Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 182 of 770
Found at i:54504936 original size:24 final size:24
Alignment explanation
Indices: 54504904--54505027 Score: 205
Period size: 24 Copynumber: 5.2 Consensus size: 24
54504894 GGCCTAGCTT
*
54504904 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
54504928 CTTTCAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
54504952 CTTTT-ATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
54504975 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
54504999 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
54505023 CTTTT
1 CTTTT
54505028 TCACTTCCTC
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 23 0.24
24 73 0.76
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:54504964 original size:47 final size:48
Alignment explanation
Indices: 54504904--54505026 Score: 203
Period size: 47 Copynumber: 2.6 Consensus size: 48
54504894 GGCCTAGCTT
*
54504904 CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCC
**
54504952 CTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCC
*
54504999 CTTTTGATAACTGGGGCATAAGCCCTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTT
54505027 TTCACTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
47 44 0.62
48 27 0.38
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCC
Found at i:54505102 original size:20 final size:20
Alignment explanation
Indices: 54505077--54505137 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
54505067 TTATGATTAC
54505077 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
54505097 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
54505117 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
54505137 A
1 A
54505138 CCATATCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:54505212 original size:25 final size:25
Alignment explanation
Indices: 54505180--54505227 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54505170 ATACATAAAC
* * *
54505180 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
54505205 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
54505228 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:54514391 original size:40 final size:40
Alignment explanation
Indices: 54514328--54514553 Score: 296
Period size: 40 Copynumber: 5.6 Consensus size: 40
54514318 ATTCGGATTG
54514328 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54514367 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
54514407 ATAACCGGGCCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAA-----CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
54514452 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54514492 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
54514532 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
54514554 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
39 29 0.17
40 101 0.60
45 38 0.23
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:54514465 original size:85 final size:84
Alignment explanation
Indices: 54514332--54514501 Score: 286
Period size: 85 Copynumber: 2.0 Consensus size: 84
54514322 GGATTGATAA
* * * *
54514332 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCCAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGT
54514397 GCGAGTTACTATAACCGGG
66 GCGAGTTACTATAACCGGG
54514416 CCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTG
1 CCGGGCCAAG-CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTG
*
54514481 TGTGAGTTACTATAACCGGG
65 TGCGAGTTACTATAACCGGG
54514501 C
1 C
54514502 TAAGTCCCGA
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 9 0.11
85 71 0.89
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (84 bp):
CCGGGCCAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGT
GCGAGTTACTATAACCGGG
Found at i:54518015 original size:19 final size:19
Alignment explanation
Indices: 54517979--54518018 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
54517969 TAAAATTAAT
*
54517979 ATTAACTAAATGCAAATGA
1 ATTAACTAAATACAAATGA
54517998 ATTAATCTAAATAC-AATGA
1 ATTAA-CTAAATACAAATGA
54518017 AT
1 AT
54518019 GAGATGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (19 bp):
ATTAACTAAATACAAATGA
Found at i:54534539 original size:3 final size:3
Alignment explanation
Indices: 54534531--54534555 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
54534521 CAAAATGACC
54534531 CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA C
54534556 AACTCCTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:54539670 original size:107 final size:109
Alignment explanation
Indices: 54539482--54539683 Score: 284
Period size: 107 Copynumber: 1.9 Consensus size: 109
54539472 TTTAAGGATA
* * *
54539482 CCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGAAAATTAGTAAGGTTTCTAAGGCAAGGATACCATGCAAGA
*
54539547 CCATGTCAAGACATGGCATTGATAAGTTTCTATACGGAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATACGGAAAGGTC
* *
54539591 CCATGTAAGACCATGCCAAGGCATG-ACATTAGTGA-G-TTCATAAGGCAAGGATACCATGCAAG
1 CCATGTAAGACCATGCCAAGGCATGAAAATTAGTAAGGTTTC-TAAGGCAAGGATACCATGCAAG
* ** *
54539653 ACCATGTCGATTCATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
54539684 AAAAGGATAC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
106 3 0.04
107 47 0.57
108 7 0.09
109 25 0.30
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGAAAATTAGTAAGGTTTCTAAGGCAAGGATACCATGCAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATACGGAAAGGTC
Found at i:54544352 original size:26 final size:27
Alignment explanation
Indices: 54544323--54544376 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
54544313 AAAAGTGTCG
54544323 AATATTT-ACTGA-TCACAAAAG-TTTGA
1 AATATTTGA-TGACTCA-AAAAGATTTGA
54544349 AATATTTGATGACTCAAAAAGATTTGA
1 AATATTTGATGACTCAAAAAGATTTGA
54544376 A
1 A
54544377 CTTGAGGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (27 bp):
AATATTTGATGACTCAAAAAGATTTGA
Found at i:54545301 original size:27 final size:26
Alignment explanation
Indices: 54545253--54545304 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54545243 GCGAAGCTGC
*
54545253 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
54545279 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
54545305 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:54548501 original size:8 final size:8
Alignment explanation
Indices: 54548490--54548525 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
54548480 TTAAAGCGAT
54548490 AAATGCCG
1 AAATGCCG
54548498 AAATGCCG
1 AAATGCCG
*
54548506 AAAAGCCG
1 AAATGCCG
54548514 AAATGCCG
1 AAATGCCG
54548522 AAAT
1 AAAT
54548526 TCTGGCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:54548976 original size:25 final size:25
Alignment explanation
Indices: 54548944--54548991 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
54548934 TTATAATATG
* *
54548944 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
54548969 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
54548992 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:54549042 original size:9 final size:9
Alignment explanation
Indices: 54549030--54549086 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
54549020 TTTGATAAAC
54549030 ATGATATGT
1 ATGATATGT
*
54549039 ATGATATGCAC
1 ATGATATG--T
*
54549050 ATGACATGT
1 ATGATATGT
*
54549059 ATGATATGCAC
1 ATGATATG--T
54549070 ATGATATGT
1 ATGATATGT
54549079 ATGATATG
1 ATGATATG
54549087 CACACGAGAT
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:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:54549053 original size:20 final size:20
Alignment explanation
Indices: 54549028--54549090 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
54549018 ATTTTGATAA
54549028 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
54549048 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
54549068 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
54549088 ACA
1 ACA
54549091 CGAGATGTTC
