATTGGAC
392005 AGAATGATATATTGGAC
1 AG-ATGATATATTGGAC
*
392022 TGATGATATATTGGAC
1 AGATGATATATTGGAC
392038 TGGACCCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (16 bp):
AGATGATATATTGGAC
Found at i:392038 original size:16 final size:16
Alignment explanation
Indices: 392008--392039 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
391998 CATTGGAAGA
392008 ATGATATATTGGACTG
1 ATGATATATTGGACTG
392024 ATGATATATTGGACTG
1 ATGATATATTGGACTG
392040 GACCCAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
ATGATATATTGGACTG
Found at i:395643 original size:21 final size:21
Alignment explanation
Indices: 395594--395660 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
395584 ATTTAAATCC
**
395594 TAAAAAAA--TCAAAACAGTA
1 TAAAAAAATTTCAAAACTTTA
*
395613 TATAAAAATTTCAAAACTTTA
1 TAAAAAAATTTCAAAACTTTA
*
395634 TAAAAAAATTAGTTAAAA-TTTA
1 TAAAAAAATT--TCAAAACTTTA
395656 TAAAA
1 TAAAA
395661 TTACGAAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.18
21 18 0.46
22 9 0.23
23 5 0.13
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAAAAAATTTCAAAACTTTA
Found at i:396060 original size:2 final size:2
Alignment explanation
Indices: 396055--396080 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
396045 ATATTTTGGA
396055 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
396081 CAATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:397023 original size:57 final size:57
Alignment explanation
Indices: 396935--397050 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
396925 GCTGGTTTCT
396935 TGCCCTCATGTTCACCAACATCCGAGATGTCCAAATGGACTCCTGGATCATTGGCAG
1 TGCCCTCATGTTCACCAACATCCGAGATGTCCAAATGGACTCCTGGATCATTGGCAG
396992 TGCCCTCATGTTCACCAACATCCGAGATGTCCAAATGGACTCCTGGATCATTGGCAG
1 TGCCCTCATGTTCACCAACATCCGAGATGTCCAAATGGACTCCTGGATCATTGGCAG
397049 TG
1 TG
397051 TAGCTGCCGC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (57 bp):
TGCCCTCATGTTCACCAACATCCGAGATGTCCAAATGGACTCCTGGATCATTGGCAG
Found at i:398675 original size:26 final size:27
Alignment explanation
Indices: 398646--398696 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
398636 TAGTATAAGA
* *
398646 AAATAAATATTTTTTA-TAAAATTAAT
1 AAATAAATAATATTTATTAAAATTAAT
*
398672 AAATAATTAATATTTATTAAAATTA
1 AAATAAATAATATTTATTAAAATTA
398697 TATTATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATAAATAATATTTATTAAAATTAAT
Found at i:399966 original size:34 final size:34
Alignment explanation
Indices: 399929--400064 Score: 175
Period size: 34 Copynumber: 4.0 Consensus size: 34
399919 GGAGAACTGT
* * *
399929 TATGCAAACACTCATGTTATATAGTATGACATAT
1 TATGCGAACCCTCATGTTATATAGTATGACATAG
* **
399963 TATGTGAACCCTTGTGTTATA-AGTATGACATAG
1 TATGCGAACCCTCATGTTATATAGTATGACATAG
* * *
399996 TATGCGAACCATTATGTTATATGGTATGACATAG
1 TATGCGAACCCTCATGTTATATAGTATGACATAG
*
400030 TATGTGAACCCTCATGTTATATAGTATGACATAG
1 TATGCGAACCCTCATGTTATATAGTATGACATAG
400064 T
1 T
400065 GAACTATTAG
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
33 29 0.33
34 58 0.67
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (34 bp):
TATGCGAACCCTCATGTTATATAGTATGACATAG
Found at i:400221 original size:44 final size:44
Alignment explanation
Indices: 400163--400273 Score: 165
Period size: 44 Copynumber: 2.6 Consensus size: 44
400153 GCGGACCCCC
*
400163 TTAGAGAATA--TATGTGAACCCTTAGTACGTG-AAGGTGATCCT
1 TTAGAGAATATCTATGTGAACCCTTAGTACATGTAA-GTGATCCT
*
400205 TTAGTGAATATCTATGTGAACCCTTAGTACATGTAAGTGATCCT
1 TTAGAGAATATCTATGTGAACCCTTAGTACATGTAAGTGATCCT
*
400249 TTAGAGAATATCTATGTGAAACCTT
1 TTAGAGAATATCTATGTGAACCCTT
400274 TATGCGAACC
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
42 9 0.15
44 51 0.82
45 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (44 bp):
TTAGAGAATATCTATGTGAACCCTTAGTACATGTAAGTGATCCT
Found at i:400231 original size:23 final size:23
Alignment explanation
Indices: 400205--400273 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 23
400195 AGGTGATCCT
400205 TTAGTGAATATCTATGTGAACCC
1 TTAGTGAATATCTATGTGAACCC
* * * * *
400228 TTAGT--ACATGTAAGTGATCCT
1 TTAGTGAATATCTATGTGAACCC
* *
400249 TTAGAGAATATCTATGTGAAACC
1 TTAGTGAATATCTATGTGAACCC
400272 TT
1 TT
400274 TATGCGAACC
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
21 15 0.47
23 17 0.53
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (23 bp):
TTAGTGAATATCTATGTGAACCC
Found at i:400252 original size:21 final size:21
Alignment explanation
Indices: 400184--400252 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
400174 ATGTGAACCC
*
400184 TTAGTACGTG-AAGGTGATCCT
1 TTAGTACATGTAA-GTGATCCT
* * * * *
400205 TTAGTGAATATCTATGTGAACCC
1 TTAGT--ACATGTAAGTGATCCT
400228 TTAGTACATGTAAGTGATCCT
1 TTAGTACATGTAAGTGATCCT
400249 TTAG
1 TTAG
400253 AGAATATCTA
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
21 20 0.59
23 13 0.38
24 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (21 bp):
TTAGTACATGTAAGTGATCCT
Found at i:400358 original size:13 final size:15
Alignment explanation
Indices: 400318--400367 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
400308 AATATGTGCG
* *
400318 AACCCTAAACATACA
1 AACCCTATATATACA
400333 AACCCTATATATACA
1 AACCCTATATATACA
* *
400348 AACCTTATATATGCA
1 AACCCTATATATACA
400363 AACCC
1 AACCC
400368 CTTGTGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (15 bp):
AACCCTATATATACA
Found at i:401759 original size:28 final size:28
Alignment explanation
Indices: 401727--401785 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
401717 ACGATTCAAC
401727 TTATATACTTATATACACAGATTTTGAT
1 TTATATACTTATATACACAGATTTTGAT
**
401755 TTATATACTTATATACTTAGATTTTGAT
1 TTATATACTTATATACACAGATTTTGAT
401783 TTA
1 TTA
401786 ATTAATCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (28 bp):
TTATATACTTATATACACAGATTTTGAT
Found at i:403007 original size:20 final size:20
