Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 165 of 185
Found at i:50618570 original size:15 final size:15
Alignment explanation
Indices: 50618547--50618576 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50618537 TTTTATAGAA
*
50618547 AATATTATGAATAAT
1 AATAATATGAATAAT
50618562 AATAATATGAATAAT
1 AATAATATGAATAAT
50618577 CAAAGACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AATAATATGAATAAT
Found at i:50623305 original size:48 final size:48
Alignment explanation
Indices: 50623223--50623316 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
50623213 TTTCTTGGCT
* *
50623223 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
50623271 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
50623317 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:50628693 original size:43 final size:43
Alignment explanation
Indices: 50628632--50628719 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
50628622 TTTCAAAAGG
50628632 TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGCCATT
1 TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGCCATT
*
50628675 TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGTCATT
1 TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGCCATT
50628718 TT
1 TT
50628720 CCGTTGACCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (43 bp):
TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGCCATT
Found at i:50632116 original size:46 final size:46
Alignment explanation
Indices: 50632037--50632429 Score: 555
Period size: 46 Copynumber: 8.8 Consensus size: 46
50632027 TACGTATGAT
* * *
50632037 CACTTATCAC-TTGTC-CCTAATCAGATAATTGTAGCTAAGACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
* *
50632081 CACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
*
50632127 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
*
50632173 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-AGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGA-CTAC
*
50632219 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-AGTTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGA-CTAC
50632265 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-AGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGA-CTAC
*
50632311 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-AG--T--
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
*
50632348 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
*
50632393 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
50632430 ACTTATCACT
Statistics
Matches: 321, Mismatches: 14, Indels: 26
0.89 0.04 0.07
Matches are distributed among these distances:
36 28 0.09
38 2 0.01
39 2 0.01
40 1 0.00
41 2 0.01
42 1 0.00
43 2 0.01
44 12 0.04
45 5 0.02
46 266 0.83
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
Found at i:50632352 original size:36 final size:36
Alignment explanation
Indices: 50632312--50632449 Score: 159
Period size: 36 Copynumber: 3.6 Consensus size: 36
50632302 TAAAGCTACC
*
50632312 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGT
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGT
50632348 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACT
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-------T
* *
50632391 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ---ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGT
50632430 ACTTATCACTTTGTCACTTG
1 ACTTATCACTTTGTCACTTG
50632450 GTGTAGCTAA
Statistics
Matches: 88, Mismatches: 4, Indels: 20
0.79 0.04 0.18
Matches are distributed among these distances:
36 53 0.60
43 1 0.01
46 34 0.39
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (36 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGT
Found at i:50632359 original size:82 final size:82
Alignment explanation
Indices: 50632265--50632488 Score: 358
Period size: 82 Copynumber: 2.8 Consensus size: 82
50632255 CTAAAGTTAC
50632265 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
50632330 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
50632347 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
50632412 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
*
50632429 CACTTATCACTTTGTCAC-T--T--G----GTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
50632485 TGAT
66 TGAT
50632489 TAAAAGTACT
Statistics
Matches: 137, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
73 37 0.27
77 1 0.01
79 1 0.01
81 1 0.01
82 97 0.71
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTGTAG
Found at i:50636311 original size:110 final size:110
Alignment explanation
Indices: 50636039--50636366 Score: 575
Period size: 110 Copynumber: 3.0 Consensus size: 110
50636029 GAAATTCAAG
* * * * * *
50636039 AGGATATTTGGCTATTCGGTTAAATGAGAAAAATCGACCCCCAGCACCTTAAGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
50636104 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAA-TTTTTAAA
50636150 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
50636215 GAATTTCCCAAACGCAAAACATTGCATTATTTGAAAATTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
50636260 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
50636325 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAAATTTT
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTT
50636367 GTTTTTGATA
Statistics
Matches: 208, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
110 113 0.54
111 95 0.46
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
Found at i:50636505 original size:18 final size:17
Alignment explanation
Indices: 50636474--50636509 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
50636464 ATATATAATG
*
50636474 AAAAGAAATCAACAAAT
1 AAAAGAAATAAACAAAT
50636491 AAAAGTAAATAAACAAAT
1 AAAAG-AAATAAACAAAT
50636509 A
1 A
50636510 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAGAAATAAACAAAT
Found at i:50636844 original size:20 final size:19
Alignment explanation
Indices: 50636821--50636865 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
50636811 TGTGTGTAAG
*
50636821 TATATAAAAAAATATGTATA
1 TATATAAAAAAA-ACGTATA
50636841 TATAT-AAAAAAACGTATA
1 TATATAAAAAAAACGTATA
50636859 TATATAA
1 TATATAA
50636866 GGGCAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
TATATAAAAAAAACGTATA
Found at i:50636929 original size:3 final size:3
Alignment explanation
Indices: 50636874--50636909 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
50636864 AAGGGCAATT
* *
50636874 ATA ATA ATG ATA ATA ATA ATA ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50636910 TTATTATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:50638038 original size:21 final size:22
Alignment explanation
Indices: 50638001--50638041 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
50637991 TTTAGGCTAG
50638001 TTGGGTCTGGTTCTGTTTGGAT
1 TTGGGTCTGGTTCTGTTTGGAT
*
50638023 TTGGGT-TGGTTGTGTTTGG
1 TTGGGTCTGGTTCTGTTTGG
50638042 GTAGCTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.02, C:0.05, G:0.41, T:0.51
Consensus pattern (22 bp):
TTGGGTCTGGTTCTGTTTGGAT
Found at i:50648732 original size:3 final size:3
Alignment explanation
Indices: 50648724--50648765 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
50648714 TTATAAAAAT
50648724 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50648766 TTAGCAATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:50650906 original size:72 final size:72
Alignment explanation
Indices: 50650782--50650951 Score: 261
Period size: 72 Copynumber: 2.4 Consensus size: 72
50650772 CAATAAGCAA
* * *
50650782 TAGCGGCGTTTTTTAA-AAAGCGCAGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTT
1 TAGCGGCG-TTTTTAAGAAAGCGCCGCAAAAAACATAATCCAAAACAACGCAGTTTTGTGAGCTT
50650846 TGTGGATT
65 TGTGGATT
* *
50650854 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAATCCAAAACAACGCAGTTTTGTGAGCTTT
50650919 GTGGATT
66 GTGGATT
* *
50650926 TAGCGGCATTTTTAAGGAAGCGCCGC
1 TAGCGGCGTTTTTAAGAAAGCGCCGC
50650952 TAATGCTCAG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
71 6 0.07
72 83 0.93
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (72 bp):
TAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAATCCAAAACAACGCAGTTTTGTGAGCTTT
GTGGATT
Found at i:50651052 original size:114 final size:114
Alignment explanation
Indices: 50650852--50651294 Score: 721
Period size: 114 Copynumber: 3.9 Consensus size: 114
50650842 GCTTTGTGGA
*
50650852 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCT
* *
50650917 TT-GTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
66 TTCGTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
50650965 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGC
* *
50651030 TTT-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGC
65 TTTCGTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* **
50651079 TTTAGCGGCGTTTTTGAGATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAG-TTTTGTGAGC
*
50651144 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
65 TTTCGTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
50651194 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCT
*
50651259 TTCG-GAGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 TTCGTG-GATTTAGCGGCGTTTTTAAGAAAGCGCCGC
50651295 AAAAAACCTA
Statistics
Matches: 309, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
113 52 0.17
114 165 0.53
115 92 0.30
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCT
TTCGTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:50651271 original size:229 final size:227
Alignment explanation
Indices: 50650852--50651294 Score: 728
Period size: 229 Copynumber: 1.9 Consensus size: 227
50650842 GCTTTGTGGA
50650852 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCT
* *
50650917 TTGTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
66 TTGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
*
50650982 GAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTTTGTGGATTTAGCGGC
131 GAAAGCGCCGCAAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTTGTGGATTTAGCGGC
*
50651047 GTTTTTAAGGAAGCGCCGCTAATGCTCACGGC
196 GTTTTTAAGAAAGCGCCGCTAATGCTCACGGC
* * **
50651079 TTTAGCGGCGTTTTTGAGATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAG-TTTTGTGAGC
*
50651144 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
65 TTT-GGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
* *
50651209 GGGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTTCG-GAGATTTAG
129 GAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT-GTG-GATTTAG
*
50651272 CGGCGTTTTTTAGAAAGCGCCGC
192 CGGCGTTTTTAAGAAAGCGCCGC
50651295 AAAAAACCTA
Statistics
Matches: 200, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
227 50 0.25
228 51 0.25
