Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 43 of 318
Found at i:16082119 original size:85 final size:85
Alignment explanation
Indices: 16082015--16082187 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 85
16082005 AATTTTTCCA
*
16082015 ATTAAATATGGATCAAAAGCTTAATTTTTATTGGAATTTAAAATAAATAATATGGATATTAAAAG
1 ATTAAAAATGGATCAAAAGCTTAATTTTTATTGGAATTTAAAATAAATAATATGGATATTAAAAG
16082080 AAAGAATATAATACCGACTG
66 AAAGAATATAATACCGACTG
16082100 ATTAAAAATGGATCAAAAGCTTAATTTTTATTGGAATTTAAAATAAATAATATGGATATTAAAAG
1 ATTAAAAATGGATCAAAAGCTTAATTTTTATTGGAATTTAAAATAAATAATATGGATATTAAAAG
16082165 AAAGAATATAATACCGACTG
66 AAAGAATATAATACCGACTG
16082185 ATT
1 ATT
16082188 CTACTTTCCC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.33
Consensus pattern (85 bp):
ATTAAAAATGGATCAAAAGCTTAATTTTTATTGGAATTTAAAATAAATAATATGGATATTAAAAG
AAAGAATATAATACCGACTG
Found at i:16092307 original size:21 final size:21
Alignment explanation
Indices: 16092283--16092322 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
16092273 ACTATTTATT
16092283 TATAT-TATTTTTAAATATACA
1 TATATATA-TTTTAAATATACA
16092304 TATATATATTTTAAATATA
1 TATATATATTTTAAATATA
16092323 TTATTTCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATATATTTTAAATATACA
Found at i:16092314 original size:31 final size:32
Alignment explanation
Indices: 16092253--16092314 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
16092243 GTATATAAAT
** *
16092253 TATTATTTTTAAAATATTTTACTATTTATTTA
1 TATTATTTTTAAAATATCATACTATATATTTA
16092285 TATTATTTTT-AAATATACATA-TATATATTT
1 TATTATTTTTAAAATAT-CATACTATATATTT
16092315 TAAATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTATTTTTAAAATATCATACTATATATTTA
Found at i:16093776 original size:19 final size:19
Alignment explanation
Indices: 16093754--16093791 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16093744 TATTTTTGAA
16093754 AAATAATTTACTTTTCTAG
1 AAATAATTTACTTTTCTAG
*
16093773 AAATGATTTACTTTTCTAG
1 AAATAATTTACTTTTCTAG
16093792 TGTTTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
AAATAATTTACTTTTCTAG
Found at i:16097170 original size:57 final size:57
Alignment explanation
Indices: 16097103--16097218 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 57
16097093 AATATTTAAG
*
16097103 AAGTTGAAGAACGGAAG-AGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGGAAA
1 AAGTTGAAGAACAGAAGAAGAAGAAAAAGACTTACCTGGATGAAGAAGGAGAT-GAAA
* *
16097160 AAGTTGAAGAACAGAAGAAGAAGAAGAAGACTTACCTGGATGAAGAAGGGGATGAAA
1 AAGTTGAAGAACAGAAGAAGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGAAA
16097217 AA
1 AA
16097219 TGTCTTACTG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 22 0.40
58 33 0.60
ACGTcount: A:0.50, C:0.07, G:0.31, T:0.12
Consensus pattern (57 bp):
AAGTTGAAGAACAGAAGAAGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGAAA
Found at i:16101970 original size:5 final size:5
Alignment explanation
Indices: 16101952--16101982 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
16101942 TTTCTTTTAT
16101952 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
16101983 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:16102014 original size:27 final size:28
Alignment explanation
Indices: 16101967--16102024 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
16101957 ATAATAATAT
*
16101967 AATATAATATAATATACTTAAT-TATTA
1 AATATAATATAATATACTTAATCAATTA
**
16101994 AATA-AATATATATATTTTTAATCAATTA
1 AATATAATATA-ATATACTTAATCAATTA
16102022 AAT
1 AAT
16102025 CTTTGATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 6 0.23
27 13 0.50
28 7 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
AATATAATATAATATACTTAATCAATTA
Found at i:16113237 original size:7 final size:7
Alignment explanation
Indices: 16113225--16113265 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
16113215 ATCAAAATAA
16113225 TTAAAAT
1 TTAAAAT
16113232 TTAAAAT
1 TTAAAAT
16113239 TTAAAAT
1 TTAAAAT
16113246 TTAAAA-
1 TTAAAAT
*
16113252 TAAATAAT
1 TTAA-AAT
16113260 TTAAAA
1 TTAAAA
16113266 GTAGTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 3 0.10
7 24 0.80
8 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TTAAAAT
Found at i:16120730 original size:14 final size:14
Alignment explanation
Indices: 16120713--16120741 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16120703 ATATCAAACA
16120713 TAAAATATATTTAT
1 TAAAATATATTTAT
16120727 TAAAATATATTTAT
1 TAAAATATATTTAT
16120741 T
1 T
16120742 TATGCGCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAAATATATTTAT
Found at i:16125816 original size:54 final size:54
Alignment explanation
Indices: 16125758--16125866 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
16125748 AGAAAATGAA
16125758 ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
1 ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
16125812 ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
1 ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
16125866 A
1 A
16125867 ATCATTTTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (54 bp):
ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
Found at i:16128052 original size:40 final size:40
Alignment explanation
Indices: 16127997--16128076 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
16127987 TAAAACGTTT
16127997 TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
1 TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
16128037 TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
1 TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
16128077 CACATGTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (40 bp):
TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
Found at i:16141923 original size:22 final size:22
Alignment explanation
Indices: 16141898--16141939 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16141888 TAGTCATATG
16141898 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
16141920 ATAATTTATTATTTTAATAA
1 ATAAATTATTAATATAATAA
16141940 GTTATTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:16141979 original size:13 final size:14
Alignment explanation
Indices: 16141961--16142002 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
16141951 TTTCAATTCT
16141961 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
16141974 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
16141989 ATTTTAAATAATAT
1 ATTTT-AATAATAT
16142003 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:16141987 original size:16 final size:16
Alignment explanation
Indices: 16141965--16142001 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
16141955 AATTCTATTT
16141965 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
16141982 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
16141997 TAATA
1 TAATA
16142002 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:16142454 original size:14 final size:14
Alignment explanation
Indices: 16142426--16142469 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
16142416 TAAAAATGAC
*
16142426 TTTTATGAAAT-AT
1 TTTTAAGAAATCAT
16142439 TTTTAAGAAATCAT
1 TTTTAAGAAATCAT
**
16142453 TTTCCAGAAATCAT
1 TTTTAAGAAATCAT
16142467 TTT
1 TTT
16142470 CCAAAAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTTAAGAAATCAT
Found at i:16142470 original size:14 final size:14
Alignment explanation
Indices: 16142444--16142484 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
16142434 AATATTTTTA
16142444 AGAAATCATTTTCC
1 AGAAATCATTTTCC
16142458 AGAAATCATTTTCC
1 AGAAATCATTTTCC
16142472 A-AAAGTCATTTTC
1 AGAAA-TCATTTTC
16142485 AGTGAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 3 0.12
14 23 0.88
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (14 bp):
AGAAATCATTTTCC
Found at i:16143903 original size:46 final size:46
Alignment explanation
Indices: 16143847--16144022 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
16143837 TGGTTGAGCA
16143847 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
16143893 TTCGAACTCGTTGGGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16143938 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
16143986 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16144023 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16144004 original size:93 final size:93
Alignment explanation
Indices: 16143844--16144014 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