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:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:54549199 original size:47 final size:47
Alignment explanation
Indices: 54549145--54549242 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
54549135 AGGAAGTGCA
54549145 AAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
54549192 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT-AAAAAGGGCTTTGCCCCAGTTATT
54549240 AAA
1 AAA
54549243 AGAGGCTAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 23 0.47
48 16 0.33
49 10 0.20
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
Found at i:54549259 original size:25 final size:24
Alignment explanation
Indices: 54549144--54549263 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
54549134 GAGGAAGTGC
54549144 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54549168 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54549192 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54549215 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
54549240 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
54549264 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
23 29 0.33
24 30 0.34
25 21 0.24
26 9 0.10
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:54549491 original size:31 final size:31
Alignment explanation
Indices: 54549456--54549519 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
54549446 CGTTTACAGT
*
54549456 AAAGGTTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
54549487 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
54549518 AA
1 AA
54549520 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:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:54552085 original size:53 final size:54
Alignment explanation
Indices: 54551902--54552156 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
54551892 ATTAGGGTTT
*
54551902 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCATAAGGC
* * * *
54551957 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-ATAAGGC
* * *
54552012 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGAATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCATAAGGC
* * * *
54552065 AAGGATACCATGTAAAACCATGTCGAGACATGGAAATGGTAAGTTT-A-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCATAAGGC
* * * * *
54552114 AAGGATACCACGTAAGACCATGACATGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAG
54552157 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
52 6 0.04
53 44 0.26
54 12 0.07
55 67 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCATAAGGC
Found at i:54552108 original size:108 final size:110
Alignment explanation
Indices: 54551909--54552110 Score: 311
Period size: 108 Copynumber: 1.9 Consensus size: 110
54551899 TTTAAGGATA
* *
54551909 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
* *
54551974 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTTCTATAAGGCAAAGGTC
*
54552019 CCATGTAAGACCATGCCAAGGCATGG-AATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAA
* *
54552081 ACCATGTCGAGACATGGAAATGGTAAGTTT
65 ACCATGTCAAGACATGGAAATGATAAGTTT
54552111 AAAAAGGATA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.56
109 8 0.10
110 26 0.31
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
CCATGTCAAGACATGGAAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:54552370 original size:16 final size:16
Alignment explanation
Indices: 54552349--54552379 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54552339 ATAAATTTGA
54552349 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
54552365 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
54552380 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:54557932 original size:124 final size:124
Alignment explanation
Indices: 54557710--54557934 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
54557700 GAATTATGTG
* * * ** * * *
54557710 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
54557775 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
54557834 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
54557899 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
54557935 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:54558056 original size:40 final size:40
Alignment explanation
Indices: 54557929--54558058 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
54557919 ATGCTGGAAA
* *
54557929 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
54557969 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
54558009 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
54558049 TTATATCCGG
1 TTATATCCGG
54558059 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:54558057 original size:80 final size:80
Alignment explanation
Indices: 54557891--54558058 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
54557881 CAATTGAATG
* * *
54557891 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
54557956 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
54557971 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
54558035 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
54558051 ATATCCGG
1 ATATCCGG
54558059 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:54562359 original size:66 final size:68
Alignment explanation
Indices: 54562283--54562469 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
54562273 TAGTACCACT
*
54562283 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
54562345 CACG
65 CACG
54562349 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
54562414 ATCACG
63 ATCACG
54562420 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
54562470 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:54562394 original size:71 final size:71
Alignment explanation
Indices: 54562306--54562469 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54562296 CGATTTGTCT
54562306 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54562371 CTTTCA
66 CTTTCA
54562377 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54562442 CTTTCA
66 CTTTCA
54562448 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54562470 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54562507 original size:71 final size:70
Alignment explanation
Indices: 54562306--54562503 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
54562296 CGATTTGTCT
* * *
54562306 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
54562371 CTTTCA
65 CTTTCA
* * *
54562377 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
54562442 CTTTCA
65 CTTTCA
* *
54562448 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
54562504 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54569927 original size:66 final size:68
Alignment explanation
Indices: 54569851--54570037 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
54569841 TAGTACCACT
*
54569851 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
54569913 CACG
65 CACG
54569917 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
54569982 ATCACG
63 ATCACG
54569988 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
54570038 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:54569962 original size:71 final size:71
Alignment explanation
Indices: 54569874--54570037 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54569864 CGATTTGTCT
54569874 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54569939 CTTTCA
66 CTTTCA
54569945 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54570010 CTTTCA
66 CTTTCA
54570016 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54570038 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54570075 original size:71 final size:70
Alignment explanation
Indices: 54569874--54570071 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
54569864 CGATTTGTCT
* * *
54569874 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
54569939 CTTTCA
65 CTTTCA
* * *
54569945 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