229 99 0.50
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (227 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCT
TTGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
GAAAGCGCCGCAAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTTGTGGATTTAGCGGC
GTTTTTAAGAAAGCGCCGCTAATGCTCACGGC
Found at i:50651279 original size:73 final size:73
Alignment explanation
Indices: 50651194--50651352 Score: 228
Period size: 73 Copynumber: 2.2 Consensus size: 73
50651184 TGCTCAGGGC
* * *
50651194 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
50651259 TTCGGAGA
66 TTCGGAGA
* * * * *
50651267 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
*
50651332 TTCGGGGA
66 TTCGGAGA
*
50651340 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
50651353 AATTGATTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGAGA
Found at i:50651737 original size:17 final size:17
Alignment explanation
Indices: 50651706--50651749 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
50651696 TAGGGAGTAT
50651706 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
50651721 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
50651738 TTATGGTTTAAT
1 TTATGGATTAAT
50651750 TAAGGGTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:50652060 original size:14 final size:15
Alignment explanation
Indices: 50652030--50652067 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
50652020 CTACTATATA
50652030 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
50652045 TATGGA-TTAGGTAT
1 TATGGATTTAGGGAT
50652059 TATGG-TTTA
1 TATGGATTTA
50652068 ATTAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:50652115 original size:15 final size:14
Alignment explanation
Indices: 50652090--50652121 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
50652080 TGGTCGAGAT
50652090 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
50652104 TTAAGAGTTTAGGGG
1 TTAAG-GTTTAGGGG
50652119 TTA
1 TTA
50652122 GACGTTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:50652158 original size:29 final size:30
Alignment explanation
Indices: 50652087--50652158 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 30
50652077 CGTTGGTCGA
* *
50652087 GATTTAAGGTTTAGGGGTTAAGAGTTTAGG
1 GATTTAGGGTTTAGGGGCTAAGAGTTTAGG
* * *
50652117 G-GTTAGACG-TTAGTGGCTAAGAG-TTAGG
1 GATTTAG-GGTTTAGGGGCTAAGAGTTTAGG
50652145 GATTTAGGGTTTAG
1 GATTTAGGGTTTAG
50652159 AGTTTTAGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
28 7 0.22
29 23 0.72
30 2 0.06
ACGTcount: A:0.25, C:0.03, G:0.38, T:0.35
Consensus pattern (30 bp):
GATTTAGGGTTTAGGGGCTAAGAGTTTAGG
Found at i:50652629 original size:47 final size:46
Alignment explanation
Indices: 50652564--50652664 Score: 157
Period size: 47 Copynumber: 2.2 Consensus size: 46
50652554 AATAATGAAA
* *
50652564 TAAAAACACTAAACTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAA-ACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
*
50652611 TAAAAAACTAAAATTTTTAAATTTATCTAATTTTTATAAATATAACT
1 TAAAAAACT-AAACTTTTAAATTTATCTAATTTTTATAAATATAACT
50652658 TAAAAAA
1 TAAAAAA
50652665 ACCTATGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 3 0.06
47 47 0.94
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (46 bp):
TAAAAAACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
Found at i:50655796 original size:14 final size:14
Alignment explanation
Indices: 50655777--50655806 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50655767 ACATAAAGCA
50655777 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
50655791 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
50655805 AC
1 AC
50655807 ACCTAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAACCTTTTCCC
Found at i:50656988 original size:15 final size:15
Alignment explanation
Indices: 50656968--50656997 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50656958 GAGTTGAAAG
50656968 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
50656983 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
50656998 AGATGATCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:50657241 original size:23 final size:23
Alignment explanation
Indices: 50657214--50657269 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
50657204 ACTAAAAGTA
*
50657214 TATATTTAATACTAATTAATTTT
1 TATATTTAATAATAATTAATTTT
** *
50657237 TATA-TTAATAATGTTTTATTTT
1 TATATTTAATAATAATTAATTTT
*
50657259 AATATTTAATA
1 TATATTTAATA
50657270 TTTCTAAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TATATTTAATAATAATTAATTTT
Found at i:50657248 original size:15 final size:16
Alignment explanation
Indices: 50657230--50657262 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50657220 TAATACTAAT
50657230 TAAT-TTTTATATTAA
1 TAATGTTTTATATTAA
*
50657245 TAATGTTTTATTTTAA
1 TAATGTTTTATATTAA
50657261 TA
1 TA
50657263 TTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TAATGTTTTATATTAA
Found at i:50657441 original size:43 final size:43
Alignment explanation
Indices: 50657334--50657517 Score: 181
Period size: 43 Copynumber: 4.3 Consensus size: 43
50657324 ATGGTGTTTT
* ** * * * **
50657334 TAGCGGCGTTTGTAATCAAAGCGTCGCTAAAGGTCTTTGATATA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATC-CTGAGCTA
* * * * *
50657378 TAGTGGCGTTTG-TGGTAAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTTAG-AAAAGCGCCGCTAAAGATCCTGAGCTA
* ** *
50657421 TAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCCAAGTTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
*
50657464 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
50657507 TAGCGGCGTTT
1 TAGCGGCGTTT
50657518 ATTTCTAAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
43 88 0.74
44 31 0.26
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
Found at i:50658094 original size:132 final size:132
Alignment explanation
Indices: 50657667--50658360 Score: 845
Period size: 132 Copynumber: 5.3 Consensus size: 132
50657657 TGGTGTAGTG
* * * *
50657667 TCTGCTCCACTACTGCTTAGGGAGACAGTATCTACATTCTTCAACCTACTCCACTGCTGCTCAGG
1 TCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGG
** * * * * *
50657732 GAGATAGGACCGGTGGCTTAAATCTGCTTCACTACTATCTTAGGAAGATAAGATTTGCCGTCCTC
66 GAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCGTCTTC
50657797 GA
131 GA
* * * *
50657799 -CTTGCTCCTCTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGTTCAG
1 TC-TGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAG
* ** * * *
50657863 GGAAATAGG---AGGGGCTTAAATTTGCTTC-CCTACTACCTTGGGAAGATAAGA-T---C--CA
65 GGAGATAGGACCAATGGCTTAAATCTGCTTCTCC-ACTATCTTGGGAAGATAAGATTCGCCGTCT
50657918 T-GA
129 TCGA
* * * * * * * * *
50657921 TGTGCTCCACTACTGCTTAGGGAGACAGTATTTACATTCTTCAACCTACTCTACTACTGCTCAAG
1 TCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGG
* * *
50657986 GAGATAGGACCAATGGCTTAAATCTGTTTCTCCACTATATTGGGAAAATAAGATTCGCCGTCTTC
66 GAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCGTCTTC
50658051 GA
131 GA
*
50658053 TCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGTAATCTTCAACCTACTCCACTGCTGCTCAGG
1 TCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGG
* * * * ** * *
50658118 GAGATAGAACTAATGGCATAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCATCATTTTC
66 GAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCGTCTTC
50658183 GA
131 GA
* * *
50658185 TCTGCTCCGCTACTGCTTATGGAGACAGGATCTGCAATCTTTAACCTACTCCACTGCTGCTCAAG
1 TCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGG
* *
50658250 GAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATTTTGGGAAGATAAGATTCGCCGTCTTC
66 GAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCGTCTTC
50658315 GA
131 GA
* *
50658317 TCTGCTCCGCTACTGATTAGGGAGACAAGATCTGCAATCTTCAA
1 TCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAA
50658361 TGGTCTATTC
Statistics
Matches: 479, Mismatches: 69, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
122 63 0.13
123 2 0.00
125 33 0.07
126 3 0.01
128 2 0.00
129 35 0.07
131 3 0.01
132 338 0.71
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
TCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGG
GAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCGTCTTC
GA
Found at i:50658119 original size:254 final size:259
Alignment explanation
Indices: 50657667--50658360 Score: 934
Period size: 254 Copynumber: 2.7 Consensus size: 259
50657657 TGGTGTAGTG
*
50657667 TCTGCTCCACTACTGCTTAGGGAGACAGTATCTACATTCTTCAACCTACTCCACTGCTGCTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGACAGTATCTACATTCTTCAACCTACTCCACTGCTGCTCAAG
** * * * * * *
50657732 GAGATAGGACCGGTGGCTTAAATCTGCTTCACTACTATCTTAGGAAGATAAGATTTGCCGTCCTC
66 GAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGATAAGATTCGCCGTCTTC
* * * *
50657797 GA-CTTGCTCCTCTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGTTC
131 GATC-TGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTC
* * * *
50657861 AGGGAAATAG-GAGGGGCTTAAATTTGCTTC-CCTACTACCTTGGGAAGATAAGA-TC-CA-T-G
195 AGGGAAATAGAGAAGGGCATAAATCTACTTCTCC-ACTACCTTGGGAAGATAAGATTCACATTCG
50657920 A
259 A
* * * *
50657921 TGTGCTCCACTACTGCTTAGGGAGACAGTATTTACATTCTTCAACCTACTCTACTACTGCTCAAG
1 TCTGCTCCACTACTGCTTAGGGAGACAGTATCTACATTCTTCAACCTACTCCACTGCTGCTCAAG
* *
50657986 GAGATAGGACCAATGGCTTAAATCTGTTTCTCCACTATATTGGGAAAATAAGATTCGCCGTCTTC
66 GAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGATAAGATTCGCCGTCTTC
*
50658051 GATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGTAATCTTCAACCTACTCCACTGCTGCTCA
131 GATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCA
* * * *
50658116 GGGAGATAGAACTAATGGCATAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCATCATTT
196 GGGAAATAG-A-GAAGGGCATAAATCTACTTCTCCACTACCTTGGGAAGATAAGATTCA-CA--T
50658181 TCGA
256 TCGA
* * * * * *
50658185 TCTGCTCCGCTACTGCTTATGGAGACAGGATCTGCAATCTTTAACCTACTCCACTGCTGCTCAAG
1 TCTGCTCCACTACTGCTTAGGGAGACAGTATCTACATTCTTCAACCTACTCCACTGCTGCTCAAG
* *
50658250 GAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATTTTGGGAAGATAAGATTCGCCGTCTTC
66 GAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGATAAGATTCGCCGTCTTC
* *
50658315 GATCTGCTCCGCTACTGATTAGGGAGACAAGATCTGCAATCTTCAA
131 GATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAA
50658361 TGGTCTATTC
Statistics
Matches: 383, Mismatches: 45, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
254 181 0.47
255 1 0.00
257 33 0.09
258 4 0.01
260 2 0.01
263 1 0.00
264 161 0.42
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (259 bp):
TCTGCTCCACTACTGCTTAGGGAGACAGTATCTACATTCTTCAACCTACTCCACTGCTGCTCAAG
GAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCA
GGGAAATAGAGAAGGGCATAAATCTACTTCTCCACTACCTTGGGAAGATAAGATTCACATTCGA
Found at i:50664178 original size:21 final size:21
Alignment explanation