16143834 GGATGGTTGA
* ** *
16143844 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGGGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16143909 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
16143937 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16144002 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16144015 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16158829 original size:5 final size:5
Alignment explanation
Indices: 16158819--16158856 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
16158809 ATGTGTGTTC
16158819 TTTAT TTTAT TTT-T TTTATT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTT
16158857 CAAAAATTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.71
6 5 0.16
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:16161296 original size:53 final size:53
Alignment explanation
Indices: 16161140--16161305 Score: 203
Period size: 53 Copynumber: 3.1 Consensus size: 53
16161130 GATGAAAAAT
* * **
16161140 ATGTGATAAGTGTG-C-CCGTTTAAGACCGTAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
16161192 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * * *
16161245 ATGTGATAATGTGATTCTGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
16161299 TATGTGA
1 -ATGTGA
16161306 ACCGTGTAAG
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 79 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:16168499 original size:53 final size:53
Alignment explanation
Indices: 16168343--16168508 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
16168333 GACGAAAAAT
* * **
16168343 ATGTGATAAGTGTG-C-CCGTTTAAGACCGTAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
16168395 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
16168448 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
16168502 TATGTGA
1 -ATGTGA
16168509 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 80 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:16170221 original size:53 final size:54
Alignment explanation
Indices: 16170147--16170297 Score: 209
Period size: 53 Copynumber: 2.8 Consensus size: 54
16170137 CTCACACGGT
* *
16170147 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
*
16170202 TCACATTATACCGATGCCATAGCCCA-ACTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
** *
16170255 TCACATTGCACCGATGCCATAGCCCAG-CTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGG
16170298 GCACACTTAT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 2 0.02
53 79 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
Found at i:16178236 original size:12 final size:12
Alignment explanation
Indices: 16178221--16178251 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16178211 TTCTCTTTTA
16178221 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
16178233 TTTTTCTTTCTC
1 TTTTTCTTTCCC
16178245 TTTTTCT
1 TTTTTCT
16178252 CCTCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:16183345 original size:26 final size:26
Alignment explanation
Indices: 16183314--16183369 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
16183304 AATTTTTTTG
*
16183314 AAGTTAGACTTATAATTCACAATAAC
1 AAGTTAGACTTACAATTCACAATAAC
* * *
16183340 AAGTTATATTTACAGTTCACAATAAC
1 AAGTTAGACTTACAATTCACAATAAC
16183366 AAGT
1 AAGT
16183370 AATACCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (26 bp):
AAGTTAGACTTACAATTCACAATAAC
Found at i:16193099 original size:29 final size:29
Alignment explanation
Indices: 16193057--16193114 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
16193047 ACTAAGCCAG
*
16193057 ACAAAACAG-CCCCCCTCATGATTAATACC
1 ACAAAACAGACCCCCC-AATGATTAATACC
16193086 ACAAAACAGACCCCCCAATGATTAATACC
1 ACAAAACAGACCCCCCAATGATTAATACC
16193115 TATGTGAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.41, C:0.36, G:0.07, T:0.16
Consensus pattern (29 bp):
ACAAAACAGACCCCCCAATGATTAATACC
Found at i:16198753 original size:9 final size:9
Alignment explanation
Indices: 16198737--16198779 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
16198727 GGTATTTTTC
16198737 GGTAATTCG
1 GGTAATTCG
*
16198746 GTTAATTCG
1 GGTAATTCG
16198755 GGTAATTCG
1 GGTAATTCG
16198764 GGTAATTCG
1 GGTAATTCG
16198773 GGTAATT
1 GGTAATT
16198780 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:16198957 original size:12 final size:12
Alignment explanation
Indices: 16198940--16198964 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16198930 AGTAATTTCG
16198940 GGTCGGTTAACC
1 GGTCGGTTAACC
16198952 GGTCGGTTAACC
1 GGTCGGTTAACC
16198964 G
1 G
16198965 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:16203476 original size:30 final size:28
Alignment explanation
Indices: 16203408--16203478 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 28
16203398 TTTTCACAAA
* *
16203408 TTTAAAATTTAATCATTGTATTTTTATT
1 TTTAAAATTTAGTCATTGTATTTTTAAT
* *
16203436 TTTAAGAATTTAGTCCTTTTACTTTTTAGAT
1 TTTAA-AATTTAGTCATTGTA-TTTTTA-AT
16203467 TTTAAAATTTAG
1 TTTAAAATTTAG
16203479 GTTCAGTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.14
29 12 0.33
30 13 0.36
31 6 0.17
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (28 bp):
TTTAAAATTTAGTCATTGTATTTTTAAT
Found at i:16205034 original size:23 final size:23
Alignment explanation
Indices: 16205004--16205047 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
16204994 TACCTTCTGA
*
16205004 TCTCACTTTATCTTGATATTCGG
1 TCTCACTTTATATTGATATTCGG
16205027 TCTCACTTTATATTGATATTC
1 TCTCACTTTATATTGATATTC
16205048 TCTTAAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.50
Consensus pattern (23 bp):
TCTCACTTTATATTGATATTCGG
Found at i:16207051 original size:5 final size:5
Alignment explanation
Indices: 16207041--16207076 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
16207031 AATAATTAAG
16207041 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
16207077 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:16207146 original size:31 final size:30
Alignment explanation
Indices: 16207111--16207171 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
16207101 GAAACAGAAT
*
16207111 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
16207142 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
16207172 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:16208412 original size:36 final size:36
Alignment explanation
Indices: 16208365--16208436 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
16208355 ATGGTAAGTA
16208365 AGACTTGAGGTAAGTATGTGAAATTGATATGAATAT
1 AGACTTGAGGTAAGTATGTGAAATTGATATGAATAT
16208401 AGACTTGAGGTAAGTATGTGAAATTGATATGAATAT
1 AGACTTGAGGTAAGTATGTGAAATTGATATGAATAT
16208437 TGAGTGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (36 bp):
AGACTTGAGGTAAGTATGTGAAATTGATATGAATAT
Found at i:16208781 original size:39 final size:39
Alignment explanation
Indices: 16208674--16208808 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
16208664 GACCTCGAGT
* * *
16208674 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGAATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGACTAG-TC
** ** * *
16208715 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGACTAGTC
16208753 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-ACTAGTC
*
16208792 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
16208809 CCATATTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.25
39 35 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGACTAGTC
Found at i:16214862 original size:5 final size:5
Alignment explanation
Indices: 16214852--16214882 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
16214842 AATAATTAAG
16214852 TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT
16214883 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:16214952 original size:31 final size:30
Alignment explanation
Indices: 16214917--16214977 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
16214907 GAAACAGAAT
*
16214917 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
16214948 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
16214978 AATAAGGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:16216551 original size:39 final size:39
Alignment explanation
Indices: 16216444--16216578 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
16216434 GACCTCGAGT
* * * *
16216444 CGATGAGACACTGAGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
