Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 178 of 438
Found at i:54930970 original size:11 final size:11
Alignment explanation
Indices: 54930934--54930989 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
54930924 CATGGTATGT
54930934 ATGATATGCAC
1 ATGATATGCAC
* *
54930945 ATGACATG--T
1 ATGATATGCAC
54930954 ATGATATGCAC
1 ATGATATGCAC
*
54930965 ATGATATG--T
1 ATGATATGCAC
54930974 ATGATATGCAC
1 ATGATATGCAC
54930985 ATGAT
1 ATGAT
54930990 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:54930989 original size:20 final size:20
Alignment explanation
Indices: 54930923--54930989 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
54930913 ATTTTGATAA
*
54930923 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
54930943 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
54930963 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
54930983 ACATGAT
1 ACATGAT
54930990 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:54931095 original size:24 final size:23
Alignment explanation
Indices: 54931039--54931205 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
54931029 GAGGAAGTGA
54931039 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
54931062 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
54931085 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
54931109 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
54931133 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
54931156 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
54931181 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
54931205 A
1 A
54931206 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 76 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:54931108 original size:47 final size:47
Alignment explanation
Indices: 54931039--54931205 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
54931029 GAGGAAGTGA
*
54931039 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
54931085 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
54931133 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
54931181 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
54931206 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 65 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:54931155 original size:71 final size:71
Alignment explanation
Indices: 54931039--54931204 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
54931029 GAGGAAGTGA
* *
54931039 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
54931104 GTTATC
66 GTTATC
*
54931110 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
54931175 GTTATT
66 GTTATC
*
54931181 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
54931205 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:54931432 original size:31 final size:31
Alignment explanation
Indices: 54931397--54931460 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
54931387 CATTTACAGT
* *
54931397 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
54931428 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
54931459 AA
1 AA
54931461 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:54932901 original size:27 final size:27
Alignment explanation
Indices: 54932871--54932935 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
54932861 AGGCATATTC
54932871 GTCATTTTACCATACAGGGG-TATGACG
1 GTCATTTTACCATACAGGGGCT-TGACG
* * *
54932898 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTGACG
*
54932925 GTCTTTTTACC
1 GTCATTTTACC
54932936 TAATAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTGACG
Found at i:54933019 original size:27 final size:27
Alignment explanation
Indices: 54932986--54933298 Score: 184
Period size: 27 Copynumber: 11.6 Consensus size: 27
54932976 TTGGTAAATC
*
54932986 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** * *
54933013 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAATCAAGGGTATTTC-AGTAA-TTT
* * *
54933041 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * **
54933069 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
54933096 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
54933123 CACAAA-CCAGTGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCAGTAATTT
* * **
54933150 TACAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
54933177 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
54933204 TACAAACCAAGGGTATTTTAGCAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
54933231 TACAGA-CTAGGGTA-TTCTAGTAATTT
1 TACAAATCAAGGGTATTTC-AGTAATTT
** * *** *
54933257 TGTAAATCGAGGGTAAAACAGTAATTC
1 TACAAATCAAGGGTATTTCAGTAATTT
**
54933284 TGTAAATCAAGGGTA
1 TACAAATCAAGGGTA
54933299 AAATAGTAAT
Statistics
Matches: 226, Mismatches: 51, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
25 2 0.01
26 19 0.08
27 175 0.77
28 16 0.07
29 14 0.06
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:54933172 original size:81 final size:81
Alignment explanation
Indices: 54933072--54933271 Score: 269
Period size: 81 Copynumber: 2.5 Consensus size: 81
54933062 GTAACTTTGT
*
54933072 AAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGG
1 AAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GG
* *
54933136 TATTTTGGTAATTTTAC
65 TATTTTAGCAATTTTAC
* *
54933153 AAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGT
1 AAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGT
54933218 ATTTTAGCAATTTTAC
66 ATTTTAGCAATTTTAC
* * * * ** *
54933234 AGACTA-GGGTATTCTAGTAATTTTGTAAATCGAGGGTA
1 AAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
54933272 AAACAGTAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 27 0.25
81 77 0.73
82 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
AAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGT
ATTTTAGCAATTTTAC
Found at i:54933381 original size:38 final size:38
Alignment explanation
Indices: 54933339--54933417 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
54933329 CGGTACTTCT
* * *
54933339 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
* * * *
54933377 GTAAAACGGGGGTAAAATGGTTATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
54933415 GTA
1 GTA
54933418 CTTTGGTGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.34, C:0.08, G:0.33, T:0.25
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
Found at i:54933384 original size:27 final size:27
Alignment explanation
Indices: 54933250--54933385 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
54933240 GGGTATTCTA
* *
54933250 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
54933277 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
54933304 GTAATTCTATAAATCAAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
54933331 GTACTTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
54933358 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
54933385 G
1 G
54933386 GGGTAAAATG
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:54933444 original size:27 final size:27
Alignment explanation
Indices: 54933426--54933512 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
54933416 TACTTTGGTG
*
54933426 ATTTTACAAGTCGAAGGTACTTCAGTA
1 ATTTTACAAATCGAAGGTACTTCAGTA
* *
54933453 ATTTTACAAATCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAAGGTACTTCAGTA
* * * *
54933480 TTTTTACAAA-CTAAGCGTATTTCGGTA
1 ATTTTACAAATCGAAG-GTACTTCAGTA
54933507 ATTTTA
1 ATTTTA
54933513 GTAAACTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (27 bp):
ATTTTACAAATCGAAGGTACTTCAGTA
Found at i:54933519 original size:28 final size:27
Alignment explanation
Indices: 54933446--54933521 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
54933436 TCGAAGGTAC
* *
54933446 TTCAGTAATTTTACAAA-TCGAGGGTAT
1 TTCAGTAATTTTACAAACT-AAGCGTAT
*
54933473 TTCAGTATTTTTACAAACTAAGCGTAT
1 TTCAGTAATTTTACAAACTAAGCGTAT
* *
54933500 TTCGGTAATTTTAGTAAACTAA
1 TTCAGTAATTTTA-CAAACTAA
54933522 AGTATTCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 33 0.80
28 8 0.20
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (27 bp):
TTCAGTAATTTTACAAACTAAGCGTAT
Found at i:54934977 original size:19 final size:19
Alignment explanation
Indices: 54934955--54935012 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
54934945 AATTTAAGTA
54934955 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
54934974 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
54934991 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
54935009 ATAT
1 ATAT
54935013 GAAGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:54935004 original size:35 final size:35
Alignment explanation
Indices: 54934958--54935024 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
54934948 TTAAGTAATA
*
54934958 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
54934993 TAATGTTATTTATATGATATGAAGATTGTTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
54935025 TATGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:54935515 original size:50 final size:50
Alignment explanation
Indices: 54935345--54935577 Score: 220
Period size: 49 Copynumber: 4.7 Consensus size: 50
54935335 AGCTATTGTG
* *
54935345 AGGTCACGTGTGTAGTA-TCAAGTGCAGGCTACTACGTGCACCAAATTGTT
1 AGGTCACGTGTGTAGTACT-AAGTGCAGGCTACTACGTGTACCAAATAGTT
* * * * * * ** *
54935395 -GGTCGCATGTGTAGTACTAAGTGTAGGTTACTATGCGTACCTGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAAT-AGTT
* * * *
54935445 CGATCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTATCAAATAGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTT
* ** *
54935495 AGGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTT
** * *
54935545 -GGTTGCATGTGTAGTACTAAGTGCAGACTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
54935578 TGCGTATCAG
Statistics
Matches: 145, Mismatches: 35, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
49 62 0.43
50 49 0.34
51 34 0.23
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTT
Found at i:54940079 original size:40 final size:40
Alignment explanation
Indices: 54939952--54940081 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
54939942 ATGCTGGAAA
* *
54939952 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
54939992 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
54940032 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
54940072 TTATATCCGG
1 TTATATCCGG
54940082 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:54941620 original size:16 final size:15
Alignment explanation
Indices: 54941582--54941620 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
54941572 TGGATTCTCG
*
54941582 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
54941597 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
54941612 TATTCTTGG
1 TA-TCTTGG
54941621 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:54942885 original size:11 final size:11
Alignment explanation
Indices: 54942869--54942897 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
54942859 TCACGGAATG
54942869 ATTTCGTGAAA
1 ATTTCGTGAAA
54942880 ATTTCGTGAAA
1 ATTTCGTGAAA
54942891 ATTTCGT
1 ATTTCGT
54942898 TCAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:54943854 original size:19 final size:19
Alignment explanation
Indices: 54943832--54943889 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
54943822 AATTTAAGTA
54943832 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
54943851 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
54943868 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
54943886 ATAT
1 ATAT
54943890 GAAGATTGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:54944293 original size:49 final size:50
Alignment explanation
Indices: 54944216--54944466 Score: 222
Period size: 49 Copynumber: 5.0 Consensus size: 50
54944206 CAAATGAGCT
* * * * *
54944216 ATTGTAAGGTCACGTGTGTAGTACTAAGTGCAGGCGACTACGTGCACCAG
1 ATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * *
54944266 ATTGTT-GGTCGCATGTGTAGTAATAAGTGCAGGCTACTATGCGTACCTG
1 ATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * * * ** *
54944315 ATTACTTCGATC-AAGTGTGTAGTACTAACTGCAGGCTACTACGTGTATTAA
1 ATT-GTTAGGTCGCA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * * *
54944366 ATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGG
1 ATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
** *
54944416 ATAATT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACATA-GCGTACCAG
1 ATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC-TACGTGTACCAG
54944465 AT
1 AT
54944467 AGCTTCAGCT
Statistics
Matches: 157, Mismatches: 39, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
49 75 0.48
50 49 0.31
51 33 0.21
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
ATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
Found at i:54944413 original size:101 final size:99
Alignment explanation
Indices: 54944229--54944452 Score: 254
Period size: 100 Copynumber: 2.3 Consensus size: 99
54944219 GTAAGGTCAC
* * * *
54944229 GTGTGTAGTACTAAGTGCAGGCGACTACGTGCACCAGATTGTTGGTCGCATGTGTAGTAATAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAAATGGTTGGTCACATGTGTAGTAATAAGT
* * *
54944294 GCAGGCTACTATGCGTACCTGATTACTTCGATC-AA
66 GCAGGCTACTACGCGTACCGGA-TAATT-GATCGAA
* * ** * *
54944329 GTGTGTAGTACTAACTGCAGGCTACTACGTGTATTAAATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAAATGGTT-GGTCACATGTGTAGTAATAAG
* * * *
54944394 TGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
65 TGCAGGCTACTACGCGTACCGGATAATTGATCGAA
54944429 -TGTGTAGTACTAAGTGCAGGCTAC
1 GTGTGTAGTACTAAGTGCAGGCTAC
54944453 ATAGCGTACC
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
99 26 0.25
100 41 0.39
101 37 0.36
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (99 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAAATGGTTGGTCACATGTGTAGTAATAAGT
GCAGGCTACTACGCGTACCGGATAATTGATCGAA
Found at i:54946068 original size:30 final size:29
Alignment explanation
Indices: 54945974--54946075 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
54945964 TATAGTGAAT
* * *
54945974 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
54946003 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
54946031 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
54946061 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
54946076 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:54953954 original size:30 final size:29
Alignment explanation
Indices: 54953860--54953961 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
54953850 TATAGTGAAT
* * *
54953860 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
54953889 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
54953917 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
54953947 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
54953962 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:54958941 original size:40 final size:39
Alignment explanation
Indices: 54958884--54959033 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 39
54958874 TTGGAATGAT
* * * *
54958884 ATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAA-TAA
* * *
54958924 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TAATAA
** **
54958964 ATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAGTTACCAA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG-TAATAA
* *
54959004 ATCCGGGTTAAGACCCGAAGGCAATCGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
54959034 GAATCACTAT
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 85 0.92
41 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATAA
Found at i:54958981 original size:80 final size:80
Alignment explanation
Indices: 54958882--54959035 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
54958872 CATTGGAATG
* * ** *
54958882 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTACATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
54958947 TTCGTGCGAGTTGAT
66 ATCGTGCGAGTTGAT
** * * *
54958962 ATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
54959027 ATCGTGCGA
66 ATCGTGCGA
54959036 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGAT
Found at i:54959050 original size:40 final size:40
Alignment explanation
Indices: 54958926--54959089 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
54958916 GTAATTACAT
* * * *
54958926 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA-TATAT
1 CCGGGCTAAGACCCGAAGGCAATCGTGCGA-ATCACTATAA
** * * *
54958966 CCGGGCTAAGACCCGAAGGCCTTTGTGC-AAGTTACCA-AA
1 CCGGGCTAAGACCCGAAGGCAATCGTGCGAA-TCACTATAA
*
54959005 TCCGGGTTAAGACCCGAAGGCAATCGTGCGAATCACTATAA
1 -CCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACTATAA
* * * * * *
54959046 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCACTATAT
1 CCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACTATAA
54959086 CCGG
1 CCGG
54959090 TTAAATCCGA
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
39 4 0.04
40 92 0.92
41 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.19
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACTATAA
Found at i:54959088 original size:80 final size:80
Alignment explanation
Indices: 54958924--54959102 Score: 175
Period size: 80 Copynumber: 2.3 Consensus size: 80
54958914 TAGTAATTAC
* * * * * * **
54958924 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCCTT
1 ATCCGGGTTAAGACCCGAAGGCAATCGTGCGAGATCATATAACCGGGCTAAGACCCGAAGACAAT
* * *
54958989 TGTGCAAGTTACCAA
66 CGAGCAAGTCACCAA
* *
54959004 ATCCGGGTTAAGACCCGAAGGCAATCGTGCGA-ATCACTATAACCGGGCTAGGTCCCGAAGACAA
1 ATCCGGGTTAAGACCCGAAGGCAATCGTGCGAGATCA-TATAACCGGGCTAAGACCCGAAGACAA
* * *
54959068 TCGAGCGAGTCACTAT
65 TCGAGCAAGTCACCAA
*
54959084 ATCC-GGTTAA-ATCCGAAGG
1 ATCCGGGTTAAGACCCGAAGG
54959103 TACGTGATTC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 8 0.10
79 8 0.10
80 65 0.80
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (80 bp):
ATCCGGGTTAAGACCCGAAGGCAATCGTGCGAGATCATATAACCGGGCTAAGACCCGAAGACAAT
CGAGCAAGTCACCAA
Found at i:54967097 original size:37 final size:37
Alignment explanation
Indices: 54966969--54967114 Score: 170
Period size: 38 Copynumber: 3.8 Consensus size: 37
54966959 CATTGGAAAT
* * *
54966969 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TATTA
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTA-TA
54967007 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATA
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTT-ATA
*
54967046 TATCCGGGCTAAGACCCGAAGGCATTGTGC-AGTTACCA
1 -ATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTTA-TA
* *
54967084 ATCCGGGTTAAGACCCGAAGGCATCGTGCGA
1 ATCCGGGCTAAGACCCGAAGGCATTGTGCGA
54967115 ATCACTATGG
Statistics
Matches: 96, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
37 30 0.31
38 33 0.34
39 7 0.07
40 26 0.27
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (37 bp):
ATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTTATA
Found at i:54968750 original size:40 final size:40
Alignment explanation
Indices: 54968705--54968868 Score: 167