54570010 CTTTCA
65 CTTTCA
* *
54570016 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
54570072 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54575804 original size:40 final size:40
Alignment explanation
Indices: 54575755--54575905 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
54575745 ATCACGATTT
*
54575755 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
54575795 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
54575835 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
54575875 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
54575906 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:54575843 original size:80 final size:79
Alignment explanation
Indices: 54575759--54575941 Score: 218
Period size: 80 Copynumber: 2.3 Consensus size: 79
54575749 CGATTTGCAC
* *
54575759 AAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCG
1 AAATGCCTTCGGG-CTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
*
54575822 GATATAATTACTAGCAT
63 GATATAATTACCAGCAT
*
54575839 AAATGTCC-TCGGGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 AAATG-CCTTCGGG-CTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCG
*
54575902 GATATAATTTCCAGCAT
63 GATATAATTACCAGCAT
54575919 -AAT--CTTCGGGCTTAGCCCGGATA
1 AAATGCCTTCGGGCTTAGCCCGGATA
54575942 TCATTCAATT
Statistics
Matches: 91, Mismatches: 6, Indels: 15
0.81 0.05 0.13
Matches are distributed among these distances:
76 13 0.14
77 5 0.05
78 1 0.01
79 7 0.08
80 63 0.69
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
AAATGCCTTCGGGCTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGAT
ATAATTACCAGCAT
Found at i:54581671 original size:30 final size:30
Alignment explanation
Indices: 54581616--54581746 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
54581606 ATAGTGAATC
*
54581616 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
54581645 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
54581675 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
54581703 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
54581733 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54581747 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:54581726 original size:58 final size:58
Alignment explanation
Indices: 54581615--54581746 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
54581605 TATAGTGAAT
* * * * *
54581615 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
54581674 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
54581732 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
54581747 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:54584508 original size:15 final size:14
Alignment explanation
Indices: 54584488--54584588 Score: 52
Period size: 13 Copynumber: 6.9 Consensus size: 14
54584478 ATTCTCTTGA
54584488 ATTTCATGCATCATT
1 ATTTCAT-CATCATT
54584503 ATTTCAT-ATCA-T
1 ATTTCATCATCATT
*
54584515 ATTTTCA-CATCATG
1 A-TTTCATCATCATT
*
54584529 AATTCATTCCATCACCTTT
1 ATTTCA-T-CATCA---TT
54584548 CATTTCATGCATCATT
1 -ATTTCAT-CATCATT
54584564 ATTTCAT-ATCA-T
1 ATTTCATCATCATT
54584576 ATTTTCA-CATCAT
1 A-TTTCATCATCAT
54584589 GAATTCATTC
Statistics
Matches: 68, Mismatches: 5, Indels: 27
0.68 0.05 0.27
Matches are distributed among these distances:
12 4 0.06
13 30 0.44
14 1 0.01
15 14 0.21
16 7 0.10
19 7 0.10
20 5 0.07
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.46
Consensus pattern (14 bp):
ATTTCATCATCATT
Found at i:54584557 original size:61 final size:61
Alignment explanation
Indices: 54584488--54584610 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
54584478 ATTCTCTTGA
54584488 ATTTCATGCATCATTATTTCATATCATATTTTCACATCATGAATTCATTCCATCACCTTTC
1 ATTTCATGCATCATTATTTCATATCATATTTTCACATCATGAATTCATTCCATCACCTTTC
54584549 ATTTCATGCATCATTATTTCATATCATATTTTCACATCATGAATTCATTCCATCACCTTTC
1 ATTTCATGCATCATTATTTCATATCATATTTTCACATCATGAATTCATTCCATCACCTTTC
54584610 A
1 A
54584611 ATGTATTCAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.28, C:0.24, G:0.03, T:0.44
Consensus pattern (61 bp):
ATTTCATGCATCATTATTTCATATCATATTTTCACATCATGAATTCATTCCATCACCTTTC
Found at i:54603962 original size:36 final size:36
Alignment explanation
Indices: 54603915--54603986 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
54603905 ACTGTGTTGA
54603915 GTCCATTAGGGTGGTCAGTGAAAGTGAATAAACTGT
1 GTCCATTAGGGTGGTCAGTGAAAGTGAATAAACTGT
54603951 GTCCATTAGGGTGGTCAGTGAAAGTGAATAAACTGT
1 GTCCATTAGGGTGGTCAGTGAAAGTGAATAAACTGT
54603987 TTAAGGATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.28
Consensus pattern (36 bp):
GTCCATTAGGGTGGTCAGTGAAAGTGAATAAACTGT
Found at i:54605201 original size:18 final size:20
Alignment explanation
Indices: 54605156--54605199 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
54605146 AGCCATACAT
54605156 GCCACATTCAAAACACACAA
1 GCCACATTCAAAACACACAA
54605176 GCCACATTCAAAACACACAA
1 GCCACATTCAAAACACACAA
54605196 GCCA
1 GCCA
54605200 TTTTACCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.36, G:0.07, T:0.09
Consensus pattern (20 bp):
GCCACATTCAAAACACACAA
Found at i:54617756 original size:46 final size:46
Alignment explanation
Indices: 54617700--54617869 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
54617690 TGGTTGAGCA
54617700 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
54617746 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
** *
54617791 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
54617839 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
54617870 TTAGGGGCGG
Statistics
Matches: 104, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 56 0.54
47 28 0.27
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:54617856 original size:93 final size:93
Alignment explanation
Indices: 54617697--54617867 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
54617687 GGATGGTTGA
* *
54617697 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
54617762 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** *
54617790 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
54617855 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54617868 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54618773 original size:20 final size:20
Alignment explanation
Indices: 54618736--54618778 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
54618726 CTGTTCTGAC
* *
54618736 TTTAAAAATTCATAATAAAT
1 TTTAAAAAATAATAATAAAT
* *
54618756 TTTAAAAAATAATTATAAGT
1 TTTAAAAAATAATAATAAAT
54618776 TTT
1 TTT
54618779 TATTTATATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAAAATAATAATAAAT
Found at i:54621701 original size:40 final size:39
Alignment explanation
Indices: 54621654--54621777 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 39
54621644 CGGGCTTTAA
*
54621654 CCGGATATAGCCACTCACTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-CACTCACACAAATGCCTTCGGGACTTAGC
* *
54621694 CCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGCAC-TCACACAAATGCCTTCGGGACTTAGC
*
54621734 CC-GAAATTAGTCACT-AGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAG-CACTCA-CACAAATGCCTTCGGGACTTAGC
54621774 CCGG
1 CCGG
54621778 TTACCATCCG
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
39 5 0.07
40 65 0.89
41 3 0.04
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.23
Consensus pattern (39 bp):
CCGGATATAGCACTCACACAAATGCCTTCGGGACTTAGC
Found at i:54624574 original size:30 final size:30
Alignment explanation
Indices: 54624540--54624596 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
54624530 TAATTCAAAA
54624540 TTTTGCAAAATTACAATTTTGCCCCTAAAC
1 TTTTGCAAAATTACAATTTTGCCCCTAAAC
* * *
54624570 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGCAAAATTACAATTTTGCCCCTA
54624597 CGCTCGGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCTAAAC
Found at i:54633707 original size:39 final size:39
Alignment explanation
Indices: 54633653--54633843 Score: 303