16216485 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
16216523 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
16216562 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
16216579 CCATATTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 14 0.19
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:16220542 original size:32 final size:32
Alignment explanation
Indices: 16220506--16220571 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
16220496 TGTCCCTAGG
16220506 ATAGACCCTCGAGGCCCAAAATGAATGTTAGA
1 ATAGACCCTCGAGGCCCAAAATGAATGTTAGA
16220538 ATAGACCCTCGAGGCCCAAAATGAATGTTAGA
1 ATAGACCCTCGAGGCCCAAAATGAATGTTAGA
16220570 AT
1 AT
16220572 TGGGTCGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (32 bp):
ATAGACCCTCGAGGCCCAAAATGAATGTTAGA
Found at i:16224932 original size:52 final size:49
Alignment explanation
Indices: 16224749--16224941 Score: 191
Period size: 47 Copynumber: 4.0 Consensus size: 49
16224739 TGCACATAGT
* ** * * *
16224749 CACATATCACA-TACCGAGGCCATAGCCCAGCCACGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
16224797 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
16224844 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
16224891 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAA
16224942 ATCACATTTC
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
46 24 0.20
47 54 0.45
48 11 0.09
49 1 0.01
52 31 0.26
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:16230429 original size:25 final size:26
Alignment explanation
Indices: 16230399--16230554 Score: 91
Period size: 25 Copynumber: 6.3 Consensus size: 26
16230389 CATCCTAATA
16230399 AATGGCTCTCT-TGAGCTTCCC-ATT
1 AATGGCTCTCTATGAGCTTCCCGATT
*
16230423 ATTTGGCTCT-TATGAGCTTCCCGATT
1 A-ATGGCTCTCTATGAGCTTCCCGATT
* **
16230449 AATGGCTCTCCA-GAGCTTTTCGA-T
1 AATGGCTCTCTATGAGCTTCCCGATT
* * *
16230473 ATTGGCT-TGC-ATGAGCTTTCTGATT
1 AATGGCTCT-CTATGAGCTTCCCGATT
* * *
16230498 -ACGACTCT-TATGAGTTTCCCG-TT
1 AATGGCTCTCTATGAGCTTCCCGATT
* *
16230521 ACATGGCTCAC-ATGAGCTTCCCGTTT
1 A-ATGGCTCTCTATGAGCTTCCCGATT
*
16230547 CATGGCTC
1 AATGGCTC
16230555 GAAAGAGCTT
Statistics
Matches: 100, Mismatches: 19, Indels: 25
0.69 0.13 0.17
Matches are distributed among these distances:
23 4 0.04
24 31 0.31
25 58 0.58
26 7 0.07
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (26 bp):
AATGGCTCTCTATGAGCTTCCCGATT
Found at i:16230465 original size:50 final size:50
Alignment explanation
Indices: 16230371--16230466 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
16230361 GAGCGTCCTG
* * **
16230371 TTATTTAGCTTTTATGAGCATCCTAATAAATGGCTCTCTTGAGCTTCCCA
1 TTATTTAGCTCTTATGAGCATCCCAATAAATGGCTCTCCAGAGCTTCCCA
* * * *
16230421 TTATTTGGCTCTTATGAGCTTCCCGATTAATGGCTCTCCAGAGCTT
1 TTATTTAGCTCTTATGAGCATCCCAATAAATGGCTCTCCAGAGCTT
16230467 TTCGATATTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (50 bp):
TTATTTAGCTCTTATGAGCATCCCAATAAATGGCTCTCCAGAGCTTCCCA
Found at i:16230562 original size:25 final size:25
Alignment explanation
Indices: 16230513--16230566 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
16230503 TCTTATGAGT
*
16230513 TTCCCGTTACATGGCTCACATGAGC
1 TTCCCGTTACATGGCTCACAAGAGC
*
16230538 TTCCCGTTTCATGGCTCGA-AAGAGC
1 TTCCCGTTACATGGCTC-ACAAGAGC
16230563 TTCC
1 TTCC
16230567 TGATTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.30
Consensus pattern (25 bp):
TTCCCGTTACATGGCTCACAAGAGC
Found at i:16231649 original size:46 final size:46
Alignment explanation
Indices: 16231599--16231727 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
16231589 TGGTTGAGCA
*
16231599 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
16231645 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
16231691 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16231728 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:16238710 original size:46 final size:46
Alignment explanation
Indices: 16238660--16238835 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
16238650 TGGTTGAGCA
16238660 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16238706 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
16238751 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16238799 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16238836 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16238816 original size:93 final size:93
Alignment explanation
Indices: 16238657--16238828 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16238647 GGATGGTTGA
* *
16238657 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16238722 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
16238750 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16238815 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
16238829 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16248208 original size:68 final size:66
Alignment explanation
Indices: 16247994--16248201 Score: 221
Period size: 67 Copynumber: 3.2 Consensus size: 66
16247984 CATAATTTTG
* * * *
16247994 GCTCTCTTGTATACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CAGT--T-TATCTCG
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTCA-TCATATATCTCG
16248055 TA
65 TA
* * * * * *
16248057 GCTCTTTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCT-A-CATATATCC
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTCATCATATATCT
16248120 CGTA
63 CGTA
*
16248124 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATATCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCT-CATCAT-ATATCTC
16248189 GTA
64 GTA
16248192 GCTCTCTTGT
1 GCTCTCTTGT
16248202 ACACATGATG
Statistics
Matches: 118, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
63 18 0.15
64 25 0.21
66 26 0.22
67 30 0.25
68 19 0.16
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (66 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTCATCATATATCTCGT
A
Found at i:16252563 original size:38 final size:39
Alignment explanation
Indices: 16252479--16252613 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
16252469 ACCAATATGG
*
16252479 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
16252518 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
16252556 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
16252597 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
16252614 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:16254194 original size:5 final size:5
Alignment explanation
Indices: 16254176--16254221 Score: 83
Period size: 5 Copynumber: 9.0 Consensus size: 5
16254166 TTTCTTTTAT
16254176 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
16254222 CTTAATTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 35 0.88
6 5 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:16254882 original size:46 final size:46
Alignment explanation
Indices: 16254815--16255068 Score: 463
Period size: 46 Copynumber: 5.5 Consensus size: 46
16254805 GCTTTCTGAA
* * *
16254815 ATGAAATGTGTAAGCCCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
*
16254861 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAAGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
16254907 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
16254953 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
16254999 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
*
16255045 ATAAAATGTGTAAGACCATGGTTG
1 ATGAAATGTGTAAGACCATGGTTG
16255069 TGTAAGACCA
Statistics
Matches: 203, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 203 1.00
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
Found at i:16255072 original size:16 final size:16
Alignment explanation
Indices: 16255051--16255084 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16255041 GGATATAAAA
16255051 TGTGTAAGACCATGGT
1 TGTGTAAGACCATGGT
16255067 TGTGTAAGACCATGGT
1 TGTGTAAGACCATGGT
16255083 TG
1 TG
16255085 AAAGATACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (16 bp):
TGTGTAAGACCATGGT
Found at i:16255122 original size:45 final size:47
Alignment explanation
Indices: 16255071--16255197 Score: 159
Period size: 45 Copynumber: 2.7 Consensus size: 47
16255061 CATGGTTGTG
**
16255071 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-GGGAAT-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGGAA
* *