Period size: 39 Copynumber: 4.2 Consensus size: 40
54968695 CGGAATATAA
54968705 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
54968745 CCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** *
54968784 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTA-C
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
54968823 CCGGATATAATTTCCAGCATAATTGTCTTCGGG--TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54968861 CCGGATAT
1 CCGGATAT
54968869 CATTCAATTT
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
37 3 0.03
38 9 0.09
39 60 0.58
40 32 0.31
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54976677 original size:40 final size:40
Alignment explanation
Indices: 54976632--54976798 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
54976622 CGGAATATAA
54976632 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
54976672 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
54976712 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
54976752 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54976791 CCGGATAT
1 CCGGATAT
54976799 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54976782 original size:80 final size:79
Alignment explanation
Indices: 54976648--54976798 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
54976638 ATAATCACGT
*
54976648 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
54976713 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
54976728 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
54976791 CCGGATAT
64 CCGGATAT
54976799 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:54978056 original size:56 final size:54
Alignment explanation
Indices: 54977993--54978102 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 54
54977983 CCCCCTTTTC
54977993 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTCTTTTCTTT
*** *
54978049 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTCTTT
54978103 TTTTTTTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
54 14 0.29
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (54 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTCTTT
Found at i:54979139 original size:40 final size:40
Alignment explanation
Indices: 54979091--54979256 Score: 298
Period size: 40 Copynumber: 4.2 Consensus size: 40
54979081 GGACTAAGAT
54979091 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
54979131 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTT
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
54979171 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
54979211 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
54979250 CCGAAGG
1 CCGAAGG
54979257 TACTTGGGTT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 15 0.12
40 107 0.88
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:54983633 original size:28 final size:28
Alignment explanation
Indices: 54983593--54983649 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
54983583 GAATCTTAAG
54983593 GAATTTACTATAATTTGTATAACTACTA
1 GAATTTACTATAATTTGTATAACTACTA
54983621 GAATTTACTATAATTTGTATAACTACTA
1 GAATTTACTATAATTTGTATAACTACTA
54983649 G
1 G
54983650 TTTGCTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (28 bp):
GAATTTACTATAATTTGTATAACTACTA
Found at i:54991842 original size:42 final size:41
Alignment explanation
Indices: 54991789--54991932 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 41
54991779 ATCCAAGCTC
* *
54991789 GTTGAGCGGTCCGAGTTTGTGATATTGTGAGAATCCGAACTT
1 GTTGAGTGGTCCGAGTTTGTGATA-TGTGAGCATCCGAACTT
* * *
54991831 GTTGAGTGGTCCAAGTTTGTGATATATGAGGCATCC-AAGCTC
1 GTTGAGTGGTCCGAGTTTGTGATATGTGA-GCATCCGAA-CTT
* ** * * *
54991873 GTTGAGTGGCCCGAGTTCATTATGGATGCGAGCATCCGAGCTT
1 GTTGAGTGGTCCGAGTTTGTGAT--ATGTGAGCATCCGAACTT
54991916 GTTGAGTGGTCCGAGTT
1 GTTGAGTGGTCCGAGTT
54991933 CATTATGGAT
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
41 6 0.07
42 47 0.57
43 24 0.29
44 5 0.06
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (41 bp):
GTTGAGTGGTCCGAGTTTGTGATATGTGAGCATCCGAACTT
Found at i:54991920 original size:43 final size:43
Alignment explanation
Indices: 54991861--54991943 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
54991851 GATATATGAG
54991861 GCATCCAAGCTCGTTGAGTGGCCCGAGTTCATTATGGATGCGA
1 GCATCCAAGCTCGTTGAGTGGCCCGAGTTCATTATGGATGCGA
* * *
54991904 GCATCCGAGCTTGTTGAGTGGTCCGAGTTCATTATGGATG
1 GCATCCAAGCTCGTTGAGTGGCCCGAGTTCATTATGGATG
54991944 TGTTACATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.29
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGTGGCCCGAGTTCATTATGGATGCGA
Found at i:54993839 original size:19 final size:19
Alignment explanation
Indices: 54993792--54993843 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
54993782 TAGCCTGAGG
**
54993792 ACACAGGCGTGTTGGAGAC
1 ACACAGGCGTGTCCGAGAC
*
54993811 ACA-TGAGCGTGTCCGAGAC
1 ACACAG-GCGTGTCCGAGAC
54993830 ACACAGGCGTGTCC
1 ACACAGGCGTGTCC
54993844 CTATGTCCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 25 0.93
20 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.33, T:0.15
Consensus pattern (19 bp):
ACACAGGCGTGTCCGAGAC
Found at i:54995702 original size:27 final size:28
Alignment explanation
Indices: 54995646--54995715 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
54995636 AAATTGGTAC
54995646 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
54995674 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
54995701 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54995716 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:55003693 original size:27 final size:28
Alignment explanation
Indices: 55003637--55003706 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
55003627 AAATTGGTAC
55003637 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
55003665 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
55003692 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55003707 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:55007590 original size:38 final size:38
Alignment explanation
Indices: 55007547--55007670 Score: 113
Period size: 38 Copynumber: 3.0 Consensus size: 38
55007537 TTTCAAATTA
* *
55007547 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAATCGTGGTATATCCACTTAGCACCACGTT
*
55007585 ACATGTATCAATATGTGTAATTGTGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAATCGTGGTATATCCACTTAGCACCACGTT
* *
55007633 ACACGTATAATCATGGTATATCCACTTAGCACCACGTT
1 ACATGTATAATCGTGGTATATCCACTTAGCACCACGTT
55007671 TTTTCATTCC
Statistics
Matches: 70, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
38 34 0.49
42 2 0.03
44 2 0.03
48 32 0.46
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTATAATCGTGGTATATCCACTTAGCACCACGTT
Found at i:55012181 original size:31 final size:31
Alignment explanation
Indices: 55012137--55012204 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
55012127 AAAATTGTAA
* *
55012137 TTTAAGCACTGTTATTATATATTTTTATCAT
1 TTTAATCACTGTTATTATATACTTTTATCAT
* *
55012168 TTTAATCAGTGTTATTATATACTTTTATTAT
1 TTTAATCACTGTTATTATATACTTTTATCAT
55012199 TTTAAT
1 TTTAAT
55012205 TACTCGATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.57
Consensus pattern (31 bp):
TTTAATCACTGTTATTATATACTTTTATCAT
Found at i:55013667 original size:26 final size:27
Alignment explanation
Indices: 55013620--55013676 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
55013610 AAGGCCAATC
* *
55013620 TTTCAAAGAATGCCACAGAGGCTTCCA
1 TTTCAAAGAATGCCAAAAAGGCTTCCA
* *
55013647 TTTCAAA-TATGCCAAAAAGGCTTTCA
1 TTTCAAAGAATGCCAAAAAGGCTTCCA
55013673 TTTC
1 TTTC
55013677 CTGGAGTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (27 bp):
TTTCAAAGAATGCCAAAAAGGCTTCCA
Found at i:55016630 original size:38 final size:38
Alignment explanation
Indices: 55016548--55016776 Score: 305
Period size: 38 Copynumber: 6.0 Consensus size: 38
55016538 GAATCCAGTC
* * ** *
55016548 ACCAGCACAAAGCCTGCAGGACTTTAAGCTTGGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* **
55016588 ACCAGCACTAAGCCTGTAGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
55016626 ACCAGCATGAAGCCTGCGGGATTTAACCCAGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
*
55016664 ACCAGCACGAAGCCTGTGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
55016702 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* * * *
55016740 ACCAGCATGAAGCTTGCGGGACTTAACTCGGATATAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
55016777 ATCGACTGAT
Statistics
Matches: 171, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 147 0.86
39 5 0.03
40 19 0.11
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:55023061 original size:40 final size:40
Alignment explanation
Indices: 55023003--55023217 Score: 306
Period size: 40 Copynumber: 5.4 Consensus size: 40
55022993 AGCAAAATCA
* * *** * *
55023003 CCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATG
55023043 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATG
1 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATG
*
55023083 CCTTCGGGTCTTAGCCCGGATATAACAACTCCCACGAATG
1 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATG
55023123 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATG
1 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATG
* **
55023163 CCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATG
1 CCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACGAATG
*
55023203 CCTTCGGGACTTAGC
1 CCTTCGGGTCTTAGC
55023218 GCGGTATCAT
Statistics
