Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 41 of 91
Found at i:14139629 original size:20 final size:19
Alignment explanation
Indices: 14139606--14139666 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
14139596 TAAAGGGGAG
14139606 AAAAAAAACATAATAATAAT
1 AAAAAAAA-ATAATAATAAT
*
14139626 AAAATAAAAATAATAAAAAT
1 AAAA-AAAAATAATAATAAT
14139646 ATAAAATAAAATAA-AATAAT
1 A-AAAA-AAAATAATAATAAT
14139666 A
1 A
14139667 TATATTAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 22 0.61
21 14 0.39
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAAAAATAATAATAAT
Found at i:14139633 original size:5 final size:5
Alignment explanation
Indices: 14139617--14139664 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
14139607 AAAAAAACAT
14139617 AATAA TAATAA AATAAA AATAA TAA-AA ATATAA AATAA AATAA AATAA
1 AATAA -AATAA AAT-AA AATAA -AATAA A-ATAA AATAA AATAA AATAA
14139665 TATATATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
4 1 0.03
5 22 0.58
6 15 0.39
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:14139634 original size:23 final size:21
Alignment explanation
Indices: 14139608--14139668 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
14139598 AAGGGGAGAA
14139608 AAAAAACATAATAATAATAAAAT
1 AAAAAA-ATAATAAT-ATAAAAT
*
14139631 AAAAATAATAAAAATATAAAAT
1 AAAAA-AATAATAATATAAAAT
*
14139653 AAAATAA-AATAATATA
1 AAAAAAATAATAATATA
14139669 TATTAAGTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 8 0.24
21 2 0.06
22 11 0.32
23 12 0.35
24 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAAAATAATAATATAAAAT
Found at i:14139637 original size:17 final size:17
Alignment explanation
Indices: 14139617--14139664 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
14139607 AAAAAAACAT
14139617 AATAATAATAAAATAAA
1 AATAATAATAAAATAAA
14139634 AATAAT-A-AAAATATAA
1 AATAATAATAAAATA-AA
14139650 AATAA-AATAAAATAA
1 AATAATAATAAAATAA
14139665 TATATATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.21
16 10 0.36
17 12 0.43
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAATAATAAAATAAA
Found at i:14139669 original size:22 final size:24
Alignment explanation
Indices: 14139615--14139670 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
14139605 GAAAAAAAAC
14139615 ATAATAATA-ATAAAATAAAAATA
1 ATAATAATATATAAAATAAAAATA
14139638 ATAA-AA-ATATAAAAT-AAAATA
1 ATAATAATATATAAAATAAAAATA
14139659 A-AATAATATATA
1 ATAATAATATATA
14139671 TTAAGTGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.07
21 10 0.33
22 14 0.47
23 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (24 bp):
ATAATAATATATAAAATAAAAATA
Found at i:14144626 original size:20 final size:20
Alignment explanation
Indices: 14144589--14144628 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14144579 CTATAAATAT
*
14144589 CTCATTTCTCCAGCAGCTTC
1 CTCATTTCTCCAACAGCTTC
* *
14144609 CTCATTTTTCCAATAGCTTC
1 CTCATTTCTCCAACAGCTTC
14144629 TTGTTCTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.35, G:0.07, T:0.40
Consensus pattern (20 bp):
CTCATTTCTCCAACAGCTTC
Found at i:14145309 original size:17 final size:19
Alignment explanation
Indices: 14145268--14145309 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
14145258 ACGTATATAT
14145268 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
14145289 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
14145306 ATGA
1 ATGA
14145310 TGTTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:14145346 original size:37 final size:37
Alignment explanation
Indices: 14145304--14145411 Score: 132
Period size: 37 Copynumber: 2.9 Consensus size: 37
14145294 TAATGTTGTG
14145304 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
14145341 TGATGAAT-TTGAAGTGCGCGAGTAGGGAGTGCACATA
1 TGATG-ATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* * *
14145378 TG-TGATGATAGAA-TGTGCAAGTATGGAGTGCACA
1 TGATGATG-TTGAAGTGTGCGAGTAGGGAGTGCACA
14145412 TGACGATGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
35 2 0.03
36 20 0.32
37 38 0.61
38 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.35, T:0.25
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:14145376 original size:35 final size:36
Alignment explanation
Indices: 14145304--14145428 Score: 105
Period size: 37 Copynumber: 3.4 Consensus size: 36
14145294 TAATGTTGTG
*
14145304 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGCGCGAGTAGGGAGTG-ACACA
*
14145341 TGATGAAT-TTGAAGTGCGCGAGTAGGGAGTGCACATA
1 TGATG-ATGTTGAAGTGCGCGAGTAGGGAGTG-ACACA
* * * *
14145378 TG-TGATGATAGAA-TGTGCAAGTATGGAGTG-CACA
1 TGATGATG-TTGAAGTGCGCGAGTAGGGAGTGACACA
* *
14145412 TGACGATGAATGAAGTG
1 TGATGATG-TTGAAGTG
14145429 GGGTGGTGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
34 5 0.07
35 10 0.14
36 18 0.25
37 38 0.52
38 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.35, T:0.25
Consensus pattern (36 bp):
TGATGATGTTGAAGTGCGCGAGTAGGGAGTGACACA
Found at i:14146764 original size:25 final size:25
Alignment explanation
Indices: 14146736--14146790 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
14146726 GCCTTCATTC
*
14146736 CTATCTTTTGTAATCATTTTTTTCA
1 CTATCTTTTGTAATCATATTTTTCA
14146761 CTATCTTTTGTAATCATATTTTTCA
1 CTATCTTTTGTAATCATATTTTTCA
14146786 CTATC
1 CTATC
14146791 ATACTCTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (25 bp):
CTATCTTTTGTAATCATATTTTTCA
Found at i:14146969 original size:64 final size:64
Alignment explanation
Indices: 14146868--14146990 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
14146858 TAAGAGAGAA
* * * * *
14146868 AAAGGTTATAACTTAGCCCTCAAAATATAGTATTTAAAGGTTGTGCTTGATCGTTGAAAGGCAT
1 AAAGGTTATAACTTAGCCCTCAAAAGATAGTATTTAAAGGTGGAGCTTGAACCTTGAAAGGCAT
* * * *
14146932 AAAGGTTATACCTTAGCCCTCAAAAGGTATTGTTTAAAGGTGGAGCTTGAACCTTGAAA
1 AAAGGTTATAACTTAGCCCTCAAAAGATAGTATTTAAAGGTGGAGCTTGAACCTTGAAA
14146991 AGGTAATGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (64 bp):
AAAGGTTATAACTTAGCCCTCAAAAGATAGTATTTAAAGGTGGAGCTTGAACCTTGAAAGGCAT
Found at i:14147042 original size:28 final size:28
Alignment explanation
Indices: 14146977--14147051 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
14146967 AAAGGTGGAG
* *
14146977 CTTGAACCTTGAAAAGGTAATGGTTATG
1 CTTGAACCTTGAAAAGGCAATGGTTATA
** *
14147005 CTTGGTCCTTGAAAGGGCAA-GAGTTATA
1 CTTGAACCTTGAAAAGGCAATG-GTTATA
*
14147033 CTTGAACCTTTAAAAGGCA
1 CTTGAACCTTGAAAAGGCA
14147052 TTGTATTGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (28 bp):
CTTGAACCTTGAAAAGGCAATGGTTATA
Found at i:14153162 original size:104 final size:103
Alignment explanation
Indices: 14152981--14153185 Score: 383
Period size: 104 Copynumber: 2.0 Consensus size: 103
14152971 TGAATTCTAA
14152981 TTACATATATGTAAAGAAATCTCAAGTTACATTTGAGGGGAGTAAGATGAGAAGAGAATTTTACA
1 TTACATATATGTAAAGAAATCTCAAGTTACATTTGAGGGGAGTAAGATGAGAAGAGAATTTTACA
14153046 ACTTCTAAATAAAATAGAGGAAAGGCAAGGCACACAAC
66 ACTTCTAAATAAAATAGAGGAAAGGCAAGGCACACAAC
14153084 TNTACATATATGTAAAGAAATCTCAAGTTACATTTGAGGGGAGTAAGATGAGAAGAGAATTTTAC
1 T-TACATATATGTAAAGAAATCTCAAGTTACATTTGAGGGGAGTAAGATGAGAAGAGAATTTTAC
* *
14153149 AACTTCTAAATAAAATAGAGGAAAGGTAGGGCACACA
65 AACTTCTAAATAAAATAGAGGAAAGGCAAGGCACACA
14153186 CTCCCTATTT
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
103 1 0.01
104 98 0.99
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (103 bp):
TTACATATATGTAAAGAAATCTCAAGTTACATTTGAGGGGAGTAAGATGAGAAGAGAATTTTACA
ACTTCTAAATAAAATAGAGGAAAGGCAAGGCACACAAC
Found at i:14161286 original size:21 final size:21
Alignment explanation
Indices: 14161260--14161306 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
14161250 TATTTCCTAA
14161260 GGAACTACCAAGTTTGCCTCC
1 GGAACTACCAAGTTTGCCTCC
14161281 GGAACTACCAAGTTTGCCTCC
1 GGAACTACCAAGTTTGCCTCC
14161302 GGAAC
1 GGAAC
14161307 GAGAGATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (21 bp):
GGAACTACCAAGTTTGCCTCC
Found at i:14163987 original size:37 final size:37
Alignment explanation
Indices: 14163946--14164056 Score: 134
Period size: 37 Copynumber: 3.0 Consensus size: 37
14163936 GGTGATGTTA
* *
14163946 AAGTGTGCGAGTAAGGAGTACACACATGATGATGATG
1 AAGTGTGCGAGTAGGGAGTGCACACATGATGATGATG
* *
14163983 AAGTGTACGAGTAGGGAGTGCACACATGATGATAAT-
1 AAGTGTGCGAGTAGGGAGTGCACACATGATGATGATG
* * * *
14164019 AGAGTGTGTGAGTGGGGAGTGCACAAATGATGAAGATG
1 A-AGTGTGCGAGTAGGGAGTGCACACATGATGATGATG
14164057 TATGTATATA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
36 1 0.02
37 61 0.98
ACGTcount: A:0.34, C:0.09, G:0.35, T:0.22
Consensus pattern (37 bp):
AAGTGTGCGAGTAGGGAGTGCACACATGATGATGATG
Found at i:14168677 original size:37 final size:36
Alignment explanation
Indices: 14168610--14168679 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 36
14168600 CCACCATATC
** *
14168610 TGCACTCCTACTCACACATTTCAATGTCATCATGTG
1 TGCACTCCTACTCACACACCTCAATATCATCATGTG
* *
14168646 TGCACTCTCTACTCGCACACCTCATTATCATCAT
1 TGCACTC-CTACTCACACACCTCAATATCATCAT
14168680 ACAACATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 7 0.25
37 21 0.75
ACGTcount: A:0.24, C:0.34, G:0.09, T:0.33
Consensus pattern (36 bp):
TGCACTCCTACTCACACACCTCAATATCATCATGTG
Found at i:14170414 original size:37 final size:37
Alignment explanation
Indices: 14170373--14170444 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
14170363 ATAATGTTGT
* **
14170373 ATGATGATAATGAGGTGTGCGAGTAGGGAGTGCACCC
1 ATGATGACAATGAAATGTGCGAGTAGGGAGTGCACCC
*
14170410 ATGATGACATTGAAATGTGCGAGTAGGGAGTGCAC
1 ATGATGACAATGAAATGTGCGAGTAGGGAGTGCAC