16255116 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGGGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT-GGAA
* * * *
16255164 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
16255198 TCAAAGATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 35 0.50
46 4 0.06
48 31 0.44
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (47 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGGAA
Found at i:16255499 original size:16 final size:17
Alignment explanation
Indices: 16255478--16255510 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16255468 ACGATGGAGC
16255478 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
16255494 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
16255511 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:16261984 original size:5 final size:5
Alignment explanation
Indices: 16261974--16262001 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16261964 AACAATAAAA
16261974 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
16262002 TATGTGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:16263701 original size:29 final size:27
Alignment explanation
Indices: 16263638--16263701 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 27
16263628 TTAAAATACA
*
16263638 TATATAAAATTACATGGAATCAAAATT
1 TATATAAAATTACATGAAATCAAAATT
* *
16263665 TATTTATAAAATTACATATAACATCGAAATT
1 TA--TATAAAATTACAT-GAA-ATCAAAATT
16263696 TATATA
1 TATATA
16263702 TTCCCTTGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.07
29 17 0.57
30 1 0.03
31 10 0.33
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (27 bp):
TATATAAAATTACATGAAATCAAAATT
Found at i:16268566 original size:41 final size:41
Alignment explanation
Indices: 16268504--16268587 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
16268494 ATATGGGCCG
16268504 GGCTAGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTT
1 GGCTAGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTT
*
16268545 GGCTGGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTT
1 GGCTAGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTT
16268586 GG
1 GG
16268588 ACAAATTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.38
Consensus pattern (41 bp):
GGCTAGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTT
Found at i:16282888 original size:15 final size:15
Alignment explanation
Indices: 16282853--16282893 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
16282843 TATCTCTACT
*
16282853 ATATTAATAT-TAAA
1 ATATTAATATAAAAA
16282867 ATATTAATCATAAAAA
1 ATATTAAT-ATAAAAA
16282883 AT-TTAATATAA
1 ATATTAATATAA
16282894 TAAGATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATTAATATAAAAA
Found at i:16299164 original size:23 final size:22
Alignment explanation
Indices: 16299127--16299168 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
16299117 GATCTTAAGA
16299127 TAAGCTTTTTCTTTTTAAATTC
1 TAAGCTTTTTCTTTTTAAATTC
*
16299149 TAAGCTTTTTTTTTTTAAAT
1 TAAGCTTTTTCTTTTTAAAT
16299169 AATCACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (22 bp):
TAAGCTTTTTCTTTTTAAATTC
Found at i:16301362 original size:12 final size:12
Alignment explanation
Indices: 16301345--16301369 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16301335 CCAGGTAATG
16301345 AACGTTGGAGAA
1 AACGTTGGAGAA
16301357 AACGTTGGAGAA
1 AACGTTGGAGAA
16301369 A
1 A
16301370 GTAACTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.32, T:0.16
Consensus pattern (12 bp):
AACGTTGGAGAA
Found at i:16309493 original size:47 final size:47
Alignment explanation
Indices: 16309427--16309571 Score: 173
Period size: 47 Copynumber: 3.0 Consensus size: 47
16309417 TTACACGGAT
* *
16309427 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATATAGAAG
* **
16309474 CACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATATAGAAG
* * *
16309521 CACATATCACATTTCTCCGAAGCCATAACCCAGCTATGGTCTTATATAGAA
1 CACATATCACA-----CCGATGCCATATCCCAGATATGGTCTTATATAGAA
16309572 ATTACATTTC
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
47 53 0.65
52 29 0.35
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATATAGAAG
Found at i:16313816 original size:20 final size:20
Alignment explanation
Indices: 16313779--16313816 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16313769 TAATGGGGAG
*
16313779 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
16313799 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
16313817 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:16319382 original size:46 final size:46
Alignment explanation
Indices: 16319330--16319557 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
16319320 AGTGTGCTCT
*
16319330 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16319376 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16319422 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
16319468 ATGATATGAAATGAACAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
16319514 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
16319558 TCATGTCAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16320886 original size:23 final size:24
Alignment explanation
Indices: 16320846--16320912 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
16320836 ATTTAAGCAA
* *
16320846 ATAATAATTATTACTAAAATATAAT
1 ATAATAATTA-TAATAAAATATAAC
*
16320871 ATAATAA-TATAATAAAACATAAC
1 ATAATAATTATAATAAAATATAAC
*
16320894 ATAA-AATTAAAATAAAATA
1 ATAATAATTATAATAAAATA
16320913 AAGAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 2 0.06
23 25 0.69
24 2 0.06
25 7 0.19
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
ATAATAATTATAATAAAATATAAC
Found at i:16321731 original size:18 final size:17
Alignment explanation
Indices: 16321690--16321732 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
16321680 TTGAAATGGT
*
16321690 TTGAAATTGTATATTGA
1 TTGAAATTGAATATTGA
*
16321707 TTGGAAATTGAATTATTTA
1 TT-GAAATTGAA-TATTGA
16321726 TTGAAAT
1 TTGAAAT
16321733 ACCCTGTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 13 0.59
19 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (17 bp):
TTGAAATTGAATATTGA
Found at i:16322168 original size:12 final size:13
Alignment explanation
Indices: 16322149--16322176 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16322139 TGAAAAATGG
16322149 ATTAAAAATATTT
1 ATTAAAAATATTT
16322162 ATTAAAAATATTT
1 ATTAAAAATATTT
16322175 AT
1 AT
16322177 GAAGTTAATC
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAAAAATATTT
Found at i:16322739 original size:31 final size:32
Alignment explanation
Indices: 16322690--16322753 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
16322680 ATATTAAATA
*
16322690 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
16322721 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
16322753 A
1 A
16322754 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:16325384 original size:15 final size:15
Alignment explanation
Indices: 16325361--16325404 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
16325351 TATCAAATTT
16325361 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
16325376 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
16325391 ATATTGATTGAAAT
1 ATATTGATTGAAAT
16325405 ATAATATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:16325951 original size:19 final size:18
Alignment explanation
Indices: 16325913--16325952 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
16325903 ATGAAATGAT
16325913 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
16325931 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
16325950 AAA
1 AAA
16325953 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:16328804 original size:20 final size:18
Alignment explanation
Indices: 16328779--16328815 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
16328769 ATTGCTAAGT
16328779 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
16328799 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
16328816 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:16329428 original size:46 final size:46
Alignment explanation
Indices: 16329378--16329551 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
16329368 GTTGAGCATC
16329378 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
* * * *
16329424 CGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TT
* * **