Matches: 161, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 160 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATG
Found at i:55025135 original size:27 final size:28
Alignment explanation
Indices: 55025078--55025147 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55025068 AAATTTGTAC
**
55025078 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
55025106 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55025133 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55025148 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55025156 original size:27 final size:27
Alignment explanation
Indices: 55025078--55025159 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
55025068 AAATTTGTAC
* *
55025078 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
55025106 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
55025133 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
55025160 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:55031791 original size:56 final size:53
Alignment explanation
Indices: 55031697--55031808 Score: 129
Period size: 56 Copynumber: 2.1 Consensus size: 53
55031687 ATGAAAAAAA
55031697 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACT-AGG
* ***
55031751 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAGG
1 AAAGAAAA-AAAAA-ATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAGG
55031806 AAA
1 AAA
55031809 AGGGGAGGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
54 8 0.16
55 13 0.26
56 26 0.52
57 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAGG
Found at i:55033073 original size:40 final size:40
Alignment explanation
Indices: 55033029--55033157 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
55033019 TGCTGGAAAT
* *
55033029 TATATCCGGG-TCAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCT-AAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
55033069 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
55033109 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
55033149 TATATCCGG
1 TATATCCGG
55033158 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
39 4 0.05
40 68 0.91
41 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:55041930 original size:79 final size:79
Alignment explanation
Indices: 55041800--55041976 Score: 293
Period size: 79 Copynumber: 2.2 Consensus size: 79
55041790 AACCCAAGTA
* *
55041800 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGAACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
55041865 AACTCGCAC-AATG
66 AACTCGCACAAATG
*
55041878 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGAACTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
55041943 TAACTCGCACAAATG
65 TAACTCGCACAAATG
*
55041958 CCTTCGGATCTTAGTCCGG
1 CCTTCGGAACTTAG-CCGG
55041977 TTATCATCCG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
78 12 0.13
79 59 0.64
80 21 0.23
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CCTTCGGAACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:55041971 original size:40 final size:40
Alignment explanation
Indices: 55041800--55041964 Score: 289
Period size: 40 Copynumber: 4.2 Consensus size: 40
55041790 AACCCAAGTA
* *
55041800 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55041839 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55041878 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55041918 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55041958 CCTTCGG
1 CCTTCGG
55041965 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
39 51 0.43
40 69 0.57
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55045735 original size:57 final size:57
Alignment explanation
Indices: 55045633--55045773 Score: 144
Period size: 57 Copynumber: 2.5 Consensus size: 57
55045623 ATGTATACAA
* * * * *
55045633 CAGGATTACCAGTCCAGGCTAAATCCTTTTCATGACATATGCTCGA-AGGAGCT-TGAT
1 CAGGATTACCCGTCCAGGCTAAATCCATCTCATAACATATACTCGAGAGGA-CTAT-AT
* *
55045690 CTGGATTACCCGTCCAGGCTAAATCCAATCT-ATAACATGTACTCGAGAGGACTCATAT
1 CAGGATTACCCGTCCAGGCTAAATCC-ATCTCATAACATATACTCGAGAGGACT-ATAT
* *
55045748 CAGGATTACCCGTCTAAGCTAAATCC
1 CAGGATTACCCGTCCAGGCTAAATCC
55045774 TTTTCTGTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
57 38 0.54
58 31 0.44
59 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (57 bp):
CAGGATTACCCGTCCAGGCTAAATCCATCTCATAACATATACTCGAGAGGACTATAT
Found at i:55053153 original size:24 final size:24
Alignment explanation
Indices: 55053126--55053197 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 24
55053116 TCAAGCTGGA
55053126 AACAGTAAGCTC-TGACGAGCTGAG
1 AACAGTAAGCTCAT-ACGAGCTGAG
*
55053150 AACAGTAAGCTCATACGAGCTGAT
1 AACAGTAAGCTCATACGAGCTGAG
**
55053174 ATATTGATAAGCTCATACGAGCTG
1 A-ACAG-TAAGCTCATACGAGCTG
55053198 CAGTGAGTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 22 0.52
25 3 0.07
26 17 0.40
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (24 bp):
AACAGTAAGCTCATACGAGCTGAG
Found at i:55059375 original size:77 final size:77
Alignment explanation
Indices: 55059170--55059382 Score: 302
Period size: 77 Copynumber: 2.8 Consensus size: 77
55059160 TATAAGATGA
* * *
55059170 TATACCAATTTGGCTTCGGGCCATGCATATCAGATGAGTTGGCTTTGGGCCATGATATTAGCACT
1 TATACCAATTTGGCTTCGGGCCATGCATATCGGATGAGTTGGCTTCGGGCCATGAAATTAGCACT
55059235 TCGGGTACGAGT
66 TCGGGTACGAGT
*** * *
55059247 TATACCAATTTGGCTTCATACCATGCATATCGGATGAGTTGGCTGCTGGCCATGAAATTAGCACT
1 TATACCAATTTGGCTTCGGGCCATGCATATCGGATGAGTTGGCTTCGGGCCATGAAATTAGCACT
*
55059312 TCGGGTGCGAGT
66 TCGGGTACGAGT
* *
55059324 TATACCGATTTGGCTTCGGGCCATGCATATCGGATG-TTGTGGCTTCGGGCCATGGAAAT
1 TATACCAATTTGGCTTCGGGCCATGCATATCGGATGAGT-TGGCTTCGGGCCAT-GAAAT
55059383 AGTTCTTCGA
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
76 1 0.01
77 112 0.95
78 5 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (77 bp):
TATACCAATTTGGCTTCGGGCCATGCATATCGGATGAGTTGGCTTCGGGCCATGAAATTAGCACT
TCGGGTACGAGT
Found at i:55059732 original size:40 final size:40
Alignment explanation
Indices: 55059677--55059756 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
55059667 ATTTGCATAC
*
55059677 GAGCTTACTAAGCTATGAAGATTACTTCGTGTTATATTTT
1 GAGCTTACTAAGCTATGAAGATTACTACGTGTTATATTTT
55059717 GAGCTTACTAAGCTATGAAGATTACTACGTGTTATATTTT
1 GAGCTTACTAAGCTATGAAGATTACTACGTGTTATATTTT
55059757 ATATGTATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (40 bp):
GAGCTTACTAAGCTATGAAGATTACTACGTGTTATATTTT
Found at i:55067410 original size:48 final size:48
Alignment explanation
Indices: 55067352--55067627 Score: 348
Period size: 48 Copynumber: 5.9 Consensus size: 48
55067342 GGTTATGTGC
* * * *
55067352 GATCCCGTGTAAGACCATGTCTGGGACATGGCTTTGGAATTGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* ** * * *
55067400 AATTTCGTGTAAGACTATAG-CTGGG-C----CATTGGCATCAATATGT
1 GATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGT
* *
55067443 GATCCCATGTAAAACCATGTCTAGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
55067491 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
55067539 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * *
55067587 GATCCCATGTAAGACCATATCTAGGATATGGCATTCGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
55067628 CTACCATGTG
Statistics
Matches: 198, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 29 0.15
44 1 0.01
47 1 0.01
48 165 0.83
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:55068946 original size:20 final size:20
Alignment explanation
Indices: 55068921--55068968 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
55068911 CGGGCTGAGG
55068921 ACACGGGCGTGTCTGAAGCC
1 ACACGGGCGTGTCTGAAGCC
55068941 ACACGGGCGTGTCTGAAGCC
1 ACACGGGCGTGTCTGAAGCC
55068961 ACACGGGC
1 ACACGGGC
55068969 ATGTGACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.31, G:0.35, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCTGAAGCC
Found at i:55081336 original size:43 final size:44
Alignment explanation
Indices: 55081275--55081393 Score: 186
Period size: 43 Copynumber: 2.7 Consensus size: 44
55081265 ATCCATAAGT
55081275 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACA-TC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACACTC
*
55081318 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACA---CTC
*
55081365 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
55081394 CATTCGCATC
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
43 40 0.58
47 29 0.42
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACACTC
Found at i:55081458 original size:46 final size:46
Alignment explanation
Indices: 55081272--55081458 Score: 124
Period size: 43 Copynumber: 4.1 Consensus size: 46
55081262 CGCATCCATA
* * *
55081272 AGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CCTAGT-TAC-
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCCT
* * * *
55081315 A-TCGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGT-GAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--AATATC-CT
* * * *
55081364 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC----ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCAAATATCC-T
*
55081407 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCCT
55081454 AGTGA
1 AGTGA
55081459 CATGTCACTT
Statistics
Matches: 111, Mismatches: 16, Indels: 31
0.70 0.10 0.20
Matches are distributed among these distances:
42 2 0.02
43 35 0.32
44 5 0.05
46 33 0.30
47 28 0.25
48 5 0.05
49 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCCT
Found at i:55085662 original size:12 final size:13