14170445 ATATGGTGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.29, C:0.12, G:0.36, T:0.22
Consensus pattern (37 bp):
ATGATGACAATGAAATGTGCGAGTAGGGAGTGCACCC
Found at i:14181315 original size:19 final size:19
Alignment explanation
Indices: 14181291--14181327 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14181281 TATTGAATGT
*
14181291 AAATTTGAATGACTTTGGA
1 AAATTTGAATCACTTTGGA
*
14181310 AAATTTGAGTCACTTTGG
1 AAATTTGAATCACTTTGG
14181328 TCGTTCTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (19 bp):
AAATTTGAATCACTTTGGA
Found at i:14185387 original size:55 final size:54
Alignment explanation
Indices: 14185287--14185401 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 54
14185277 CTCACTAACC
* * *
14185287 TTACGAGAACACTTGCTCACAACCTTCTAGTTTTAGTTAAGGTAAAACACAAAT
1 TTACAAGAACACTTGCTCACAACCTTCTAATTTTAGTTAAAGTAAAACACAAAT
*
14185341 TTACAAGAACACTTGCTCA-AGCCCATTCTAATTTCT-GTTAAAGTAAAACACAAAT
1 TTACAAGAACACTTGCTCACA-ACC-TTCTAATTT-TAGTTAAAGTAAAACACAAAT
*
14185396 ATACAA
1 TTACAA
14185402 AGTGTTTCCC
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 1 0.02
54 20 0.38
55 31 0.58
56 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
TTACAAGAACACTTGCTCACAACCTTCTAATTTTAGTTAAAGTAAAACACAAAT
Found at i:14207258 original size:40 final size:37
Alignment explanation
Indices: 14207210--14207314 Score: 122
Period size: 40 Copynumber: 2.7 Consensus size: 37
14207200 ACCCGGCTCA
14207210 TGTACATCCCCCCACATCGTGCACA-TAGCGGACACCATCG
1 TGTACATCCCCCCACATCGTGCACATTAG-GG---CCATCG
* *
14207250 TGTGCATCCCCCCCCACATCGTGCACAATTAGTGCCATCG
1 TGTACAT--CCCCCCACATCGTGCAC-ATTAGGGCCATCG
14207290 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
14207315 CGGGCACTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
37 1 0.02
38 17 0.29
40 18 0.31
42 17 0.29
43 2 0.03
44 3 0.05
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (37 bp):
TGTACATCCCCCCACATCGTGCACATTAGGGCCATCG
Found at i:14208738 original size:15 final size:15
Alignment explanation
Indices: 14208718--14208756 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14208708 TTGAAATAAA
14208718 ACTTTCCATTTTAAG
1 ACTTTCCATTTTAAG
* *
14208733 ACTTTCTATTTTAAT
1 ACTTTCCATTTTAAG
*
14208748 TCTTTCCAT
1 ACTTTCCAT
14208757 AATTAAAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.03, T:0.54
Consensus pattern (15 bp):
ACTTTCCATTTTAAG
Found at i:14209059 original size:78 final size:77
Alignment explanation
Indices: 14208964--14209342 Score: 476
Period size: 77 Copynumber: 4.9 Consensus size: 77
14208954 TGCTATCATA
* * *
14208964 TAATTTTTGGAATTTCTTTTAAAGTTAGGAAACAATTTCCTATTCTTTATGAATGACCTAAAATT
1 TAATTTTAGGAATTTCTTTTAAAG-TAGGAAACAATTTCCTATTCTTTATGAATCACCCAAAATT
14209029 AAAATTCTATCCT
65 AAAATTCTATCCT
* * * *** * *
14209042 TAATTTTAGGAATTTCTTTTAAAGTAGAAAATAATTTTCTATTCTTTGCAAATCATCCAAAACTA
1 TAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTATTCTTTATGAATCACCCAAAATTA
14209107 AAATTCTATCCT
66 AAATTCTATCCT
* * * *** * *
14209119 TAATTTTAGGAATTTCTTTTAAAGTAGAAAATAATTTTCTATTCTTTGCAAATCATCCAAAACTA
1 TAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTATTCTTTATGAATCACCCAAAATTA
14209184 AAATTCTATCCT
66 AAATTCTATCCT
* *
14209196 TAATTTTAGGAATTACTTTTAAAGTAGGAAACAATTTCCTATTCTTGATGAATCACCCAAAAATT
1 TAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTATTCTTTATGAATCACCC-AAAATT
14209261 -AAATATCTAT-CT
65 AAAAT-TCTATCCT
* * *
14209273 CTAATTTTAGGAATTGCTTTTAAAGTAAGAAACAATTTCCTAATT-TTTATGAATCACCCTAAAT
1 -TAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCT-ATTCTTTATGAATCACCCAAAAT
14209337 TAAAAT
64 TAAAAT
14209343 AGATGACAAT
Statistics
Matches: 271, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
77 180 0.66
78 88 0.32
79 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.41
Consensus pattern (77 bp):
TAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTATTCTTTATGAATCACCCAAAATTA
AAATTCTATCCT
Found at i:14210035 original size:73 final size:72
Alignment explanation
Indices: 14209856--14210048 Score: 203
Period size: 73 Copynumber: 2.6 Consensus size: 72
14209846 GTTTAGAAAT
* * * *
14209856 AGAACCAACTTAATCAACTAAG-AGATATTGTTAGTCGACTAAGTGCTTACTGCTAGAAGTCGAG
1 AGAACCAACTTAATCGACTAAGAAG-TA-TGTTAGTCGACTAAGAGCTTACTGCTAGAACTAGAG
* *
14209920 TTCAGAAAC
64 ATCAAAAAC
** * * *
14209929 AGAACTGACTTAATCGACTAAGAGGAATCGTTAGTCGACTAAGAGCTTATTGCCT-GAAACTAG-
1 AGAACCAACTTAATCGACTAAGAAGTAT-GTTAGTCGACTAAGAGCTTACTG-CTAG-AACTAGA
14209992 GATCAAAAGAC
63 GATCAAAA-AC
*
14210003 AGAACCAACTTAATCGACTAAGAAGTATGTTAGTTGACTAAGAGCT
1 AGAACCAACTTAATCGACTAAGAAGTATGTTAGTCGACTAAGAGCT
14210049 CTCTATCTGA
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
72 1 0.01
73 65 0.66
74 33 0.33
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (72 bp):
AGAACCAACTTAATCGACTAAGAAGTATGTTAGTCGACTAAGAGCTTACTGCTAGAACTAGAGAT
CAAAAAC
Found at i:14212735 original size:35 final size:33
Alignment explanation
Indices: 14212649--14212741 Score: 98
Period size: 35 Copynumber: 2.8 Consensus size: 33
14212639 TTTTACACTA
* *
14212649 GTTTTTCACGGGCTAAACTAAAACC-CAAAGTG
1 GTTTTTCACGGGCTAAACCAAAACCTCAAAATG
** * *
14212681 GTTTTTCAAAGGCTCAACCACAACCTTTCAAAATG
1 GTTTTTCACGGGCTAAACCAAAACC--TCAAAATG
*
14212716 GTTTTTCACGGGCTTAACCAAAACCT
1 GTTTTTCACGGGCTAAACCAAAACCT
14212742 AAAGCGGCTT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
32 20 0.42
33 1 0.02
35 27 0.56
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (33 bp):
GTTTTTCACGGGCTAAACCAAAACCTCAAAATG
Found at i:14212739 original size:67 final size:67
Alignment explanation
Indices: 14212622--14212808 Score: 180
Period size: 67 Copynumber: 2.8 Consensus size: 67
14212612 TGGCTTTTAC
* * * * * * * * *
14212622 AAGGCTCAGCCAAAACCTTTTACACTAGTTTTTCACGGGCTAAACTAAAACCCAAAGTGGTTTTT
1 AAGGCTCAACCAAAACCTTTCAAAATGGTTTTTCACGGGCTAAACCAAAACCCAAAGCGGCTTTC
14212687 CA
66 CA
* * *
14212689 AAGGCTCAACCACAACCTTTCAAAATGGTTTTTCACGGGCTTAACCAAAACCTAAAGCGGCTTTC
1 AAGGCTCAACCAAAACCTTTCAAAATGGTTTTTCACGGGCTAAACCAAAACCCAAAGCGGCTTTC
14212754 CA
66 CA
* * * * * *
14212756 AAGGCTGAACCAGAA-CTTACAACAATGGATTTT-ACCGGGATCAACCAAAACCC
1 AAGGCTCAACCAAAACCTTTCAA-AATGGTTTTTCA-CGGGCTAAACCAAAACCC
14212809 CACAACTAAC
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
66 7 0.07
67 92 0.93
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (67 bp):
AAGGCTCAACCAAAACCTTTCAAAATGGTTTTTCACGGGCTAAACCAAAACCCAAAGCGGCTTTC
CA
Found at i:14214829 original size:27 final size:27
Alignment explanation
Indices: 14214791--14214843 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
14214781 TCATTTTAAA
14214791 GCTCAAGAGAGAAGAGACAATTATAAT
1 GCTCAAGAGAGAAGAGACAATTATAAT
*
14214818 GCTCAAGTGAGAAGAGACAATTATAA
1 GCTCAAGAGAGAAGAGACAATTATAA
14214844 AGCTTGATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.47, C:0.11, G:0.23, T:0.19
Consensus pattern (27 bp):
GCTCAAGAGAGAAGAGACAATTATAAT
Found at i:14214863 original size:19 final size:19
Alignment explanation
Indices: 14214836--14214877 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
14214826 GAGAAGAGAC
* *
14214836 AATTATAAAGCTTGATGCT
1 AATTATAAAGCTAGATACT
*
14214855 AATTTTAAAGCTAGATACT
1 AATTATAAAGCTAGATACT
14214874 AATT
1 AATT
14214878 GAAAAAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
AATTATAAAGCTAGATACT
Found at i:14215366 original size:20 final size:20
Alignment explanation
Indices: 14215338--14215376 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14215328 CTTCAAGCAC
* *
14215338 TATTCTCAATTATCATCAAG
1 TATTATCAATCATCATCAAG
14215358 TATTATCAATCATCATCAA
1 TATTATCAATCATCATCAA
14215377 ACATTCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (20 bp):
TATTATCAATCATCATCAAG
Found at i:14223218 original size:67 final size:66
Alignment explanation
Indices: 14223095--14223252 Score: 201
Period size: 67 Copynumber: 2.4 Consensus size: 66
14223085 TTACAATAGC
* * * * * * *
14223095 TTTTGCAAGGCTCAGCCAAAACCTTTTACACTAGTTTTTCACGGGCTAAACTAAAACCCAAAGTG
1 TTTTTCAAGGCTCAACCACAACCTTTCACAATAGTTTTTCAAGGGCTAAACAAAAACCCAAAGTG
14223160 G
66 G
* *
14223161 TTTTTCAACGGCTCAACCACAACCTTTCACAATCA-TTTTTCAAGGGCTCAACAAAAACCTAAAG
1 TTTTTCAA-GGCTCAACCACAACCTTTCACAAT-AGTTTTTCAAGGGCTAAACAAAAACCCAAAG
14223225 TGG
64 TGG
14223228 TTTTTCAAAGGCTCAACCACAACCT
1 TTTTTC-AAGGCTCAACCACAACCT
14223253 ACAACAATGA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
66 7 0.09
67 70 0.88
68 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (66 bp):
TTTTTCAAGGCTCAACCACAACCTTTCACAATAGTTTTTCAAGGGCTAAACAAAAACCCAAAGTG
G
Found at i:14223241 original size:32 final size:32
Alignment explanation
Indices: 14223128--14223253 Score: 110
Period size: 32 Copynumber: 3.8 Consensus size: 32
14223118 TTTTACACTA
* * * *
14223128 GTTTTTCACGGGCTAAACTAAAACCCAAAGTG
1 GTTTTTCAAGGGCTCAACCAAAACCTAAAGTG
* * *
14223160 GTTTTTCAACGGCTCAACCACAACCTTTCACAA-TC
1 GTTTTTCAAGGGCTCAACCAAAACC--T-A-AAGTG
* *
14223195 ATTTTTCAAGGGCTCAACAAAAACCTAAAGTG
1 GTTTTTCAAGGGCTCAACCAAAACCTAAAGTG
* *
14223227 GTTTTTCAAAGGCTCAACCACAACCTA
1 GTTTTTCAAGGGCTCAACCAAAACCTA
14223254 CAACAATGAT
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
31 2 0.03
32 45 0.62
33 1 0.01
35 23 0.32
36 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (32 bp):
GTTTTTCAAGGGCTCAACCAAAACCTAAAGTG
Found at i:14223260 original size:67 final size:67
Alignment explanation
Indices: 14223129--14223267 Score: 199
Period size: 67 Copynumber: 2.1 Consensus size: 67
14223119 TTTACACTAG
* * * *