Alignment explanation
Indices: 402982--403033 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
402972 GGCCTGGGAC
* * *
402982 TTCTACCGGTAGAACTCCAA
1 TTCTACCGATACAACTACAA
*
403002 TTCTACCGATACAACTACAG
1 TTCTACCGATACAACTACAA
403022 TTCTACCGATAC
1 TTCTACCGATAC
403034 CTTGAAGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.27
Consensus pattern (20 bp):
TTCTACCGATACAACTACAA
Found at i:403256 original size:20 final size:20
Alignment explanation
Indices: 403233--403274 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
403223 CTACTGGTAG
*
403233 AACTTCACTTTTACCGATAC
1 AACTTCAATTTTACCGATAC
403253 AACTTCAATTTTACCGATAC
1 AACTTCAATTTTACCGATAC
403273 AA
1 AA
403275 GTATGCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (20 bp):
AACTTCAATTTTACCGATAC
Found at i:407627 original size:27 final size:27
Alignment explanation
Indices: 407576--407642 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
407566 CTTAAATCTC
*
407576 AAATCTCAAACTCAAACATCAAACCCT
1 AAATCTTAAACTCAAACATCAAACCCT
* *
407603 GAATCTTAAACTCAAACCAT-GAACCCT
1 AAATCTTAAACTCAAA-CATCAAACCCT
*
407630 AAATCATAAACTC
1 AAATCTTAAACTC
407643 TGAGTTTGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.21
Consensus pattern (27 bp):
AAATCTTAAACTCAAACATCAAACCCT
Found at i:407632 original size:20 final size:21
Alignment explanation
Indices: 407589--407640 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
407579 TCTCAAACTC
* * *
407589 AAACATCAAACCCTGAATCTT
1 AAACATCAAACCATGAACCCT
407610 AAAC-TCAAACCATGAACCCT
1 AAACATCAAACCATGAACCCT
407630 AAATCAT-AAAC
1 AAA-CATCAAAC
407641 TCTGAGTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 16 0.62
21 9 0.35
22 1 0.04
ACGTcount: A:0.48, C:0.29, G:0.04, T:0.19
Consensus pattern (21 bp):
AAACATCAAACCATGAACCCT
Found at i:407677 original size:21 final size:21
Alignment explanation
Indices: 407653--407698 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
407643 TGAGTTTGAT
* * *
407653 GTTTAGGGTTTAGGGTTTAGA
1 GTTTAGGATTTAAGGTTTAAA
*
407674 GTTTATGATTTAAGGTTTAAA
1 GTTTAGGATTTAAGGTTTAAA
407695 GTTT
1 GTTT
407699 GATATTCATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (21 bp):
GTTTAGGATTTAAGGTTTAAA
Found at i:407698 original size:28 final size:27
Alignment explanation
Indices: 407643--407725 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 27
407633 TCATAAACTC
* * **
407643 TGAGTTTGATGTTTAGGGTTTAGGGTT
1 TGAGTTTCATGTTTAAGGTTTAAAGTT
407670 TAGAGTTT-ATGATTTAAGGTTTAAAGTT
1 T-GAGTTTCATG-TTTAAGGTTTAAAGTT
*
407698 TGA-TATTCATGGTTTAAGGTTTGAAGTT
1 TGAGT-TTCAT-GTTTAAGGTTTAAAGTT
407726 CAAGATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 1 0.02
27 8 0.17
28 37 0.79
29 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (27 bp):
TGAGTTTCATGTTTAAGGTTTAAAGTT
Found at i:407727 original size:21 final size:21
Alignment explanation
Indices: 407685--407739 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
407675 TTTATGATTT
*
407685 AAGGTTTAAAGTTTGATATTC
1 AAGGTTTAAGGTTTGATATTC
*
407706 ATGGTTTAAGGTTTGA-AGTTC
1 AAGGTTTAAGGTTTGATA-TTC
*
407727 AAGATTTAAGGTT
1 AAGGTTTAAGGTT
407740 CAAAGGATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.42
Consensus pattern (21 bp):
AAGGTTTAAGGTTTGATATTC
Found at i:412464 original size:2 final size:2
Alignment explanation
Indices: 412402--412451 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
412392 TTCTAAAACA
412402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
412444 AT AT AT AT
1 AT AT AT AT
412452 TGGGTTAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:413001 original size:19 final size:19
Alignment explanation
Indices: 412943--413002 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
412933 CAGAAAAATT
412943 AAAATTAT-ATAAACTTATA
1 AAAATTATAATAAA-TTATA
* *
412962 AATATTATAA-AAA-TATG
1 AAAATTATAATAAATTATA
*
412979 AAAATTCTAATAAATTATA
1 AAAATTATAATAAATTATA
412998 AAAAT
1 AAAAT
413003 ATGAAATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 11 0.33
18 3 0.09
19 18 0.55
20 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTATAATAAATTATA
Found at i:413011 original size:16 final size:18
Alignment explanation
Indices: 412989--413027 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
412979 AAAATTCTAA
*
412989 TAAATTATAAAA-ATATG
1 TAAATTAAAAAACATATG
413006 -AAATTAAAAAACATATG
1 TAAATTAAAAAACATATG
413023 TAAAT
1 TAAAT
413028 ATTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 10 0.53
17 5 0.26
18 4 0.21
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (18 bp):
TAAATTAAAAAACATATG
Found at i:413026 original size:27 final size:26
Alignment explanation
Indices: 412969--413047 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
412959 ATAAATATTA
* * *
412969 TAAAAATATGAAAATTCTAATAAAT-TA
1 TAAAAATAT-AAAATT-AAAAAAATATG
*
412996 TAAAAATATGAAATTAAAAAACATATG
1 TAAAAATATAAAATTAAAAAA-ATATG
* *
413023 TAAATATTTAAAATTAAAAAAATAT
1 TAAAAATATAAAATTAAAAAAATAT
413048 TAGAATTCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 4 0.09
26 11 0.26
27 28 0.65
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (26 bp):
TAAAAATATAAAATTAAAAAAATATG
Found at i:413059 original size:26 final size:27
Alignment explanation
Indices: 413006--413071 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
412996 TAAAAATATG
413006 AAATTAAAAAACATATGTAAATATTT-A
1 AAATTAAAAAA-ATATGTAAATATTTAA
413033 AAATTAAAAAAATAT-TAGAAT-TCTTAA
1 AAATTAAAAAAATATGTA-AATAT-TTAA
*
413060 AAAATAAAAAAA
1 AAATTAAAAAAA
413072 AATATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 3 0.09
26 9 0.26
27 23 0.66
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (27 bp):
AAATTAAAAAAATATGTAAATATTTAA
Found at i:413860 original size:16 final size:16
Alignment explanation
Indices: 413833--413896 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