Period size: 39 Copynumber: 4.9 Consensus size: 39
54633643 GGATTATATC
*
54633653 CGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTT
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTT
* * *
54633692 CGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTCTTATTC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTT
54633731 CGGGTTAAGT-CCGAAGGCATTCGTGCTGGTTGTTATTT
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTT
* * *
54633769 CCGGTTAAGTCCCGAAGGCATTCATGCTGGTTGCTATTT
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTT
*
54633808 CGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTA
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTA
54633844 CATCCGGGCT
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 34 0.25
39 103 0.75
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (39 bp):
CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTT
Found at i:54633779 original size:77 final size:79
Alignment explanation
Indices: 54633646--54633843 Score: 312
Period size: 77 Copynumber: 2.5 Consensus size: 79
54633636 CAATTGAGGA
* *
54633646 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTTCGGGTTAAGTCCCGAAGGC
1 TTAT-TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGTTAAGTCCCGAAGGC
*
54633711 ATTCGTGCTAGTT-C
65 ATTCATGCTAGTTGC
54633725 TTATTCCGGGTTAAGT-CCGAAGGCATTCGTGCTGGTTGTTATTTCCGGTTAAGTCCCGAAGGCA
1 TTATTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGTTAAGTCCCGAAGGCA
*
54633789 TTCATGCTGGTTGC
66 TTCATGCTAGTTGC
* *
54633803 -TATTTCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTA
1 TTATTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTA
54633844 CATCCGGGCT
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
77 70 0.63
78 37 0.33
79 4 0.04
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (79 bp):
TTATTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGTTAAGTCCCGAAGGCA
TTCATGCTAGTTGC
Found at i:54639594 original size:39 final size:41
Alignment explanation
Indices: 54639493--54639675 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
54639483 TCGAATGATG
* * *
54639493 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
54639533 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
54639573 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAG-TACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
54639611 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
54639650 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54639676 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
38 36 0.29
39 31 0.25
40 46 0.37
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:54645141 original size:40 final size:40
Alignment explanation
Indices: 54645080--54645304 Score: 335
Period size: 40 Copynumber: 5.6 Consensus size: 40
54645070 CAATTGAGGA
* *
54645080 TTATATCCGGGTTAAGGCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
*
54645120 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTC
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
*
54645160 TTA-TTCTCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTC-CGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
54645200 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
* **
54645240 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
** * *
54645280 TTACATCCGGGCTAAATCCCGAAGG
1 TTATTTCCGGGTTAAGTCCCGAAGG
54645305 TAATTGGGTT
Statistics
Matches: 169, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
39 3 0.02
40 163 0.96
41 3 0.02
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
Found at i:54647644 original size:2 final size:2
Alignment explanation
Indices: 54647633--54647663 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
54647623 AGTATAGTTG
54647633 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54647664 GTATGCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:54648248 original size:29 final size:29
Alignment explanation
Indices: 54648209--54648283 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
54648199 GGTTGAGAGA
* *
54648209 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
54648238 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
54648267 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
54648284 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:54660950 original size:39 final size:39
Alignment explanation
Indices: 54660884--54660998 Score: 185
Period size: 39 Copynumber: 2.9 Consensus size: 39
54660874 TCACACATTT
* *
54660884 CCAACACAAATGCCTTCGGGACTTAGCCCGGATATAACA
1 CCAACACGAATACCTTCGGGACTTAGCCCGGATATAACA
*
54660923 CCAGCACGAATACCTTCGGGACTTAGCCCGGATATAACA
1 CCAACACGAATACCTTCGGGACTTAGCCCGGATATAACA
* *
54660962 CCAACACGAATGCCTTCGAGACTTAGCCCGGATATAA
1 CCAACACGAATACCTTCGGGACTTAGCCCGGATATAA
54660999 ATCTCACACA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.18
Consensus pattern (39 bp):
CCAACACGAATACCTTCGGGACTTAGCCCGGATATAACA
Found at i:54670354 original size:40 final size:40
Alignment explanation
Indices: 54670269--54670419 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
54670259 AATTGAATGA
* * * *
54670269 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
54670309 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
54670350 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
54670389 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
54670420 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:54670433 original size:40 final size:40
Alignment explanation
Indices: 54670306--54670435 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
54670296 ATGCTGGAAA
* * *
54670306 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
54670346 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
54670386 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
54670426 TTATATCCGG
1 TTATATCCGG
54670436 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:54670434 original size:80 final size:80
Alignment explanation
Indices: 54670268--54670435 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
54670258 AAATTGAATG
* *
54670268 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
54670333 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
54670348 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
54670411 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
54670428 ATATCCGG
1 ATATCCGG
54670436 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:54672053 original size:39 final size:39
Alignment explanation
Indices: 54671999--54672179 Score: 272
Period size: 39 Copynumber: 4.6 Consensus size: 39
54671989 AACACAAATG
*
54671999 CCTTCGGGACTTAGCCCGAATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
*
54672038 CCTTCGGCACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* * *
54672077 CCTTCGGGAATTAGCTCGGATATAACTCCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* * *
54672116 CCTTCGAGACTTAGCCCGGATATAACACCAGCATGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
54672155 CCTTTGGGACTTAGCCTGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
54672180 ATCTCACACA
Statistics
Matches: 127, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 127 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:54676702 original size:42 final size:42
Alignment explanation
Indices: 54676637--54676758 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 42
54676627 TCAACTATCA
* *
54676637 ATGCCACTGTCCCAGACAGGGTCTTACACAAAATCAAAAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAAAACG
* * * * * *
54676679 ATGTCGATGTCCCAGACATGGTCTTACACGTAAATCTCAGATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-AAAATC-AAAAACG
* * *
54676723 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCA
54676759 CATATCGTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 25 0.39
43 10 0.16
44 29 0.45
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAAAACG
Found at i:54679217 original size:25 final size:25