14223129 TTTTTCACGGGCTAAACTAAAACCCAAAGTGGTTTTTCAACGGCTCAACCACAACCTTTCACAAT
1 TTTTTCAAGGGCTAAACAAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTACACAAT
14223194 CA
66 CA
* *
14223196 TTTTTCAAGGGCTCAACAAAAACCTAAAGTGGTTTTTCAAAGGCTCAACCACAACC-TACAACAA
1 TTTTTCAAGGGCTAAACAAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTAC-ACAA
*
14223260 TGA
65 TCA
14223263 TTTTT
1 TTTTT
14223268 ACCGGGATCA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
66 2 0.03
67 62 0.97
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (67 bp):
TTTTTCAAGGGCTAAACAAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTACACAAT
CA
Found at i:14223279 original size:67 final size:67
Alignment explanation
Indices: 14223129--14223289 Score: 191
Period size: 67 Copynumber: 2.4 Consensus size: 67
14223119 TTTACACTAG
* * * * * *
14223129 TTTTTCACGGGCTAAACTAAAACCCAAAGTGGTTTTTCAACGGCTCAACCACAACCTTTCACAAT
1 TTTTTCAAGGGATCAACAAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTACACAAT
14223194 CA
66 CA
* *
14223196 TTTTTCAAGGGCTCAACAAAAACCTAAAGTGGTTTTTCAAAGGCTCAACCACAACC-TACAACAA
1 TTTTTCAAGGGATCAACAAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTAC-ACAA
*
14223260 TGA
65 TCA
* *
14223263 TTTTT-ACCGGGATCAACCAAAACCCAA
1 TTTTTCA-AGGGATCAACAAAAACCCAA
14223290 CAACCAACTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
66 3 0.04
67 78 0.96
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (67 bp):
TTTTTCAAGGGATCAACAAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTACACAAT
CA
Found at i:14226192 original size:19 final size:19
Alignment explanation
Indices: 14226154--14226192 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14226144 ATTATTTTAA
*
14226154 TATTATTTTATCCAACAAT
1 TATTATTTTATCCAAAAAT
*
14226173 TATTATTTTATCTAAAAAT
1 TATTATTTTATCCAAAAAT
14226192 T
1 T
14226193 TTCCTCCAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATTTTATCCAAAAAT
Found at i:14226302 original size:11 final size:11
Alignment explanation
Indices: 14226286--14226310 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14226276 CTGAATAACA
14226286 TATTATTATTT
1 TATTATTATTT
14226297 TATTATTATTT
1 TATTATTATTT
14226308 TAT
1 TAT
14226311 CGCATACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTATTT
Found at i:14227664 original size:18 final size:19
Alignment explanation
Indices: 14227641--14227678 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
14227631 AGACAAGTGG
14227641 AAAATTTTA-AAATAAAAT
1 AAAATTTTATAAATAAAAT
*
14227659 AAAATTTTATTAATAAAAT
1 AAAATTTTATAAATAAAAT
14227678 A
1 A
14227679 TTATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTTTATAAATAAAAT
Found at i:14227675 original size:14 final size:14
Alignment explanation
Indices: 14227656--14227685 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14227646 TTTAAAATAA
*
14227656 AATAAAATTTTATT
1 AATAAAATATTATT
14227670 AATAAAATATTATT
1 AATAAAATATTATT
14227684 AA
1 AA
14227686 AATATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATAAAATATTATT
Found at i:14227686 original size:11 final size:11
Alignment explanation
Indices: 14227666--14227695 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14227656 AATAAAATTT
14227666 TATTAATAAAA
1 TATTAATAAAA
*
14227677 TATTATTAAAA
1 TATTAATAAAA
14227688 TATTAATA
1 TATTAATA
14227696 TTTTATTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:14228121 original size:19 final size:19
Alignment explanation
Indices: 14228097--14228157 Score: 122
Period size: 19 Copynumber: 3.2 Consensus size: 19
14228087 CTTCTTCACC
14228097 TTCATGCTCCCATGCCATT
1 TTCATGCTCCCATGCCATT
14228116 TTCATGCTCCCATGCCATT
1 TTCATGCTCCCATGCCATT
14228135 TTCATGCTCCCATGCCATT
1 TTCATGCTCCCATGCCATT
14228154 TTCA
1 TTCA
14228158 CCTTACCACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.16, C:0.36, G:0.10, T:0.38
Consensus pattern (19 bp):
TTCATGCTCCCATGCCATT
Found at i:14238771 original size:42 final size:42
Alignment explanation
Indices: 14238712--14238793 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
14238702 CATCTCATAT
*
14238712 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCTGGGTTA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTTA
*
14238754 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGT
14238794 CCACATCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.23
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTTA
Found at i:14240171 original size:5 final size:5
Alignment explanation
Indices: 14240161--14240217 Score: 73
Period size: 5 Copynumber: 11.6 Consensus size: 5
14240151 GCCATGCCCA
* *
14240161 TTTTC TTTTC TTGTTA TTTTC TTTTC CTTTC TTTTC TTTTC TTTTC -TTTC
1 TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
14240211 -TTTC TTT
1 TTTTC TTT
14240218 CTTCCACCGT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
4 8 0.17
5 34 0.74
6 4 0.09
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:14240834 original size:2 final size:2
Alignment explanation
Indices: 14240827--14240865 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14240817 CTTGGTCAAT
14240827 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 T
14240866 TTTCTTCATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14245128 original size:11 final size:11
Alignment explanation
Indices: 14245112--14245140 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
14245102 CACCATAAAT
14245112 TTTAAAACAAC
1 TTTAAAACAAC
14245123 TTTAAAACAAC
1 TTTAAAACAAC
14245134 TTTAAAA
1 TTTAAAA
14245141 TCAAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:14245159 original size:21 final size:22
Alignment explanation
Indices: 14245133--14245175 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
14245123 TTTAAAACAA
*
14245133 CTTTAAAATCAAAA-CTTTGAT
1 CTTTAAAACCAAAAGCTTTGAT
14245154 CTTTAAAACCAAAAGCTTTGAT
1 CTTTAAAACCAAAAGCTTTGAT
14245176 ACCACCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTTTGAT
Found at i:14247271 original size:25 final size:24
Alignment explanation
Indices: 14247243--14247318 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
14247233 TTTCTTATTA
*
14247243 ATTGGTCCATGCCCATTCTTCCTTT
1 ATTGGACCATGCCCATT-TTCCTTT
* *
14247268 ATTGGACCATGTCCATTTTTCTTGCTT
1 ATTGGACCATGCCCA-TTTTCCT--TT
* *
14247295 GTTGGGCCATGCCCATTTTCCTTT
1 ATTGGACCATGCCCATTTTCCTTT
14247319 CTTGTTACTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
24 2 0.05
25 17 0.41
26 8 0.20
27 14 0.34
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.45
Consensus pattern (24 bp):
ATTGGACCATGCCCATTTTCCTTT
Found at i:14247304 original size:27 final size:27
Alignment explanation
Indices: 14247244--14247324 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
14247234 TTCTTATTAA
* *
14247244 TTGGTCCATGCCCATTCTTCC-T--TTA
1 TTGGACCATGCCCATT-TTCCTTGCTTG
* *
14247269 TTGGACCATGTCCATTTTTCTTGCTTG
1 TTGGACCATGCCCATTTTCCTTGCTTG
* *
14247296 TTGGGCCATGCCCATTTTCCTTTCTTG
1 TTGGACCATGCCCATTTTCCTTGCTTG
14247323 TT
1 TT
14247325 ACTTTCTTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 3 0.07
25 15 0.33
27 27 0.60
ACGTcount: A:0.10, C:0.27, G:0.16, T:0.47
Consensus pattern (27 bp):
TTGGACCATGCCCATTTTCCTTGCTTG
Found at i:14247347 original size:5 final size:5
Alignment explanation
Indices: 14247327--14247371 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
14247317 TTCTTGTTAC
* *
14247327 TTTCT TGTCC TTTCT TTTCT TTTCT TTTCT TTTC- TTTC- TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
14247372 CTTCCACCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 8 0.23
5 27 0.77
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTCT
Found at i:14249269 original size:19 final size:19
Alignment explanation
Indices: 14249245--14249341 Score: 70
Period size: 19 Copynumber: 5.0 Consensus size: 19
14249235 CATGTTTGTG
14249245 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
14249264 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
*
14249283 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
* ** *
14249302 CACGATGGTGCTGGTTATGTG
1 CACGAT-GTG-GGGGGATGTA
14249323 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
14249342 TATGAACCCG
Statistics
Matches: 54, Mismatches: 20, Indels: 8
0.66 0.24 0.10
Matches are distributed among these distances:
18 3 0.06
19 31 0.57
20 9 0.17
21 11 0.20
ACGTcount: A:0.20, C:0.14, G:0.42, T:0.24
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:14249291 original size:38 final size:39
Alignment explanation
Indices: 14249240--14249341 Score: 152
Period size: 38 Copynumber: 2.6 Consensus size: 39
14249230 GTAATCATGT
14249240 TTGTGCACGATGTGGGGGGATGTACACGATGGCACT-GA
1 TTGTGCACGATGTGGGGGGATGTACACGATGGCACTGGA
* ** *
14249278 TTGTGCACGATGTGGGGGGATGCACACGATGGTGCTGGT
1 TTGTGCACGATGTGGGGGGATGTACACGATGGCACTGGA
14249317 TATGTGCACGATGTGGGGGGATGTA
1 T-TGTGCACGATGTGGGGGGATGTA
14249342 TATGAACCCG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 33 0.58
39 2 0.04
40 22 0.39
ACGTcount: A:0.19, C:0.14, G:0.42, T:0.25
Consensus pattern (39 bp):
TTGTGCACGATGTGGGGGGATGTACACGATGGCACTGGA
Found at i:14258667 original size:21 final size:21
Alignment explanation
Indices: 14258642--14258684 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14258632 GCTATAAATA
* * *
14258642 TCATTTTCTAGTAGCTTTTTC
1 TCATTTTCCAATAGCTTCTTC
14258663 TCATTTTCCAATAGCTTCTTC
1 TCATTTTCCAATAGCTTCTTC
14258684 T
1 T
14258685 TCTTCTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.23, G:0.07, T:0.53
Consensus pattern (21 bp):