413823 GTTTATATCA
413833 ATTTTCATATTTTTAAT
1 ATTTT-ATATTTTTAAT
* *
413850 ATTTAATATTTTTTAT
1 ATTTTATATTTTTAAT
* *
413866 GCTTTTTATATTTTTACT
1 --ATTTTATATTTTTAAT
413884 ATTTTATATTTTT
1 ATTTTATATTTTT
413897 TTCTGTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 22 0.58
17 4 0.11
18 12 0.32
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTTTATATTTTTAAT
Found at i:413876 original size:18 final size:17
Alignment explanation
Indices: 413833--413897 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
413823 GTTTATATCA
*
413833 ATTTTCATA-TTTTTAAT
1 ATTTT-ATATTTTTTACT
*
413850 ATTTAATATTTTTTATGCT
1 ATTTTATATTTTTTA--CT
413869 -TTTTATA-TTTTTACT
1 ATTTTATATTTTTTACT
413884 ATTTTATATTTTTT
1 ATTTTATATTTTTT
413898 TCTGTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 2 0.05
16 10 0.25
17 21 0.52
18 6 0.15
19 1 0.03
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTATATTTTTTACT
Found at i:413886 original size:9 final size:8
Alignment explanation
Indices: 413833--413896 Score: 51
Period size: 8 Copynumber: 7.8 Consensus size: 8
413823 GTTTATATCA
*
413833 ATTTTCAT
1 ATTTTTAT
413841 ATTTTTA-
1 ATTTTTAT
*
413848 ATATTTAAT
1 AT-TTTTAT
413857 ATTTTTTAT
1 A-TTTTTAT
*
413866 GCTTTTTAT
1 -ATTTTTAT
413875 ATTTTTACT
1 ATTTTTA-T
413884 A-TTTTAT
1 ATTTTTAT
413891 ATTTTT
1 ATTTTT
413897 TTCTGTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 4 0.09
8 25 0.56
9 15 0.33
10 1 0.02
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (8 bp):
ATTTTTAT
Found at i:413887 original size:34 final size:36
Alignment explanation
Indices: 413834--413929 Score: 115
Period size: 34 Copynumber: 2.7 Consensus size: 36
413824 TTTATATCAA
*
413834 TTTTCATATTTTTAATATTTAATA-TTTTTTATG-C
1 TTTTTATATTTTTAATATTTAATATTTTTTTATGTC
* * * *
413868 TTTTTATATTTTTACTATTTTATATTTTTTTCTGTT
1 TTTTTATATTTTTAATATTTAATATTTTTTTATGTC
413904 TTTTTATAATTTTTAATATTTTAATA
1 TTTTTAT-ATTTTTAATA-TTTAATA
413930 AAAAATATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
34 21 0.41
35 8 0.16
36 7 0.14
37 9 0.18
38 6 0.12
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (36 bp):
TTTTTATATTTTTAATATTTAATATTTTTTTATGTC
Found at i:413897 original size:9 final size:9
Alignment explanation
Indices: 413776--413925 Score: 60
Period size: 9 Copynumber: 16.4 Consensus size: 9
413766 TTCTTAGATT
413776 TTTTTTATA
1 TTTTTTATA
*
413785 TTTTTGATA
1 TTTTTTATA
*
413794 GTATTTGT-TA
1 -T-TTTTTATA
413804 TTTTTTATAA
1 TTTTTTAT-A
413814 TGTTTTTA-A
1 T-TTTTTATA
* *
413823 GTTTATATCA
1 TTTTTTAT-A
* *
413833 ATTTTCATA
1 TTTTTTATA
413842 -TTTTTA-A
1 TTTTTTATA
* *
413849 TATTTAATA
1 TTTTTTATA
*
413858 TTTTTTATG
1 TTTTTTATA
*
413867 CTTTTTATA
1 TTTTTTATA
413876 -TTTTTACTA
1 TTTTTTA-TA
*
413885 TTTTATAT-
1 TTTTTTATA
* *
413893 TTTTTTCTGT
1 TTTTTTAT-A
413903 TTTTTTATAA
1 TTTTTTAT-A
*
413913 TTTTTAATA
1 TTTTTTATA
413922 TTTT
1 TTTT
413926 AATAAAAAAT
Statistics
Matches: 104, Mismatches: 24, Indels: 26
0.68 0.16 0.17
Matches are distributed among these distances:
7 1 0.01
8 30 0.29
9 34 0.33
10 30 0.29
11 9 0.09
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (9 bp):
TTTTTTATA
Found at i:414949 original size:22 final size:22
Alignment explanation
Indices: 414899--414949 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
414889 TTTAGTCTCT
414899 ATATTTTTATTTCTAAAATTTA
1 ATATTTTTATTTCTAAAATTTA
* *
414921 ATCTTTTTATTTTTAAAATTTTA
1 ATATTTTTATTTCTAAAA-TTTA
414944 A-ATTTT
1 ATATTTT
414950 AGATCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (22 bp):
ATATTTTTATTTCTAAAATTTA
Found at i:420438 original size:6 final size:6
Alignment explanation
Indices: 420427--420453 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
420417 ATTACTAATT
420427 GATTTG GATTTG GATTTG GATTTG GAT
1 GATTTG GATTTG GATTTG GATTTG GAT
420454 AGACGGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (6 bp):
GATTTG
Found at i:421276 original size:30 final size:32
Alignment explanation
Indices: 421237--421296 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
421227 AGTTTACTCA
* *
421237 AAATTTAAAAAG-G-TTTAAGTAAAAAATATT
1 AAATCTAAAAAGAGATTTAAATAAAAAATATT
421267 AAATCTAAAAAGTAGATTTAAATAAAAAAT
1 AAATCTAAAAAG-AGATTTAAATAAAAAAT
421297 TAACTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
32 1 0.04
33 13 0.52
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (32 bp):
AAATCTAAAAAGAGATTTAAATAAAAAATATT
Found at i:421409 original size:16 final size:18
Alignment explanation
Indices: 421376--421412 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
421366 TAAATTTGTA
*
421376 ATATATTATATTATATTT
1 ATATATTATAGTATATTT
421394 ATATATTAT-GTA-ATTT
1 ATATATTATAGTATATTT
421410 ATA
1 ATA
421413 ATACATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATATATTATAGTATATTT
Found at i:425523 original size:6 final size:6
Alignment explanation
Indices: 425512--425536 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
425502 TTGTCTTCTG
425512 ATCCCA ATCCCA ATCCCA ATCCCA A
1 ATCCCA ATCCCA ATCCCA ATCCCA A
425537 AATCTACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (6 bp):
ATCCCA
Found at i:433204 original size:12 final size:12
Alignment explanation
Indices: 433187--433214 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
433177 TGTGCTAAAT
433187 GAGCACTTTGAC
1 GAGCACTTTGAC
433199 GAGCACTTTGAC
1 GAGCACTTTGAC
433211 GAGC
1 GAGC
433215 CTCTGCATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (12 bp):
GAGCACTTTGAC
Found at i:439395 original size:7 final size:7
Alignment explanation
Indices: 439383--439412 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
439373 GGAGGAGAGT
439383 GAGTGAA
1 GAGTGAA
439390 GAGTGAA
1 GAGTGAA
439397 GAGTGAA
1 GAGTGAA
439404 GAGTGAA
1 GAGTGAA
439411 GA
1 GA