16329471 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
*
16329517 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16329552 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
Found at i:16329542 original size:93 final size:93
Alignment explanation
Indices: 16329373--16329543 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
16329363 GGATGGTTGA
* **
16329373 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
16329438 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
16329466 GCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16329531 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16329544 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16337146 original size:46 final size:46
Alignment explanation
Indices: 16337086--16337313 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
16337076 TTTGACATGA
* * * * * ** *
16337086 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
16337132 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
16337178 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
16337224 TGTCATGGTATCCTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
16337270 TGCCATGGTATCCTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
16337314 AGAGCACACT
Statistics
Matches: 163, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 159 0.98
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:16339816 original size:21 final size:21
Alignment explanation
Indices: 16339775--16339816 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16339765 AGAAAATGAC
*
16339775 TAAATTGGAAATTAAATTAAT
1 TAAATTGGAAATTAAACTAAT
*
16339796 TAAATATGGAAA-TAAGCTAAT
1 TAAAT-TGGAAATTAAACTAAT
16339817 ATCATCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (21 bp):
TAAATTGGAAATTAAACTAAT
Found at i:16344585 original size:15 final size:15
Alignment explanation
Indices: 16344565--16344593 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16344555 TTTGTATGCT
16344565 ATTTTTTTTATATAA
1 ATTTTTTTTATATAA
16344580 ATTTTTTTTATATA
1 ATTTTTTTTATATA
16344594 TACACTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTTTATATAA
Found at i:16348168 original size:50 final size:50
Alignment explanation
Indices: 16348110--16348214 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
16348100 TTTTAATGTG
16348110 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
16348159 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
16348209 AGTATT
1 AGTATT
16348215 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:16349167 original size:131 final size:131
Alignment explanation
Indices: 16348927--16349508 Score: 755
Period size: 131 Copynumber: 4.5 Consensus size: 131
16348917 TACATATTCA
* * * ** *
16348927 TTTAAAAATTCTTTAAAATGAAGGCAATACTCGGTGTTTGGCAATTC-GGGAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAATCAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * * * *
16348991 GTGCTGGATTGCGATTT-CTCGTTTATTAAAAAAAATCGAATATTCCTTTGGGATTTCACTCATG
66 GTACTGGGTTGCGATTTCCT-GTTTGTTCAAAATAATCGAACATTCCTTTGGAATTTCACTCATG
16349055 -C
130 TC
* * *
16349056 TTTTAAAAATTCTTCAAAATGAAGGTAATGTTCAATGTTTAGCAATTCGGGGAATCGTGCCCTAT
1 -TTTAAAAATTCTTCAAAATCAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* *
16349121 CGTACTGGGTTGCGATTTCCTGTTTTTTCAAAATAATCGAACATTCCTTTGGAATTTCATTCATG
65 CGTACTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAACATTCCTTTGGAATTTCACTCATG
16349186 TC
130 TC
*
16349188 TTTAAAAATTCTTCAAAACCAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAATCAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
*
16349253 GTACTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAACATTCCTTTGGAATTTCATTCATGT
66 GTACTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAACATTCCTTTGGAATTTCACTCATGT
16349318 C
131 C
* * *
16349319 TTTAAAAATTCTTCAAAACCAAGGTAATGTTCGATGTTTGGCAATTCAGGGAATCGTGCCCTATT
1 TTTAAAAATTCTTCAAAATCAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * *
16349384 GTGCTGGGTTGCGATCTCCTGTTTGTTCCAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
66 GTACTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAACATTCCTTTGGAATTTCACTCATGT
16349449 -
131 C
* ** * * * * * * *
16349449 TCTCCAAATTC-T-AAAAT-AAGGCAATGTCCCATGTTTAGAAATTCGAGGAGTCGTGCCCTA
1 TTTAAAAATTCTTCAAAATCAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTA
16349509 CTATGTTGGG
Statistics
Matches: 409, Mismatches: 40, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
127 35 0.09
128 4 0.01
129 1 0.00
130 48 0.12
131 318 0.78
132 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCTTCAAAATCAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTACTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAACATTCCTTTGGAATTTCACTCATGT
C
Found at i:16362233 original size:20 final size:20
Alignment explanation
Indices: 16362208--16362252 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
16362198 GCATCAGTAT
16362208 TTTTATCTTGAATTGTAAGA
1 TTTTATCTTGAATTGTAAGA
* *
16362228 TTTTATCTTGAATTTTAATA
1 TTTTATCTTGAATTGTAAGA
16362248 TTTTA
1 TTTTA
16362253 ATTTAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTTATCTTGAATTGTAAGA
Found at i:16370708 original size:33 final size:33
Alignment explanation
Indices: 16370671--16370737 Score: 93
Period size: 32 Copynumber: 2.0 Consensus size: 33
16370661 AACATGGTTG
16370671 AAGTTTAAAAATCATTATA-AAAATTATA-AAATA
1 AAGTTT-AAAA-CATTATATAAAATTATATAAATA
*
16370704 AAGTTTAAAACATTATATAAAATTTTATAAATA
1 AAGTTTAAAACATTATATAAAATTATATAAATA
16370737 A
1 A
16370738 CTTTTTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 7 0.23
32 12 0.39
33 12 0.39
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (33 bp):
AAGTTTAAAACATTATATAAAATTATATAAATA
Found at i:16379536 original size:38 final size:38
Alignment explanation
Indices: 16379449--16379558 Score: 148
Period size: 38 Copynumber: 2.8 Consensus size: 38
16379439 ATATCCGAGT
* * *
16379449 TAAATTCCGCAGGCTTCGTGCTGGTAATATATATCTGGGT
1 TAAATCCCGCAGGCTTCGTGCTGGT-AT-TATATCTAGGA
*
16379489 TAAAACCCGCAGGCTTCGTGCTGGTATTATATCTAGGA
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCTAGGA
* *
16379527 TAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATAT
16379559 TCGGGCTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
38 38 0.60
39 2 0.03
40 23 0.37
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (38 bp):
TAAATCCCGCAGGCTTCGTGCTGGTATTATATCTAGGA
Found at i:16379719 original size:43 final size:43
Alignment explanation
Indices: 16379556--16379709 Score: 254
Period size: 43 Copynumber: 3.6 Consensus size: 43
16379546 GCTGGTATTA
* * *
16379556 TATTCGGGCTTTCGTGCCTAGCAGGCTTCGTGCTGGTGACGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
16379599 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
16379642 TATTCGGGCCTCCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
16379685 TATTCAGGCCTTCGTGCCTAGCAGG
1 TATTCGGGCCTTCGTGCCTAGCAGG
16379710 GGTAATGCCG
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:16380152 original size:43 final size:44
Alignment explanation
Indices: 16380042--16380165 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 44
16380032 ATTTGATTAT
* * * *
16380042 TTGGGCCTTTGAGCTTAGCAGACTATAATGCCGGTGAGATACTA
1 TTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATACTA
16380086 TTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TA
1 TT-GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT-ACTA
*
16380131 TTGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
16380166 TTTGAGAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
42 11 0.15
43 16 0.22
44 7 0.10
45 38 0.52
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (44 bp):
TTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATACTA
Found at i:16382074 original size:53 final size:53
Alignment explanation
Indices: 16382003--16382138 Score: 193
Period size: 53 Copynumber: 2.6 Consensus size: 53
16381993 TGCGCTCGTT
* *
16382003 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATTGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACTCCGTA
* * *
16382056 TAAGGCCATTGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATTGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACTCCGTA
* *
16382109 TAAGACCA-TGTCTGGGATATGGCTTCGGTA
1 TAAGACCATTG-CTGGGCTATGGCATCGGTA