Indices: 50664154--50664197 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
50664144 AACGAAGTAA
50664154 AGCCATATATTCCTCCACTGT
1 AGCCATATATTCCTCCACTGT
50664175 AGCCATATATTCCTCCACTGT
1 AGCCATATATTCCTCCACTGT
50664196 AG
1 AG
50664198 GTACCAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (21 bp):
AGCCATATATTCCTCCACTGT
Found at i:50664603 original size:16 final size:16
Alignment explanation
Indices: 50664582--50664615 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50664572 TTTTAGGATG
* *
50664582 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
50664598 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
50664614 AA
1 AA
50664616 GCAAAACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:50673567 original size:26 final size:24
Alignment explanation
Indices: 50673504--50673574 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 24
50673494 CAATCTTTAT
*
50673504 ATTAAATAATTTTTAATTAAAAATA
1 ATTAAAT-ATTATTAATTAAAAATA
* * *
50673529 A-TAAAAATAATTAGTTATAAAATA
1 ATTAAATATTATTAATTA-AAAATA
50673553 ATTTAAATATTATTAAATTAAA
1 A-TTAAATATTATT-AATTAAA
50673575 TTATAAATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
23 8 0.23
24 11 0.31
25 1 0.03
26 11 0.31
27 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (24 bp):
ATTAAATATTATTAATTAAAAATA
Found at i:50678236 original size:15 final size:15
Alignment explanation
Indices: 50678202--50678236 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50678192 CGAATTAGCT
*
50678202 TTTTTATATATATAG
1 TTTTTATATATAAAG
50678217 TTTTTATATATAAATG
1 TTTTTATATATAAA-G
50678233 TTTT
1 TTTT
50678237 GTTTCTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (15 bp):
TTTTTATATATAAAG
Found at i:50682659 original size:16 final size:16
Alignment explanation
Indices: 50682635--50682670 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
50682625 TAACCACTTC
* *
50682635 AAAATATAATTAAAAT
1 AAAAAATAAATAAAAT
50682651 AAAAAATAAATAAAAT
1 AAAAAATAAATAAAAT
50682667 AAAA
1 AAAA
50682671 TAAGATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAAATAAATAAAAT
Found at i:50692401 original size:13 final size:12
Alignment explanation
Indices: 50692360--50692415 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
50692350 TTTAGTCATA
*
50692360 TAATAAATTA-T
1 TAATATATTATT
*
50692371 TAATATAATTAATA
1 TAATAT-ATT-ATT
50692385 TAATATATTATTT
1 TAATATATTA-TT
*
50692398 TAATAAATTATT
1 TAATATATTATT
50692410 TAATAT
1 TAATAT
50692416 TTAAATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
11 5 0.14
12 11 0.31
13 14 0.39
14 6 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATATATTATT
Found at i:50692409 original size:16 final size:19
Alignment explanation
Indices: 50692360--50692419 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
50692350 TTTAGTCATA
50692360 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
50692380 TAATATAATATATT-AT-T-T
1 TAATA-AAT-TATTAATATAT
50692398 TAATAAATTATTTAATAT-T
1 TAATAAATTA-TTAATATAT
50692417 TAA
1 TAA
50692420 ATTTTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.06
17 5 0.14
18 8 0.23
19 5 0.14
20 6 0.17
21 5 0.14
22 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:50694133 original size:18 final size:19
Alignment explanation
Indices: 50694107--50694144 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
50694097 AAATACAACC
*
50694107 AATATTCAAT-TAAATTCA
1 AATAATCAATATAAATTCA
*
50694125 AATAATCAATATATATTCA
1 AATAATCAATATAAATTCA
50694144 A
1 A
50694145 TATATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAATCAATATAAATTCA
Found at i:50694146 original size:11 final size:11
Alignment explanation
Indices: 50694108--50694151 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
50694098 AATACAACCA
50694108 ATATTCAAT-T
1 ATATTCAATAT
*
50694118 AAATTCAA-AT
1 ATATTCAATAT
50694128 A-A-TCAATAT
1 ATATTCAATAT
50694137 ATATTCAATAT
1 ATATTCAATAT
50694148 ATAT
1 ATAT
50694152 ATACCTATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 10 0.34
11 11 0.38
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (11 bp):
ATATTCAATAT
Found at i:50694202 original size:24 final size:24
Alignment explanation
Indices: 50694158--50694203 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
50694148 ATATATACCT
50694158 ATTCAATCAATATAAATTCAATAA
1 ATTCAATCAATATAAATTCAATAA
50694182 ATTC-ATCACATACTAAA-TCAAT
1 ATTCAATCA-ATA-TAAATTCAAT
50694204 TCATTTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (24 bp):
ATTCAATCAATATAAATTCAATAA
Found at i:50694438 original size:19 final size:20
Alignment explanation
Indices: 50694401--50694438 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
50694391 AACATAATTC
*
50694401 AATTTTATACTGAAAATTTT
1 AATTTTATACTCAAAATTTT
*
50694421 AATTTT-TACTCAATATTT
1 AATTTTATACTCAAAATTT
50694439 GCCTAAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (20 bp):
AATTTTATACTCAAAATTTT
Found at i:50695869 original size:37 final size:37
Alignment explanation
Indices: 50695819--50695940 Score: 145
Period size: 37 Copynumber: 3.1 Consensus size: 37
50695809 TAAAGACCAT
50695819 GACCTTTAGCGGCGCATTTGTCACAAACGCCGCTAAA
1 GACCTTTAGCGGCGCATTTGTCACAAACGCCGCTAAA
* *
50695856 GACCTTTAGCGGCGCGTCTGTCACAAACGCCGCTAAA
1 GACCTTTAGCGGCGCATTTGTCACAAACGCCGCTAAA
* *
50695893 GACCATGAGCTTTAGCTGCGCTTTTGTCACAAACGCCGCTGAAA
1 GA-C-----CTTTAGCGGCGCATTTGTCACAAACGCCGCT-AAA
50695937 GACC
1 GACC
50695941 ATAAACTTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
37 37 0.51
38 2 0.03
43 29 0.40
44 5 0.07
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.21
Consensus pattern (37 bp):
GACCTTTAGCGGCGCATTTGTCACAAACGCCGCTAAA
Found at i:50695921 original size:43 final size:43
Alignment explanation
Indices: 50695807--50696044 Score: 256
Period size: 43 Copynumber: 5.7 Consensus size: 43
50695797 GAAAAACGAT
*
50695807 GCTAAAGACCATGACCTTTAGCGGCGCATTTGTCACAAACGCC
1 GCTAAAGACCATGACCTTTAGCGGCGCTTTTGTCACAAACGCC
* *
50695850 GCT--A-A--A-GACCTTTAGCGGCGCGTCTGTCACAAACGCC
1 GCTAAAGACCATGACCTTTAGCGGCGCTTTTGTCACAAACGCC
* *
50695887 GCTAAAGACCATGAGCTTTAGCTGCGCTTTTGTCACAAACGCC
1 GCTAAAGACCATGACCTTTAGCGGCGCTTTTGTCACAAACGCC
* * *
50695930 GCTGAAAGACCATAAACTTTAGCGGCGCTTTTGTCACAAATGCC
1 GCT-AAAGACCATGACCTTTAGCGGCGCTTTTGTCACAAACGCC
* ** * * * * *
50695974 ACTAAAGGTCATGACCTTTAGCGTCGCTTTTATTATAAATGCC
1 GCTAAAGACCATGACCTTTAGCGGCGCTTTTGTCACAAACGCC
* *
50696017 GCTAAAGAACA-AACCTTTAGCGGCGCTT
1 GCTAAAGACCATGACCTTTAGCGGCGCTT
50696045 CTAGCAAAAA
Statistics
Matches: 164, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
37 32 0.20
38 1 0.01
39 1 0.01
40 2 0.01
41 1 0.01
42 16 0.10
43 73 0.45
44 38 0.23
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (43 bp):
GCTAAAGACCATGACCTTTAGCGGCGCTTTTGTCACAAACGCC
Found at i:50696018 original size:87 final size:85
Alignment explanation
Indices: 50695808--50696064 Score: 276
Period size: 87 Copynumber: 3.1 Consensus size: 85
50695798 AAAAACGATG
* * *
50695808 CTAAAGACCATGACCTTTAGCGGCGCATTTGTCACAAACGCCGCTAAAG-AC----CTTTAGCGG
1 CTAAAGACCATGACCTTTAGCTGCGCTTTTATCACAAACGCCGCTAAAGAACAAAACTTTAGCGG
* *
50695868 CGCGTCTGTCACAAACGCCG
66 CGCTTCTGTCACAAACGCCA
* * *
50695888 CTAAAGACCATGAGCTTTAGCTGCGCTTTTGTCACAAACGCCGCTGAAAGACCATAAACTTTAGC
1 CTAAAGACCATGACCTTTAGCTGCGCTTTTATCACAAACGCCGCT-AAAGAACA-AAACTTTAGC
* *
50695953 GGCGCTTTTGTCACAAATGCCA
64 GGCGCTTCTGTCACAAACGCCA
** * * * *
50695975 CTAAAGGTCATGACCTTTAGC-GTCGCTTTTATTATAAATGCCGCTAAAGAACAAACCTTTAGCG
1 CTAAAGACCATGACCTTTAGCTG-CGCTTTTATCACAAACGCCGCTAAAGAACAAAACTTTAGCG
*
50696039 GCGCTTCTAG-CAAAAACGCCA
65 GCGCTTCT-GTCACAAACGCCA
50696060 CTAAA
1 CTAAA
50696065 AACATAACAT
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
80 42 0.28
81 4 0.03
82 1 0.01
85 31 0.21
86 9 0.06
87 61 0.41
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (85 bp):
CTAAAGACCATGACCTTTAGCTGCGCTTTTATCACAAACGCCGCTAAAGAACAAAACTTTAGCGG
CGCTTCTGTCACAAACGCCA
Found at i:50697126 original size:20 final size:21
Alignment explanation
Indices: 50697103--50697143 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
50697093 AATAAACACC
50697103 AAAAAA-TTATTTTAAAAATA
1 AAAAAATTTATTTTAAAAATA
50697123 AAAAAATTTATTTTAAAAATA
1 AAAAAATTTATTTTAAAAATA
50697144 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAAATTTATTTTAAAAATA
Found at i:50702612 original size:22 final size:22
Alignment explanation
Indices: 50702587--50702628 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50702577 TTTTTCTTGT
*
50702587 TGTTGTTTTGCTGCCATTTTAC
1 TGTTGTTTTACTGCCATTTTAC
*
50702609 TGTTGTTTTACTGTCATTTT
1 TGTTGTTTTACTGCCATTTT
50702629 GCTATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.60
Consensus pattern (22 bp):
TGTTGTTTTACTGCCATTTTAC
Found at i:50716001 original size:23 final size:23
Alignment explanation
Indices: 50715975--50716018 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
50715965 TTAATAAATG
* *
50715975 ATAAAATTATATTTTAATTTTTT
1 ATAAAATTATAATTAAATTTTTT
50715998 ATAAAATTATAATTAAATTTT
1 ATAAAATTATAATTAAATTTT
50716019 CGCAATATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATAAAATTATAATTAAATTTTTT
Found at i:50717764 original size:21 final size:20
Alignment explanation
Indices: 50717746--50717783 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
50717736 TAAATTATAC
50717746 TTTTTT-AAAATTAATTTAT
1 TTTTTTAAAAATTAATTTAT
50717765 TTTTTTAAAAAATTAATTT
1 TTTTTT-AAAAATTAATTT
50717784 TTTAATGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAAAAATTAATTTAT
Found at i:50717778 original size:17 final size:18
Alignment explanation
Indices: 50717746--50717786 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
50717736 TAAATTATAC
*
50717746 TTTTTTAAAATTAATTTAT
1 TTTTTTAAAA-TAATTAAT
50717765 TTTTTTAAAA-AATTAAT
1 TTTTTTAAAATAATTAAT
50717782 TTTTT
1 TTTTT
50717787 AATGTGTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.52
19 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTTAAAATAATTAAT
Found at i:50721482 original size:172 final size:172
Alignment explanation
Indices: 50721196--50721540 Score: 647
Period size: 172 Copynumber: 2.0 Consensus size: 172
50721186 TACAGAGCGG
* *
50721196 TGATCAAAACTTTTGTTAGACATTTGTCTAACATGGGTTCAAATTGAGTGACTCTATCCCTCACC
1 TGATCAAAACTTTTGTTAGACATTTGTCTAACATGGGTTCAAACTGAGTGACTCCATCCCTCACC
50721261 CTAATTTTATATAAAAAAAATTTAAAAAGATAACTGCACCTTCATGAATTAGATATAAAAGAAAA
66 CTAATTTTATATAAAAAAAATTTAAAAAGATAACTGCACCTTCATGAATTAGATATAAAAGAAAA
50721326 TCTGAATATACCAAGACCATCAGTGTCATGCCAAGATATGAT
131 TCTGAATATACCAAGACCATCAGTGTCATGCCAAGATATGAT
50721368 TGATCAAAACTTTTGTTAGACATTTGTCTAACATGGGTTCAAACTGAGTGACTCCATCCCGT-AC
1 TGATCAAAACTTTTGTTAGACATTTGTCTAACATGGGTTCAAACTGAGTGACTCCATCCC-TCAC