TCATTTTCCAATAGCTTCTTC
Found at i:14259549 original size:43 final size:41
Alignment explanation
Indices: 14259485--14259578 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 41
14259475 TCCTTTTGTG
* * * *
14259485 TGATAATGATGACCCAGCTATGTGCG-GTGTGGGAGTGCATA
1 TGATGATGATGACCCAACTATGTGCGAGT-AGGGAGTGCACA
14259526 TGAGCTGATGATGACCCAACTATGTGCGAGTAGGGAGTGCACA
1 TGA--TGATGATGACCCAACTATGTGCGAGTAGGGAGTGCACA
14259569 TGATGATGAT
1 TGATGATGAT
14259579 ATTGCATTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 10 0.22
43 34 0.74
44 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (41 bp):
TGATGATGATGACCCAACTATGTGCGAGTAGGGAGTGCACA
Found at i:14275960 original size:40 final size:42
Alignment explanation
Indices: 14275905--14275990 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 42
14275895 TGCTCAATGT
* *
14275905 GGGGGGATGTACACGATG-TCAT-TGA-TTGTGCACGATGTGG
1 GGGGGGATGCACACGATGATCATATCACTTGTG-ACGATGTGG
*
14275945 GGGGGGATGCACACGATGATGATATCACTTGTGACGATGTGG
1 GGGGGGATGCACACGATGATCATATCACTTGTGACGATGTGG
14275987 GGGG
1 GGGG
14275991 ATGCATAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 17 0.43
41 3 0.08
42 15 0.38
43 5 0.12
ACGTcount: A:0.21, C:0.13, G:0.42, T:0.24
Consensus pattern (42 bp):
GGGGGGATGCACACGATGATCATATCACTTGTGACGATGTGG
Found at i:14275991 original size:40 final size:38
Alignment explanation
Indices: 14275892--14275995 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 38
14275882 GATAGTGCCC
* * * *
14275892 TTGTGCTCAATGTGGGGGGATGTACACGATGTCATTGA
1 TTGTGCACGATGTGGGGGGATGCACACGATGTCATTCA
*
14275930 TTGTGCACGATGTGGGGGGGGATGCACACGATGATGATATCA
1 TTGTGCACGATGT--GGGGGGATGCACACGATG-TCAT-TCA
14275972 CTTGTG-ACGATGTGGGGGGATGCA
1 -TTGTGCACGATGTGGGGGGATGCA
14275996 TAAAGCGATG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
38 11 0.20
40 28 0.50
41 3 0.05
42 9 0.16
43 5 0.09
ACGTcount: A:0.21, C:0.13, G:0.38, T:0.27
Consensus pattern (38 bp):
TTGTGCACGATGTGGGGGGATGCACACGATGTCATTCA
Found at i:14285136 original size:35 final size:34
Alignment explanation
Indices: 14285084--14285152 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
14285074 TAAAAAAAGT
*
14285084 CAGCTCTTTCTCTCCCTTAAAATTGGTAGCAAAAC
1 CAGCTCTTTCTCTCCCTTAAAA-TGATAGCAAAAC
*
14285119 CAGCTC-TTCTTTCCCCTTAAAATGATAGCAAAAC
1 CAGCTCTTTCTCT-CCCTTAAAATGATAGCAAAAC
14285153 TCTCCTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.30
Consensus pattern (34 bp):
CAGCTCTTTCTCTCCCTTAAAATGATAGCAAAAC
Found at i:14288192 original size:16 final size:16
Alignment explanation
Indices: 14288155--14288192 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14288145 CTTCTGTTTG
14288155 TTTTCTCTTTCATTCT
1 TTTTCTCTTTCATTCT
*
14288171 TCTTCTCTTTTC-TTCT
1 TTTTCTC-TTTCATTCT
14288187 TTTTCT
1 TTTTCT
14288193 TTGGCCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCTCTTTCATTCT
Found at i:14289270 original size:2 final size:2
Alignment explanation
Indices: 14289254--14289293 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
14289244 CATGTGTTTC
*
14289254 TA TA TA -A TA TT 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
14289294 TATGTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14301724 original size:29 final size:30
Alignment explanation
Indices: 14301679--14301752 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 30
14301669 TATTAAGAGG
* *
14301679 TTACTCTAGGCGA-TGCC-ACCAAGGAAAGA
1 TTACTCCAGGC-ATTGCCGACCAACGAAAGA
* * *
14301708 TTACTCCAGGCATTGCCGATCGACGAGAGA
1 TTACTCCAGGCATTGCCGACCAACGAAAGA
*
14301738 TTACTCCAGTCATTG
1 TTACTCCAGGCATTG
14301753 TTTGGATTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.03
29 14 0.38
30 22 0.59
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (30 bp):
TTACTCCAGGCATTGCCGACCAACGAAAGA
Found at i:14303506 original size:33 final size:34
Alignment explanation
Indices: 14303445--14303534 Score: 96
Period size: 38 Copynumber: 2.6 Consensus size: 34
14303435 AAAATTTTAG
14303445 AATAAAATAATATTTTATT-AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATTAAATAAAAT-A-A---TATT
14303483 AATAAAATAATATTTTATT-AATAAAATAATATT
1 AATAAAATAATATTTTATTAAATAAAATAATATT
*
14303516 AA-AATATTAATATTTTATT
1 AATAA-AATAATATTTTATT
14303535 CAGTGTTGTA
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
32 2 0.04
33 19 0.38
36 1 0.02
37 1 0.02
38 27 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
AATAAAATAATATTTTATTAAATAAAATAATATT
Found at i:14303534 original size:19 final size:19
Alignment explanation
Indices: 14303445--14303515 Score: 142
Period size: 19 Copynumber: 3.7 Consensus size: 19
14303435 AAAATTTTAG
14303445 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
14303464 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
14303483 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
14303502 AATAAAATAATATT
1 AATAAAATAATATT
14303516 AAAATATTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATAAAATAATATTTTATT
Found at i:14304013 original size:74 final size:72
Alignment explanation
Indices: 14303913--14304059 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 72
14303903 TAGAGAGAAT
14303913 TAGCTAAGAAAAGAAAGGAGAGAAAGGTGGAAGGCTTGGGTAGTAAGTGATTCAAGAGTAATTGA
1 TAGCTAAGAAAAGAAAGGAGAGAAAGGTGGAAGGCTTGGGTAGTAAGTGATTCAAGAGTAATTGA
14303978 AGAAATA
66 AGAAATA
14303985 TNAGCTAAAGAAAAGAAAGGAGAGAAAGGTGGAAGGCTTGGGTAGTAAGTGATTCAAGAGTAATT
1 T-AGCT-AAGAAAAGAAAGGAGAGAAAGGTGGAAGGCTTGGGTAGTAAGTGATTCAAGAGTAATT
14304050 GAAGAAATA
64 GAAGAAATA
14304059 T
1 T
14304060 CAAGTGGGTC
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 1 0.01
73 4 0.05
74 68 0.93
ACGTcount: A:0.44, C:0.04, G:0.31, T:0.20
Consensus pattern (72 bp):
TAGCTAAGAAAAGAAAGGAGAGAAAGGTGGAAGGCTTGGGTAGTAAGTGATTCAAGAGTAATTGA
AGAAATA
Found at i:14306944 original size:27 final size:28
Alignment explanation
Indices: 14306891--14306944 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
14306881 TGAGGATAAA
* * *
14306891 GGCAAAATAGTCATTTTGCCACCCCAAG
1 GGCAAAATAGTAATTTTGACACACCAAG
*
14306919 GGCAAAATGGTAATTTT-ACACACCAA
1 GGCAAAATAGTAATTTTGACACACCAA
14306945 ACACTTGTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (28 bp):
GGCAAAATAGTAATTTTGACACACCAAG
Found at i:14308608 original size:22 final size:22
Alignment explanation
Indices: 14308578--14308620 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14308568 ACTACAGCTA
*
14308578 TGCTACAGCGAGAATTAATTTT
1 TGCTACAGCGACAATTAATTTT
* *
14308600 TGCTGCAGCGACACTTAATTT
1 TGCTACAGCGACAATTAATTT
14308621 AAATTATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (22 bp):
TGCTACAGCGACAATTAATTTT
Found at i:14309224 original size:42 final size:42
Alignment explanation
Indices: 14309177--14309301 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 42
14309167 CATCTCATAT
* *
14309177 GCAATGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
1 GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* *
14309219 GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGAGTTA
1 GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* * * *
14309261 GTAACGGCTTATGTGCATTCCTACTCGCACATAGTCGGGTC
1 GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTC
14309302 CACATCAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (42 bp):
GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
Found at i:14312396 original size:20 final size:20
Alignment explanation
Indices: 14312373--14312415 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14312363 ACTTCAAGAC
*
14312373 AGAAATAACTTAATCGACTA
1 AGAAATAAATTAATCGACTA
* *
14312393 AGAAGTAAATTAGTCGACTA
1 AGAAATAAATTAATCGACTA
14312413 AGA
1 AGA
14312416 GCTCACTGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (20 bp):
AGAAATAAATTAATCGACTA
Found at i:14312424 original size:73 final size:73
Alignment explanation
Indices: 14312319--14312488 Score: 193
Period size: 73 Copynumber: 2.3 Consensus size: 73
14312309 TTAGTTGACC
* * ** *
14312319 AAGAAGTAAGTTAGTCGACTAAAAGCCTACTGCCAGAAATTTAGACTT-CAAGACAGAAATAACT
1 AAGAAGTAAATTAGTCGACTAAGAGCCTACTGCCA-AAAACTAGACTTACAAGACAGAAACAACT
14312383 TAATCGACT
65 TAATCGACT
* * * *
14312392 AAGAAGTAAATTAGTCGACTAAGAG-CTCACTGCCAAAAACTAGATTTAGAAGACAGAGACAATT
1 AAGAAGTAAATTAGTCGACTAAGAGCCT-ACTGCCAAAAACTAGACTTACAAGACAGAAACAACT
*
14312456 TAGTCGACT
65 TAATCGACT
*
14312465 AAG-AGCACAATTAGTCGACTAAGA
1 AAGAAGTA-AATTAGTCGACTAAGA
14312489 TCATTTTGTC
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
72 14 0.17
73 69 0.83
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (73 bp):
AAGAAGTAAATTAGTCGACTAAGAGCCTACTGCCAAAAACTAGACTTACAAGACAGAAACAACTT
AATCGACT
Found at i:14312478 original size:20 final size:20
Alignment explanation
Indices: 14312446--14312488 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
14312436 TTTAGAAGAC
14312446 AGAGACAATTTAGTCGACTA
1 AGAGACAATTTAGTCGACTA
14312466 AGAGCACAA-TTAGTCGACTA
1 AGAG-ACAATTTAGTCGACTA
14312486 AGA
1 AGA
14312489 TCATTTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (20 bp):
AGAGACAATTTAGTCGACTA
Found at i:14312948 original size:32 final size:32
Alignment explanation
Indices: 14312909--14313014 Score: 115
Period size: 32 Copynumber: 3.2 Consensus size: 32
14312899 TTGTAGATTG
14312909 TGGTTGAGCCTTTGAAAAACCACTTTAGGTTT
1 TGGTTGAGCCTTTGAAAAACCACTTTAGGTTT
* ** *
14312941 TAGTTGAGCCCATGAAAAACCA-TTGTGAAAGGTTG
1 TGGTTGAGCCTTTGAAAAACCACTT-T---AGGTTT
* *
14312976 TGGTTGAGCCTTTGAAAAATCACTTTGGGTTT
1 TGGTTGAGCCTTTGAAAAACCACTTTAGGTTT
14313008 TGGTTGA