16382139 TGATATGTGA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 2 0.03
53 72 0.97
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (53 bp):
TAAGACCATTGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACTCCGTA
Found at i:16385574 original size:11 final size:11
Alignment explanation
Indices: 16385558--16385598 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
16385548 AGTGGTGTGC
16385558 CTAATTAGGTT
1 CTAATTAGGTT
16385569 CTAATTAGG-T
1 CTAATTAGGTT
*
16385579 -GAATTAGGTT
1 CTAATTAGGTT
16385589 CTAATTAGGT
1 CTAATTAGGT
16385599 GAATTTAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 7 0.27
10 2 0.08
11 17 0.65
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (11 bp):
CTAATTAGGTT
Found at i:16385585 original size:20 final size:20
Alignment explanation
Indices: 16385560--16385603 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
16385550 TGGTGTGCCT
16385560 AATTAGGTTCTAATTAGGTG
1 AATTAGGTTCTAATTAGGTG
16385580 AATTAGGTTCTAATTAGGTG
1 AATTAGGTTCTAATTAGGTG
16385600 AATT
1 AATT
16385604 TAGCTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.41
Consensus pattern (20 bp):
AATTAGGTTCTAATTAGGTG
Found at i:16385989 original size:23 final size:24
Alignment explanation
Indices: 16385963--16386021 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
16385953 ATAATGACAA
*
16385963 TTGTAATAAAA-ATAT-TGGTACAT
1 TTGTAATAAAAGATATAT-GTACAC
16385986 TTGTAATAAATAGATATATGTACAC
1 TTGTAATAAA-AGATATATGTACAC
*
16386011 TTGTTATAAAA
1 TTGTAATAAAA
16386022 TAATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 18 0.58
26 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (24 bp):
TTGTAATAAAAGATATATGTACAC
Found at i:16387604 original size:47 final size:47
Alignment explanation
Indices: 16387545--16387645 Score: 141
Period size: 47 Copynumber: 2.1 Consensus size: 47
16387535 CCTTGTGTGT
** * *
16387545 CGTACTGTTACTG-TTACTTCGGTTTAATCCGATGAGGTACTGAGTAC
1 CGTACTGTTACTGTTTACTTCGG-CAAAGCCGATGAGGCACTGAGTAC
*
16387592 CGTACTGTTACTGTTTACTTCGGCAAAGCCGATGAGGCACTGAGTGC
1 CGTACTGTTACTGTTTACTTCGGCAAAGCCGATGAGGCACTGAGTAC
16387639 CGTACTG
1 CGTACTG
16387646 GTGTGTTGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 39 0.81
48 9 0.19
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (47 bp):
CGTACTGTTACTGTTTACTTCGGCAAAGCCGATGAGGCACTGAGTAC
Found at i:16391422 original size:50 final size:50
Alignment explanation
Indices: 16391298--16391546 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
16391288 GATAATAACA
* * ** * *
16391298 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
16391349 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
16391399 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
16391449 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
16391504 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
16391547 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:16391476 original size:100 final size:104
Alignment explanation
Indices: 16391297--16391546 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
16391287 TGATAATAAC
**
16391297 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
16391362 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
16391399 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
16391462 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
16391504 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16391547 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:16391662 original size:13 final size:13
Alignment explanation
Indices: 16391641--16391672 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16391631 GCTTGGATCA
*
16391641 TCATCAAATAAAT
1 TCATAAAATAAAT
16391654 TCATAAAATAAAT
1 TCATAAAATAAAT
16391667 TCATAA
1 TCATAA
16391673 TTGTTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:16392688 original size:17 final size:17
Alignment explanation
Indices: 16392666--16392771 Score: 68
Period size: 20 Copynumber: 5.5 Consensus size: 17
16392656 CTTCCTTCCT
16392666 TCTCTGTTTTGTTTTGC
1 TCTCTGTTTTGTTTTGC
* *
16392683 TCTCTGTTTCTTTCTTTCTCCC
1 TCTCTG--T-TTTGTTT-T-GC
16392705 TTCTCTGTTTTGTTTTGC
1 -TCTCTGTTTTGTTTTGC
* *
16392723 TCTCTGTTTCTTTCTTTCTCCC
1 TCTCTG--T-TTTGTTT-T-GC
16392745 TTCTCTGTTTTGTTTTGC
1 -TCTCTGTTTTGTTTTGC
16392763 TCTCTGTTT
1 TCTCTGTTT
16392772 CTTTTCTTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
17 21 0.30
18 2 0.03
19 4 0.06
20 24 0.35
21 4 0.06
22 2 0.03
23 12 0.17
ACGTcount: A:0.00, C:0.25, G:0.11, T:0.63
Consensus pattern (17 bp):
TCTCTGTTTTGTTTTGC
Found at i:16392709 original size:23 final size:23
Alignment explanation
Indices: 16392683--16392754 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 23
16392673 TTTGTTTTGC
16392683 TCTCTGTTTCTTTCTTTCTCCCT
1 TCTCTGTTTCTTTCTTTCTCCCT
* *
16392706 TCTCTG--T-TTTGTTT-T-GC-
1 TCTCTGTTTCTTTCTTTCTCCCT
16392723 TCTCTGTTTCTTTCTTTCTCCCT
1 TCTCTGTTTCTTTCTTTCTCCCT
16392746 TCTCTGTTT
1 TCTCTGTTT
16392755 TGTTTTGCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
17 6 0.15
18 1 0.03
19 2 0.05
20 12 0.31
21 2 0.05
22 1 0.03
23 15 0.38
ACGTcount: A:0.00, C:0.29, G:0.08, T:0.62
Consensus pattern (23 bp):
TCTCTGTTTCTTTCTTTCTCCCT
Found at i:16392710 original size:40 final size:40
Alignment explanation
Indices: 16392648--16392782 Score: 234
Period size: 40 Copynumber: 3.3 Consensus size: 40
16392638 CTTTTCTTTC
* *
16392648 TTTCTTTCCTTCCTTCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
16392689 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
16392729 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
16392769 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
16392783 TTCTTTGTCA
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 75 0.82
41 16 0.18
ACGTcount: A:0.00, C:0.27, G:0.09, T:0.64
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
Found at i:16392808 original size:3 final size:3
Alignment explanation
Indices: 16392800--16392853 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
16392790 TCATATATAT
*
16392800 ATA ATA ATA AT- ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16392843 ATA AT- ATA ATA
1 ATA ATA ATA ATA
16392854 TAAAACATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 12 0.28
3 31 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:16392816 original size:5 final size:5
Alignment explanation
Indices: 16392792--16392856 Score: 75
Period size: 5 Copynumber: 13.2 Consensus size: 5
16392782 TTTCTTTGTC
16392792 ATATA TATATA ATAATA ATAT- A-ATA ATATA ATATA ATATA ATAT- AT-TA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
16392840 ATAATA ATATA ATATA A
1 AT-ATA ATATA ATATA A
16392857 AACATAATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
3 3 0.06
4 6 0.11
5 30 0.57
6 14 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:16392816 original size:8 final size:8
Alignment explanation
Indices: 16392803--16392856 Score: 58
Period size: 8 Copynumber: 6.5 Consensus size: 8
16392793 TATATATATA
16392803 ATAATAAT
1 ATAATAAT
16392811 ATAATAAT
1 ATAATAAT
16392819 ATAATATAAT
1 AT-A-ATAAT
16392829 ATAAT-AT
1 ATAATAAT
16392836 ATTAATAAT
1 A-TAATAAT
16392845 A-ATATAAT
1 ATA-ATAAT
16392853 ATAA
1 ATAA
16392857 AACATAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
7 4 0.10
8 23 0.57
9 6 0.15
10 7 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATAAT
Found at i:16392843 original size:29 final size:28
Alignment explanation
Indices: 16392792--16392856 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 28
16392782 TTTCTTTGTC
16392792 ATATATATATAATAATAATATAATAATATA
1 ATATA-ATATAAT-ATAATATAATAATATA
*
16392822 ATATAATATAATATATTAATAATAATATA
1 ATATAATATAATATAAT-ATAATAATATA
16392851 ATATAA
1 ATATAA
16392857 AACATAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 4 0.12
29 24 0.73
30 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
ATATAATATAATATAATATAATAATATA
Found at i:16393527 original size:53 final size:53
Alignment explanation
Indices: 16393386--16393536 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
16393376 ATAAGTGCGC
* * **
16393386 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATTGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
16393439 CCGTATAAGACCATTGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATTGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* * *