Alignment explanation
Indices: 54679188--54679235 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54679178 TTATAATATG
* * *
54679188 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
54679213 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
54679236 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:54679319 original size:40 final size:40
Alignment explanation
Indices: 54679275--54679374 Score: 200
Period size: 40 Copynumber: 2.5 Consensus size: 40
54679265 TTGATAAACC
54679275 TGATATGTATGATATGCACATGACATGTATGATATGCACA
1 TGATATGTATGATATGCACATGACATGTATGATATGCACA
54679315 TGATATGTATGATATGCACATGACATGTATGATATGCACA
1 TGATATGTATGATATGCACATGACATGTATGATATGCACA
54679355 TGATATGTATGATATGCACA
1 TGATATGTATGATATGCACA
54679375 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (40 bp):
TGATATGTATGATATGCACATGACATGTATGATATGCACA
Found at i:54679382 original size:20 final size:20
Alignment explanation
Indices: 54679279--54679374 Score: 174
Period size: 20 Copynumber: 4.8 Consensus size: 20
54679269 TAAACCTGAT
54679279 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
54679299 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
54679319 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
54679339 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
54679359 ATGTATGATATGCACA
1 ATGTATGATATGCACA
54679375 CGAGATGTTC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:54679483 original size:23 final size:24
Alignment explanation
Indices: 54679428--54679546 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
54679418 GAGGAAGTGC
54679428 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54679452 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54679476 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54679499 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
54679523 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
54679547 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 29 0.33
24 43 0.48
25 17 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:54679498 original size:47 final size:47
Alignment explanation
Indices: 54679429--54679525 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
54679419 AGGAAGTGCA
54679429 AAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
54679476 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
54679523 AAA
1 AAA
54679526 AGAGGCTAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 39 0.80
48 10 0.20
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
Found at i:54679774 original size:31 final size:31
Alignment explanation
Indices: 54679739--54679802 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
54679729 CGTTTACAGT
54679739 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
54679770 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
54679801 AA
1 AA
54679803 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:54686869 original size:8 final size:8
Alignment explanation
Indices: 54686854--54686889 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
54686844 TTAAAGCGAT
54686854 AAATGCCG
1 AAATGCCG
*
54686862 AAAAGCCG
1 AAATGCCG
54686870 AAATGCCG
1 AAATGCCG
54686878 AAATGCCG
1 AAATGCCG
54686886 AAAT
1 AAAT
54686890 TCTGACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:54688709 original size:40 final size:40
Alignment explanation
Indices: 54688650--54688791 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
54688640 AAATTGAATG
* * *
54688650 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
54688690 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
54688730 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
54688770 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
54688792 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:54688792 original size:40 final size:39
Alignment explanation
Indices: 54688689--54688817 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
54688679 TGCTGGAAAT
* * *
54688689 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
54688729 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
54688769 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
54688809 TATATCCGG
1 TATATCCGG
54688818 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:54690718 original size:20 final size:20
Alignment explanation
Indices: 54690615--54690710 Score: 183
Period size: 20 Copynumber: 4.8 Consensus size: 20
54690605 TAAACCTGAT
54690615 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
54690635 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
54690655 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
54690675 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
54690695 ATGTATGATATGCACA
1 ATGTATGATATGCACA
54690711 CGAGATGTTC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:54690819 original size:23 final size:24
Alignment explanation
Indices: 54690764--54690868 Score: 178
Period size: 24 Copynumber: 4.4 Consensus size: 24
54690754 GAGGAAGTGC
54690764 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54690788 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54690812 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54690835 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
54690859 AAAAGAGGCT
1 AAAAG-GGCT
54690869 AGGCCTTCAG
Statistics
Matches: 78, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
23 28 0.36
24 41 0.53
25 9 0.12
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:54690834 original size:47 final size:47
Alignment explanation
Indices: 54690765--54690861 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
54690755 AGGAAGTGCA
54690765 AAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
54690812 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
54690859 AAA
1 AAA
54690862 AGAGGCTAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 39 0.80
48 10 0.20
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
Found at i:54691111 original size:31 final size:31
Alignment explanation
Indices: 54691075--54691138 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
54691065 CGTTTACAGT
*
54691075 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
54691106 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
54691137 AA
1 AA
54691139 TATGAACAGG
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:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:54693393 original size:3 final size:3
Alignment explanation
Indices: 54693385--54693419 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
54693375 TATGAGATGT
54693385 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT
54693420 TATTTTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:54693422 original size:17 final size:18
Alignment explanation
Indices: 54693384--54693428 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
54693374 TTATGAGATG
54693384 TTTATTATTATTATATTA
1 TTTATTATTATTATATTA
54693402 -TTATTATTATT-TATTA
1 TTTATTATTATTATATTA
*
54693418 TTTATTTTTAT
1 TTTATTATTAT
54693429 GAGGTGTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTATTATTATATTA
Found at i:54693427 original size:6 final size:7
Alignment explanation
Indices: 54693384--54693428 Score: 60
Period size: 6 Copynumber: 6.7 Consensus size: 7
54693374 TTATGAGATG
54693384 TTTATTA
1 TTTATTA
54693391 -TTATTA
1 TTTATTA
54693397 TATTATTA
1 T-TTATTA
54693405 -TTATTA
1 TTTATTA
54693411 TTTATTA
1 TTTATTA
54693418 TTTATT-
1 TTTATTA
54693424 TTTAT
1 TTTAT
54693429 GAGGTGTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 17 0.49
7 12 0.34
8 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:54695825 original size:17 final size:18
Alignment explanation
Indices: 54695805--54695838 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
54695795 TAGGGTTTAA
*
54695805 ATTGGTTAA-ACTGTATG
1 ATTGATTAATACTGTATG
54695822 ATTGATTAATACTGTAT
1 ATTGATTAATACTGTAT