1 TGGTTGA
14313015 TCCCGATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
31 2 0.03
32 31 0.53
35 24 0.41
36 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (32 bp):
TGGTTGAGCCTTTGAAAAACCACTTTAGGTTT
Found at i:14312982 original size:35 final size:33
Alignment explanation
Indices: 14312906--14313029 Score: 103
Period size: 32 Copynumber: 3.8 Consensus size: 33
14312896 TTATTGTAGA
**
14312906 TTGTGGTTGAGCCTTTGAAAAACCACTTT-AGG
1 TTGTGGTTGAGCCCATGAAAAACCACTTTGAGG
* *
14312938 TTTTAGTTGAGCCCATGAAAAACCA-TTGTGAAAGG
1 TTGTGGTTGAGCCCATGAAAAACCACTT-TG--AGG
** *
14312973 TTGTGGTTGAGCCTTTGAAAAATCACTTTG-GG
1 TTGTGGTTGAGCCCATGAAAAACCACTTTGAGG
* *
14313005 TTTTGGTTGATCCCGAT-AAAAACCA
1 TTGTGGTTGAGCCC-ATGAAAAACCA
14313030 TTGTGAAAGG
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
31 2 0.03
32 42 0.58
33 1 0.01
35 25 0.35
36 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (33 bp):
TTGTGGTTGAGCCCATGAAAAACCACTTTGAGG
Found at i:14313039 original size:67 final size:68
Alignment explanation
Indices: 14312866--14313041 Score: 234
Period size: 67 Copynumber: 2.6 Consensus size: 68
14312856 AAGTTAGTTG
* * * * *
14312866 TTGGGTTTTGGTTCATCCCG-TGAAAACCCATTATTG-TAGATTGTGGTTGAGCCTTTGAAAAAC
1 TTGGGTTTTGGTTGATCCCGATGAAAAACCATT-GTGAAAGGTTGTGGTTGAGCCTTTGAAAAAC
14312929 CACT
65 CACT
* * * *
14312933 TTAGGTTTTAGTTGAGCCC-ATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAATC
1 TTGGGTTTTGGTTGATCCCGATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
14312997 ACT
66 ACT
14313000 TTGGGTTTTGGTTGATCCCGAT-AAAAACCATTGTGAAAGGTT
1 TTGGGTTTTGGTTGATCCCGATGAAAAACCATTGTGAAAGGTT
14313042 TTGGCTAAGC
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
66 2 0.02
67 90 0.96
68 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (68 bp):
TTGGGTTTTGGTTGATCCCGATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
ACT
Found at i:14313747 original size:35 final size:35
Alignment explanation
Indices: 14313634--14313738 Score: 138
Period size: 35 Copynumber: 3.0 Consensus size: 35
14313624 ACTCAGCCAG
* **
14313634 TGTGCACTCCCTACCAGCACAAGGCAATATCATCA
1 TGTGCACTCCCTACGAGCACAATTCAATATCATCA
* * **
14313669 TGTGCACTCCCTACGAGCACATTTCTATATCATTG
1 TGTGCACTCCCTACGAGCACAATTCAATATCATCA
*
14313704 TGTGCACTCCCTACGAGCACACTTCAATATCATCA
1 TGTGCACTCCCTACGAGCACAATTCAATATCATCA
14313739 CACGCACTCT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (35 bp):
TGTGCACTCCCTACGAGCACAATTCAATATCATCA
Found at i:14314655 original size:20 final size:20
Alignment explanation
Indices: 14314618--14314655 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14314608 AAAAAGAAGA
*
14314618 AAAAGAAGTTGCTGAAAATT
1 AAAAGAAGTTGCTAAAAATT
*
14314638 AAAAGATGTTGCTAAAAA
1 AAAAGAAGTTGCTAAAAA
14314656 CTTAGATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.18, T:0.24
Consensus pattern (20 bp):
AAAAGAAGTTGCTAAAAATT
Found at i:14318104 original size:22 final size:23
Alignment explanation
Indices: 14318079--14318127 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
14318069 TGTAAAAAGG
* *
14318079 ATTTCCT-TTGCACTAAAAATCC
1 ATTTCCTGTTGCAATAAAAATCA
**
14318101 ATTTGGTGTTGCAATAAAAATCA
1 ATTTCCTGTTGCAATAAAAATCA
14318124 ATTT
1 ATTT
14318128 GCAAGAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (23 bp):
ATTTCCTGTTGCAATAAAAATCA
Found at i:14318334 original size:40 final size:39
Alignment explanation
Indices: 14318275--14318380 Score: 142
Period size: 38 Copynumber: 2.7 Consensus size: 39
14318265 CTCACCCAGC
*
14318275 TCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACA-AGCCAGAGTCA
* * *
14318315 TCATGTGCATCCCCACACATCGTGCAC-AGTCAGTGTCA
1 TCATGTGCATCCCCCCACATCGTGCACAAGCCAGAGTCA
* *
14318353 TCTTGTACATCCCCCCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
14318381 CGAGCACTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
38 32 0.55
40 26 0.45
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.23
Consensus pattern (39 bp):
TCATGTGCATCCCCCCACATCGTGCACAAGCCAGAGTCA
Found at i:14320579 original size:22 final size:22
Alignment explanation
Indices: 14320541--14320597 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
14320531 CTAGCCCTGT
* *
14320541 TTCTCACTGTAGTGAAAATGAA
1 TTCTCACTGCAGCGAAAATGAA
* *
14320563 TTCTCACTGCAGCGAAATTGGA
1 TTCTCACTGCAGCGAAAATGAA
**
14320585 TTCTTGCTGCAGC
1 TTCTCACTGCAGC
14320598 AAGAAACTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (22 bp):
TTCTCACTGCAGCGAAAATGAA
Found at i:14322614 original size:2 final size:2
Alignment explanation
Indices: 14322609--14322635 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14322599 GTATGTGTGC
14322609 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 A
14322636 ATTGTGTGAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14324942 original size:21 final size:21
Alignment explanation
Indices: 14324916--14324955 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14324906 CAGAAATGAC
14324916 AAGTATCAATACTTATGCCTT
1 AAGTATCAATACTTATGCCTT
*
14324937 AAGTATCGATACTTATGCC
1 AAGTATCAATACTTATGCC
14324956 ACGTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (21 bp):
AAGTATCAATACTTATGCCTT
Found at i:14326072 original size:29 final size:29
Alignment explanation
Indices: 14325956--14326112 Score: 208
Period size: 29 Copynumber: 5.4 Consensus size: 29
14325946 TCTTATCTTT
* * *
14325956 AATTAAAACAAAACATCTTATCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
14325985 AATTGATAC-AAACATGTTTTATTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
14326013 GATCAAGACAAAACATATTTTTCTTGTCTA
1 AATTAAGACAAAACAT-GTTTTCTTGTCTA
14326043 AATTAAGACAAAACATGTTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
*
14326072 AATTAAGATAAAACATGTTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
14326101 AATTAAGACAAA
1 AATTAAGACAAA
14326113 GTATCTTAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
28 21 0.19
29 64 0.58
30 25 0.23
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (29 bp):
AATTAAGACAAAACATGTTTTCTTGTCTA
Found at i:14328000 original size:47 final size:47
Alignment explanation
Indices: 14327929--14328031 Score: 161
Period size: 47 Copynumber: 2.2 Consensus size: 47
14327919 ATATGGAAGG
* * *
14327929 CCTCACCTTCATGAATTATTGGAGTCATGTTCTTGTCAATTTTACAA
1 CCTCACCTTCATGAATCAATGGAGTCATGTTCTTCTCAATTTTACAA
* *
14327976 CTTCACCTTCATGAATCAATGGAGTCATGTTCTTCTCATTTTTACAA
1 CCTCACCTTCATGAATCAATGGAGTCATGTTCTTCTCAATTTTACAA
14328023 CCTCACCTT
1 CCTCACCTT
14328032 TCCTTTTGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (47 bp):
CCTCACCTTCATGAATCAATGGAGTCATGTTCTTCTCAATTTTACAA
Found at i:14336711 original size:20 final size:21
Alignment explanation
Indices: 14336666--14336712 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
14336656 AGATGTCTAA
*
14336666 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
* *
14336687 TATAATTGTTTG-AATAAAAT
1 AATAATTATTTGAAATAAAAT
14336707 AATAAT
1 AATAAT
14336713 ATTCAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:14338708 original size:13 final size:13
Alignment explanation
Indices: 14338690--14338721 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
14338680 AAATGTGATC
14338690 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14338703 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14338716 AAATCT
1 AAATCT
14338722 CCATTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (13 bp):
AAATCTTCGCTAA
Found at i:14339239 original size:13 final size:13
Alignment explanation
Indices: 14339221--14339252 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
14339211 AAATGTGATC
14339221 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14339234 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14339247 AAATCT
1 AAATCT
14339253 CCATTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (13 bp):
AAATCTTCGCTAA
Found at i:14339498 original size:531 final size:531
Alignment explanation
Indices: 14338495--14341363 Score: 5711
Period size: 531 Copynumber: 5.4 Consensus size: 531
14338485 TTGTAAATAN
14338495 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
1 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
14338560 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
66 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
14338625 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
131 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
14338690 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
196 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
14338755 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
261 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
14338820 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
326 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
14338885 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
391 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
14338950 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
456 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
14339015 AATAACACTAA
521 AATAACACTAA
14339026 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
1 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
14339091 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
66 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
14339156 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
131 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
14339221 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