50721432 CCTAATTTTATATAAAAAAAATTTAAAAAGATAACTGCACCTTCATGAATTAGATATAAAAGAAA
65 CCTAATTTTATATAAAAAAAATTTAAAAAGATAACTGCACCTTCATGAATTAGATATAAAAGAAA
*
50721497 ATCTGAATATACCAAGACCATCAGTGTCATGCCAGGATATGAT
130 ATCTGAATATACCAAGACCATCAGTGTCATGCCAAGATATGAT
50721540 T
1 T
50721541 AAGGCTTCTG
Statistics
Matches: 169, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
172 168 0.99
173 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (172 bp):
TGATCAAAACTTTTGTTAGACATTTGTCTAACATGGGTTCAAACTGAGTGACTCCATCCCTCACC
CTAATTTTATATAAAAAAAATTTAAAAAGATAACTGCACCTTCATGAATTAGATATAAAAGAAAA
TCTGAATATACCAAGACCATCAGTGTCATGCCAAGATATGAT
Found at i:50723581 original size:16 final size:17
Alignment explanation
Indices: 50723555--50723588 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50723545 TGAACAAATT
*
50723555 AATTAAAAAATCATAAA
1 AATTAAAAAATAATAAA
50723572 AATT-AAAAATAATAAA
1 AATTAAAAAATAATAAA
50723588 A
1 A
50723589 TCGGTTCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AATTAAAAAATAATAAA
Found at i:50724225 original size:19 final size:18
Alignment explanation
Indices: 50724167--50724248 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 18
50724157 ACACGAGAAC
50724167 TTTGAAACAC-AATAATAATT
1 TTTGAAACACGAA-AAT--TT
*
50724187 TTTGAAAACACGAAGA-TT
1 TTTG-AAACACGAAAATTT
50724205 TTTGAAACACGAAAATTT
1 TTTGAAACACGAAAATTT
* *
50724223 TTTGAAAACACGGAATTTT
1 TTTG-AAACACGAAAATTT
50724242 TTTGAAA
1 TTTGAAA
50724249 ACAAGGAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
17 10 0.19
18 15 0.28
19 16 0.30
20 4 0.07
21 7 0.13
22 2 0.04
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTGAAACACGAAAATTT
Found at i:50724230 original size:36 final size:38
Alignment explanation
Indices: 50724167--50724252 Score: 108
Period size: 36 Copynumber: 2.3 Consensus size: 38
50724157 ACACGAGAAC
50724167 TTTGAAACACAATAATAATTTTTGAAAACAC-GAAGATT
1 TTTGAAACACAATAAT-ATTTTTGAAAACACGGAAGATT
**
50724205 TTTGAAACACGAA-AAT-TTTTTGAAAACACGGAATTTT
1 TTTGAAACAC-AATAATATTTTTGAAAACACGGAAGATT
50724242 TTTGAAA-ACAA
1 TTTGAAACACAA
50724253 GGAAATTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
35 2 0.05
36 15 0.34
37 12 0.27
38 13 0.30
39 2 0.05
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (38 bp):
TTTGAAACACAATAATATTTTTGAAAACACGGAAGATT
Found at i:50724249 original size:19 final size:19
Alignment explanation
Indices: 50724185--50724261 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
50724175 ACAATAATAA
**
50724185 TTTTTGAAAACAC-GAAGA
1 TTTTTGAAAACACGGAATT
* *
50724203 TTTTTG-AAACACGAAAAT
1 TTTTTGAAAACACGGAATT
50724221 TTTTTGAAAACACGGAATT
1 TTTTTGAAAACACGGAATT
*
50724240 TTTTTGAAAACAAGGAAATT
1 TTTTTGAAAACACGG-AATT
50724260 TT
1 TT
50724262 CGATACGTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 6 0.12
18 14 0.28
19 24 0.48
20 6 0.12
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (19 bp):
TTTTTGAAAACACGGAATT
Found at i:50724419 original size:16 final size:17
Alignment explanation
Indices: 50724379--50724465 Score: 79
Period size: 17 Copynumber: 5.0 Consensus size: 17
50724369 TTGAAAACAC
*
50724379 GAAAACATGAAAATTTT
1 GAAAACACGAAAATTTT
50724396 GAAAACACGAAAATTTT
1 GAAAACACGAAAATTTT
*
50724413 G-AAACACGAAATTTTTTTT
1 GAAAACACGAAA---ATTTT
* * *
50724432 TAAAACACGGGAATTTTT
1 GAAAACAC-GAAAATTTT
50724450 GAAAACACG-AAATTTT
1 GAAAACACGAAAATTTT
50724466 TTATTCACGA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
16 16 0.27
17 18 0.31
18 12 0.20
19 4 0.07
20 6 0.10
21 3 0.05
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (17 bp):
GAAAACACGAAAATTTT
Found at i:50724448 original size:21 final size:20
Alignment explanation
Indices: 50724409--50724467 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
50724399 AACACGAAAA
*
50724409 TTTTGAAACACGAAATTTTT
1 TTTTAAAACACGAAATTTTT
*
50724429 TTTTAAAACACGGGAA---TT
1 TTTTAAAACAC-GAAATTTTT
*
50724447 TTTGAAAACACGAAATTTTT
1 TTTTAAAACACGAAATTTTT
50724467 T
1 T
50724468 ATTCACGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
17 3 0.10
18 12 0.39
20 13 0.42
21 3 0.10
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (20 bp):
TTTTAAAACACGAAATTTTT
Found at i:50724465 original size:38 final size:36
Alignment explanation
Indices: 50724392--50724467 Score: 107
Period size: 38 Copynumber: 2.1 Consensus size: 36
50724382 AACATGAAAA
50724392 TTTTGAAAACACGAAAATTTTGAAACACGAAATTTT
1 TTTTGAAAACACGAAAATTTTGAAACACGAAATTTT
* * *
50724428 TTTTTAAAACACGGGAATTTTTGAAAACACGAAATTTT
1 TTTTGAAAACAC-GAAAATTTTG-AAACACGAAATTTT
50724466 TT
1 TT
50724468 ATTCACGAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 11 0.31
37 8 0.23
38 16 0.46
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (36 bp):
TTTTGAAAACACGAAAATTTTGAAACACGAAATTTT
Found at i:50724467 original size:18 final size:18
Alignment explanation
Indices: 50724185--50724467 Score: 129
Period size: 18 Copynumber: 15.3 Consensus size: 18
50724175 ACAATAATAA
50724185 TTTTTGAAAACACGAAGA-
1 TTTTTGAAAACACGAA-AT
50724203 TTTTTG-AAACACGAAAAT
1 TTTTTGAAAACACG-AAAT
*
50724221 TTTTTGAAAACACGGAATT
1 TTTTTGAAAACAC-GAAAT
*
50724240 TTTTTGAAAACAAGGAAA-
1 TTTTTGAAAAC-ACGAAAT
* * **
50724258 TTTTCG-ATACGTGAGAAT
1 TTTTTGAAAACACGA-AAT
* *
50724276 TTTTTG---ACACAAAAA
1 TTTTTGAAAACACGAAAT
*
50724291 ATTTTGAAAACACGAAA-
1 TTTTTGAAAACACGAAAT
* * * *
50724308 ATTTCGAAAACATGAATT
1 TTTTTGAAAACACGAAAT
* * *
50724326 TTTTTTAAAACATGAATT
1 TTTTTGAAAACACGAAAT
*
50724344 TTTTTAAAAAAAACACGAGAAT
1 TTTTT---GAAAACACGA-AAT
50724366 TTTTTGAAAACACGAAAACAT
1 TTTTTGAAAACACG--AA-AT
*
50724387 GAAAATTTTGAAAACACGAAA-
1 ----TTTTTGAAAACACGAAAT
*
50724408 ATTTTG-AAACACGAAATTT
1 TTTTTGAAAACACGAAA--T
* *
50724427 TTTTTTAAAACACGGGAA-
1 TTTTTGAAAACAC-GAAAT
50724445 TTTTTGAAAACACGAAAT
1 TTTTTGAAAACACGAAAT
50724463 TTTTT
1 TTTTT
50724468 ATTCACGAGA
Statistics
Matches: 207, Mismatches: 30, Indels: 56
0.71 0.10 0.19
Matches are distributed among these distances:
15 7 0.03
16 15 0.07
17 36 0.17
18 68 0.33
19 35 0.17
20 9 0.04
21 14 0.07
22 8 0.04
23 2 0.01
25 13 0.06
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAT
Found at i:50724490 original size:16 final size:16
Alignment explanation
Indices: 50724381--50724490 Score: 69
Period size: 17 Copynumber: 6.4 Consensus size: 16
50724371 GAAAACACGA
* *
50724381 AAACATGAAAATTTTG
1 AAACACGAAATTTTTG
*
50724397 AAAACACGAAAATTTTG
1 -AAACACGAAATTTTTG
*
50724414 AAACACGAAATTTTTTTTTA
1 AAACACGAAA----TTTTTG
*
50724434 AAACACGGGAATTTTTG
1 AAACAC-GAAATTTTTG
*
50724451 AAAACACGAAATTTTTT
1 -AAACACGAAATTTTTG
**
50724468 ATTCACGAGAA-TTTTG
1 AAACACGA-AATTTTTG
50724484 AAACACG
1 AAACACG
50724491 GATTTTTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
16 25 0.34
17 30 0.41
18 6 0.08
20 10 0.14
21 3 0.04
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (16 bp):
AAACACGAAATTTTTG
Found at i:50724575 original size:17 final size:18
Alignment explanation
Indices: 50724553--50724600 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
50724543 TATTATTATT
50724553 ATTTTGAAACACGTG-AA
1 ATTTTGAAACACGTGAAA
50724570 ATTTTGAAGACA--TGAAA
1 ATTTTGAA-ACACGTGAAA
50724587 ATTTTTGAAACACG
1 A-TTTTGAAACACG
50724601 ATTTTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 10 0.38
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (18 bp):
ATTTTGAAACACGTGAAA
Found at i:50725213 original size:24 final size:24
Alignment explanation
Indices: 50725183--50725237 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
50725173 CACAAAGTGG
50725183 GCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
*
50725207 TCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
50725231 GCTGCTT
1 GCTGCTT
50725238 TTTTTTGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.00, C:0.25, G:0.09, T:0.65
Consensus pattern (24 bp):
GCTGCTTCTTTCTTCTTCTTTTTT
Found at i:50725827 original size:30 final size:30
Alignment explanation
Indices: 50725772--50725888 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
50725762 TGTAATTTTT
* *
50725772 AGAAAATTTA-GGGTTAAAATGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
50725801 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
**
50725831 AGAAAGTTTAATGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
50725860 GGAAAAGTTTAGGGGTCAAAATGTAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
50725889 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
29 10 0.14
30 62 0.86
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.32
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:50725888 original size:60 final size:59
Alignment explanation
Indices: 50725759--50725888 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 59
50725749 TTCTGGGGCT
** * * *
50725759 AAATGTAATTTTTAGAAAATTTAGGGTTAAAATGAAATTTAATGAAAGTTTAGGGGTCT
1 AAATGTAATTTAAAGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
* * * *
50725818 AAGTGAAATTTAAAGAAAGTTTAATGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCA
50725878 AAATGTAATTT
1 AAATGTAATTT
50725889 TTATTTTTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 19 0.33
60 39 0.67
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
Found at i:50725909 original size:14 final size:15
Alignment explanation
Indices: 50725884--50725918 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
50725874 GTCAAAATGT
50725884 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
50725899 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
50725913 AATTTT
1 AATTTT
50725919 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:50726347 original size:54 final size:55
Alignment explanation
Indices: 50726160--50726378 Score: 299
Period size: 54 Copynumber: 4.1 Consensus size: 55
50726150 GACGTGAGCC
* *
50726160 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTACAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTA-AA
*
50726215 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAG-----AAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
* * *
50726267 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGACAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
50726321 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
50726376 AAG
1 AAG
50726379 TAGAAATTGA
Statistics
Matches: 148, Mismatches: 7, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
50 13 0.09
52 34 0.23
53 1 0.01
54 51 0.34
55 37 0.25
57 6 0.04
58 6 0.04
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:50726356 original size:106 final size:104
Alignment explanation
Indices: 50726160--50726370 Score: 334
Period size: 107 Copynumber: 2.0 Consensus size: 104
50726150 GACGTGAGCC
* *
50726160 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTACAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTA-AAAAGGCTCAAC