439413 CAAAGTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.13
Consensus pattern (7 bp):
GAGTGAA
Found at i:439641 original size:2 final size:2
Alignment explanation
Indices: 439634--439662 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
439624 TCTTCTGTAA
439634 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
439663 CACACATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:441741 original size:22 final size:22
Alignment explanation
Indices: 441716--441757 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
441706 GGGTTCATGG
* *
441716 TTTTGAGGTTTATGGGTTTGAT
1 TTTTAAGGTTTAAGGGTTTGAT
441738 TTTTAAGGTTTAAGGGTTTG
1 TTTTAAGGTTTAAGGGTTTG
441758 GGATTACGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (22 bp):
TTTTAAGGTTTAAGGGTTTGAT
Found at i:447934 original size:18 final size:18
Alignment explanation
Indices: 447911--447946 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
447901 GTTTTATGCT
447911 GAGAAGAAGAAGATGAAG
1 GAGAAGAAGAAGATGAAG
*
447929 GAGAAGAAGATGATGAAG
1 GAGAAGAAGAAGATGAAG
447947 AGTATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.39, T:0.08
Consensus pattern (18 bp):
GAGAAGAAGAAGATGAAG
Found at i:456965 original size:520 final size:520
Alignment explanation
Indices: 455971--457007 Score: 1725
Period size: 520 Copynumber: 2.0 Consensus size: 520
455961 GACGTACAAT
* *
455971 ATTTTGCAACATTCCAGTCCCTGAGGATTTGACCTTACTTCTCTTTTACTATTATTTTCAATATT
1 ATTTTGCAACATTCCAATCCCTGAGGATTTGACCCTACTTCTCTTTTACTATTATTTTCAATATT
* * * *
456036 TTTTAGGAGTAGATTATATTTGGCGCTCCCGACGACACACCAAATTTTGGCGTCGTTGTCGGGGA
66 TTTTAGAAGTAGATTATATTTGACGCTCCCGACGACACACCAAATTTTGGCGTCATTGTCAGGGA
* * **
456101 CTGGTAATGTACTAATCTTGTTTTCTTTCTTATGACTAGATCTGCTCCAAGAAATCTTGTGTACC
131 CTGATAACGTACTAATCTTGTTTTCTTTCTTATGACTAGATCTGCTCCAAGAAATCTTGCATACC
* *
456166 CATATGATCCAGAGATTGAAAAGATTGCAATAGCAAATATCAGGGAAACAAAGCTACGAAAAAGG
196 CATATGATCCAGAGATTGAAAAGACTGCAATAGCAAATATCAAGGAAACAAAGCTACGAAAAAGG
456231 CAATCAAATGTTATAGGAACTAAGCATTGCCCACCTTCAAAAGTAGAAGAAGGCGACGAAGTCGA
261 CAATCAAATGTTATAGGAACTAAGCATTGCCCACCTTCAAAAGTAGAAGAAGGCGACGAAGTCGA
* *
456296 ATCTAGGGTAAACGAAAACCCTAATCCAACATTAAAAAATGAAGGAGTCAATCCACCAGAGGAAG
326 ATCTAGGGTAAACGAAAACCCTAATCCAACATTAAAAAACGAAAGAGTCAATCCACCAGAGGAAG
* * *
456361 TATCAATTGTTAGGTTTAACAAAAATCAAAATCTGACACCACAACTTGTGGCTCAAACAATTCGG
391 TATCAATTGTTAGGGTTAACAAAAATCAAAATCCGACACCACAACTTGTGGCTCAAACAATTCGA
* * *
456426 CAATTAGTCGAGACTCCTGATGATCAACCGCCATTATGCATTGCGTATCTTACTGTGGATGCAAG
456 CAATTAATCGAGACTCCTGATGATCAACCGCCATTATGCACTGCGTATCCTACTGTGGATGCAAG
*
456491 ATTTTGCAACATTCCAATCCTTGAGGATTTGACCCTACTTCTCTTTTACTATTATTTTCAATATT
1 ATTTTGCAACATTCCAATCCCTGAGGATTTGACCCTACTTCTCTTTTACTATTATTTTCAATATT
* *
456556 TTTTAGAAGTGGATTATATTTGACGCTCTCGACGACACACCAAATTTTGGCGTCATTGTCAGGGA
66 TTTTAGAAGTAGATTATATTTGACGCTCCCGACGACACACCAAATTTTGGCGTCATTGTCAGGGA
456621 CTGATAACGTACTAATCTTGTTTTCTTTCTTATGACTAGATCTGCTCCAAGAAATCTTGCATACC
131 CTGATAACGTACTAATCTTGTTTTCTTTCTTATGACTAGATCTGCTCCAAGAAATCTTGCATACC
* *
456686 CATATGATCCAGAGATTGAAAAGCCTGCAATAGCAAATCTCAAGGAAACAAAGCTACGAAAAAGG
196 CATATGATCCAGAGATTGAAAAGACTGCAATAGCAAATATCAAGGAAACAAAGCTACGAAAAAGG
* * *
456751 CAATCAAATGTTGTAGGAACTAAGCATTGCCTACCTTCAAAAGTAGAAGAAGGCGATGAAGTCGA
261 CAATCAAATGTTATAGGAACTAAGCATTGCCCACCTTCAAAAGTAGAAGAAGGCGACGAAGTCGA
* **
456816 ATTTAGGGTAAACGAAAACCCTAATCCAACATTGGAAAACGAAAGAGTCAATCCACCAGAGGAAG
326 ATCTAGGGTAAACGAAAACCCTAATCCAACATTAAAAAACGAAAGAGTCAATCCACCAGAGGAAG
* * *
456881 TATTGAA-TGTTAGGGTTAACAAAAATCGAAATCCGGCACCACAACTTGTGGCTCAAACAATTCG
391 TA-TCAATTGTTAGGGTTAACAAAAATCAAAATCCGACACCACAACTTGTGGCTCAAACAATTCG
* * *
456945 ACAATTAATCGAGGCTCCTGATGATTAACCGTCATTATGCACTGCGTATCCTACTGTGGATGC
455 ACAATTAATCGAGACTCCTGATGATCAACCGCCATTATGCACTGCGTATCCTACTGTGGATGC
457008 TAACTTTGAA
Statistics
Matches: 479, Mismatches: 37, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
520 476 0.99
521 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (520 bp):
ATTTTGCAACATTCCAATCCCTGAGGATTTGACCCTACTTCTCTTTTACTATTATTTTCAATATT
TTTTAGAAGTAGATTATATTTGACGCTCCCGACGACACACCAAATTTTGGCGTCATTGTCAGGGA
CTGATAACGTACTAATCTTGTTTTCTTTCTTATGACTAGATCTGCTCCAAGAAATCTTGCATACC
CATATGATCCAGAGATTGAAAAGACTGCAATAGCAAATATCAAGGAAACAAAGCTACGAAAAAGG
CAATCAAATGTTATAGGAACTAAGCATTGCCCACCTTCAAAAGTAGAAGAAGGCGACGAAGTCGA
ATCTAGGGTAAACGAAAACCCTAATCCAACATTAAAAAACGAAAGAGTCAATCCACCAGAGGAAG
TATCAATTGTTAGGGTTAACAAAAATCAAAATCCGACACCACAACTTGTGGCTCAAACAATTCGA
CAATTAATCGAGACTCCTGATGATCAACCGCCATTATGCACTGCGTATCCTACTGTGGATGCAAG
Found at i:458404 original size:12 final size:12
Alignment explanation
Indices: 458379--458438 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 12
458369 GATGATGATT
458379 ATAATTTT-AAA
1 ATAATTTTAAAA
458390 ATAATTTTAAAA
1 ATAATTTTAAAA
458402 ATAATTTTAATAA
1 ATAATTTTAA-AA
*
458415 TTTAAAATTTT-AAA
1 ---ATAATTTTAAAA
458429 ATAATTTTAA
1 ATAATTTTAA
458439 TAATTTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
11 15 0.37
12 14 0.34
13 2 0.05
14 2 0.05
15 1 0.02
16 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATTTTAAAA
Found at i:458415 original size:9 final size:9
Alignment explanation
Indices: 458401--458474 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
458391 TAATTTTAAA
458401 AATAATTTT
1 AATAATTTT
458410 AATAA-TTT
1 AATAATTTT
458418 AA-AATTTT
1 AATAATTTT
458426 AAAATAATTTT
1 --AATAATTTT
458437 AATAATTTT
1 AATAATTTT
*
458446 -ATATTTTT
1 AATAATTTT
458454 AAAACATAATTTT
1 ---A-ATAATTTT
458467 AATAATTT
1 AATAATTT
458475 AAAATCATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
7 2 0.04
8 15 0.28
9 21 0.39
10 3 0.06
11 6 0.11
13 7 0.13
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (9 bp):
AATAATTTT
Found at i:458435 original size:27 final size:28
Alignment explanation
Indices: 458392--458479 Score: 133