196 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
14339286 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
261 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
14339351 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
326 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
14339416 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
391 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
14339481 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
456 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
14339546 AATAACACTAA
521 AATAACACTAA
14339557 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
1 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
14339622 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
66 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
14339687 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
131 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
14339752 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
196 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
14339817 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
261 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
14339882 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
326 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
14339947 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
391 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
14340012 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
456 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
14340077 AATAACACTAA
521 AATAACACTAA
14340088 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
1 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
14340153 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
66 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
14340218 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
131 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
14340283 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
196 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
14340348 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
261 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
14340413 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
326 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
14340478 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
391 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
14340543 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
456 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
14340608 AATAACACTAA
521 AATAACACTAA
14340619 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
1 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
14340684 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
66 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
14340749 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
131 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
14340814 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
196 AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
**
14340879 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATTTTTTTTAACTT
261 TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
*
14340944 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCGAATCCTACCACAATT
326 TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
14341009 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
391 AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
14341074 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
456 ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
14341139 AATAACACTAA
521 AATAACACTAA
14341150 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
1 TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
14341215 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
66 TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
14341280 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
131 ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
14341345 AAATCTTCGCTAAAAATCT
196 AAATCTTCGCTAAAAATCT
14341364 CCATTTTATC
Statistics
Matches: 2335, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
531 2335 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.36
Consensus pattern (531 bp):
TATTGATCAATATTAACCAAATGGGGCAAAAATCGTTTTATAAAAATTTCTGTTTAGTCTTCTAG
TGGTAAAATTATCATTTTGCCCTTGTGCTCCAAAAATACCGAGAATCACAATTTTTCACTACTAA
ACATCATTTTATACTCCAATAATCATAATTATATTTCATATAATTATTCTTGGTCAAATGTGATC
AAATCTTCGCTAAAAATCTTCGCTAAAAATCTCCATTTTATCATCAAATGGTAAAATGACCGTTT
TGATTATAATAAAATAATCAAGCATGCCACGTGTCACATGCTATTGCCCCAATAATTTTTAACTT
TTTGACTTTTTCTTCTTAATTTTCCACCACAAATATTCTAGTATTTATCCAATCCTACCACAATT
AAAATCCCTTGGTCTTAACAAGTGCTGGGGCGAAAAATTTACCAATTTGCCCTCGGAACAAAAAA
ATTACGATTTTACCCCTATACTTCGAAATGTACCGAAATCACATTATTTATACTTTTCAACCTCA
AATAACACTAA
Found at i:14339770 original size:13 final size:13
Alignment explanation
Indices: 14339752--14339783 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
14339742 AAATGTGATC
14339752 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14339765 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14339778 AAATCT
1 AAATCT
14339784 CCATTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (13 bp):
AAATCTTCGCTAA
Found at i:14340301 original size:13 final size:13
Alignment explanation
Indices: 14340283--14340314 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
14340273 AAATGTGATC
14340283 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14340296 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14340309 AAATCT
1 AAATCT
14340315 CCATTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (13 bp):
AAATCTTCGCTAA
Found at i:14340832 original size:13 final size:13
Alignment explanation
Indices: 14340814--14340845 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
14340804 AAATGTGATC
14340814 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14340827 AAATCTTCGCTAA
1 AAATCTTCGCTAA
14340840 AAATCT
1 AAATCT
14340846 CCATTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (13 bp):
AAATCTTCGCTAA
Found at i:14355187 original size:2 final size:2
Alignment explanation
Indices: 14355145--14355169 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14355135 TATACGTGTT
14355145 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14355170 TTGTATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14355467 original size:74 final size:74
Alignment explanation
Indices: 14355326--14355487 Score: 166
Period size: 74 Copynumber: 2.2 Consensus size: 74
14355316 TGCCTAAAAA
* * * * * *
14355326 TTTCGCTGGAGCGAAAATTCATTTTCGCTGCAGCGAGAAACTCTCTGGCAGATGGCCTTAACCCT
1 TTTCGCCGCAGCGAAAATTCATTCTCGCTGCAACGAGAAACTCTCGGGCAGATGGCCTAAACCCT
*
14355391 TGCTCTGGAT
66 TGCTC-GAAT
* * * * **
14355401 TTT-GCCGCAGCGAAAATTCATTCTCGTTGCAACGAGAAACTCTCGGGTAGTTGG-GTAAAATGC
1 TTTCGCCGCAGCGAAAATTCATTCTCGCTGCAACGAGAAACTCTCGGGCAGATGGCCT-AAACCC
14355464 TTGCTCGAAT
65 TTGCTCGAAT
*
14355474 TTTCGCTGCAGCGA
1 TTTCGCCGCAGCGA
14355488 GAAACTTTCT
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
73 7 0.10
74 61 0.86
75 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (74 bp):
TTTCGCCGCAGCGAAAATTCATTCTCGCTGCAACGAGAAACTCTCGGGCAGATGGCCTAAACCCT
TGCTCGAAT
Found at i:14360081 original size:87 final size:87
Alignment explanation
Indices: 14359920--14360086 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 87
14359910 CGCTCTTGTG
* *
14359920 AGTGGCATATCAACCTCACCCACAATCTTGGAGTGTTTCCACCCCACTCGAGCAAATAGTGATCA
1 AGTGGCATATCAACCTCACCCACAATCTTGGAGTGGTCCCACCCCACTCGAGCAAATAGTGATCA
*
14359985 ATTAGCACTATTGTCATCTATA
66 ATCAGCACTATTGTCATCTATA
* * * * * *
14360007 AGTGGCGTATCAACCTCA-CTAGCAATCTTTGAGTGGTCCCACCCCACTTGGGCAAATAGTGATT
1 AGTGGCATATCAACCTCACCCA-CAATCTTGGAGTGGTCCCACCCCACTCGAGCAAATAGTGATC
**
14360071 AATCCTCACTATTGTC
65 AATCAGCACTATTGTC
14360087 GTAGGATTCC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 2 0.03
87 66 0.97
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (87 bp):
AGTGGCATATCAACCTCACCCACAATCTTGGAGTGGTCCCACCCCACTCGAGCAAATAGTGATCA
ATCAGCACTATTGTCATCTATA
Found at i:14360275 original size:80 final size:80
Alignment explanation
Indices: 14360142--14360381 Score: 297
Period size: 80 Copynumber: 3.0 Consensus size: 80
14360132 CATAAAGTAA
* * * *
14360142 AAATCATTCTCATATC-TAGCCCATAGTGTA-TAAGAAATTTTCAACACATACATCTCACGACAT
1 AAATCATTCCCAT-TCTTAGCCCATAGTGTACT-TGATATTCTCAACACATACATCTCACGACAT
* *
14360205 ACATTTCGTAATCTCAT
64 ACATGTCATAATCTCAT
* *
14360222 AAATCATTCCCATTCTTAGCCCATAGTGTACTTGATATTCTCAACACATACATCTCATGGCATAC
1 AAATCATTCCCATTCTTAGCCCATAGTGTACTTGATATTCTCAACACATACATCTCACGACATAC
14360287 ATGTCATAATCTCAT
66 ATGTCATAATCTCAT
* * * * * ** *
14360302 AAATCATTCCCATGCTTAACCCATAGTGTACATGATATTCTCAACACAAACATCCCTTGGCATAC
1 AAATCATTCCCATTCTTAGCCCATAGTGTACTTGATATTCTCAACACATACATCTCACGACATAC
14360367 -TGTCATAATCTCAT
66 ATGTCATAATCTCAT
14360381 A
1 A
14360382 GATGGAACAC
Statistics
Matches: 144, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 17 0.12
80 126 0.88
81 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (80 bp):
AAATCATTCCCATTCTTAGCCCATAGTGTACTTGATATTCTCAACACATACATCTCACGACATAC
ATGTCATAATCTCAT
Found at i:14366246 original size:11 final size:11
Alignment explanation
Indices: 14366232--14366270 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