54695839 TTTACATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (18 bp):
ATTGATTAATACTGTATG
Found at i:54705246 original size:27 final size:27
Alignment explanation
Indices: 54705216--54705348 Score: 135
Period size: 27 Copynumber: 5.0 Consensus size: 27
54705206 AAAATTACTA
*
54705216 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
54705243 AAATACCCCTGTAGGATAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
54705270 AAA-ACCCTTATAGGATAGAAATACC-
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
54705295 AAGATACCCTTGTGGGGTAAAATTACTG
1 AA-ATACCCTTGTAGGGTAGAATTACCG
* * *
54705323 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
54705349 ATTTTGCCCC
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.02
26 20 0.22
27 68 0.75
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:54706044 original size:27 final size:26
Alignment explanation
Indices: 54706000--54706051 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54705990 CTCGCTGCAA
*
54706000 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
54706027 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
54706052 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:54707485 original size:18 final size:16
Alignment explanation
Indices: 54707462--54707500 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
54707452 CACATTATCT
54707462 TATATATTCGAATATACA
1 TATATATT-GAA-ATACA
*
54707480 TATATATTTAAATACA
1 TATATATTGAAATACA
54707496 TATAT
1 TATAT
54707501 TCATCTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (16 bp):
TATATATTGAAATACA
Found at i:54709765 original size:24 final size:24
Alignment explanation
Indices: 54709733--54709793 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
54709723 AAAATCCAAT
*
54709733 GCACTATGTGTGCG-GT-TTATTA
1 GCACTATGTGTGCGAGTATAATTA
54709755 TGGCACTATGTGTGCGAGTATAATTA
1 --GCACTATGTGTGCGAGTATAATTA
54709781 GCACTATGTGTGC
1 GCACTATGTGTGC
54709794 AAATTTGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
24 27 0.79
25 2 0.06
26 5 0.15
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTATAATTA
Found at i:54717293 original size:17 final size:18
Alignment explanation
Indices: 54717271--54717306 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
54717261 CATCACACTT
54717271 AGATTAATTTGCAT-TAG
1 AGATTAATTTGCATCTAG
*
54717288 AGATTATTTTGCATCTAG
1 AGATTAATTTGCATCTAG
54717306 A
1 A
54717307 TAATTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (18 bp):
AGATTAATTTGCATCTAG
Found at i:54719366 original size:19 final size:19
Alignment explanation
Indices: 54719342--54719381 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
54719332 TATAACAAGC
54719342 CTACGAGGCCCTAAACATA
1 CTACGAGGCCCTAAACATA
*
54719361 CTACGAGGGCCTAAACATA
1 CTACGAGGCCCTAAACATA
54719380 CT
1 CT
54719382 TTGGGAGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (19 bp):
CTACGAGGCCCTAAACATA
Found at i:54721228 original size:40 final size:40
Alignment explanation
Indices: 54721163--54721239 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
54721153 ACTATGTTTG
54721163 GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATAAA
* *
54721203 GCACTTAGTGTGTGAATTGGA-ATAGCTTCGGCTATAT
1 GCACTTAGTGTGCG-ATTCGAGATAGCTTCGGCTATAT
54721240 GTGGCACTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 29 0.85
41 5 0.15
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATAAA
Found at i:54721247 original size:40 final size:40
Alignment explanation
Indices: 54721161--54721268 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
54721151 CAACTATGTT
54721161 TGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATA
** * * *
54721201 AAGCACTTAGTGTGTGAATTGGA-ATAGCTTCGGCTATATG
1 TGGCACTTAGTGTGCG-ATTCGAGATAGCTTCGGCTATATA
* * *
54721241 TGGCACTAAGTGTACGATACTGAGATAG
1 TGGCACTTAGTGTGCGATTC-GAGATAG
54721269 TTTTTGTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
39 2 0.04
40 42 0.79
41 9 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATA
Found at i:54728905 original size:15 final size:15
Alignment explanation
Indices: 54728874--54728914 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
54728864 TGGAGAGGTC
*
54728874 AAAAGAAAAAG-AGA
1 AAAAGAAAAAGAACA
*
54728888 AAAATAAAAAGAACA
1 AAAAGAAAAAGAACA
54728903 AAAAGAAAAAGA
1 AAAAGAAAAAGA
54728915 GTGGAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAGAACA
Found at i:54738122 original size:46 final size:47
Alignment explanation
Indices: 54738016--54738122 Score: 105
Period size: 46 Copynumber: 2.3 Consensus size: 47
54738006 AGTGTCAGAC
* * *
54738016 CATGTCTAGGACATGGCATCGGTATTGAGACGAGAGCTAGTGTAAGA
1 CATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAATGAAAGA
* * *
54738063 CATGT-TTGTGACAT-GCATCGGCCTCT-AGATGTA-AGCTAATGAAAGA
1 CATGTCTAG-GACATGGCATCGGCAT-TGAGACG-AGAGCTAATGAAAGA
54738109 CATGTCTAGGACAT
1 CATGTCTAGGACAT
54738123 ACATTGGCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
46 35 0.71
47 14 0.29
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (47 bp):
CATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAATGAAAGA
Found at i:54738313 original size:49 final size:49
Alignment explanation
Indices: 54738142--54738421 Score: 331
Period size: 49 Copynumber: 5.7 Consensus size: 49
54738132 ATGAGATGTA
*
54738142 TCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATAT-AGAGGT-G
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTTCA-A--TAG
* * * *
54738190 TCAATGTAAGACCATGTCTGGGACATGACATTGG-CACGGATATGTGAA-AG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-GAT-T-TCAATAG
**
54738240 -CTAGTGTAAGACCATGTCTGGGACATGGTGTCGGCCACGATTTCAATAG
1 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTTCAATAG
* * *
54738289 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTCGATAG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTTCAATAG
* * *
54738338 TCAGTGTAAGACCATGTCTAGGACATGGCATTGGCCTCGATTTCAATAG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTTCAATAG
54738387 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
54738422 ATTACACCCT
Statistics
Matches: 201, Mismatches: 21, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
48 37 0.18
49 124 0.62
50 34 0.17
51 3 0.01
52 2 0.01
53 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTTCAATAG
Found at i:54738322 original size:147 final size:147
Alignment explanation
Indices: 54738142--54738414 Score: 378
Period size: 147 Copynumber: 1.9 Consensus size: 147
54738132 ATGAGATGTA
54738142 TCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATATAGAGGT-GTCAATGTAAGACCA
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATAGA--TAGTCAATGTAAGACCA
* * *
54738204 TGTCTGGGACATGACATTGGCAC-GGATATGTGAA-AG-CTAGTGTAAGACCATGTCTGGGACAT
64 TGTCTAGGACATGACATTGGC-CTCGAT-T-TCAATAGTC-AGTGTAAGACCATGTCTGGGACAT
54738266 GGTGTCGGCCACGATTTCAATAG
125 GGTGTCGGCCACGATTTCAATAG
* * * *
54738289 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTCGATAGTCAGTGTAAGACCATG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATAGATAGTCAATGTAAGACCATG
*
54738354 TCTAGGACATGGCATTGGCCTCGATTTCAATAGTCAGTGTAAGACCATGTCTGGGACATGG
66 TCTAGGACATGACATTGGCCTCGATTTCAATAGTCAGTGTAAGACCATGTCTGGGACATGG
54738415 CATCGGCATT
Statistics
Matches: 112, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
146 3 0.03
147 65 0.58
148 39 0.35
149 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (147 bp):
TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATAGATAGTCAATGTAAGACCATG
TCTAGGACATGACATTGGCCTCGATTTCAATAGTCAGTGTAAGACCATGTCTGGGACATGGTGTC
GGCCACGATTTCAATAG
Found at i:54747370 original size:93 final size:92
Alignment explanation
Indices: 54747212--54747381 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
54747202 GGATGGTTGA
* *
54747212 GCATCCGAACTCGTTGAGTTGAGTCCAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
54747277 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
54747304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