Period size: 27 Copynumber: 3.1 Consensus size: 28
458382 ATTTTAAAAT
458392 AATTTTAAAAATAATTTTAATAATTTAA
1 AATTTTAAAAATAATTTTAATAATTTAA
*
458420 AATTTT-AAAATAATTTTAATAATTTTAT
1 AATTTTAAAAATAATTTTAATAA-TTTAA
*
458448 ATTTTTAAAACATAATTTTAATAATTTAA
1 AATTTTAAAA-ATAATTTTAATAATTTAA
458477 AAT
1 AAT
458480 CATTTACTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
27 16 0.30
28 15 0.28
29 9 0.17
30 13 0.25
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (28 bp):
AATTTTAAAAATAATTTTAATAATTTAA
Found at i:463827 original size:44 final size:44
Alignment explanation
Indices: 463740--463829 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
463730 CAATCGTAAC
* * ** *
463740 TTAAATTCTAATTATTTTTAAATGTGTAATTATCACTATTTCTA
1 TTAAATTATAATTATTTTAAAATGTACAATTATCACTAATTCTA
463784 TTAAATTATAATTATTTTAAAATGTACAATTATCAC-ACATTCTA
1 TTAAATTATAATTATTTTAAAATGTACAATTATCACTA-ATTCTA
463828 TT
1 TT
463830 TTATTTCAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (44 bp):
TTAAATTATAATTATTTTAAAATGTACAATTATCACTAATTCTA
Found at i:465104 original size:2 final size:2
Alignment explanation
Indices: 465097--465123 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
465087 TCCCCTCGTG
465097 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
465124 CCTCGAGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:466413 original size:2 final size:2
Alignment explanation
Indices: 466360--466400 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
466350 CTTGAATAGT
466360 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
466401 TTAAGAGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:467045 original size:2 final size:2
Alignment explanation
Indices: 467038--467071 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
467028 TTATCTTGAG
467038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
467072 TTGTTAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:469045 original size:29 final size:29
Alignment explanation
Indices: 468981--469055 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
468971 GATGATCACG
*
468981 GGTAAAACGATAATTTTTGGACTCCCTGA
1 GGTAAAACGATAATTTTTGGACTCCCGGA
* *
469010 GGCAAAACGATAATTTTTGGACGTCCGGGA
1 GGTAAAACGATAATTTTTGGAC-TCCCGGA
*
469040 -GTAAAACAATAATTTT
1 GGTAAAACGATAATTTT
469056 CAGACACTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 35 0.88
30 5 0.12
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (29 bp):
GGTAAAACGATAATTTTTGGACTCCCGGA
Found at i:469214 original size:87 final size:87
Alignment explanation
Indices: 469071--469490 Score: 226
Period size: 87 Copynumber: 4.8 Consensus size: 87
469061 ACTCAAGGGG
* * * *
469071 AAAATGATAATTTTTGAAAAGTTTGGGGTCAAAATGTAATTTTTAGATATTCAGGGGT-AAATTG
1 AAAATGATAATTTTTGAAAAGTTCGGGGTCAAAATGTAATTTTGAGAAATTCAGGGGTCAAAAT-
469135 GTAATTTTTGGATGTTCATGGGT
65 GTAATTTTTGGATGTTCATGGGT
* *
469158 AAAATGATAATTTTTG-AATGTTCGAGGGT-AAAATGGTAATTTTG-GAAAATTTAGGGGTCAAA
1 AAAATGATAATTTTTGAAAAGTTCG-GGGTCAAAAT-GTAATTTTGAG-AAATTCAGGGGTCAAA
* *
469220 ATGTAATTTTTGAAAAT-TTTA-GGGTT
63 ATGTAATTTTTG--GATGTTCATGGG-T
* * ** * *** * *
469246 AAAATG-CAATTTTTGAAAAGTTTAGGGGTTGAAATATAATTTTG-GATGCTC-GGGAT-GAAAT
1 AAAATGATAATTTTTGAAAAG-TTCGGGGTCAAAATGTAATTTTGAGAAATTCAGGGGTCAAAAT
* * *
469307 GATAATTTTTGAATGTTCGA-AGGC
65 G-TAATTTTTGGATGTTC-ATGGGT
* * * * * * * *
469331 AAAATGGTAATATTTGGAAAGTCCAGGGTCAAAAATGTAATTTTTG-GACA-TCCGAAGGT-AAA
1 AAAATGATAATTTTTGAAAAGTTCGGGGTC-AAAATGTAA-TTTTGAGAAATTCAG-GGGTCAAA
*
469393 ATGGTGATTTTTGGATGTT-A-GAGGT
63 AT-GTAATTTTTGGATGTTCATG-GGT
* ** * * * *
469418 AAAATGGTAATTTTT-AGAAAGTTTAGGGTCAAAAATGTAATTTTGGGAAGTTTAGGGGTAAAAA
1 AAAATGATAATTTTTGA-AAAGTTCGGGGTC-AAAATGTAATTTTGAGAAATTCAGGGGTCAAAA
*
469482 TGAAATTTT
64 TGTAATTTT
469491 AGGAAGTTTT
Statistics
Matches: 258, Mismatches: 51, Indels: 48
0.72 0.14 0.13
Matches are distributed among these distances:
84 3 0.01
85 18 0.07
86 54 0.21
87 117 0.45
88 56 0.22
89 10 0.04
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.36
Consensus pattern (87 bp):
AAAATGATAATTTTTGAAAAGTTCGGGGTCAAAATGTAATTTTGAGAAATTCAGGGGTCAAAATG
TAATTTTTGGATGTTCATGGGT
Found at i:469231 original size:30 final size:29
Alignment explanation
Indices: 469066--469554 Score: 150
Period size: 29 Copynumber: 16.8 Consensus size: 29
469056 CAGACACTCA
469066 AGGGG-AAAATGATAATTTTT-GAAAAGTTT
1 AGGGGTAAAATG-TAATTTTTGGAAAA-TTT
* * *
469095 -GGGGTCAAAATGTAATTTTTAG-ATATTC
1 AGGGGT-AAAATGTAATTTTTGGAAAATTT
* ** *
469123 AGGGGTAAATTGGTAATTTTTGG-ATGTTC
1 AGGGGTAAAAT-GTAATTTTTGGAAAATTT
*
469152 ATGGGTAAAATGATAATTTTT-G--AATGTT
1 AGGGGTAAAATG-TAATTTTTGGAAAAT-TT
*
469180 CGAGGGTAAAATGGTAA-TTTTGGAAAATTT
1 AG-GGGTAAAAT-GTAATTTTTGGAAAATTT
469210 AGGGGTCAAAATGTAATTTTT-GAAAATTTT
1 AGGGGT-AAAATGTAATTTTTGGAAAA-TTT
* *
469240 AGGGTTAAAATGCAATTTTT-GAAAAGTTT
1 AGGGGTAAAATGTAATTTTTGGAAAA-TTT
* * *
469269 AGGGGTTGAAATATAA-TTTTGG---ATGCT
1 AGGGG-TAAAATGTAATTTTTGGAAAAT-TT
* * *
469296 CGGGATGAAATGATAATTTTT-G--AATGTT
1 AGGGGTAAAATG-TAATTTTTGGAAAAT-TT
* * * * * **
469324 CGAAGGCAAAATGGTAATATTTGGAAAGTCC
1 AG-GGGTAAAAT-GTAATTTTTGGAAAATTT
* *
469355 A-GGGTCAAAAATGTAATTTTTGG-ACA-TC
1 AGGGGT--AAAATGTAATTTTTGGAAAATTT
* * *
469383 CGAAGGTAAAATGGTGATTTTTGG---ATGTT
1 AG-GGGTAAAAT-GTAATTTTTGGAAAAT-TT
* * *
469412 AGAGGTAAAATGGTAATTTTTAGAAAGTTT
1 AGGGGTAAAAT-GTAATTTTTGGAAAATTT
* *
469442 A-GGGTCAAAAATGTAA-TTTTGGGAAGTTT
1 AGGGGT--AAAATGTAATTTTTGGAAAATTT
* * **
469471 AGGGGTAAAAATGAAATTTTAGGAAGTTTT
1 AGGGGT-AAAATGTAATTTTTGGAAAATTT
* *
469501 AAGGGTAAAAATGTAA-GTTTGGAAAAGTTT
1 AGGGGT-AAAATGTAATTTTTGGAAAA-TTT
* *
469531 AGGGGTTAGAATATAATTTTTGGA
1 AGGGG-TAAAATGTAATTTTTGGA
469555 GAGTTCAAGG
Statistics
Matches: 351, Mismatches: 66, Indels: 84
0.70 0.13 0.17
Matches are distributed among these distances:
26 7 0.02
27 11 0.03
28 52 0.15
29 159 0.45