14366222 CGGCCAAAAC
14366232 AAGAACAAAGG
1 AAGAACAAAGG
14366243 AAGAACAAAGG
1 AAGAACAAAGG
14366254 AAG-A-AAA-G
1 AAGAACAAAGG
14366262 AAGAACAAA
1 AAGAACAAA
14366271 AACCCTAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 4 0.15
11 14 0.54
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAACAAAGG
Found at i:14366325 original size:20 final size:21
Alignment explanation
Indices: 14366284--14366328 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
14366274 CCTAGGTGGA
*
14366284 AAAATTCAAGAGAAAAGTGTG
1 AAAATTCAAGAGAAAAGAGTG
14366305 AAAATTCAAG-GAAACA-AGTG
1 AAAATTCAAGAGAAA-AGAGTG
14366325 AAAA
1 AAAA
14366329 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.58, C:0.07, G:0.20, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGAGAAAAGAGTG
Found at i:14366330 original size:22 final size:21
Alignment explanation
Indices: 14366283--14366330 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
14366273 CCCTAGGTGG
*
14366283 AAAAATTCAAGAGAAAAGTGT
1 AAAAATTCAAGAGAAAAGTGA
*
14366304 GAAAATTCAAG-GAAACAAGTGA
1 AAAAATTCAAGAG-AA-AAGTGA
14366326 AAAAA
1 AAAAA
14366331 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 12 0.55
22 9 0.41
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAGAGAAAAGTGA
Found at i:14376435 original size:37 final size:37
Alignment explanation
Indices: 14376374--14376445 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
14376364 TGGAGTCATT
*
14376374 GTGTGCATCCCCCACATCGTGCACA-GCTAATATCACC
1 GTGTGCATCCCCCACATCGCGCACAGGC-AATATCACC
*
14376411 GTGTGCATCCCCTACA-CTGCGCACAGGCAATATCA
1 GTGTGCATCCCCCACATC-GCGCACAGGCAATATCA
14376446 TCATCCATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 1 0.03
37 28 0.90
38 2 0.06
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (37 bp):
GTGTGCATCCCCCACATCGCGCACAGGCAATATCACC
Found at i:14376555 original size:2 final size:2
Alignment explanation
Indices: 14376548--14376581 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14376538 GATACACAAC
14376548 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
14376582 NNNNNNNNNN
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:14399986 original size:13 final size:13
Alignment explanation
Indices: 14399968--14399992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14399958 TGGGTAGTGT
14399968 AAATCACAAAATA
1 AAATCACAAAATA
14399981 AAATCACAAAAT
1 AAATCACAAAAT
14399993 TTTACCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATCACAAAATA
Found at i:14400093 original size:19 final size:19
Alignment explanation
Indices: 14400069--14400110 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
14400059 GTGTTCTTTC
14400069 CTTTCCTCTTCACTTCATA
1 CTTTCCTCTTCACTTCATA
14400088 CTTTCCTCTTCACTTCATA
1 CTTTCCTCTTCACTTCATA
14400107 CTTT
1 CTTT
14400111 GGCCGGCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (19 bp):
CTTTCCTCTTCACTTCATA
Found at i:14401485 original size:36 final size:37
Alignment explanation
Indices: 14401413--14401488 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 37
14401403 CATTCAATAT
14401413 ATCCTAGATAATGGGAATCATACCGCTATCCTCGGTA
1 ATCCTAGATAATGGGAATCATACCGCTATCCTCGGTA
* * * *
14401450 ATCCTAGATAA-GGGGATCGTACCTCTATCTTCGGTA
1 ATCCTAGATAATGGGAATCATACCGCTATCCTCGGTA
14401486 ATC
1 ATC
14401489 TTATATAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 24 0.69
37 11 0.31
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (37 bp):
ATCCTAGATAATGGGAATCATACCGCTATCCTCGGTA
Found at i:14411502 original size:19 final size:19
Alignment explanation
Indices: 14411478--14411514 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14411468 CCATTTGACT
14411478 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
14411497 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
14411515 AGTTTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:14415152 original size:13 final size:13
Alignment explanation
Indices: 14415134--14415158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14415124 GGAGAAATTG
14415134 TGATTTTATAAAA
1 TGATTTTATAAAA
14415147 TGATTTTATAAA
1 TGATTTTATAAA
14415159 TTTTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14420161 original size:20 final size:19
Alignment explanation
Indices: 14420136--14420192 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
14420126 TTGTTTATGG
14420136 AATTGAATTAGTTAATTTAA
1 AATTGAATTAGTTAATTT-A
*
14420156 AATTGAA-TATGATTCATTTA
1 AATTGAATTA-G-TTAATTTA
*
14420176 AATT-AATTAATTAATTT
1 AATTGAATTAGTTAATTT
14420193 CATTGCCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 6 0.19
19 4 0.13
20 15 0.48
21 6 0.19
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (19 bp):
AATTGAATTAGTTAATTTA
Found at i:14421397 original size:29 final size:29
Alignment explanation
Indices: 14421352--14421407 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
14421342 TGTAGCAAGT
*
14421352 TGTTGTTACACATCATGTTGAAAAAATAA
1 TGTTGTTACACACCATGTTGAAAAAATAA
* *
14421381 TGTTGTTACACGCCATGTTTAAAAAAT
1 TGTTGTTACACACCATGTTGAAAAAAT
14421408 TTGTCTAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (29 bp):
TGTTGTTACACACCATGTTGAAAAAATAA
Found at i:14421925 original size:20 final size:20
Alignment explanation
Indices: 14421896--14421936 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14421886 ATAAAGATCC
* *
14421896 CATTTTTCCAGCAGCTTCTT
1 CATTTCTCCAGCAACTTCTT
14421916 CATTTCTCCAGCAACTTCTT
1 CATTTCTCCAGCAACTTCTT
14421936 C
1 C
14421937 TTCTTCTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.34, G:0.07, T:0.41
Consensus pattern (20 bp):
CATTTCTCCAGCAACTTCTT
Found at i:14422900 original size:38 final size:39
Alignment explanation
Indices: 14422834--14422935 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 39
14422824 ATATTGCCCG
*
14422834 TGTGCACGATGT-GGGGGATGCACACGATGGCATT-AAC-
1 TGTGCACGATGTGGGGGGATGCACACGATGAC-TTCAACA
* **
14422871 TGTGCACGATGTGGGGGGATGCACGCGATGACTTCGGCTA
1 TGTGCACGATGTGGGGGGATGCACACGATGACTTCAAC-A
14422911 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
14422936 TGAGCTGGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
37 14 0.25
38 18 0.32
40 24 0.43
ACGTcount: A:0.21, C:0.19, G:0.39, T:0.22
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACACGATGACTTCAACA
Found at i:14426082 original size:39 final size:39
Alignment explanation
Indices: 14426011--14426102 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 39
14426001 CGTTGCAGTG
* *
14426011 AGAAACATTCTGTTTTTGCTGCCTGTAACTCGCTACAGCA
1 AGAAACATTCTG-TTTTGCAGCCTGCAACTCGCTACAGCA
* **
14426051 AGAAACATTCTGTTTTGCAGCCT-CAATCTCGCTGCAGTG
1 AGAAACATTCTGTTTTGCAGCCTGCAA-CTCGCTACAGCA
*
14426090 AGAAACTTTCTGT
1 AGAAACATTCTGT
14426103 CCTGCATGCG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.04
39 31 0.69
40 12 0.27
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (39 bp):
AGAAACATTCTGTTTTGCAGCCTGCAACTCGCTACAGCA
Found at i:14427108 original size:28 final size:27
Alignment explanation
Indices: 14427057--14427327 Score: 171
Period size: 27 Copynumber: 10.1 Consensus size: 27
14427047 AGCCTGAAAT
* * * *
14427057 AACTAAATCTTCAACATGGGGTGTGAC
1 AACTAAATTTTCAACATAGCGTGTAAC
* * *
14427084 AATTACAATTTTCAATATAGTGTGTAAC
1 AACTA-AATTTTCAACATAGCGTGTAAC
*
14427112 AACTAAATTTTCAACATGGCGTGTAAC
1 AACTAAATTTTCAACATAGCGTGTAAC
* *
14427139 AACTAAATTTTCAACAT-GATGTGCAAC
1 AACTAAATTTTCAACATAG-CGTGTAAC
** * *
14427166 AGTTACATTTTTCAACATAACGTGTAAC
1 AACTA-AATTTTCAACATAGCGTGTAAC
* * *
14427194 TACTAAATTTTCAATATAGCATG-AAC
1 AACTAAATTTTCAACATAGCGTGTAAC
** * * *
14427220 AACTATGTTTTCAACATGGCATGTAAT
1 AACTAAATTTTCAACATAGCGTGTAAC
* *
14427247 AA-T-TATTTCCAACAT-GACGTGTAAC
1 AACTAAATTTTCAACATAG-CGTGTAAC
* *
14427272 AACT-AATTTTAGAACATAGTGTGTAAC
1 AACTAAATTTT-CAACATAGCGTGTAAC
* * *
14427299 -ATTACATTTTTCAACATAGCAT-TAAC
1 AACTA-AATTTTCAACATAGCGTGTAAC
14427325 AAC
1 AAC
14427328 ATTTTTTCCC
Statistics
Matches: 187, Mismatches: 45, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
24 1 0.01
25 18 0.10
26 34 0.18
27 88 0.47
28 46 0.25
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (27 bp):
AACTAAATTTTCAACATAGCGTGTAAC
Found at i:14427178 original size:55 final size:54
Alignment explanation
Indices: 14427057--14427245 Score: 175
Period size: 55 Copynumber: 3.5 Consensus size: 54
14427047 AGCCTGAAAT
* * * * * *
14427057 AACTAAATCTTCAACATGGGGTGTGACAATTACAATTTTCAATATAGTGTGTAAC
1 AACTAAATTTTCAACATGGCGTGTAACAACTA-AATTTTCAACATAGTGTGCAAC
14427112 AACTAAATTTTCAACATGGCGTGTAACAACTAAATTTTCAACAT-GATGTGCAAC
1 AACTAAATTTTCAACATGGCGTGTAACAACTAAATTTTCAACATAG-TGTGCAAC
** * ** * * **
14427166 AGTTACATTTTTCAACATAACGTGTAACTACTAAATTTTCAATATAGCATG-AAC
1 AACTA-AATTTTCAACATGGCGTGTAACAACTAAATTTTCAACATAGTGTGCAAC
** *
14427220 AACTATGTTTTCAACATGGCATGTAA
1 AACTAAATTTTCAACATGGCGTGTAA
14427246 TAATTATTTC
Statistics
Matches: 109, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
53 17 0.16
54 27 0.25
55 64 0.59
56 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
AACTAAATTTTCAACATGGCGTGTAACAACTAAATTTTCAACATAGTGTGCAAC
Found at i:14427199 original size:82 final size:81
Alignment explanation
Indices: 14427057--14427237 Score: 209
Period size: 82 Copynumber: 2.2 Consensus size: 81
14427047 AGCCTGAAAT
* * ** * **
14427057 AACTAAATCTTCAACATGGGGTGTGACAATTACAATTTTCAATATAGTGTGTAACAACTAAATTT
1 AACTAAATTTTCAACATGAGGTGCAACAATTACAATTTTCAACATAACGTGTAACAACTAAATTT
* *
14427122 TCAACATGGCGTGTAAC
66 TCAACATAGCATG-AAC
* * * *