Alignment explanation
Indices: 55085643--55085680 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
55085633 CCAATTCCAT
55085643 AAATTTTTCCTAA
1 AAATTTTTCCTAA
55085656 AAATTTTTCCTAA
1 AAATTTTTCCTAA
*
55085669 AAATTTTACCTA
1 AAATTTTTCCTA
55085681 TTTCATGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTTTTCCTAA
Found at i:55086371 original size:46 final size:45
Alignment explanation
Indices: 55086304--55086570 Score: 263
Period size: 46 Copynumber: 5.8 Consensus size: 45
55086294 GTAACCCGCC
*
55086304 CATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCATT
* *
55086350 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A-TT
*** * *
55086395 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATC
1 -CATAAGT-GAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCATT
* * * *
55086443 CATAAGTGAACTCAGACTCTACTCAACGAGCTCGG-ATGC-CTAGTT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A-TT
*** *
55086488 ACATCTCTTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 -CAT-AAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATT
55086536 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55086571 ATGCCCAAAT
Statistics
Matches: 177, Mismatches: 30, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
45 6 0.03
46 91 0.51
47 58 0.33
48 3 0.02
49 8 0.05
50 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATT
Found at i:55086423 original size:93 final size:93
Alignment explanation
Indices: 55086311--55086575 Score: 451
Period size: 93 Copynumber: 2.8 Consensus size: 93
55086301 GCCCATAAGT
* *
55086311 GAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55086376 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
55086404 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCAGACTCTACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55086469 CGAGCTCGGATGCCTAGTTACATCTCTT
66 CGAGCTCGGATGCCTAGTTACATCTCTC
55086497 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55086561 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
55086576 CAAATATCCT
Statistics
Matches: 161, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
92 1 0.01
93 160 0.99
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55086425 original size:47 final size:46
Alignment explanation
Indices: 55086356--55086525 Score: 184
Period size: 47 Copynumber: 3.7 Consensus size: 46
55086346 CATTCATAAG
55086356 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
* * * * ***
55086402 TCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC-A--TCCATAAG
1 T-GAACTCGGACTCAACTCAACGAGCTC-G-GATGC-CTAGTTACATCTC
* *
55086449 TGAACTCAGACTCTACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
*
55086495 TTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -TGAACTCGGACTCAACTCAACGAGCTCGGA
55086526 CATTCGCATC
Statistics
Matches: 97, Mismatches: 19, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 28 0.29
47 57 0.59
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
Found at i:55088639 original size:45 final size:46
Alignment explanation
Indices: 55088584--55088803 Score: 290
Period size: 45 Copynumber: 4.8 Consensus size: 46
55088574 TATTTGGGCA
*
55088584 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
55088630 TCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
55088675 T-CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
55088719 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
55088767 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55088804 GCGGGTTACA
Statistics
Matches: 152, Mismatches: 11, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
41 2 0.01
42 4 0.03
44 4 0.03
45 66 0.43
46 39 0.26
47 27 0.18
48 3 0.02
50 4 0.03
51 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:55091775 original size:15 final size:15
Alignment explanation
Indices: 55091755--55091823 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
55091745 GTATCTTGGG
55091755 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
55091770 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
55091785 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
55091800 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
55091815 TTTCTTTAT
1 TTTCTTTAT
55091824 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:55091824 original size:30 final size:30
Alignment explanation
Indices: 55091746--55091833 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
55091736 CATAGTATCG
* * * *
55091746 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
55091776 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
55091806 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
55091834 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:55094274 original size:45 final size:46
Alignment explanation
Indices: 55094219--55094437 Score: 288
Period size: 46 Copynumber: 4.8 Consensus size: 46
55094209 TATTTGGGCA
55094219 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*
55094265 TCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-TG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55094309 T-CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
55094355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
55094401 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55094438 GCGGGTTACA
Statistics
Matches: 150, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
41 4 0.03
43 3 0.02
44 29 0.19
45 39 0.26
46 40 0.27
47 29 0.19
48 2 0.01
50 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55108273 original size:31 final size:31
Alignment explanation
Indices: 55108231--55108294 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
55108221 CCTTTTCATA
* *
55108231 TTTCATTTTTCATAACACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
55108262 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
55108293 TT
1 TT
55108295 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:55108556 original size:23 final size:24
Alignment explanation
Indices: 55108480--55108623 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
55108470 GCTTTATCAT
*
55108480 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
55108505 ATAACTGGAGCA-AAGCCATTTTTTA
1 ATAACTGGGGCATAAGCC--CTTTTA
55108530 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55108553 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55108577 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55108601 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55108624 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.21
24 57 0.52
25 25 0.23
26 5 0.05
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55108695 original size:9 final size:9
Alignment explanation
Indices: 55108681--55108737 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
55108671 ATCTCGTGTG
55108681 CATATCATA
1 CATATCATA
*
55108690 CATATCATGTG
1 CATATCA--TA
55108701 CATATCATA
1 CATATCATA
* *
55108710 CATGTCATGTG
1 CATATCA--TA
55108721 CATATCATA
1 CATATCATA
55108730 CATATCAT
1 CATATCAT
55108738 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:55108700 original size:20 final size:20
Alignment explanation
Indices: 55108677--55108739 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
55108667 GAACATCTCG
55108677 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
55108697 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
55108717 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
55108737 TGT
1 TGT
55108740 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:55108822 original size:25 final size:25
Alignment explanation
Indices: 55108776--55108823 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
55108766 ATATATAAAC
* *
55108776 CCTAGGGGTATAAAGGTTATTTTTA
1 CCTAGGGGCATAAAGGTCATTTTTA
55108801 CCTAGGGGCA-AAATGGTCATTTT
1 CCTAGGGGCATAAA-GGTCATTTT
55108824 CATATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCATAAAGGTCATTTTTA
Found at i:55114580 original size:53 final size:54
Alignment explanation
Indices: 55114517--55114722 Score: 234
Period size: 53 Copynumber: 3.8 Consensus size: 54
55114507 TTCCTTTTTA
* * *
55114517 AACTTACCATTGCCATGTCATGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
55114570 AACTCACCATTGCCATGCCTTGTCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
55114624 TAGTTTATCAGTGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
55114679 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCT
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCT
55114723 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 45 0.37
54 36 0.29
55 42 0.34
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:55118559 original size:43 final size:43
Alignment explanation
Indices: 55118509--55118653 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
55118499 TATCCCGAAT
* * *
55118509 ATGGTCTTATATGTAATCATATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCATATATCAATGCCAATGTCCCAGAC
* * *
55118552 AGGGTCTTACATGAAATCGAT-TAACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATC-ATATATCAATGCCAATGTCCCAGAC
* * *
55118595 ATGGTTTTACACGTAATC-TCA-ATACAATGCTAATGTCCCAGAC
1 ATGGTCTTACATGTAATCAT-ATAT-CAATGCCAATGTCCCAGAC
55118638 ATGGTCTTACATGTAA
1 ATGGTCTTACATGTAA
55118654 CCACATCTCG
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 80 0.95
44 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCATATATCAATGCCAATGTCCCAGAC
Found at i:55133918 original size:40 final size:40
Alignment explanation