30 99 0.28
31 21 0.06
32 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
AGGGGTAAAATGTAATTTTTGGAAAATTT
Found at i:469289 original size:29 final size:29
Alignment explanation
Indices: 469071--469288 Score: 155
Period size: 29 Copynumber: 7.4 Consensus size: 29
469061 ACTCAAGGGG
*
469071 AAAATGATAATTTTTGAAAAGTTT-GGGGTC
1 AAAATG-TAATTTTTGAAAA-TTTAGGGGTT
* *
469101 AAAATGTAATTTTT-AGATATTCAGGGG-T
1 AAAATGTAATTTTTGA-AAATTTAGGGGTT
* * ** * *
469129 AAATTGGTAATTTTTGGATGTTCATGGG-T
1 AAAAT-GTAATTTTTGAAAATTTAGGGGTT
*
469158 AAAATGATAATTTTTG--AATGTTCGAGGG-T
1 AAAATG-TAATTTTTGAAAAT-TTAG-GGGTT
* *
469187 AAAATGGTAATTTTGGAAAATTTAGGGGTC
1 AAAAT-GTAATTTTTGAAAATTTAGGGGTT
469217 AAAATGTAATTTTTGAAAATTTTA-GGGTT
1 AAAATGTAATTTTTGAAAA-TTTAGGGGTT
*
469246 AAAATGCAATTTTTGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGAAAA-TTTAGGGGTT
* *
469276 GAAATATAATTTT
1 AAAATGTAATTTT
469289 GGATGCTCGG
Statistics
Matches: 152, Mismatches: 23, Indels: 26
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.01
28 9 0.06
29 105 0.69
30 34 0.22
31 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.39
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAAATTTAGGGGTT
Found at i:469453 original size:59 final size:60
Alignment explanation
Indices: 469390--469532 Score: 136
Period size: 59 Copynumber: 2.4 Consensus size: 60
469380 ATCCGAAGGT
* * * *
469390 AAAATGGTGATTTTTGGATG-TTAGAGGT-AAAATGGTAATTTTTAGAAAG-TTT-AGGGTCA
1 AAAATGGTAATTTTGGGAAGTTTAGAGGTAAAAAT-G-AAATTTTAGAAAGTTTTAAGGGT-A
* *
469449 AAAAT-GTAATTTTGGGAAGTTTAGGGGTAAAAATGAAATTTTAGGAAGTTTTAAGGGTA
1 AAAATGGTAATTTTGGGAAGTTTAGAGGTAAAAATGAAATTTTAGAAAGTTTTAAGGGTA
* *
469508 AAAAT-GTAAGTTTGGAAAAGTTTAG
1 AAAATGGTAATTTTGG-GAAGTTTAG
469533 GGGTTAGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
58 22 0.31
59 31 0.44
60 18 0.25
ACGTcount: A:0.38, C:0.01, G:0.27, T:0.35
Consensus pattern (60 bp):
AAAATGGTAATTTTGGGAAGTTTAGAGGTAAAAATGAAATTTTAGAAAGTTTTAAGGGTA
Found at i:470633 original size:24 final size:25
Alignment explanation
Indices: 470601--470658 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
470591 TTTTTTTACT
470601 TTAT-TTTATTAATTAAAATTA-TA
1 TTATATTTATTAATTAAAATTATTA
* * *
470624 TTATATTTATTTATTATAGTTATTA
1 TTATATTTATTAATTAAAATTATTA
470649 TT-TATTTATT
1 TTATATTTATT
470659 CAAATCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.13
24 22 0.73
25 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TTATATTTATTAATTAAAATTATTA
Found at i:470638 original size:13 final size:13
Alignment explanation
Indices: 470622--470658 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
470612 ATTAAAATTA
470622 TATTATATTTATT
1 TATTATATTTATT
*
470635 TATTATAGTTA-T
1 TATTATATTTATT
470647 TATT-TATTTATT
1 TATTATATTTATT
470659 CAAATCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
11 5 0.24
12 6 0.29
13 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TATTATATTTATT
Found at i:470652 original size:20 final size:18
Alignment explanation
Indices: 470618--470658 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
470608 ATTAATTAAA
470618 ATTATATTATATTTATTT
1 ATTATATTATATTTATTT
470636 ATTATAGTTATTATTTATTT
1 ATTATA-TTA-TATTTATTT
470656 ATT
1 ATT
470659 CAAATCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTATATTATATTTATTT
Found at i:473583 original size:37 final size:37
Alignment explanation
Indices: 473533--473863 Score: 439
Period size: 37 Copynumber: 8.9 Consensus size: 37
473523 CATTTTAAAA
* * *
473533 TTCAGGCTTTGTGCCTAGTAGGCTTTATGCCAGTGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
* * *
473570 TTCAGGCTGTGTGCCTCGTAAGCTTTGTGCTGGTGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
*
473607 TTCAAGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
* *
473644 TTCAGACTATGTGCCTAGTAGGCTTTGTGCCGGTGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
473681 TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
* * *
473718 TTCAAGCTGTGTGCCTAGTAGGCTTCGTGCTGGTGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
* * *
473755 TTCAGGCTGTGTACCTAATAGGCTTCGTGCCGGTGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
* * * *
473792 TTCAAGCTATGTGCCTAGTAGG-TTTCGTGCAGGTGTA
1 TTCAGGCTGTGTGCCTAGTAGGCTTT-GTGCCGGTGTT
* * * *
473829 TTCAGGCTATGTGCCTAGCAGGCTTTATGCTGGTG
1 TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTG
473864 ATCCAAGAAC
Statistics
Matches: 259, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
36 2 0.01
37 254 0.98
38 3 0.01
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.37
Consensus pattern (37 bp):
TTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
Found at i:473693 original size:21 final size:21
Alignment explanation
Indices: 473663--473732 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
473653 TGTGCCTAGT
*
473663 AGGCTTTGTGCCGGTGTTTTC
1 AGGCTGTGTGCCGGTGTTTTC
473684 AGGCTGTGTGCC--TAG---T-
1 AGGCTGTGTGCCGGT-GTTTTC
*
473700 AGGCTTTGTGCCGGTGTTTTC
1 AGGCTGTGTGCCGGTGTTTTC
*
473721 AAGCTGTGTGCC
1 AGGCTGTGTGCC
473733 TAGTAGGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
16 11 0.29
17 2 0.05
18 1 0.03
19 1 0.03
20 2 0.05
21 21 0.55
ACGTcount: A:0.09, C:0.20, G:0.34, T:0.37
Consensus pattern (21 bp):
AGGCTGTGTGCCGGTGTTTTC
Found at i:481019 original size:10 final size:11
Alignment explanation
Indices: 481002--481028 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
480992 TTCGACCTTA
481002 ATTTTTTTTTT
1 ATTTTTTTTTT
481013 ATTTTTTTTTT
1 ATTTTTTTTTT
481024 ATTTT
1 ATTTT
481029 GACCCTGCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (11 bp):
ATTTTTTTTTT
Found at i:483033 original size:30 final size:30
Alignment explanation
Indices: 482997--483062 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
482987 GTTTACATTT
*
482997 CAGTCCCTCAACTTTGAAAATATGGCAAAA