14427139 AACTAAATTTTCAACATGATGTGCAACAGTTACATTTTTCAACATAACGTGTAACTACTAAATTT
1 AACTAAATTTTCAACATGAGGTGCAACAATTACAATTTTCAACATAACGTGTAACAACTAAATTT
*
14427204 TCAATATAGCATGAAC
66 TCAACATAGCATGAAC
**
14427220 AACTATGTTTTCAACATG
1 AACTAAATTTTCAACATG
14427238 GCATGTAATA
Statistics
Matches: 83, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 19 0.23
82 64 0.77
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (81 bp):
AACTAAATTTTCAACATGAGGTGCAACAATTACAATTTTCAACATAACGTGTAACAACTAAATTT
TCAACATAGCATGAAC
Found at i:14427599 original size:23 final size:23
Alignment explanation
Indices: 14427573--14427617 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
14427563 TTTCATATAT
*
14427573 CAACACTTCGTACAAATCATTAG
1 CAACACTTCATACAAATCATTAG
14427596 CAACACTTCATACAAATCATTA
1 CAACACTTCATACAAATCATTA
14427618 ATAAGTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.27
Consensus pattern (23 bp):
CAACACTTCATACAAATCATTAG
Found at i:14428274 original size:34 final size:32
Alignment explanation
Indices: 14428203--14428325 Score: 131
Period size: 32 Copynumber: 3.8 Consensus size: 32
14428193 TTTTACACTA
* * * *
14428203 GTTTTTCACAGGCTAAACTAAAACCCAAAGTG
1 GTTTTTCAAAGGCTCAACCACAACCCAAAGTG
*
14428235 GTTTTTCAAAGGCTCAACCACAACTTTCACAA-TG
1 GTTTTTCAAAGGCTCAACCACAAC--CCA-AAGTG
** *
14428269 GTTTTTCACGGGCTCAACCAAAACCCAAAGTG
1 GTTTTTCAAAGGCTCAACCACAACCCAAAGTG
*
14428301 ATTTTTCAAAGGCTCAACCACAACC
1 GTTTTTCAAAGGCTCAACCACAACC
14428326 TACAATAATG
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
31 2 0.03
32 45 0.61
34 25 0.34
35 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (32 bp):
GTTTTTCAAAGGCTCAACCACAACCCAAAGTG
Found at i:14428292 original size:66 final size:67
Alignment explanation
Indices: 14428203--14428363 Score: 218
Period size: 66 Copynumber: 2.4 Consensus size: 67
14428193 TTTTACACTA
* * * * * *
14428203 GTTTTTCACAGGCTAAACTAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACTTTC-ACAA
1 GTTTTTCACGGGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAACCTACAACAA
14428267 TG
66 TG
*
14428269 GTTTTTCACGGGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAACCTACAATAA
1 GTTTTTCACGGGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAACCTACAACAA
14428334 TG
66 TG
* *
14428336 GTTTTT-ACCGAGATCAACCAAAACCCAA
1 GTTTTTCA-CGGGCTCAACCAAAACCCAA
14428364 CAACTAACTT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
66 55 0.65
67 29 0.35
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (67 bp):
GTTTTTCACGGGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAACCTACAACAA
TG
Found at i:14431340 original size:43 final size:43
Alignment explanation
Indices: 14431292--14431414 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 43
14431282 CACCATCCCA
* * * ** *
14431292 TCATCATCAGCTCATGTGCACTCCCTACTCGCACATGGCTAGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCAGG
* * * *
14431335 TCATCACCGGTTTATGCGCACTCCCTACTCACACATAACCGGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCAGG
*
14431378 TCATCATCGGCTTACGCGCACTCCCTACTCGCACATA
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATA
14431415 GCCGAGTCAA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.22, C:0.37, G:0.16, T:0.24
Consensus pattern (43 bp):
TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCAGG
Found at i:14434515 original size:43 final size:43
Alignment explanation
Indices: 14434397--14434518 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 43
14434387 TGATTCGGCT
* * **
14434397 ATGTGCAAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGATT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCAGACC
*
14434440 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCTAG-CC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACC-AGACC
* *
14434483 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
14434519 TGATGATGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.01
43 67 0.97
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.38, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCAGACC
Found at i:14434545 original size:23 final size:23
Alignment explanation
Indices: 14434515--14434574 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
14434505 TGAGCTGGTG
* * *
14434515 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
14434538 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
14434561 ATGATAATGATGGG
1 ATGATGATGATGGG
14434575 TATACGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:14436138 original size:20 final size:20
Alignment explanation
Indices: 14436110--14436148 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14436100 CTTCAAGCAT
* *
14436110 TATTCTCAATTATCATCAAG
1 TATTATCAATCATCATCAAG
14436130 TATTATCAATCATCATCAA
1 TATTATCAATCATCATCAA
14436149 ACATTCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (20 bp):
TATTATCAATCATCATCAAG
Found at i:14442619 original size:23 final size:22
Alignment explanation
Indices: 14442589--14442639 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
14442579 CTTTTGTTTC
14442589 TCATTTAACAAATCTTCAAATT
1 TCATTTAACAAATCTTCAAATT
*
14442611 NTCATTTAATAAATCTTCAAATT
1 -TCATTTAACAAATCTTCAAATT
*
14442634 TTATTT
1 TCATTT
14442640 TCACGTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.47
Consensus pattern (22 bp):
TCATTTAACAAATCTTCAAATT
Found at i:14443751 original size:32 final size:32
Alignment explanation
Indices: 14443715--14443876 Score: 121
Period size: 35 Copynumber: 4.9 Consensus size: 32
14443705 TTTTACACTA
* * *
14443715 GTTTTTCACGGGCTAAACTAAAACCCAAAGTG
1 GTTTTTCACAGGCTCAACCAAAACCCAAAGTG
* * *
14443747 GTTTTTCAAAAGCTCAACCACAACCTTTCACAA-TG
1 GTTTTTCACAGGCTCAACCAAAACC---CA-AAGTG
* *
14443782 GTTTTTCACTGGCTCAACCAAAACCCACAGTG
1 GTTTTTCACAGGCTCAACCAAAACCCAAAGTG
* * *
14443814 GTTTTTCAAAGGCTCAACCACAACCTACAACAATG
1 GTTTTTCACAGGCTCAACCAAAACC--CAA-AGTG
* *
14443849 GTTTTT-ACCAAGATCAACCAAAACCCAA
1 GTTTTTCA-CAGGCTCAACCAAAACCCAA
14443877 CAACCAACTT
Statistics
Matches: 101, Mismatches: 20, Indels: 17
0.73 0.14 0.12
Matches are distributed among these distances:
31 1 0.01
32 45 0.45
33 3 0.03
34 3 0.03
35 47 0.47
36 2 0.02
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (32 bp):
GTTTTTCACAGGCTCAACCAAAACCCAAAGTG
Found at i:14443790 original size:67 final size:67
Alignment explanation
Indices: 14443697--14443854 Score: 219
Period size: 67 Copynumber: 2.4 Consensus size: 67
14443687 GTAGGTTCAG
* * * *
14443697 CCACAACCTTTTACACTAGTTTTTCACGGGCTAAACTAAAACCCAAAGTGGTTTTTCAAAAGCTC
1 CCACAACCTTTCACAATGGTTTTTCACGGGCTAAACCAAAACCCAAAGTGGTTTTTCAAAAGCTC
14443762 AA
66 AA
* * * *
14443764 CCACAACCTTTCACAATGGTTTTTCACTGGCTCAACCAAAACCCACAGTGGTTTTTCAAAGGCTC
1 CCACAACCTTTCACAATGGTTTTTCACGGGCTAAACCAAAACCCAAAGTGGTTTTTCAAAAGCTC
14443829 AA
66 AA
*
14443831 CCACAACC-TACAACAATGGTTTTT
1 CCACAACCTTTC-ACAATGGTTTTT
14443855 ACCAAGATCA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
66 2 0.02
67 79 0.98
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (67 bp):
CCACAACCTTTCACAATGGTTTTTCACGGGCTAAACCAAAACCCAAAGTGGTTTTTCAAAAGCTC
AA
Found at i:14443797 original size:35 final size:33
Alignment explanation
Indices: 14443745--14443854 Score: 132
Period size: 35 Copynumber: 3.2 Consensus size: 33
14443735 AAACCCAAAG
*
14443745 TGGTTTTTCAAAAGCTCAACCACAACCTTTCACAA
1 TGGTTTTTCAAAGGCTCAACCACAACC--TCACAA
** * *
14443780 TGGTTTTTCACTGGCTCAACCAAAACC-CACAG
1 TGGTTTTTCAAAGGCTCAACCACAACCTCACAA
14443812 TGGTTTTTCAAAGGCTCAACCACAACCTACAACAA
1 TGGTTTTTCAAAGGCTCAACCACAACCT-C-ACAA
14443847 TGGTTTTT
1 TGGTTTTT
14443855 ACCAAGATCA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
32 28 0.44
34 1 0.02
35 34 0.54
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (33 bp):
TGGTTTTTCAAAGGCTCAACCACAACCTCACAA
Found at i:14443866 original size:67 final size:67
Alignment explanation
Indices: 14443734--14443876 Score: 200
Period size: 67 Copynumber: 2.1 Consensus size: 67
14443724 GGGCTAAACT
* ** *
14443734 AAAACCCAAAGTGGTTTTTCAAAAGCTCAACCACAACCTTTCACAATGGTTTTTCACTGGCTCAA
1 AAAACCCAAAGTGGTTTTTCAAAAGCTCAACCACAACCTTACACAATGGTTTTTCACAAGATCAA
14443799 CC
66 CC
* *
14443801 AAAACCCACAGTGGTTTTTCAAAGGCTCAACCACAACC-TACAACAATGGTTTTT-ACCAAGATC
1 AAAACCCAAAGTGGTTTTTCAAAAGCTCAACCACAACCTTAC-ACAATGGTTTTTCA-CAAGATC
14443864 AACC
64 AACC
14443868 AAAACCCAA
1 AAAACCCAA
14443877 CAACCAACTT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
66 3 0.04
67 64 0.96
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (67 bp):
AAAACCCAAAGTGGTTTTTCAAAAGCTCAACCACAACCTTACACAATGGTTTTTCACAAGATCAA
CC
Found at i:14445597 original size:22 final size:22
Alignment explanation
Indices: 14445571--14445624 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
14445561 GTTTTGATTC
14445571 TTAGTTAAATTGATAGTTTTAG
1 TTAGTTAAATTGATAGTTTTAG
*
14445593 TTAGTTAAATTGGTAGTTTTAG
1 TTAGTTAAATTGATAGTTTTAG
14445615 TTAGTTAAAT
1 TTAGTTAAAT
14445625 GTGTATAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (22 bp):
TTAGTTAAATTGATAGTTTTAG
Found at i:14460160 original size:12 final size:12
Alignment explanation
Indices: 14460142--14460179 Score: 53
Period size: 10 Copynumber: 3.2 Consensus size: 12
14460132 AATTTATAAG
14460142 TTAATATATAT-
1 TTAATATATATA
14460153 TT-ATATATATA
1 TTAATATATATA
14460164 TTAATATATTATA
1 TTAATATA-TATA
14460177 TTA
1 TTA
14460180 TTACACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.33
11 4 0.17
12 5 0.21
13 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAATATATATA
Done.