*
50726225 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAA
* *
50726267 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGACAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTAAAAAGGCTCAAC
50726331 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
50726371 TTGAAAAGTA
Statistics
Matches: 98, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
104 16 0.16
106 35 0.36
107 38 0.39
108 9 0.09
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
Found at i:50726376 original size:14 final size:14
Alignment explanation
Indices: 50726357--50726391 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
50726347 GAGTTGATTT
50726357 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
50726371 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
50726385 TTGAAAA
1 TTGAAAA
50726392 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:50726475 original size:15 final size:15
Alignment explanation
Indices: 50726455--50726483 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50726445 TTTTTGAAAC
50726455 ACAGAAATTAAAAAA
1 ACAGAAATTAAAAAA
50726470 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
50726484 CAGAATTTGA
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:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
ACAGAAATTAAAAAA
Found at i:50726484 original size:13 final size:14
Alignment explanation
Indices: 50726455--50726488 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
50726445 TTTTTGAAAC
50726455 ACAGAAATTAAAAAA
1 ACAGAAATT-AAAAA
50726470 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
50726483 ACAGAA
1 ACAGAA
50726489 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
15 9 0.47
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:50726623 original size:85 final size:87
Alignment explanation
Indices: 50726479--50726726 Score: 308
Period size: 85 Copynumber: 2.8 Consensus size: 87
50726469 AACAGAAATT
* * *
50726479 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
50726544 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * * *
50726566 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
50726629 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
*
50726655 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
50726719 GTTGATTT
64 GTTGATTT
50726727 TTGAAAAACA
Statistics
Matches: 138, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 3 0.02
89 31 0.22
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:50726672 original size:15 final size:16
Alignment explanation
Indices: 50726639--50726672 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50726629 TTGATTTTTG
* *
50726639 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
50726655 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
50726671 AA
1 AA
50726673 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:50726714 original size:91 final size:88
Alignment explanation
Indices: 50726479--50726733 Score: 324
Period size: 91 Copynumber: 2.9 Consensus size: 88
50726469 AACAGAAATT
* * *
50726479 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
50726544 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
50726566 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
50726629 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
*
50726655 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
50726719 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
50726734 ACAAAAATTA
Statistics
Matches: 145, Mismatches: 13, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 32 0.22
88 3 0.02
89 28 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:50726878 original size:121 final size:121
Alignment explanation
Indices: 50726656--50726970 Score: 513
Period size: 121 Copynumber: 2.6 Consensus size: 121
50726646 TAGATTGAAA
* * * * * *
50726656 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCGGC--GTG-CCCGAGGCTCAACTCACTTCTCGCAATATGAGT
*
50726721 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTTAATTT
63 TGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
50726781 AAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
50726846 TTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
66 TTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
50726902 AAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTAA
1 AAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
50726967 TTTT
66 TTTT
50726971 TTTTAAAATT
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
121 122 0.68
122 32 0.18
123 3 0.02
125 23 0.13
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (121 bp):
AAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
TTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:50727245 original size:69 final size:69
Alignment explanation
Indices: 50727057--50727246 Score: 177
Period size: 69 Copynumber: 2.8 Consensus size: 69
50727047 AAAAATTAAA
* ** * * * * * **
50727057 AGGCTTAACTCACCTCTTGCAATATGAG-TCAATTTAAAACATAAACTAAAATACCTCGGCGTGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAATACCTCCACGTGC
50727121 CCCG
66 CCCG
*****
50727125 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAATACCTCCACGTG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTAAAACAAAAA-TTAAAATACCTCCACGTG
* **
50727190 TCTTG
65 CCCCG
*
50727195 AGGTTCAACTCA-TTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT-AAAACAAAAATTAAAA
50727247 GGCTTAACTC
Statistics
Matches: 95, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
68 24 0.25
69 38 0.40
70 33 0.35
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (69 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAATACCTCCACGTGC
CCCG
Found at i:50727872 original size:385 final size:384
Alignment explanation
Indices: 50726746--50728570 Score: 3200
Period size: 385 Copynumber: 4.8 Consensus size: 384
50726736 AAAAATTAAA
* * * ** **
50726746 AGGCTTAACTCACCTCTCGCAATATGAGTT-A---ATTTAAAACATAAACTAAAAATACCTCGGC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAA-A-AATTTAAAAATACCTCAAC
**
50726807 GTG-CCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGC
64 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGC
50726871 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCGA
129 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCGA
* *
50726936 GGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTTT-TAAAATTTAAAAATACCTCAACGTGT
194 GGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGT
50727000 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAA
259 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAA
*
50727065 CTCACCTCTTGCAATATGAGTCAATTTAAAACATAAACT-AAAATACCTCGGCGTGCCCCG
324 CTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
* ** *
50727125 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTT-AAAATACCTCCACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGT
*
50727189 GTCTTGAGGTTCAACTCA-TTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAAGGCTT
66 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT
50727252 AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCGAGG
131 AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCGAGG
*
50727317 CTCAACTCACTTCTTGCAATATGAGTTGA-TTTTTTAAAAAATTTAAAAATACCTCAACGTGTC-
196 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCT
50727380 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTGAAAAACAAAAATTAAAAGGCTTAACT
261 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACT
50727444 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCG
326 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
50727502 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGT
50727567 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT
66 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT
50727632 AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAG
131 AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAG
50727697 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGT
195 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAAATTTAAAAATACCTCAACGTGT
50727762 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAA
259 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAA
*
50727827 CTCACCTCTTGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
324 CTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
* ** *
50727888 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTT-AAAATACCTCCACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGT
*
50727952 GTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT
66 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT
50728017 AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAG
131 AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAG
*
50728082 GCTCAACTCACTTCTTGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTC
195 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTC
50728147 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAAC-AAAATTAAAAGGCTTAAC
260 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAAC
*
50728211 CCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
325 TCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
50728271 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAAATTTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGT
50728335 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT
66 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT
*
50728400 AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGG-GTGCCCGAGG
131 AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCGAGG
50728464 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAAAAATTTAAAAATACCTCAACGT
196 CTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTTT--AAAAAATTTAAAAATACCTCAACGT
50728529 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
257 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
50728571 CCTTGGAAAG
Statistics
Matches: 1386, Mismatches: 39, Indels: 36
0.95 0.03 0.02
Matches are distributed among these distances:
377 116 0.08
378 87 0.06
379 190 0.14
380 118 0.09
381 86 0.06
382 24 0.02
383 278 0.20
384 108 0.08
385 329 0.24
386 50 0.04
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (384 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGT
GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT
AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCGAGG
CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCT
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACT
CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
Found at i:50728040 original size:192 final size:193
Alignment explanation