1 CAGTCCCTCAACTTTGAAAATATGACAAAA
*
483027 CAGTCCCTCAACTTTGAAAATGTGACAAAA
1 CAGTCCCTCAACTTTGAAAATATGACAAAA
483057 CAGTCC
1 CAGTCC
483063 TTTTTCGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.23
Consensus pattern (30 bp):
CAGTCCCTCAACTTTGAAAATATGACAAAA
Found at i:483186 original size:30 final size:31
Alignment explanation
Indices: 483150--483223 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
483140 CGGTTACATT
* * *
483150 TAACAAAACAGTCACTCAAGTT-TGAAAATG
1 TAACAAAACAGTCACTAAAGTTATCAAAAAG
483180 TAACAAAACAGTCACTAAAGTTATCAAAAAG
1 TAACAAAACAGTCACTAAAGTTATCAAAAAG
*
483211 TGACAAAACAGTC
1 TAACAAAACAGTC
483224 CTCTTGTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 21 0.54
31 18 0.46
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.20
Consensus pattern (31 bp):
TAACAAAACAGTCACTAAAGTTATCAAAAAG
Found at i:484206 original size:30 final size:31
Alignment explanation
Indices: 484142--484213 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
484132 ACAACAAGAG
* *
484142 GACTATTTTGTCACTTTTCGATAACTTTAGT
1 GACTGTTTTGTCACTTTTCGATAACTTGAGT
*
484173 GACTGTTTTGTCACATTTTC-A-AAGTTGAGT
1 GACTGTTTTGTCAC-TTTTCGATAACTTGAGT
484203 GACTGTTTTGT
1 GACTGTTTTGT
484214 TAAATGTGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.49
31 14 0.38
32 5 0.14
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (31 bp):
GACTGTTTTGTCACTTTTCGATAACTTGAGT
Found at i:488751 original size:17 final size:17
Alignment explanation
Indices: 488722--488780 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
488712 ATATAAAAAT
488722 TTATTATAC-TTAATAA
1 TTATTATACTTTAATAA
488738 TTATTATACTTTAATAA
1 TTATTATACTTTAATAA
488755 TTATTATA-TATT-A-AA
1 TTATTATACT-TTAATAA
488770 TTATTATACTT
1 TTATTATACTT
488781 AATTATTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.28
16 12 0.30
17 17 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATTATACTTTAATAA
Found at i:488775 original size:32 final size:31
Alignment explanation
Indices: 488736--488796 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
488726 TATACTTAAT
488736 AATTATTATACTTTAATAATTATT-ATATATTA
1 AATTATTATAC-TTAATAATT-TTAATATATTA
*
488768 AATTATTATACTTAATTATTTTAATATAT
1 AATTATTATACTTAATAATTTTAATATAT
488797 AATAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 14 0.52
32 11 0.41
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (31 bp):
AATTATTATACTTAATAATTTTAATATATTA
Found at i:488814 original size:58 final size:58
Alignment explanation
Indices: 488694--488814 Score: 127
Period size: 58 Copynumber: 2.1 Consensus size: 58
488684 AAAATCGACT
* * * * *
488694 TAATTATTATATATTAAAATATAAAAATTTATTATACTTAATAATTATTATACTTTAA
1 TAATTATTATATATTAAAATATAAAAATTAATTATACTTAATAATAATAATAATATAA
* * * * * *
488752 TAATTATTATATATTAAATTATTATACTTAATTAT-TTTAATATATAATAATAATATAC
1 TAATTATTATATATTAAAATATAAAAATTAATTATACTTAATA-ATAATAATAATATAA
488810 TAATT
1 TAATT
488815 TAAACAATAC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 6 0.12
58 45 0.88
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (58 bp):
TAATTATTATATATTAAAATATAAAAATTAATTATACTTAATAATAATAATAATATAA
Found at i:488954 original size:9 final size:10
Alignment explanation
Indices: 488940--488987 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
488930 ATAAAATATG
488940 TTAAT-ATTA
1 TTAATAATTA
488949 TTAATAATTA
1 TTAATAATTA
* *
488959 TTATACAATAA
1 TTA-ATAATTA
*
488970 TTATTAATTA
1 TTAATAATTA
488980 TTAATAAT
1 TTAATAAT
488988 AATGAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 5 0.16
10 18 0.58
11 8 0.26
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (10 bp):
TTAATAATTA
Found at i:489081 original size:13 final size:13
Alignment explanation
Indices: 489063--489089 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
489053 ATAAAAATCG
489063 ACTTAATTATTAT
1 ACTTAATTATTAT
489076 ACTTAATTATTAT
1 ACTTAATTATTAT
489089 A
1 A
489090 TATTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
ACTTAATTATTAT
Found at i:489098 original size:15 final size:15
Alignment explanation
Indices: 489067--489111 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
489057 AAATCGACTT
*
489067 AATTATTATA-CTT-
1 AATTATTATATATTA
489080 AATTATTATATATTA
1 AATTATTATATATTA
*
489095 AATTATTAAATATTA
1 AATTATTATATATTA
489110 AA
1 AA
489112 ATAATAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 10 0.36
14 2 0.07
15 16 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTATTATATATTA
Found at i:489113 original size:53 final size:49
Alignment explanation
Indices: 489016--489113 Score: 117
Period size: 49 Copynumber: 1.9 Consensus size: 49
489006 ATAAAATATA
*
489016 TTAATATCATACATTAATTATTATTATATATTAAAATATAAAAATCGAC
1 TTAATATCATACATTAATTATTATTATAAATTAAAATATAAAAATCGAC
* *
489065 TTAATTATTATAC-TTAATTATTATATATTAAATTATTAAATATTAAAAT
1 TTAA-TATCATACATTAATTATTAT-TA-TAAATTA--AAATATAAAAAT
489114 AATAATGATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 15 0.37
50 9 0.22
51 6 0.15
53 11 0.27
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (49 bp):
TTAATATCATACATTAATTATTATTATAAATTAAAATATAAAAATCGAC
Found at i:493196 original size:16 final size:16
Alignment explanation
Indices: 493172--493203 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
493162 TTTAAAACCT
493172 TTTACCCAAACCCAAA
1 TTTACCCAAACCCAAA
*
493188 TTTAGCCAAACCCAAA
1 TTTACCCAAACCCAAA
493204 GTAAACCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (16 bp):
TTTACCCAAACCCAAA
Found at i:494203 original size:2 final size:2
Alignment explanation
Indices: 494196--494232 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
494186 CTTTTTGAGT
* *
494196 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
494233 GATTGTTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:494790 original size:2 final size:2