Indices: 55133873--55134040 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
55133863 CGGAATATAA
55133873 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
55133913 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
55133953 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
55133993 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
55134033 CCGGATAT
1 CCGGATAT
55134041 TATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55134023 original size:80 final size:80
Alignment explanation
Indices: 55133889--55134038 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
55133879 ATAACCACGT
* *
55133889 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
55133954 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
55133969 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
55134032 CCCGGAT
64 CCCGGAT
55134039 ATTATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:55138214 original size:30 final size:29
Alignment explanation
Indices: 55138178--55138336 Score: 232
Period size: 28 Copynumber: 5.5 Consensus size: 29
55138168 GACAAGATTG
* * * * *
55138178 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
*
55138208 GCACTAAGTGTGCGAACTG-AAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
55138236 GCACTAAGTGTGCGAG-TGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
55138264 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
55138294 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
55138323 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55138337 GATTCACTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
27 2 0.02
28 44 0.37
29 29 0.24
30 44 0.37
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:55138292 original size:58 final size:57
Alignment explanation
Indices: 55138178--55138336 Score: 230
Period size: 58 Copynumber: 2.8 Consensus size: 57
55138168 GACAAGATTG
* * * * *
55138178 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAACTGAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAATATATA
*
55138236 GCACTAAGTGTGCGAG-TGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAACTG-AAA-TATATA
55138294 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
55138337 GATTCACTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
56 22 0.24
57 8 0.09
58 37 0.40
59 26 0.28
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAACTGAAATATATA
Found at i:55138348 original size:86 final size:86
Alignment explanation
Indices: 55138178--55138336 Score: 255
Period size: 86 Copynumber: 1.8 Consensus size: 86
55138168 GACAAGATTG
* * * *
55138178 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAACTGAAATATATAGCACTAA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAACTGAAATATATAGCACTAA
55138243 GTGTGCGAGTGAAAATATATA
66 GTGTGCGAGTGAAAATATATA
* *
55138264 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACTA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAACTG-AAATATATAGCACTA
55138329 AGTGTGCG
65 AGTGTGCG
55138337 GATTCACTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
86 43 0.65
87 23 0.35
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (86 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAACTGAAATATATAGCACTAA
GTGTGCGAGTGAAAATATATA
Found at i:55149705 original size:24 final size:24
Alignment explanation
Indices: 55149678--55149900 Score: 345
Period size: 24 Copynumber: 9.6 Consensus size: 24
55149668 CTTATTATGT
* * *
55149678 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
55149702 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
55149726 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
55149750 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
55149774 TCG--CAC--A----CATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
55149790 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
55149814 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
55149838 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
55149862 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
55149886 TCGCACACATAGTGC
1 TCGCACACATAGTGC
55149901 ATTTGAGATA
Statistics
Matches: 187, Mismatches: 4, Indels: 16
0.90 0.02 0.08
Matches are distributed among these distances:
16 12 0.06
18 3 0.02
20 2 0.01
22 3 0.02
24 167 0.89
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:55149785 original size:40 final size:40
Alignment explanation
Indices: 55149741--55149874 Score: 196
Period size: 40 Copynumber: 3.1 Consensus size: 40
55149731 CACATAGTGC
55149741 CATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACA
1 CATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACA
55149781 CATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATA
1 CATAGTAAATCGCACACATAGTGCCATAGTAAATCG--CAC--A
55149825 GTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACA
1 ----CATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACA
55149869 CATAGT
1 CATAGT
55149875 GCCATAGTGA
Statistics
Matches: 86, Mismatches: 0, Indels: 16
0.84 0.00 0.16
Matches are distributed among these distances:
40 42 0.49
42 3 0.03
44 2 0.02
46 3 0.03
48 36 0.42
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (40 bp):
CATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACA
Found at i:55149786 original size:16 final size:16
Alignment explanation
Indices: 55149765--55149802 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
55149755 CACATAGTGC
55149765 CATAGTAAATCGCACA
1 CATAGTAAATCGCACA
55149781 CATAGTAAATCGCACA
1 CATAGTAAATCGCACA
55149797 CATAGT
1 CATAGT
55149803 GCCATAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.21
Consensus pattern (16 bp):
CATAGTAAATCGCACA
Found at i:55149848 original size:88 final size:88
Alignment explanation
Indices: 55149694--55149874 Score: 344
Period size: 88 Copynumber: 2.1 Consensus size: 88
55149684 ACATAGAGCT
* *
55149694 ATAGCAAATCGCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACA
55149759 TAGTGCCATAGTAAATCGCACAC
66 TAGTGCCATAGTAAATCGCACAC
55149782 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACA
55149847 TAGTGCCATAGTAAATCGCACAC
66 TAGTGCCATAGTAAATCGCACAC
55149870 ATAGT
1 ATAGT
55149875 GCCATAGTGA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (88 bp):
ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACA
TAGTGCCATAGTAAATCGCACAC
Found at i:55149875 original size:112 final size:112
Alignment explanation
Indices: 55149678--55149898 Score: 397
Period size: 112 Copynumber: 2.0 Consensus size: 112
55149668 CTTATTATGT
* *
55149678 TCGCACACATAGAGCTATAGCAAATCGCACACATAGTGCTATAGTAAATCGCACACATAGTGCCA
1 TCGCACACATAGAGCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
55149743 TAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTAAA
66 TAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTAAA
* *
55149790 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
1 TCGCACACATAGAGCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
*
55149855 TAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGT
66 TAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGT
55149899 GCATTTGAGA
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 104 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (112 bp):
TCGCACACATAGAGCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
TAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTAAA
Found at i:55154051 original size:19 final size:19
Alignment explanation
Indices: 55154027--55154068 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
55154017 TTATTATTAT
55154027 TTTAGATTTGTGTTGAAAA-
1 TTTAGATTTGTGTT-AAAAG
55154046 TTTAGATTTGTGTTAAAAG
1 TTTAGATTTGTGTTAAAAG
55154065 TTTA
1 TTTA
55154069 TTTATTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (19 bp):
TTTAGATTTGTGTTAAAAG
Found at i:55155905 original size:48 final size:48
Alignment explanation
Indices: 55155834--55156164 Score: 301
Period size: 48 Copynumber: 6.9 Consensus size: 48
55155824 ACATTTAGGT
* * * *
55155834 GATATGTGTGCCAGTGTAAGACCATGTCTGGGGCATGGCACCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * **
55155882 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGTGATC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * *
55155931 -TTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGTCATCGG-CATT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * * *
55155978 GATATGTGCA-CTAATGTAAGACCATGTTTGGAACATGGCATCGGCCAC
1 GATATGAG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
** *
55156026 -ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAAT
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * ***
55156074 GAGATAAGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGACTTT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * *
55156122 GACATGTGAACCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
55156165 ACAATCCACC
Statistics
Matches: 228, Mismatches: 48, Indels: 14
0.79 0.17 0.05
Matches are distributed among these distances:
47 4 0.02
48 219 0.96
49 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:55156007 original size:96 final size:94
Alignment explanation
Indices: 55155843--55156164 Score: 353
Period size: 96 Copynumber: 3.4 Consensus size: 94
55155833 TGATATGTGT
* * * *
55155843 GCCAGTGTAAGACCATGTCTGGGGCATGGCACCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATGATATGAGAGCTAGTGTAAGACCATG
55155908 TTTGGGACATGGCATCAGTGATCTTGTGAGA
65 TTTGGGACATGGCATCAGTGA-CTTGTGAGA
* * *