16393492 CCGTATAAGACTA-TGTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATTG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
16393537 ACCGTGTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 2 0.02
53 78 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (53 bp):
CCGTATAAGACCATTGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:16396099 original size:41 final size:41
Alignment explanation
Indices: 16395933--16396088 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
16395923 TTTATCGTTA
* *
16395933 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16395974 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16396015 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
16396056 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
16396089 AAGAGCCGGT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:16396359 original size:33 final size:32
Alignment explanation
Indices: 16396303--16396366 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
16396293 ATAGATATGT
16396303 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
16396335 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
16396367 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:16396383 original size:33 final size:33
Alignment explanation
Indices: 16396310--16396383 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
16396300 TGTATATATA
* * **
16396310 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
16396342 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
16396375 TGTATGTAT
1 TATATGTAT
16396384 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:16411506 original size:52 final size:51
Alignment explanation
Indices: 16411435--16411839 Score: 489
Period size: 52 Copynumber: 8.1 Consensus size: 51
16411425 ATCAAGTGAC
* *
16411435 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
16411487 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
16411533 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
16411584 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
16411631 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
16411683 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
16411729 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
16411780 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
16411833 ATAAGTG
1 A-AAGTG
16411840 GCTACACTTA
Statistics
Matches: 303, Mismatches: 30, Indels: 39
0.81 0.08 0.10
Matches are distributed among these distances:
46 126 0.42
52 168 0.55
53 9 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:16411590 original size:98 final size:98
Alignment explanation
Indices: 16411421--16411840 Score: 741
Period size: 98 Copynumber: 4.3 Consensus size: 98
16411411 TTTGAGTACT
16411421 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
16411486 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
16411519 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
16411584 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
16411617 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
16411682 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* **
16411715 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* ** *
16411780 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
16411813 TCTGATCAAGAGACAGAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
16411841 CTACACTTAT
Statistics
Matches: 309, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 309 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:16411917 original size:43 final size:37
Alignment explanation
Indices: 16411803--16411991 Score: 265
Period size: 37 Copynumber: 5.0 Consensus size: 37
16411793 GATAGCTTTA
* *
16411803 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
16411840 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
16411877 GCTACACTTATCTGATCAAGAACAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGAT------CAAGAAACAAAGTGATAAGTG
*
16411920 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
16411957 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
16411992 ATCATACGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 14
0.88 0.04 0.09
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 88 0.63
43 37 0.26
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:16411982 original size:80 final size:80
Alignment explanation
Indices: 16411819--16411974 Score: 285
Period size: 80 Copynumber: 1.9 Consensus size: 80
16411809 CTTATCTGAT
* *
16411819 CAAGAGACAGAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
1 CAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
16411884 TTATCTGATCAAGAA
66 TTATCTGATCAAGAA
*
16411899 CAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACAC
1 CAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
16411964 TTATCTGATCA
66 TTATCTGATCA
16411975 GGGACAAGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (80 bp):
CAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
TTATCTGATCAAGAA
Found at i:16413321 original size:58 final size:58
Alignment explanation
Indices: 16413244--16413411 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
16413234 CATGTGAACA
16413244 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
16413303 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
16413359 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
16413410 TG
1 TG
16413412 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:16413353 original size:28 final size:28
Alignment explanation
Indices: 16413263--16413353 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
16413253 GTGATTCCGT
16413263 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
16413291 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
16413320 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
16413349 GTAAG
1 GTAAG
16413354 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:16413376 original size:49 final size:49
Alignment explanation
Indices: 16413304--16413446 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
16413294 AGTGATATGT
* *
16413304 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
16413353 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
16413402 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
16413447 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:16416653 original size:52 final size:51
Alignment explanation
Indices: 16416582--16417043 Score: 569
Period size: 52 Copynumber: 9.3 Consensus size: 51
16416572 ATCAAGTGAC
* *
16416582 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
16416634 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
16416686 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
16416732 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
16416783 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
16416830 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
16416882 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
16416928 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
16416979 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
*
16417032 -ATGTGATAAGTG
1 AAAGTGATAAGTG
16417044 GCTACACTTA
Statistics
Matches: 360, Mismatches: 31, Indels: 39
0.84 0.07 0.09
Matches are distributed among these distances:
46 125 0.35
51 11 0.03
52 220 0.61
53 4 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:16416750 original size:98 final size:98
Alignment explanation
Indices: 16416574--16417063 Score: 684
Period size: 98 Copynumber: 5.0 Consensus size: 98
16416564 TACTTCTGAT
** ** *
16416574 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGT
* * *
16416639 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
59 GATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
16416679 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
16416744 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
66 GATAGCTTCAGCTACACTTATCTGATCAAGTGA
16416777 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
16416842 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
66 GATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
16416875 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
16416940 GATAGCTTCAGCTACACTTATCTGATCAAGTGA
66 GATAGCTTCAGCTACACTTATCTGATCAAGTGA
* ** * * *