Alignment explanation
Indices: 494785--494816 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
494775 CATATATATA
*
494785 TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
494817 ATTTATTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:500586 original size:20 final size:19
Alignment explanation
Indices: 500544--500605 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
500534 CCGACTGACC
*
500544 TGACCTGTTGACTTTGACTTT
1 TGACC-GTTGACATTGAC-TT
500565 TGACCGTTGATCATTGACTT
1 TGACCGTTGA-CATTGACTT
* *
500585 TGACCATTGACCGTTGACTT
1 TGACCGTTGA-CATTGACTT
500605 T
1 T
500606 TTTTGAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 25 0.69
21 11 0.31
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (19 bp):
TGACCGTTGACATTGACTT
Found at i:501597 original size:47 final size:47
Alignment explanation
Indices: 501528--501621 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
501518 TGAGTATATG
501528 ATAGGTTGTATGTACTTTAGAGACACACTGAGCTTGATAGCTCATAC
1 ATAGGTTGTATGTACTTTAGAGACACACTGAGCTTGATAGCTCATAC
501575 ATAGGTTGTATGTACTTTAGAGACACACTGAGCTTGATAGCTCATAC
1 ATAGGTTGTATGTACTTTAGAGACACACTGAGCTTGATAGCTCATAC
501622 CCCTACAGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (47 bp):
ATAGGTTGTATGTACTTTAGAGACACACTGAGCTTGATAGCTCATAC
Found at i:510070 original size:12 final size:13
Alignment explanation
Indices: 510045--510085 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
510035 TATATTTATA
*
510045 TTTTTCTTTCTTTT
1 TTTTTCTCT-TTTT
510059 TTTTTC-CTTTTT
1 TTTTTCTCTTTTT
510071 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
510084 TT
1 TT
510086 GATTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 10 0.40
13 9 0.36
14 6 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTCTTTTT
Found at i:510076 original size:22 final size:22
Alignment explanation
Indices: 510045--510094 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
510035 TATATTTATA
* * *
510045 TTTTTCTTTCTTTTTTTTTCCT
1 TTTTTTTTTCTCTTTTTTTCAT
*
510067 TTTTTTTTTCTCTTTTTTTGAT
1 TTTTTTTTTCTCTTTTTTTCAT
510089 TTTTTT
1 TTTTTT
510095 CTTTTGTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTTTTTTCTCTTTTTTTCAT
Found at i:511263 original size:13 final size:14
Alignment explanation
Indices: 511245--511273 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
511235 GTCGTGCTCT
511245 TTAGTTAA-TTTAA
1 TTAGTTAATTTTAA
511258 TTAGTTAATTTTAA
1 TTAGTTAATTTTAA
511272 TT
1 TT
511274 TCAATCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTAGTTAATTTTAA
Found at i:516880 original size:6 final size:6
Alignment explanation
Indices: 516869--516894 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
516859 AAAGTGGTGA
516869 TTTTGC TTTTGC TTTTGC TTTTGC TT
1 TTTTGC TTTTGC TTTTGC TTTTGC TT
516895 GCATTTTTTC
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:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTTGC
Found at i:519829 original size:22 final size:22
Alignment explanation
Indices: 519775--519829 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
519765 ATCCTAAAAG
*
519775 AAAATTAAATTTTAAAATCTAAA
1 AAAATT-AATTATAAAATCTAAA
* *
519798 AACAA-GAATTATAAACTCTAAA
1 AA-AATTAATTATAAAATCTAAA
519820 AAAATTAATT
1 AAAATTAATT
519830 CACTTGCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 2 0.08
22 20 0.77
23 2 0.08
24 2 0.08
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATTAATTATAAAATCTAAA
Found at i:520169 original size:30 final size:31
Alignment explanation
Indices: 520135--520194 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
520125 AATATCTTTA
520135 AATTAGTAGCAAAAT-T-AACAATAA-AATAAG
1 AATTA-TA-CAAAATCTAAACAATAACAATAAG
*
520165 AATTATACAATATCTAAACAATAACAATAA
1 AATTATACAAAATCTAAACAATAACAATAA
520195 AATATTAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 13 0.50
31 5 0.19
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (31 bp):
AATTATACAAAATCTAAACAATAACAATAAG
Found at i:523341 original size:17 final size:18
Alignment explanation
Indices: 523319--523353 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
523309 TTGAATCAGG
523319 TTTTATAATTTT-TTAAT
1 TTTTATAATTTTATTAAT
*
523336 TTTTATGATTTTATTAAT
1 TTTTATAATTTTATTAAT
523354 AATTTTTTAA
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:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATAATTTTATTAAT
Found at i:523588 original size:3 final size:3
Alignment explanation
Indices: 523582--523609 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
523572 ATCATCAAAG
523582 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
523610 TTCATTTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:525696 original size:2 final size:2
Alignment explanation
Indices: 525689--525717 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
525679 AATAAAACAA
525689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
525718 AATAAGCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:535498 original size:4 final size:4
Alignment explanation
Indices: 535489--535515 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
535479 ATTAGAACAT
535489 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
535516 TAGGTCCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:542602 original size:3 final size:3
Alignment explanation
Indices: 542594--542620 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
542584 CCAGTTTCTG
542594 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
542621 ATAATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:543912 original size:2 final size:2
Alignment explanation
Indices: 543905--543931 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
543895 GAAAATGTGG
543905 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
543932 TTCCAAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Done.