Indices: 50726813--50728570 Score: 3194
Period size: 192 Copynumber: 9.2 Consensus size: 193
50726803 CGGCGTGCCC
50726813 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
50726878 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
50726942 ACTCACTTCTCGCAATATGAGTTAATTTTTTTT--AAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
50727003 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
50727068 ACCTCTTGCAATATGAGTCAATTTAAAACATAAACT-AAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
* * *
50727132 ACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTT-AAAATACCTCCACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
50727194 GAGGTTCAACTCA-TTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
50727257 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
50727321 ACTCACTTCTTGCAATATGAGTTGA--TTTTTTAAAAAATTTAAAAATACCTCAACGTGTC-T
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
50727381 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
50727445 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
50727509 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
50727572 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
50727637 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
50727702 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
50727765 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
50727830 ACCTCTTGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
* * *
50727895 ACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTT-AAAATACCTCCACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
50727957 GAGGTTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
50728022 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
50728087 ACTCACTTCTTGCAATATGAGTTGA-TTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
50728149 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAAC-AAAATTAAAAGGCTTAACCC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
50728213 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
50728278 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
50728340 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
50728405 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGG-GTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
50728468 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAAAAATTTAAAAATACCTCAACGTGTCT
131 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTTT--AAAAAATTTAAAAATACCTCAACGTGTCT
50728533 T
193 T
50728534 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
50728571 CCTTGGAAAG
Statistics
Matches: 1519, Mismatches: 31, Indels: 32
0.96 0.02 0.02
Matches are distributed among these distances:
187 31 0.02
188 150 0.10
189 111 0.07
190 251 0.17
191 271 0.18
192 396 0.26
193 242 0.16
194 67 0.04
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (193 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:50739960 original size:37 final size:37
Alignment explanation
Indices: 50739918--50739998 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
50739908 TTTTGTTTTT
*
50739918 AAACACG-AGAACTTTGAAACAC-AATAATAATTTTTGA
1 AAACACGAAGAACTTTGAAACACGAA-AAT-ATTTTTAA
** *
50739955 AAACACGAAGATTTTTGAAACACGAAAATTTTTTTAA
1 AAACACGAAGAACTTTGAAACACGAAAATATTTTTAA
50739992 AAACACG
1 AAACACG
50739999 GAATTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
37 20 0.53
38 16 0.42
39 2 0.05
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (37 bp):
AAACACGAAGAACTTTGAAACACGAAAATATTTTTAA
Found at i:50739975 original size:17 final size:18
Alignment explanation
Indices: 50739946--50740206 Score: 117
Period size: 18 Copynumber: 14.1 Consensus size: 18
50739936 ACACAATAAT
50739946 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
50739964 GATTTTTG-AAACACGAA
1 AATTTTTGAAAACACGAA
*
50739981 AATTTTTTTAAAAACACGGAA
1 AA--TTTTTGAAAACAC-GAA
** * *
50740002 TTTTTTTGAAAACAAGGA
1 AATTTTTGAAAACACGAA
* * *
50740020 AATTTTCG-ATACATGAGA
1 AATTTTTGAAAACACGA-A
*
50740038 ATTTTTTG---ACAC--A
1 AATTTTTGAAAACACGAA
50740051 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* *
50740069 AA-TTTCGAAAACATGAA
1 AATTTTTGAAAACACGAA
** * *
50740086 TTTTTTTTAAAACATGAA
1 AATTTTTGAAAACACGAA
** *
50740104 TTTTTTTAAAAAAACACGAGA
1 AATTTTT--GAAAACACGA-A
*
50740125 ATTTTTTGAAAACACGAAA
1 AATTTTTGAAAACACG-AA
50740144 ACATGAAAATTTTGAAAACACGAA
1 A-AT-----TTTTGAAAACACGAA
50740168 AATTTTTG-AAACACGAGA
1 AATTTTTGAAAACACGA-A
* *
50740186 ATTTTTTTTAAAACACGAA
1 A-ATTTTTGAAAACACGAA
50740205 AA
1 AA
50740207 CACGAAATTT
Statistics
Matches: 187, Mismatches: 32, Indels: 48
0.70 0.12 0.18
Matches are distributed among these distances:
13 8 0.04
16 7 0.04
17 36 0.19
18 51 0.27
19 33 0.18
20 24 0.13
21 10 0.05
23 2 0.01
24 3 0.02
25 13 0.07
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:50739975 original size:38 final size:37
Alignment explanation
Indices: 50739930--50740016 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 37
50739920 ACACGAGAAC
*
50739930 TTTGAAACACAATAATAATTTTTGAAAACAC-GAAGATT
1 TTTGAAACACAA-AAT-ATTTTTAAAAACACGGAAGATT
* **
50739968 TTTGAAACACGAAAATTTTTTTAAAAACACGGAATTTT
1 TTTGAAACAC-AAAATATTTTTAAAAACACGGAAGATT
50740006 TTTGAAA-ACAA
1 TTTGAAACACAA
50740017 GGAAATTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
36 2 0.05
37 14 0.33
38 25 0.58
39 2 0.05
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (37 bp):
TTTGAAACACAAAATATTTTTAAAAACACGGAAGATT
Found at i:50739988 original size:19 final size:19
Alignment explanation
Indices: 50739930--50740012 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
50739920 ACACGAGAAC
*
50739930 TTTGAAACAC-AATAATAATT
1 TTTGAAACACGAA-AAT-TTT
*
50739950 TTTGAAAACACGAAGA--TT
1 TTTG-AAACACGAAAATTTT
50739968 TTTGAAACACGAAAATTTT
1 TTTGAAACACGAAAATTTT
* *
50739987 TTTAAAAACACG-GAATTTT
1 TTT-GAAACACGAAAATTTT
50740006 TTTGAAA
1 TTTGAAA
50740013 ACAAGGAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
17 10 0.19
18 9 0.17
19 14 0.26
20 11 0.21
21 7 0.13
22 2 0.04
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.35
Consensus pattern (19 bp):
TTTGAAACACGAAAATTTT
Found at i:50739995 original size:20 final size:19
Alignment explanation
Indices: 50739972--50740025 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
50739962 AAGATTTTTG
50739972 AAACACGAAAATTTTTTTAA
1 AAACACG-AAATTTTTTTAA
* *
50739992 AAACACGGAATTTTTTTGA
1 AAACACGAAATTTTTTTAA
*
50740011 AAACAAGGAAATTTT
1 AAAC-ACGAAATTTT
50740026 CGATACATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.33
Consensus pattern (19 bp):
AAACACGAAATTTTTTTAA
Found at i:50740013 original size:19 final size:19
Alignment explanation
Indices: 50739948--50740025 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 19
50739938 ACAATAATAA
**
50739948 TTTTTGAAAACAC-GAAGA
1 TTTTTGAAAACACGGAATT
*
50739966 TTTTTG-AAACACGAAAATT
1 TTTTTGAAAACACG-GAATT
*
50739985 TTTTTAAAAACACGGAATT
1 TTTTTGAAAACACGGAATT
*
50740004 TTTTTGAAAACAAGGAAATT
1 TTTTTGAAAACACGG-AATT
50740024 TT
1 TT
50740026 CGATACATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
17 6 0.12
18 6 0.12
19 24 0.49
20 13 0.27
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (19 bp):
TTTTTGAAAACACGGAATT
Found at i:50740199 original size:20 final size:20
Alignment explanation
Indices: 50740170--50740257 Score: 65
Period size: 27 Copynumber: 4.2 Consensus size: 20
50740160 AACACGAAAA
*
50740170 TTTTTGAAACACGAGAATTT
1 TTTTTAAAACACGAGAATTT
50740190 TTTTTAAAACACGAAAACACGAAATTT
1 TTTTTAAAACACG-----A-G-AATTT
*
50740217 TTTTTAAAACACGGGAA--T
1 TTTTTAAAACACGAGAATTT
*
50740235 TTTTGAAAACACGA-AATTT
1 TTTTTAAAACACGAGAATTT
50740254 TTTT
1 TTTT
50740258 ATTCACGAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
17 2 0.04
18 13 0.24
19 5 0.09
20 14 0.25
21 1 0.02
25 1 0.02
26 1 0.02
27 18 0.33
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (20 bp):
TTTTTAAAACACGAGAATTT
Found at i:50740210 original size:45 final size:44
Alignment explanation
Indices: 50740157--50740250 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
50740147 TGAAAATTTT
* *
50740157 GAAAACACGAAA-ATTTTTGAAACACGAGAATTTTTTTTAAAACAC
1 GAAAACACGAAATATTTTTAAAACACGAGAA--TTTTTGAAAACAC
* *
50740202 GAAAACACGAAATTTTTTTTAAAACACGGGAATTTTTGAAAACAC
1 GAAAACACGAAA-TATTTTTAAAACACGAGAATTTTTGAAAACAC
50740247 GAAA
1 GAAA
50740251 TTTTTTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 28 0.65
47 15 0.35
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (44 bp):
GAAAACACGAAATATTTTTAAAACACGAGAATTTTTGAAAACAC
Found at i:50740215 original size:27 final size:28
Alignment explanation
Indices: 50740176--50740229 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
50740166 AAAATTTTTG
50740176 AAACACGAGAATTTTTTTTAAAACACGA
1 AAACACGAGAATTTTTTTTAAAACACGA
50740204 AAACACGA-AATTTTTTTTAAAACACG
1 AAACACGAGAATTTTTTTTAAAACACG
50740230 GGAATTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (28 bp):
AAACACGAGAATTTTTTTTAAAACACGA
Found at i:50740226 original size:64 final size:64
Alignment explanation
Indices: 50740074--50740257 Score: 207
Period size: 64 Copynumber: 2.9 Consensus size: 64
50740064 ACGAAAATTT
* ** *
50740074 CGAAAACATG-AATTTTTTTTAAAACATGAATTTTTTTAAAAAAACACGAGAA-TTTTTTGAAAA
1 CGAAAACATGAAATTTTTTTTAAAACACGAAAATTTTT---GAAACACGAGAATTTTTTTGAAAA
50740137 CA
63 CA
* * *
50740139 CGAAAACATGAAA--ATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTTTTAAAACA
1 CGAAAACATGAAATTTTTTTTAAAACACGAAAATTTTTGAAACACGAGAATTTTTTTGAAAACA
* **
50740201 CGAAAACACGAAATTTTTTTTAAAACACGGGAATTTTTGAAAACACGA-AATTTTTTT
1 CGAAAACATGAAATTTTTTTTAAAACACGAAAATTTTTG-AAACACGAGAATTTTTTT
50740258 ATTCACGAGA
Statistics
Matches: 102, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
61 11 0.11
62 24 0.24
64 47 0.46
65 18 0.18
66 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (64 bp):
CGAAAACATGAAATTTTTTTTAAAACACGAAAATTTTTGAAACACGAGAATTTTTTTGAAAACA
Found at i:50740243 original size:18 final size:18
Alignment explanation
Indices: 50740216--50740282 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
50740206 ACACGAAATT
*
50740216 TTTTTTAAAACACGGGAA
1 TTTTTGAAAACACGGGAA
*
50740234 TTTTTGAAAACAC-GAAA
1 TTTTTGAAAACACGGGAA
** ** *
50740251 TTTTTTTATTCACGAGAA
1 TTTTTGAAAACACGGGAA
50740269 TTTTTG-AAACACGG
1 TTTTTGAAAACACGG
50740283 ATTTTTTTTA
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
17 17 0.47
18 19 0.53
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTTTGAAAACACGGGAA
Found at i:50740243 original size:99 final size:97
Alignment explanation
Indices: 50740140--50740335 Score: 234
Period size: 97 Copynumber: 2.0 Consensus size: 97
50740130 TTGAAAACAC
* *