54747369 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
54747382 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 26 0.35
93 48 0.65
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54747380 original size:46 final size:46
Alignment explanation
Indices: 54747216--54747389 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
54747206 GGTTGAGCAT
* *
54747216 CCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
54747261 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
54747306 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
54747354 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54747390 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 25 0.23
46 40 0.36
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:54749065 original size:40 final size:40
Alignment explanation
Indices: 54749010--54749144 Score: 252
Period size: 40 Copynumber: 3.4 Consensus size: 40
54749000 TATGTGTATA
*
54749010 GCATTCGTGCGGGTTATTATAACCGAGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
54749050 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
54749090 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
54749130 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
54749145 GTTACATCCG
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:54749168 original size:80 final size:80
Alignment explanation
Indices: 54749010--54749168 Score: 228
Period size: 80 Copynumber: 2.0 Consensus size: 80
54749000 TATGTGTATA
*
54749010 GCATTCGTGCGGGTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCG
* ** *
54749075 GGTTAAGTCCCGAAG
66 AGCCAAATCCCGAAG
* * * *
54749090 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTACATCCG
1 GCATTCGTGCGGGTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCG
*
54749155 AGCCAAATTCCGAA
66 AGCCAAATCCCGAA
54749169 AGTATTTATG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCG
AGCCAAATCCCGAAG
Found at i:54757094 original size:40 final size:40
Alignment explanation
Indices: 54757039--54757173 Score: 261
Period size: 40 Copynumber: 3.4 Consensus size: 40
54757029 TATGTGCATA
54757039 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
54757079 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
54757119 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
54757159 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
54757174 GTTACATCCG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:54757197 original size:80 final size:80
Alignment explanation
Indices: 54757039--54757197 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 80
54757029 TATGTGCATA
*
54757039 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCG
* ** *
54757104 GGTTAAGTCCCGAAG
66 AGCCAAATCCCGAAG
* * *
54757119 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTACATCCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCG
*
54757184 AGCCAAATTCCGAA
66 AGCCAAATCCCGAA
54757198 AGTATTTATG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCG
AGCCAAATCCCGAAG
Found at i:54762524 original size:15 final size:15
Alignment explanation
Indices: 54762504--54762554 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
54762494 AAAAAACGAT
54762504 AACGTAAGTGACTAA
1 AACGTAAGTGACTAA
** *
54762519 AACGTAA-TGTTTCA
1 AACGTAAGTGACTAA
*
54762533 AACATAAGTGACTAA
1 AACGTAAGTGACTAA
*
54762548 AATGTAA
1 AACGTAA
54762555 TCTAAGCTAA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (15 bp):
AACGTAAGTGACTAA
Found at i:54764340 original size:21 final size:21
Alignment explanation
Indices: 54764287--54764356 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
54764277 CAGGACCTTC
*
54764287 TAGTCCACCTTCAAGAGGAGT
1 TAGTCCACCTCCAAGAGGAGT
*
54764308 TAG-CCCCACTCCAAGAGGAGT
1 TAGTCCAC-CTCCAAGAGGAGT
*
54764329 TAGTCTACCTCCAAG-GGAAGT
1 TAGTCCACCTCCAAGAGG-AGT
*
54764350 CAGTCCA
1 TAGTCCA
54764357 ACTCAGATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 5 0.12
21 33 0.82
22 2 0.05
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (21 bp):
TAGTCCACCTCCAAGAGGAGT
Found at i:54764442 original size:21 final size:21
Alignment explanation
Indices: 54764412--54764465 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
54764402 ACTTCAGTTC
*
54764412 TCAGTTCAACTTCAAGAGG-AG
1 TCAGTCCAACTTCAAG-GGTAG
*
54764433 TCAGTCCAACTCCAAGGGTAG
1 TCAGTCCAACTTCAAGGGTAG
*
54764454 TGAGTCCAACTT
1 TCAGTCCAACTT
54764466 GGATGAGAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
TCAGTCCAACTTCAAGGGTAG
Found at i:54764507 original size:105 final size:105
Alignment explanation
Indices: 54764319--54764549 Score: 309
Period size: 105 Copynumber: 2.2 Consensus size: 105
54764309 AGCCCCACTC
* * * * * *
54764319 CAAGAGGAGTTAGTCTACCTCCAAGGGAAGTCAGTCCAACTCAGATTAGGACATCCATCCCATCA
1 CAAGAGGAGTCAGTCCAACTCCAAGGGAAGTCAGTCCAACTCAGATGAGAACATCCAGCCCATCA
* *
54764384 AGTCAATCCCAAAACTCAACTTCAGTTCTCAGTTCAACTT
66 AGTCAATCCCAAAACTCAACTTCAGTTATAAGTTCAACTT
* * ** * **
54764424 CAAGAGGAGTCAGTCCAACTCCAAGGGTAGTGAGTCCAACTTGGATGAGAACATCGAGCTTATCA
1 CAAGAGGAGTCAGTCCAACTCCAAGGGAAGTCAGTCCAACTCAGATGAGAACATCCAGCCCATCA
* *
54764489 AGTCAATCCCATAGCTCAACTTCAGTTATAAGTTCAACTT
66 AGTCAATCCCAAAACTCAACTTCAGTTATAAGTTCAACTT
54764529 CAAGAGGAGTCAGTCCAACTC
1 CAAGAGGAGTCAGTCCAACTC
54764550 GGATGAGGGC
Statistics
Matches: 109, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 109 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAAGAGGAGTCAGTCCAACTCCAAGGGAAGTCAGTCCAACTCAGATGAGAACATCCAGCCCATCA
AGTCAATCCCAAAACTCAACTTCAGTTATAAGTTCAACTT
Found at i:54764607 original size:84 final size:84
Alignment explanation
Indices: 54764439--54764627 Score: 231
Period size: 84 Copynumber: 2.2 Consensus size: 84
54764429 GGAGTCAGTC
* * * * *
54764439 CAACTCCAAG-GGTAGTGAGTCCAACTTGGATGAGAACATCGAGCTTATCAAGTCAATCCCATAG
1 CAACTTCAAGAGG-AGTCAGTCCAACTCGGATGAGAACATCAACCTTATCAAGTCAATCCCATAG
*
54764503 CTCAACTTCAGTTATAAGTT
65 CTCAACTCCAGTTATAAGTT
**
54764523 CAACTTCAAGAGGAGTCAGTCCAACTCGGATGAGGGCATCAACCTTATCAAGTCAATCCCATAGC
1 CAACTTCAAGAGGAGTCAGTCCAACTCGGATGAGAACATCAACCTTATCAAGTCAATCCCATAGC
* *
54764588 TCAGCTCCAG-TAGTTAGTT
66 TCAACTCCAGTTA-TAAGTT
*
54764607 CAACTTTAAGA-GAGGTCAGTC
1 CAACTTCAAGAGGA-GTCAGTC
54764628 TTACTCCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
83 4 0.04
84 85 0.93
85 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
CAACTTCAAGAGGAGTCAGTCCAACTCGGATGAGAACATCAACCTTATCAAGTCAATCCCATAGC
TCAACTCCAGTTATAAGTT
Found at i:54764689 original size:189 final size:186
Alignment explanation
Indices: 54764337--54764735 Score: 455
Period size: 189 Copynumber: 2.1 Consensus size: 186
54764327 GTTAGTCTAC
* *
54764337 CTCCAAG-GGAAGTCAGTCCAACTCAGATTAGGACATCCATCCCATCAAGTCAATCCCAAAACTC
1 CTCCAAGAGG-AGTCAGTCCAACTCAGATGAGGACATCCAACCCATCAAGTCAATCCCAAAACTC
* * * * *
54764401 AACTTCAGTTCTCAGTTCAACTTCAAGAGGAGTCAGTCCAACTCCAAGGGTAGTGAGTCCAACTT
65 AACTCCAGTACTCAGTTCAACTTCAAGAGGAGTCAGTCCAACTCCAAGGGTAATCAGTCCAACTC
* * * *
54764466 GGATGAGAACATCGAGCTTATCAAGTCAATCCCATAGCTCAACTTCAGTTATAAGTTCAA
130 GAATGAGAACATCAACCTCATCAAGTCAATCCCATAGCTCAACTTCA---ATAAGTTCAA
* * * * * *
54764526 CTTCAAGAGGAGTCAGTCCAACTCGGATGAGGGCAT-CAACCTTATCAAGTCAATCCCATAGCTC
1 CTCCAAGAGGAGTCAGTCCAACTCAGATGAGGACATCCAACC-CATCAAGTCAATCCCAAAACTC
* * * * **
54764590 AGCTCCAGTAGTTAGTTCAACTTTAAGA-GAGGTCAGTCTTACTCCAAGGGTAATCAGTCCAACT
65 AACTCCAGTACTCAGTTCAACTTCAAGAGGA-GTCAGTCCAACTCCAAGGGTAATCAGTCCAACT
** * *
54764654 CGAATGAGGAA-ATCAACCTCATTGAGTCTATCCCATAGCTCAACTTCAATTAGTTCAA
129 CGAATGA-GAACATCAACCTCATCAAGTCAATCCCATAGCTCAACTTCAATAAGTTCAA
*
54764712 CTCCAAGAGGAGTCAATCCAACTC
1 CTCCAAGAGGAGTCAGTCCAACTC
54764736 CAAGCGTAGT
Statistics
Matches: 177, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
186 31 0.18
188 6 0.03
189 135 0.76
190 5 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (186 bp):
CTCCAAGAGGAGTCAGTCCAACTCAGATGAGGACATCCAACCCATCAAGTCAATCCCAAAACTCA