55155939 GCCAGTGTAAGACCATGTCTGGGACATGTCATCGGCATTGATATGTGCA-CTAATGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGATATGAG-AGCTAGTGTAAGACCAT
* * ** *
55156003 GTTTGGAACATGGCATCGGCCACATTATGAGA
64 GTTTGGGACATGGCATCAGTGAC-TTGTGAGA
* * * *
55156035 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAATGAGATAAGAGCTAGTGTAAGATCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATGATATGAGAGCTAGTGTAAGACCATG
* * *
55156100 TCTGGGACATGGCATCGACTTTGACATGTGA-A
65 TTTGGGACATGGCATC-A--GTGACTTGTGAGA
* *
55156132 -CCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
55156165 ACAATCCACC
Statistics
Matches: 189, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
95 4 0.02
96 176 0.93
97 3 0.02
98 4 0.02
99 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGATATGAGAGCTAGTGTAAGACCATGT
TTGGGACATGGCATCAGTGACTTGTGAGA
Found at i:55156023 original size:144 final size:144
Alignment explanation
Indices: 55155848--55156164 Score: 431
Period size: 144 Copynumber: 2.2 Consensus size: 144
55155838 TGTGTGCCAG
* ** * *
55155848 TGTAAGACCATGTCTGGGGCATGGCACCGGCCACGA-TATGAGAGCCAGTGTAAGACCATGTTTG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTCTG
* ** * * *
55155912 GGACATGGCATCAGTGATCTTG-TGAGAGCCAGTGTAAGACCATGTCTGGGACATGTCATCGGCA
65 GGACATGGCATCAGTAAT-GAGATAAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA
* * *
55155976 TTGATATGTGCACTAA
129 TTGACATGTGAACCAA
55155992 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
55156057 GACATGGCATCGGTAATGAGATAAGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGACTTT
66 GACATGGCATCAGTAATGAGATAAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
*
55156122 GACATGTGAACCAG
131 GACATGTGAACCAA
55156136 TGTAAGACCATGTTTGGAACATGGCATCG
1 TGTAAGACCATGTTTGGAACATGGCATCG
55156165 ACAATCCACC
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
143 2 0.01
144 150 0.99
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (144 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAGTAATGAGATAAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
GACATGTGAACCAA
Found at i:55159551 original size:39 final size:39
Alignment explanation
Indices: 55159434--55159654 Score: 289
Period size: 39 Copynumber: 5.6 Consensus size: 39
55159424 CGTTCAAACA
* * ** * **
55159434 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* * * *
55159474 CCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
55159514 CCTTCGGGCTTAGCCCAGATATCATAACTCGCCCAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
55159553 CCTTCGGGCTTAGCCCGGATATCATAACTAGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
55159592 CCTTCGGGCTTAGGCCGGATATCATAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
55159631 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
55159655 CTCGAACATT
Statistics
Matches: 158, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
39 121 0.77
40 37 0.23
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:55162757 original size:62 final size:62
Alignment explanation
Indices: 55162686--55162810 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
55162676 TTTCATTATA
*
55162686 ACGTTTGACTCATTTTAATGAAATGTTTGATACATTTTTAAATATACGTGACAATCAAGTTC
1 ACGTTTGACTCATTTTAATGAAACGTTTGATACATTTTTAAATATACGTGACAATCAAGTTC
*
55162748 ACGTTTGACTCATTTTAATGAAACGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
1 ACGTTTGACTCATTTTAATGAAACGTTTGATACATTTTTAAATATACGTGACAATCAAGTTC
55162810 A
1 A
55162811 TGCAAATATG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (62 bp):
ACGTTTGACTCATTTTAATGAAACGTTTGATACATTTTTAAATATACGTGACAATCAAGTTC
Found at i:55163579 original size:17 final size:17
Alignment explanation
Indices: 55163557--55163591 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55163547 ATAGAAATAA
55163557 CATATTATAATTATCAT
1 CATATTATAATTATCAT
55163574 CATATTATAATTATCAT
1 CATATTATAATTATCAT
55163591 C
1 C
55163592 TTCTTCCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (17 bp):
CATATTATAATTATCAT
Found at i:55173133 original size:29 final size:30
Alignment explanation
Indices: 55173087--55173143 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
55173077 AAATGGAGAA
55173087 AAATACATCAATCATAAAAAAA-ATACATC
1 AAATACATCAATCATAAAAAAATATACATC
*
55173116 AAATACATCAATCGTAAAAAAATATACA
1 AAATACATCAATCATAAAAAAATATACA
55173144 CCAATCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.21
Consensus pattern (30 bp):
AAATACATCAATCATAAAAAAATATACATC
Found at i:55173987 original size:9 final size:9
Alignment explanation
Indices: 55173973--55174002 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
55173963 AAAATATCAT
55173973 ATTAATTTA
1 ATTAATTTA
*
55173982 ATTAATTTG
1 ATTAATTTA
55173991 ATTAATTTA
1 ATTAATTTA
55174000 ATT
1 ATT
55174003 TTACTTGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:55178495 original size:52 final size:53
Alignment explanation
Indices: 55178437--55178557 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 53
55178427 TGGTATGTGC
*
55178437 TTCCGTATAAGACCATAGCTGGGCTATGGAATTGGTGCAATGTGAT-ACGTG-
1 TTCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAACGTGA
* ** ** *
55178488 TTCCCGTATAAGACCATAGTTGGGCTATGGTGTCGGTGTGATGTGATAATGTGA
1 TT-CCGTATAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAACGTGA
55178542 TTCCGTATAAGACCAT
1 TTCCGTATAAGACCAT
55178558 GTCTGGGAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
51 2 0.03
52 38 0.63
53 18 0.30
54 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (53 bp):
TTCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAACGTGA
Found at i:55186065 original size:52 final size:52
Alignment explanation
Indices: 55185956--55186091 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 52
55185946 TGACGGAAAA
* * * **
55185956 GATGTGATATGTGTGCCCGTATAATACCATAGTTGGGCTATGGCATTGGTGC
1 GATGTGATATGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
* * * *
55186008 AATGTGATACGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCGTCAGTGT
1 GATGTGATATGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
55186060 GATGTGATAATGTGATTCCA-TATAAGACCATA
1 GATGTGAT-ATGTG-TTCCAGTATAAGACCATA
55186092 TCTGTTTATA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
52 50 0.70
53 16 0.23
54 5 0.07
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (52 bp):
GATGTGATATGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
Found at i:55187606 original size:18 final size:18
Alignment explanation
Indices: 55187574--55187609 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
55187564 ACATATTTTC
55187574 TCATACTTATAACATATA
1 TCATACTTATAACATATA
55187592 TCATCACTTAT-ACATATA
1 TCAT-ACTTATAACATATA
55187610 CTAACCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (18 bp):
TCATACTTATAACATATA
Found at i:55191389 original size:27 final size:26
Alignment explanation
Indices: 55191329--55191390 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
55191319 ATAAGACTCC
55191329 ATTTTATTAGGATAATTAATGTTAAG
1 ATTTTATTAGGATAATTAATGTTAAG
* * * *
55191355 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATGTTAAG
55191383 ATTTTATT
1 ATTTTATT
55191391 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATGTTAAG
Found at i:55194490 original size:40 final size:40
Alignment explanation
Indices: 55194388--55194571 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
55194378 AAATTGAATG
* * * * *
55194388 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
55194428 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
55194468 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
55194508 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
55194548 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
55194572 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:55202594 original size:40 final size:40
Alignment explanation
Indices: 55202492--55202675 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
55202482 AAATTGAATG
* * * * *
55202492 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
55202532 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
55202572 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
55202612 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
55202652 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
55202676 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:55209234 original size:5 final size:5
Alignment explanation
Indices: 55209220--55209264 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
55209210 TCTCTTTTTC
* * * *
55209220 TATTT CATTT TATTT TAGTT TATTT TGTTT TATTT TAATT TATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT
55209265 ATTATTTATT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:55209250 original size:20 final size:20
Alignment explanation
Indices: 55209227--55209264 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
55209217 TTCTATTTCA
*
55209227 TTTTATTTTAGTTTATTTTG
1 TTTTATTTTAATTTATTTTG
55209247 TTTTATTTTAATTTATTT
1 TTTTATTTTAATTTATTT
55209265 ATTATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTATTTTAATTTATTTTG
Found at i:55212106 original size:100 final size:100
Alignment explanation
Indices: 55211928--55212107 Score: 249
Period size: 100 Copynumber: 1.8 Consensus size: 100
55211918 TAATTTCTAA
* * * *
55211928 GAATGTGTTGGGCTGAGTAACCGAGGTGAGGTGTTTAGGTTGTCATCTTTCTTCGCGTCAAAAGG
1 GAATGTGCTGGGCTGAGTAACCGAGGTGAGGTGCTTAGGTTGTCATCTCTCTTCGCGTCAAAACG
* *
55211993 TTCGATATGTTCCTAGGAATAATAATAAATATTAG
66 TACGATATATTCCTAGGAATAATAATAAATATTAG
*