16416973 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTGAT--GT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
*
16417036 GATAAG--T-GGCTACACTTATCTGATCAAG
66 GAT-AGCTTCAGCTACACTTATCTGATCAAG
16417064 AAACAAAGTG
Statistics
Matches: 361, Mismatches: 23, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
94 20 0.06
95 1 0.00
96 5 0.01
97 2 0.01
98 286 0.79
104 41 0.11
105 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
GATAGCTTCAGCTACACTTATCTGATCAAGTGA
Found at i:16416854 original size:150 final size:147
Alignment explanation
Indices: 16416568--16417033 Score: 592
Period size: 150 Copynumber: 3.1 Consensus size: 147
16416558 TTTGAGTACT
16416568 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGT-
16416633 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
65 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGT-GAAAGTGATAAGT
16416698 AATAGCTTCGGCTATACTTA
129 AATAGCTTC-GCTATACTTA
16416718 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
16416783 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----AAAGTGATAAGTG
66 -AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGAAAGTGATAAGTA
* * *
16416843 GTAGCTTTAGCTACACTTA
130 ATAGC-TTCGCTATACTTA
** ** *
16416862 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
* * *
16416927 C-----AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGA
60 CAAGTGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG-AAAGTGA
* * *
16416987 TAAGTGATAGCTTTAGCTACACTTA
124 TAAGTAATAGC-TTCGCTATACTTA
* *
16417012 TCTGATCAAGAGACAGAGTGAT
1 TCTGATCAAGTGACAAAGTGAT
16417034 GTGATAAGTG
Statistics
Matches: 287, Mismatches: 15, Indels: 34
0.85 0.04 0.10
Matches are distributed among these distances:
144 89 0.31
145 2 0.01
149 1 0.00
150 195 0.68
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (147 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGAAAGTGATAAGTAA
TAGCTTCGCTATACTTA
Found at i:16417084 original size:37 final size:37
Alignment explanation
Indices: 16417002--16417189 Score: 272
Period size: 37 Copynumber: 5.0 Consensus size: 37
16416992 GATAGCTTTA
*
16417002 GCTACACTTATCTGATCAAGAGACAGAGTGATGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACA-A---A-GTGATAAGTG
*
16417044 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
16417081 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
16417118 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
16417155 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
16417190 ATCATACGTA
Statistics
Matches: 139, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 98 0.71
38 1 0.01
41 1 0.01
42 24 0.17
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:16424174 original size:18 final size:18
Alignment explanation
Indices: 16424153--16424187 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16424143 ACTTTCTTGT
*
16424153 TAACATAAAATTCTTAAA
1 TAACATAAAATACTTAAA
*
16424171 TAACTTAAAATACTTAA
1 TAACATAAAATACTTAA
16424188 TAATTATCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
TAACATAAAATACTTAAA
Found at i:16424303 original size:13 final size:13
Alignment explanation
Indices: 16424265--16424305 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
16424255 TATATATAAT
* *
16424265 AAAAATTAAACCT
1 AAAACTTAAACCC
16424278 AAAACTTAAACCC
1 AAAACTTAAACCC
16424291 AAAACTTAAACCC
1 AAAACTTAAACCC
16424304 AA
1 AA
16424306 TATGAAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAACTTAAACCC
Found at i:16430722 original size:24 final size:24
Alignment explanation
Indices: 16430695--16430740 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16430685 TTATATACTT
16430695 TTATAATTA-AATTTAAATTTAAAA
1 TTAT-ATTATAATTTAAATTTAAAA
* *
16430719 TTATTTTATTATTTAAATTTAA
1 TTATATTATAATTTAAATTTAA
16430741 TTTGGGCCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATATTATAATTTAAATTTAAAA
Found at i:16440353 original size:21 final size:22
Alignment explanation
Indices: 16440324--16440370 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
16440314 CAGAAGGAGT
*
16440324 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
16440346 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
16440367 GAGT
1 GAGT
16440371 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:16447358 original size:20 final size:20
Alignment explanation
Indices: 16447298--16447358 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
16447288 TTAATCCAAA
*
16447298 TATATGTAATATTTTAATTTGT
1 TATAT-TAATA-TTTAATATGT
* **
16447320 TA-AGTTTATATTTTTTATGT
1 TATA-TTAATATTTAATATGT
16447340 TATATTAATATTTAATATG
1 TATATTAATATTTAATATG
16447359 AGTTATATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 21 0.70
21 6 0.20
22 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TATATTAATATTTAATATGT
Found at i:16455672 original size:20 final size:19
Alignment explanation
Indices: 16455626--16455684 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
16455616 AAAAGAAGAG
* **
16455626 AAAATTAAAATTAATTCTA
1 AAAAATAAAATTAATTAAA
16455645 AAAAATAAAATTAATTAAA
1 AAAAATAAAATTAATTAAA
16455664 AATAAATAAAAATT-ATTAAA
1 AA-AAAT-AAAATTAATTAAA
16455684 A
1 A
16455685 TTTGGTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.51
20 11 0.31
21 6 0.17
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATAAAATTAATTAAA
Found at i:16457287 original size:25 final size:25
Alignment explanation
Indices: 16457259--16457310 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
16457249 TTTGGCTTGA
*
16457259 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
16457284 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
16457309 CA
1 CA
16457311 AATTATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:16457457 original size:34 final size:34
Alignment explanation
Indices: 16457414--16457482 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
16457404 AGCATGTGAT
* *
16457414 CAATTTATGCATAAGTCACTCACATATTTTCCTC
1 CAATTTATGCATAAATCACTCACATAATTTCCTC
16457448 CAATTTATGCATAAATCACTCACATAATTTCCTC
1 CAATTTATGCATAAATCACTCACATAATTTCCTC
16457482 C
1 C
16457483 TCCTCCTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (34 bp):
CAATTTATGCATAAATCACTCACATAATTTCCTC
Found at i:16458473 original size:25 final size:23
Alignment explanation
Indices: 16458421--16458475 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
16458411 TATAAATAGT
16458421 AATAGTGTTAGATATATACTATA
1 AATAGTGTTAGATATATACTATA
* *
16458444 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAG-A-TATATACTAT-A
16458469 AATAGTG
1 AATAGTG
16458476 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.35
24 3 0.12
25 14 0.54
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (23 bp):
AATAGTGTTAGATATATACTATA
Found at i:16458614 original size:27 final size:28
Alignment explanation
Indices: 16458584--16458655 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
16458574 TAATATAATT
16458584 AAAATATATACATAAGATAACAT-GTA-G
1 AAAATATATACATAA-ATAACATAGTATG
* * * * *
16458611 AAAAAAAATATATAAATAATATAGTATT
1 AAAATATATACATAAATAACATAGTATG
16458639 AAAGATATATACATAAA
1 AAA-ATATATACATAAA
16458656 ATAGTATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 6 0.18
27 15 0.44
28 3 0.09
29 10 0.29
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAATATATACATAAATAACATAGTATG
Found at i:16458646 original size:25 final size:25
Alignment explanation
Indices: 16458541--16458749 Score: 100
Period size: 25 Copynumber: 8.6 Consensus size: 25
16458531 ATATAAAAAA
* * *
16458541 ATATGTACATAATATAGT-GTAAAA
1 ATATATACATAATATAGTATTAAAG
*
16458565 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
16458587 ATATATACATAAGATAACATGTAGAAAAAAA
1 ATATATACAT-A-AT-ATA-GT--ATTAAAG
*
16458618 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
16458643 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
16458668 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
16458692 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
16458714 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAGTATTAAAG
*
16458737 AAATATA-ATAATA
1 ATATATACATAATA
16458750 ACAAAAAAAG
Statistics
Matches: 142, Mismatches: 27, Indels: 33
0.70 0.13 0.16
Matches are distributed among these distances:
21 1 0.01
22 24 0.17
23 29 0.20
24 27 0.19
25 40 0.28
26 1 0.01
27 2 0.01
28 2 0.01
29 2 0.01
30 5 0.04
31 9 0.06
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Done.