50740140 GAAAACATGAAAATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTTTTAAA-ACACGA
1 GAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACACG-G-ATTTTTTTTAAAGA-AAG-
* * *
50740204 AAACACGAA-ATTTTTTTTAAAACACGGGAATTTTT
62 AAACACGAATATATTTTTGAAAACACGGGAAATTTT
* ** ** *
50740239 GAAAACACGAAATTTTTTTATTCACGAGAATTTTTGAAACACGGATTTTTTTTAAAGAAAGAAAC
1 GAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACACGGATTTTTTTTAAAGAAAGAAAC
*
50740304 ACGAATATATTTTTGGAAACACGGGAAATTTT
66 ACGAATATATTTTTGAAAACACGGGAAATTTT
50740336 ATTATTATTA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
96 9 0.11
97 36 0.43
98 2 0.02
99 36 0.43
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.33
Consensus pattern (97 bp):
GAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACACGGATTTTTTTTAAAGAAAGAAAC
ACGAATATATTTTTGAAAACACGGGAAATTTT
Found at i:50740265 original size:62 final size:61
Alignment explanation
Indices: 50740114--50740258 Score: 177
Period size: 62 Copynumber: 2.3 Consensus size: 61
50740104 TTTTTTTAAA
* *
50740114 AAAACACGAGAATTTTTTGAAAACACGAAAACATGAAAATTTTGAAAACACGAAAATTTTTG
1 AAAACACGAGAATTTTTT-TAAACACGAAAACACGAAAATTTTGAAAACACGAAAATTTTTG
* * **
50740176 -AAACACGAGAATTTTTTTTAAAACACGAAAACACGAAATTTTTTTTAAAACACGGGAATTTTTG
1 AAAACACGAGAA-TTTTTTT-AAACACGAAAACACGAAA--ATTTTGAAAACACGAAAATTTTTG
50740240 AAAACACGA-AATTTTTTTA
1 AAAACACGAGAATTTTTTTA
50740259 TTCACGAGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
61 11 0.15
62 24 0.33
63 7 0.10
64 22 0.31
65 8 0.11
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (61 bp):
AAAACACGAGAATTTTTTTAAACACGAAAACACGAAAATTTTGAAAACACGAAAATTTTTG
Found at i:50740270 original size:35 final size:35
Alignment explanation
Indices: 50740202--50740294 Score: 116
Period size: 34 Copynumber: 2.6 Consensus size: 35
50740192 TTTAAAACAC
*
50740202 GAAAACACGAAATTTTTTTTAAAACACGGGAATTTTT
1 GAAAACACGAAA-TTTTTTT-AAACACGAGAATTTTT
**
50740239 GAAAACACGAAATTTTTTTATTCACGAGAATTTTT
1 GAAAACACGAAATTTTTTTAAACACGAGAATTTTT
* *
50740274 G-AAACACGGATTTTTTTTAAA
1 GAAAACACGAAATTTTTTTAAA
50740295 GAAAGAAACA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 16 0.33
35 14 0.29
36 7 0.14
37 12 0.24
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.38
Consensus pattern (35 bp):
GAAAACACGAAATTTTTTTAAACACGAGAATTTTT
Found at i:50740281 original size:17 final size:17
Alignment explanation
Indices: 50740217--50740281 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
50740207 CACGAAATTT
* *
50740217 TTTTTAAAACACGGGAA
1 TTTTTGAAACACGAGAA
50740234 TTTTTGAAAACACGA-AA
1 TTTTTG-AAACACGAGAA
* **
50740251 TTTTTTTATTCACGAGAA
1 -TTTTTGAAACACGAGAA
50740269 TTTTTGAAACACG
1 TTTTTGAAACACG
50740282 GATTTTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
17 23 0.62
18 14 0.38
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (17 bp):
TTTTTGAAACACGAGAA
Found at i:50740367 original size:17 final size:18
Alignment explanation
Indices: 50740345--50740392 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
50740335 TATTATTATT
50740345 ATTTTGAAACACGTG-AA
1 ATTTTGAAACACGTGAAA
50740362 ATTTTGAAGACA--TGAAA
1 ATTTTGAA-ACACGTGAAA
50740379 ATTTTTGAAACACG
1 A-TTTTGAAACACG
50740393 ATTTTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 10 0.38
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (18 bp):
ATTTTGAAACACGTGAAA
Found at i:50740840 original size:15 final size:15
Alignment explanation
Indices: 50740820--50740852 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
50740810 CCCCTTTTCC
50740820 TTTTTT-CTTTTTCTT
1 TTTTTTCCTTTTT-TT
50740835 TTTTTTCCTTTTTTT
1 TTTTTTCCTTTTTTT
50740850 TTT
1 TTT
50740853 GCTGGGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTCCTTTTTTT
Found at i:50741003 original size:24 final size:24
Alignment explanation
Indices: 50740974--50741028 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
50740964 CACAAAGTGG
50740974 GCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
*
50740998 TCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
50741022 GCTGCTT
1 GCTGCTT
50741029 TTTTTTGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.00, C:0.25, G:0.09, T:0.65
Consensus pattern (24 bp):
GCTGCTTCTTTCTTCTTCTTTTTT
Found at i:50741621 original size:30 final size:30
Alignment explanation
Indices: 50741564--50741680 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
50741554 TGCAATTTTT
* * *
50741564 AGAAAATTTA-GGGTTAAAATAAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
50741593 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
*
50741623 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
50741652 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
50741681 TTATTTTTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
29 10 0.14
30 63 0.86
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:50741680 original size:60 final size:59
Alignment explanation
Indices: 50741551--50741680 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 59
50741541 TTCTGGGGCT
** * * *
50741551 AAATGCAATTTTTAGAAAATTTAGGGTTAAAATAAAATTTAATGAAAGTTTAGGGGTCT
1 AAATGCAATTTAAAGAAAATTTAGGGTCAAAATAAAATTTAAGGAAAGTTTAGGGGTCA
* * * *
50741610 AAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGCAATTTAAAGAAAATTT-AGGGTCAAAATAAAATTTAAGG-AAAGTTTAGGGGTCA
50741670 AAATGCAATTT
1 AAATGCAATTT
50741681 TTATTTTTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 19 0.33
60 39 0.67
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.32
Consensus pattern (59 bp):
AAATGCAATTTAAAGAAAATTTAGGGTCAAAATAAAATTTAAGGAAAGTTTAGGGGTCA
Found at i:50745415 original size:19 final size:18
Alignment explanation
Indices: 50745387--50745424 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
50745377 TTTAAAAATA
50745387 TATAAAA-TTTGAAATTTT
1 TATAAAATTTTG-AATTTT
50745405 TATAAATATTTTGAATTTT
1 TATAAA-ATTTTGAATTTT
50745424 T
1 T
50745425 TTGTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAAATTTTGAATTTT
Found at i:50745779 original size:6 final size:6
Alignment explanation
Indices: 50745763--50745803 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
50745753 TGAAAGATAT
*
50745763 TTTTCCC TTTTCC TTTTCC TTTTTC TTTTCC TTTTCC TTTT
1 TTTT-CC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTT
50745804 TTTTAAACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCC
Found at i:50745792 original size:18 final size:18
Alignment explanation
Indices: 50745769--50745804 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50745759 ATATTTTTCC
50745769 CTTTTCCTTTTCCTTTTT
1 CTTTTCCTTTTCCTTTTT
50745787 CTTTTCCTTTTCCTTTTT
1 CTTTTCCTTTTCCTTTTT
50745805 TTTAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTCCTTTTCCTTTTT
Found at i:50748896 original size:46 final size:47
Alignment explanation
Indices: 50748843--50748937 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
50748833 ATTCTCTGTT
50748843 TTGAGAGTGC-TTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
1 TTGAGAGTGCTTTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
50748889 TTGAGAGTGCTTTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
1 TTGAGAGTGCTTTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
50748936 TT
1 TT
50748938 AGTAGGGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 10 0.21
47 38 0.79
ACGTcount: A:0.19, C:0.06, G:0.17, T:0.58
Consensus pattern (47 bp):
TTGAGAGTGCTTTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
Found at i:50748956 original size:47 final size:47
Alignment explanation
Indices: 50748858--50748956 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
50748848 AGTGCTTTTT
* ** ** *
50748858 TTTTAATTTATCTTTTTTCTTAAGAGGATTGTTGAGAGTGCTTTTTT
1 TTTTAATTTATCTTTTTTCTTAAGAGGATTGTTGAGAGGGAATAATA
50748905 TTTTAATTTATCTTTTTTCTTAAGAGGATTGTT-AGTAGGGAATAATA
1 TTTTAATTTATCTTTTTTCTTAAGAGGATTGTTGAG-AGGGAATAATA
50748952 TTTTA
1 TTTTA
50748957 TTGTCTAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 2 0.04
47 43 0.96
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.55
Consensus pattern (47 bp):
TTTTAATTTATCTTTTTTCTTAAGAGGATTGTTGAGAGGGAATAATA
Found at i:50755968 original size:24 final size:23
Alignment explanation
Indices: 50755931--50755975 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
50755921 AACATTATCA
* *
50755931 AAATAAATATTATAAAGAATATT
1 AAATAAATAATATAAAAAATATT
50755954 AAATAATATAATATAAAAAATA
1 AAATAA-ATAATATAAAAAATA
50755976 GAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATAAATAATATAAAAAATATT
Found at i:50759729 original size:41 final size:41
Alignment explanation
Indices: 50759684--50759761 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
50759674 ATTTTAAAAT
*
50759684 AATTAAAAAT-TCAAAAAAATTATAAAAATACATTTTTTTAA
1 AATTAAAAATAT-AAAAAAATTACAAAAATACATTTTTTTAA
* *
50759725 AATTAAAAATATATAAAAATTACAAAAATATATTTTT
1 AATTAAAAATATAAAAAAATTACAAAAATACATTTTT
50759762 AGTATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (41 bp):
AATTAAAAATATAAAAAAATTACAAAAATACATTTTTTTAA
Found at i:50759745 original size:17 final size:17
Alignment explanation
Indices: 50759723--50759756 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
50759713 ACATTTTTTT
50759723 AAAATTA-AAAATATATA
1 AAAATTACAAAA-ATATA
50759740 AAAATTACAAAAATATA
1 AAAATTACAAAAATATA
50759757 TTTTTAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATTACAAAAATATA
Found at i:50760498 original size:20 final size:20
Alignment explanation
Indices: 50760461--50760518 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
50760451 AGTTCCCCCA
* *
50760461 AAAAACACATCATGAAATTAG
1 AAAAACATATAAT-AAATTAG
*
50760482 AAAATCATGATAA-AAATTAG
1 AAAAACAT-ATAATAAATTAG
50760502 AAAAACATATAATAAAT
1 AAAAACATATAATAAAT
50760519 AATTCCAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 4 0.13
20 18 0.58
21 6 0.19
22 3 0.10
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAACATATAATAAATTAG
Found at i:50762674 original size:14 final size:14
Alignment explanation
Indices: 50762657--50762686 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50762647 ATAACATACA
50762657 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
*
50762671 AAAAATAAAACAAT
1 AAAAATAAAAAAAT
50762685 AA
1 AA
50762687 TGTTTTTCAA
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:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:50763419 original size:27 final size:26
Alignment explanation
Indices: 50763389--50763442 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
50763379 TCACGCAAGA
* *
50763389 AGAAAATGAAAGAATAATAACAAAATC
1 AGAAAAAGAAAGAA-AATAAAAAAATC
*
50763416 AGAAAAAGAAAGAAACTAAAAAAATC
1 AGAAAAAGAAAGAAAATAAAAAAATC
50763442 A
1 A
50763443 CCTTTAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.70, C:0.07, G:0.11, T:0.11