55212028 GAATGTGCTGGGCTGAGTAACCG-GTGTG-GGATGCTTGGGTTGTCATCTCTCTTCGCGTCAAAA
1 GAATGTGCTGGGCTGAGTAACCGAG-GTGAGG-TGCTTAGGTTGTCATCTCTCTTCGCGTCAAAA
55212091 CGTAC-ACTATATTCCTA
64 CGTACGA-TATATTCCTA
55212108 AGTGAAAGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
99 4 0.06
100 66 0.94
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (100 bp):
GAATGTGCTGGGCTGAGTAACCGAGGTGAGGTGCTTAGGTTGTCATCTCTCTTCGCGTCAAAACG
TACGATATATTCCTAGGAATAATAATAAATATTAG
Found at i:55212778 original size:27 final size:26
Alignment explanation
Indices: 55212718--55212779 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
55212708 ATAAGACTCC
55212718 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
55212744 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
55212772 ATTTTATT
1 ATTTTATT
55212780 TTTAATTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:55213560 original size:17 final size:18
Alignment explanation
Indices: 55213529--55213562 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
55213519 TACTCCTCAT
55213529 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
55213547 TTTAATTT-TGCAATTT
1 TTTAATTTCTGCAATTT
55213563 CAATTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:55219388 original size:71 final size:71
Alignment explanation
Indices: 55219299--55219467 Score: 329
Period size: 71 Copynumber: 2.4 Consensus size: 71
55219289 CCAACCGATT
*
55219299 TTTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
55219364 TTTATC
66 TTTATC
55219370 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
55219435 TTTATC
66 TTTATC
55219441 TTTCACGTAGCTCTCTTGTCTACATGG
1 TTTCACGTAGCTCTCTTGTCTACATGG
55219468 GATACATCTC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 97 1.00
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (71 bp):
TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
TTTATC
Found at i:55219505 original size:71 final size:70
Alignment explanation
Indices: 55219299--55219501 Score: 259
Period size: 71 Copynumber: 2.9 Consensus size: 70
55219289 CCAACCGATT
* * * * *
55219299 TTTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
55219364 TTTATC
65 TTTATC
* * * *
55219370 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
55219435 TTTATC
65 TTTATC
* *
55219441 TTTCACGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 TTTCACGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
55219502 TACAGGGTGT
Statistics
Matches: 124, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 100 0.81
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (70 bp):
TTTCACGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACAT
TTATC
Found at i:55220978 original size:86 final size:85
Alignment explanation
Indices: 55220825--55220982 Score: 205
Period size: 86 Copynumber: 1.8 Consensus size: 85
55220815 TGTACAATGC
* * * *
55220825 CAACGTCCCAGACGTGGTCTTACATGTAATCAAATATTAATGCCACTATCCTAGACAGGGTCTTA
1 CAACGTCCCAGACGTGATCTTACACGTAATCAAATATCAATGCCACTATCCCAGACAGGGTCTTA
55220890 CACGAAATCAAATACGATAA
66 CACGAAATCAAATACGATAA
* *
55220910 CAACGTCCTAGACGTGATCTTACACGTAAATCATAA-GTCAATGCCAAC-ATCCCAGAC-GTGGT
1 CAACGTCCCAGACGTGATCTTACACGT-AATCA-AATATCAATGCC-ACTATCCCAGACAG-GGT
55220972 CTTACACGAAA
62 CTTACACGAAA
55220983 ACACATATCG
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 25 0.40
86 34 0.54
87 4 0.06
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.23
Consensus pattern (85 bp):
CAACGTCCCAGACGTGATCTTACACGTAATCAAATATCAATGCCACTATCCCAGACAGGGTCTTA
CACGAAATCAAATACGATAA
Found at i:55223899 original size:13 final size:14
Alignment explanation
Indices: 55223872--55223903 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
55223862 TGGTTTAAAT
55223872 AAATAAAATATTAA
1 AAATAAAATATTAA
55223886 AAATAAAA-ATTAA
1 AAATAAAATATTAA
55223899 AAATA
1 AAATA
55223904 GGAAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAAAATATTAA
Found at i:55224556 original size:22 final size:22
Alignment explanation
Indices: 55224522--55224563 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
55224512 GCATATTAGA
** *
55224522 TTTGAAATTAAATAGAAATACT
1 TTTGAAAAAAAATAAAAATACT
55224544 TTTGAAAAAAAATAAAAATA
1 TTTGAAAAAAAATAAAAATA
55224564 AAATTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (22 bp):
TTTGAAAAAAAATAAAAATACT
Found at i:55224714 original size:13 final size:13
Alignment explanation
Indices: 55224696--55224720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55224686 GTTTTAAAAC
55224696 ATAATAATAATAA
1 ATAATAATAATAA
55224709 ATAATAATAATA
1 ATAATAATAATA
55224721 TTGGTATCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:55233504 original size:28 final size:28
Alignment explanation
Indices: 55233464--55233521 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
55233454 GCCCCTAGAG
55233464 TCCCATATTTAGTAATTCCTGAACTCTT
1 TCCCATATTTAGTAATTCCTGAACTCTT
55233492 TCCCATATTTAGTAATTCCTGAACTCTT
1 TCCCATATTTAGTAATTCCTGAACTCTT
55233520 TC
1 TC
55233522 TTCTGTATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (28 bp):
TCCCATATTTAGTAATTCCTGAACTCTT
Found at i:55235171 original size:16 final size:16
Alignment explanation
Indices: 55235150--55235200 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
55235140 TTTCTAGTAT
*
55235150 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
55235166 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
*
55235182 TTTATTTACTAGTGTA
1 TTTATTTACTAGCGTA
55235198 TTT
1 TTT
55235201 GCTCTTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.22, C:0.10, G:0.14, T:0.55
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:55235653 original size:14 final size:14
Alignment explanation
Indices: 55235634--55235660 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55235624 TGAAAAGTTC
55235634 ATAATATTGATCGG
1 ATAATATTGATCGG
55235648 ATAATATTGATCG
1 ATAATATTGATCG
55235661 AAGGTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (14 bp):
ATAATATTGATCGG
Found at i:55236864 original size:16 final size:15
Alignment explanation
Indices: 55236833--55236871 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
55236823 TATCATTTCA
55236833 ATATATAATTTAAAT
1 ATATATAATTTAAAT
*
55236848 ATATATAAATTTTAAT
1 ATATAT-AATTTAAAT
55236864 ATAT-TAAT
1 ATATATAAT
55236872 AATATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 7 0.32
16 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:55236903 original size:20 final size:19
Alignment explanation
Indices: 55236860--55236903 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
55236850 ATATAAATTT
*
55236860 TAAT-ATATTAATAATATA
1 TAATAATATTAACAATATA
55236878 TAAATAATATTAACAATATAA
1 T-AATAATATTAACAATAT-A
55236899 TAATA
1 TAATA
55236904 TAGAAAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 3 0.14
20 16 0.73
21 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATAATATTAACAATATA
Found at i:55237674 original size:21 final size:22
Alignment explanation
Indices: 55237634--55237675 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
55237624 TTCTTGTTTT
*
55237634 GTTCCACGAGGCCACGACCACG
1 GTTCCACGAGGCCACAACCACG
*
55237656 GTTCCAC-AGGCTACAACCAC
1 GTTCCACGAGGCCACAACCAC
55237676 CATCAGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.26, C:0.40, G:0.21, T:0.12
Consensus pattern (22 bp):
GTTCCACGAGGCCACAACCACG
Found at i:55239840 original size:40 final size:40
Alignment explanation
Indices: 55239785--55239879 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
55239775 TATGTGCATA
55239785 GCATTCGTGCTGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCTGGTTATTATAACCGGGTTAAGTCCCGAAG
*
55239825 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCTGGTTATTATAACCGGGTTAAGTCCCGAAG
55239865 GCATTCGTGCTGGTT
1 GCATTCGTGCTGGTT
55239880 GTTACATCCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCTGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:55242156 original size:16 final size:15
Alignment explanation
Indices: 55242104--55242160 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
55242094 CATCTTTGAC
55242104 TATTGATTTATTTTA-
1 TATT-ATTTATTTTAT
*
55242119 TATTATTTATTGTAAAT
1 TATTATTTATT-T-TAT
55242136 T-TTATTTATTATTAT
1 TATTATTTATT-TTAT
55242151 TATTATTTAT
1 TATTATTTAT
55242161 GTGAACCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
14 7 0.20
15 8 0.23
16 19 0.54
17 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TATTATTTATTTTAT
Found at i:55244675 original size:20 final size:21
Alignment explanation
Indices: 55244650--55244689 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
55244640 CCCTTAAAAC
*
55244650 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
55244670 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
55244690 CCACTATGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:55246938 original size:40 final size:40
Alignment explanation
Indices: 55246856--55247039 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
55246846 GAATGATTTT
* **
55246856 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATGTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAATC
* *
55246896 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACTAAATC
*
55246936 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATC
* *
55246976 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AATC
*
55247016 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
55247040 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.91
41 11 0.09
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATC
Done.