Consensus pattern (26 bp):
AGAAAAAGAAAGAAAATAAAAAAATC
Found at i:50764495 original size:44 final size:45
Alignment explanation
Indices: 50764318--50764833 Score: 432
Period size: 44 Copynumber: 11.7 Consensus size: 45
50764308 TCCGCCATCG
* * * ** * *
50764318 TCGATCTGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCC
1 TCGATCTACTTCACTACC-AATATAGGAAGATAAGATCTGCTATCT
* * * * *
50764364 TCAATCTA-TTCCACTGCCAAATACAGG--GACAAGATCTGCTTTCT
1 TCGATCTACTT-CACTACC-AATATAGGAAGATAAGATCTGCTATCT
* * * *
50764408 TCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TATCT
1 TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
* * * * *
50764452 TGGATCCACTTC-CTATCAATATAGGAAGATAGGACCTGCTATCT
1 TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
* * * *
50764496 TCGATCTACTTCAC-GCCAATACATGAAGATAAGATCTGCTTTCT
1 TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
* * * * *
50764540 GCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCT
1 TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
* * *
50764584 TCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCT
1 TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
* * * * *
50764628 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCT
1 TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
* * * *
50764672 GT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCT
1 -TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
* * *
50764716 TCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCT
1 TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
* * * *
50764760 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGC-ATCT
1 TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
* *
50764803 TTGATCCACTTC-CTACCAATATAGGAAGATA
1 TCGATCTACTTCACTACCAATATAGGAAGATA
50764834 GGACCTATTT
Statistics
Matches: 376, Mismatches: 79, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
42 1 0.00
43 97 0.26
44 196 0.52
45 60 0.16
46 22 0.06
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (45 bp):
TCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGCTATCT
Found at i:50764584 original size:132 final size:132
Alignment explanation
Indices: 50764391--50764798 Score: 726
Period size: 132 Copynumber: 3.1 Consensus size: 132
50764381 CAAATACAGG
* * * * *
50764391 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * *
50764456 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
50764521 AA
131 AA
*
50764523 GATAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
50764588 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
50764653 AA
131 AA
*
50764655 GACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
50764720 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
50764785 AA
131 AA
50764787 GACAAGATCTGC
1 GACAAGATCTGC
50764799 ATCTTTGATC
Statistics
Matches: 265, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 265 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:50770291 original size:266 final size:266
Alignment explanation
Indices: 50769813--50770344 Score: 1010
Period size: 266 Copynumber: 2.0 Consensus size: 266
50769803 GCGGATACAT
*
50769813 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCGTTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
50769878 CTCACAAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACAAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
* *
50769943 TTGCTCACTAAACCTCATGGTTCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCGAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
* *
50770008 ATCCTTGTCATATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGAGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
50770073 TCCTTC
261 TCCTTC
50770079 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
*
50770144 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACAAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
50770209 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
50770274 ATCCTTGTCACATTAAATTCTCGAGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGAGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
50770339 TCCTTC
261 TCCTTC
50770345 TCTTATCACG
Statistics
Matches: 260, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 260 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (266 bp):
ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
CTCACAAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
ATCCTTGTCACATTAAATTCTCGAGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
TCCTTC
Found at i:50772422 original size:14 final size:14
Alignment explanation
Indices: 50772403--50772432 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50772393 TAACATACAA
50772403 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
*
50772417 AAAAATAAAACAAT
1 AAAAATAAAAAAAT
50772431 AA
1 AA
50772433 TGTTTTTCAA
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:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:50773165 original size:27 final size:26
Alignment explanation
Indices: 50773135--50773188 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
50773125 TCACGCAAGA
* *
50773135 AGAAAATGAAAGAATAATAACAAAATC
1 AGAAAAAGAAAGAA-AATAAAAAAATC
*
50773162 AGAAAAAGAAAGAAACTAAAAAAATC
1 AGAAAAAGAAAGAAAATAAAAAAATC
50773188 A
1 A
50773189 CCTTTAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.70, C:0.07, G:0.11, T:0.11
Consensus pattern (26 bp):
AGAAAAAGAAAGAAAATAAAAAAATC
Found at i:50776333 original size:14 final size:14
Alignment explanation
Indices: 50776316--50776347 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
50776306 TGGGGATTTC
50776316 GGGATTTCGATGTG
1 GGGATTTCGATGTG
*
50776330 GGGATTTCGATTTG
1 GGGATTTCGATGTG
50776344 GGGA
1 GGGA
50776348 AAAATTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.06, G:0.44, T:0.34
Consensus pattern (14 bp):
GGGATTTCGATGTG
Found at i:50778060 original size:23 final size:22
Alignment explanation
Indices: 50778025--50778078 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
50778015 GTTTGAGTTC
*
50778025 AAAG-TTTAGGGTTTAAGGTTT
1 AAAGTTTTAAGGTTTAAGGTTT
* *
50778046 GAAATTTTTAAGGTTTAGGGTTT
1 -AAAGTTTTAAGGTTTAAGGTTT
50778069 AAAGTTTTAA
1 AAAGTTTTAA
50778079 ATTCATGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.44
Consensus pattern (22 bp):
AAAGTTTTAAGGTTTAAGGTTT
Found at i:50778117 original size:34 final size:35
Alignment explanation
Indices: 50778072--50778142 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 35
50778062 AGGGTTTAAA
* * *
50778072 GTTTTAAATTCATGGTTCGAGGGTTA-GGGTCAAG
1 GTTTGAAATTCAAGGTTCAAGGGTTATGGGTCAAG
* *
50778106 GTTTGAAATTCAAGGTTCAAGGTTTATGGTTCAAG
1 GTTTGAAATTCAAGGTTCAAGGGTTATGGGTCAAG
50778141 GT
1 GT
50778143 AAAAAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
34 22 0.71
35 9 0.29
ACGTcount: A:0.25, C:0.08, G:0.30, T:0.37
Consensus pattern (35 bp):
GTTTGAAATTCAAGGTTCAAGGGTTATGGGTCAAG
Found at i:50785277 original size:9 final size:9
Alignment explanation
Indices: 50785250--50785309 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
50785240 ATATAAAAAT
*
50785250 ATAATAACA
1 ATAATAATA
*
50785259 ATAGTAATA
1 ATAATAATA
*
50785268 ATCATAATA
1 ATAATAATA
50785277 ATAATAATA
1 ATAATAATA
*
50785286 GTAATAATA
1 ATAATAATA
* *
50785295 TTAACAATA
1 ATAATAATA
*
50785304 GTAATA
1 ATAATA
50785310 GTAGTAATGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (9 bp):
ATAATAATA
Found at i:50785292 original size:18 final size:18
Alignment explanation
Indices: 50785242--50785309 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
50785232 ATAAATTGAT
* *
50785242 ATAAAAATA-TAATAACA
1 ATAATAATAGTAATAATA
* * *
50785259 ATAGTAATAATCATAATA
1 ATAATAATAGTAATAATA
50785277 ATAATAATAGTAATAATA
1 ATAATAATAGTAATAATA
* *
50785295 TTAACAATAGTAATA
1 ATAATAATAGTAATA
50785310 GTAGTAATGA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 7 0.17
18 34 0.83
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (18 bp):
ATAATAATAGTAATAATA
Found at i:50785303 original size:24 final size:24
Alignment explanation
Indices: 50785252--50785317 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
50785242 ATAAAAATAT
* *
50785252 AATAACAATAGTAATAATCATAAT
1 AATAATAATAGTAATAATCATAAC
50785276 AATAATAATAGTAATAAT-ATTAAC
1 AATAATAATAGTAATAATCA-TAAC
* *
50785300 AATAGTAATAGTAGTAAT
1 AATAATAATAGTAATAAT
50785318 GAAGATTAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.32
Consensus pattern (24 bp):
AATAATAATAGTAATAATCATAAC
Found at i:50785312 original size:6 final size:6
Alignment explanation
Indices: 50785250--50785309 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
50785240 ATATAAAAAT
* * * * *
50785250 ATAATA ACAATA GTAATA ATCATA ATAATA ATAATA GTAATA ATATTA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* *
50785298 ACAATA GTAATA
1 ATAATA ATAATA
50785310 GTAGTAATGA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (6 bp):
ATAATA
Found at i:50785314 original size:9 final size:9
Alignment explanation
Indices: 50785271--50785317 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
50785261 AGTAATAATC
*
50785271 ATAATAATA
1 ATAATAGTA
50785280 ATAATAGTA
1 ATAATAGTA
*
50785289 ATAATATTA
1 ATAATAGTA
*
50785298 ACAATAGTA
1 ATAATAGTA
*
50785307 ATAGTAGTA
1 ATAATAGTA
50785316 AT
1 AT
50785318 GAAGATTAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (9 bp):
ATAATAGTA
Found at i:50786878 original size:45 final size:44
Alignment explanation
Indices: 50786822--50786926 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
50786812 CCTACTATAG
* *
50786822 CTTCGGGGAGATAAGGCTCACTTTCTTCAACCTA-CTACACTGCAA
1 CTTCAGGGAGATAAGGCTCA-TATCTTCAACC-AGCTACACTGCAA
* ** * * *
50786867 CTTTAGGGAGATAAGATTGATATCTTCAACCAGCTCCACTGTAA
1 CTTCAGGGAGATAAGGCTCATATCTTCAACCAGCTACACTGCAA
50786911 CTTCAGGGAGATAAGG
1 CTTCAGGGAGATAAGG
50786927 TTGGTTATCT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 33 0.67
45 15 0.31
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTCAGGGAGATAAGGCTCATATCTTCAACCAGCTACACTGCAA
Found at i:50786907 original size:44 final size:45
Alignment explanation
Indices: 50786845--50786939 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
50786835 AGGCTCACTT
*
50786845 TCTTCAACCTACTACACTGCAACTTTAGGGAGATAAGATT-GATA
1 TCTTCAACCTACTACACTGCAACTTCAGGGAGATAAGATTGGATA
* * * *
50786889 TCTTCAACC-AGCTCCACTGTAACTTCAGGGAGATAAGGTTGGTTA
1 TCTTCAACCTA-CTACACTGCAACTTCAGGGAGATAAGATTGGATA
50786934 TCTTCA
1 TCTTCA
50786940 GTCTTGATCT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 34 0.77
45 9 0.20
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
TCTTCAACCTACTACACTGCAACTTCAGGGAGATAAGATTGGATA
Done.