ACTCCAGTACTCAGTTCAACTTCAAGAGGAGTCAGTCCAACTCCAAGGGTAATCAGTCCAACTCG
AATGAGAACATCAACCTCATCAAGTCAATCCCATAGCTCAACTTCAATAAGTTCAA
Found at i:54764857 original size:21 final size:21
Alignment explanation
Indices: 54764808--54764860 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
54764798 ACTTCAGTTA
*
54764808 TCAGTTCAACTCCAAGAGGAG
1 TCAGTCCAACTCCAAGAGGAG
*
54764829 TCATTCCAACTCCAAG-GGTAG
1 TCAGTCCAACTCCAAGAGG-AG
*
54764850 TGAGTCCAACT
1 TCAGTCCAACT
54764861 GGGATGAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (21 bp):
TCAGTCCAACTCCAAGAGGAG
Found at i:54764896 original size:207 final size:205
Alignment explanation
Indices: 54764536--54765050 Score: 538
Period size: 207 Copynumber: 2.5 Consensus size: 205
54764526 CTTCAAGAGG
* * * * *
54764536 AGTCAGTCCAACTCGGATGAGGGCATCAACCTTATCAAGTCAATCCCATAGCTCAGCTCCAG-TA
1 AGTCAGTCCAACTC-GATAAGGACATC-ACC-TATCAAGTCAATCCCATAGTTCAACTTCAGTTA
** **
54764600 GTTAGTTCAACTTTAAGA-GAGGTCAGTCTTACTCCAAGGGTAATCAGTCCAACTCGAATGAGGA
63 -TTAGTTCAACTCCAAGAGGA-GTCAGTCCAACTCCAAGGGTAATCAGTCCAACTCGAATGAGGA
** *
54764664 AATCAACCTCATTGAGTCTATCCCATAGCTCAACTTCAATT-AGTTCAACTCC-AAGAGGAGTCA
126 AATCAACCTCATCAAGTCAATCCCATAGCTCAACTTCAATTCAGTTCAAC-CCTAAGAGGAGTCA
54764727 ATCCAACTCCAAGCGT
190 ATCCAACTCCAAGCGT
*
54764743 AGTGAGTCCAACTCAGATAAGGACATACACCTCATCAAGTCAATCCCATAGTTCAACTTCAGTTA
1 AGTCAGTCCAACTC-GATAAGGACAT-CACCT-ATCAAGTCAATCCCATAGTTCAACTTCAGTTA
* * * * * * *
54764808 TCAGTTCAACTCCAAGAGGAGTCATTCCAACTCCAAGGGTAGTGAGTCCAACTGGGATGAGGACA
63 TTAGTTCAACTCCAAGAGGAGTCAGTCCAACTCCAAGGGTAATCAGTCCAACTCGAATGAGGAAA
* * * *
54764873 TCCACCTCATCAAGTCAATCCCATAGCTCAACTTCAGTTCACATTTCAACCCTAAGAGGAGTCAG
128 TCAACCTCATCAAGTCAATCCCATAGCTCAACTTCAATT--CAGTTCAACCCTAAGAGGAGTCAA
* * *
54764938 TCCAATTTCAAGGGT
191 TCCAACTCCAAGCGT
* * * * * *
54764953 AGTCAGTCCAATTCGAATAAGAACATCCAGCATATCGAGCCAATCCCATAGCTT-GACTTCAGTT
1 AGTCAGTCCAACTCG-ATAAGGACAT-CA-CCTATCAAGTCAATCCCATAG-TTCAACTTCAGTT
*
54765017 ATTGGTTCAACTCCAA-AGGTAGTCAGTCCAACTC
62 ATTAGTTCAACTCCAAGAGG-AGTCAGTCCAACTC
54765051 GGATGGGAAC
Statistics
Matches: 257, Mismatches: 39, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
206 1 0.00
207 136 0.53
208 5 0.02
209 6 0.02
210 105 0.41
211 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (205 bp):
AGTCAGTCCAACTCGATAAGGACATCACCTATCAAGTCAATCCCATAGTTCAACTTCAGTTATTA
GTTCAACTCCAAGAGGAGTCAGTCCAACTCCAAGGGTAATCAGTCCAACTCGAATGAGGAAATCA
ACCTCATCAAGTCAATCCCATAGCTCAACTTCAATTCAGTTCAACCCTAAGAGGAGTCAATCCAA
CTCCAAGCGT
Found at i:54765096 original size:84 final size:85
Alignment explanation
Indices: 54764946--54765134 Score: 242
Period size: 84 Copynumber: 2.3 Consensus size: 85
54764936 AGTCCAATTT
* **
54764946 CAAG-GGTAGTCAGTCCAATTCGAATAAGAACATCCAGCATATCGAGCCAATCCCATAGCTTGAC
1 CAAGAGGTAGTCAGTCCAACTCGAATAAGAACATCCAGCATATCGAGCCAATCCCATAGCTCAAC
**
54765010 TTCAGTTATTGGTTCAACTC
66 TTCAGTTATCAGTTCAACTC
* ** * *
54765030 CAA-AGGTAGTCAGTCCAACTCGGATGGGAACATCCA-CCTCATCGAGTCAATCCCATAGCTCAA
1 CAAGAGGTAGTCAGTCCAACTCGAATAAGAACATCCAGCAT-ATCGAGCCAATCCCATAGCTCAA
54765093 CTTCAGTTATCAGTTCAACTC
65 CTTCAGTTATCAGTTCAACTC
*
54765114 CAAGAGG-AGTAAGTCCAACTC
1 CAAGAGGTAGTCAGTCCAACTC
54765135 CAAATGTTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
83 2 0.02
84 86 0.95
85 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (85 bp):
CAAGAGGTAGTCAGTCCAACTCGAATAAGAACATCCAGCATATCGAGCCAATCCCATAGCTCAAC
TTCAGTTATCAGTTCAACTC
Found at i:54765146 original size:42 final size:42
Alignment explanation
Indices: 54765098--54765179 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
54765088 CTCAACTTCA
54765098 GTTATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCAAAT
1 GTTATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCAAAT
* * *
54765140 GTTATCATTTCAATTCCAAGAGGAGTCAGTCCAACTCCAA
1 GTTATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCAA
54765180 TCAGGACATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (42 bp):
GTTATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCAAAT
Found at i:54765178 original size:21 final size:21
Alignment explanation
Indices: 54765102--54765179 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
54765092 ACTTCAGTTA
*
54765102 TCAGTTCAACTCCAAGAGGAG
1 TCAGTCCAACTCCAAGAGGAG
* *
54765123 TAAGTCCAACTCCAA-ATGTTA-
1 TCAGTCCAACTCCAAGA-G-GAG
* * *
54765144 TCATTTCAATTCCAAGAGGAG
1 TCAGTCCAACTCCAAGAGGAG
54765165 TCAGTCCAACTCCAA
1 TCAGTCCAACTCCAA
54765180 TCAGGACATC
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
20 2 0.05
21 38 0.90
22 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (21 bp):
TCAGTCCAACTCCAAGAGGAG
Found at i:54765239 original size:126 final size:126
Alignment explanation
Indices: 54765022--54765263 Score: 391
Period size: 126 Copynumber: 1.9 Consensus size: 126
54765012 CAGTTATTGG
** *
54765022 TTCAACTCCAAAGGTAGTCAGTCCAACTCGGATGGGAACATCCACCTCATCGAGTCAATCCCATA
1 TTCAACTCCAAAGGTAGTCAGTCCAACTCCAATAGGAACATCCACCTCATCGAGTCAATCCCATA
54765087 GCTCAACTTCAGTTATCAGTTCAACTCCAAGAGGAG-TAAGTCCAACTCCAAATGTTATCAT
66 GCTCAACTTCAGTTATCAGTTCAACTCCAAGAGG-GTTAAGTCCAACTCCAAATGTTATCAT
*
54765148 TTCAATTCCAAGAGG-AGTCAGTCCAACTCCAATCAGG-ACATCCACCTCATCGAGTCAATCCCA
1 TTCAACTCCAA-AGGTAGTCAGTCCAACTCCAAT-AGGAACATCCACCTCATCGAGTCAATCCCA
*
54765211 TAGCTCAACTTCAGTTATCAGTTCAACTCCAAGAGGGTTCAGTCCAACTCCAA
64 TAGCTCAACTTCAGTTATCAGTTCAACTCCAAGAGGGTTAAGTCCAACTCCAA
54765264 GGGTAGTTAG
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
125 1 0.01
126 102 0.94
127 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.24
Consensus pattern (126 bp):
TTCAACTCCAAAGGTAGTCAGTCCAACTCCAATAGGAACATCCACCTCATCGAGTCAATCCCATA
GCTCAACTTCAGTTATCAGTTCAACTCCAAGAGGGTTAAGTCCAACTCCAAATGTTATCAT
Found at i:54765258 original size:21 final size:21
Alignment explanation
Indices: 54765228--54765281 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
54765218 ACTTCAGTTA
*
54765228 TCAGTTCAACTCCAAGAGG-GT
1 TCAGTCCAACTCCAAG-GGAGT
54765249 TCAGTCCAACTCCAAGGGTAGT
1 TCAGTCCAACTCCAAGGG-AGT
54765271 T-AGTCCAACTC
1 TCAGTCCAACTC
54765282 GGATGAGGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (21 bp):
TCAGTCCAACTCCAAGGGAGT
Found at i:54765363 original size:21 final size:21
Alignment explanation
Indices: 54765334--54765386 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
54765324 CTTCAGTTAT
*
54765334 CAGTTCAACTCCAAGAGG-AGC
1 CAGTCCAACTCCAAG-GGTAGC
*
54765355 CAGTCCAACTCCAAGGGTAGT
1 CAGTCCAACTCCAAGGGTAGC
*
54765376 TAGTCCAACTC
1 CAGTCCAACTC
54765387 AGATGAGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (21 bp):
CAGTCCAACTCCAAGGGTAGC
Found at i:54765470 original size:105 final size:104
Alignment explanation
Indices: 54764523--54765452 Score: 801
Period size: 105 Copynumber: 8.9 Consensus size: 104
54764513 GTTATAAGTT
* * * * *
54764523 CAACTTCAAGAGG-AGTCAGTCCAACTCGGATGAGGGCATCAACCTTATCAAGTCAATCCCATAG
1 CAACTCCAAG-GGTAGTCAGTCCAACTC-GATGAGGACATCCACCTCATCGAGTCAATCCCATAG
* * * **
54764587 CTCAGCTCCAG-TAGTTAGTTCAACTTTAAGA-GAGGTCAGTC
64 CTCAACTTCAGTTA-TCAGTTCAACTCCAAGAGGA-GTCAGTC
** * * * * *
54764628 TTACTCCAAGGGTAATCAGTCCAACTCGAATGAGGAAATCAACCTCATTGAGTCTATCCCATAGC
1 CAACTCCAAGGGTAGTCAGTCCAACTCG-ATGAGGACATCCACCTCATCGAGTCAATCCCATAGC
* *
54764693 TCAACTTCA---ATTAGTTCAACTCCAAGAGGAGTCAATC
65 TCAACTTCAGTTATCAGTTCAACTCCAAGAGGAGTCAGTC
* * * * * *
54764730 CAACTCCAAGCGTAGTGAGTCCAACTCAGATAAGGACATACACCTCATCAAGTCAATCCCATAGT
1 CAACTCCAAGGGTAGTCAGTCCAACTC-GATGAGGACATCCACCTCATCGAGTCAATCCCATAGC
*
54764795 TCAACTTCAGTTATCAGTTCAACTCCAAGAGGAGTCATTC
65 TCAACTTCAGTTATCAGTTCAACTCCAAGAGGAGTCAGTC
* * *
54764835 CAACTCCAAGGGTAGTGAGTCCAACTGGGATGAGGACATCCACCTCATCAAGTCAATCCCATAGC
1 CAACTCCAAGGGTAGTCAGTCCAACT-CGATGAGGACATCCACCTCATCGAGTCAATCCCATAGC
*
54764900 TCAACTTCAGTTCA-CATTTCAAC-CCTAAGAGGAGTCAGTC
65 TCAACTTCAGTT-ATCAGTTCAACTCC-AAGAGGAGTCAGTC
* * * * * * *
54764940 CAATTTCAAGGGTAGTCAGTCCAATTCGAATAAGAACATCCAGCAT-ATCGAGCCAATCCCATAG
1 CAACTCCAAGGGTAGTCAGTCCAACTCG-ATGAGGACATCCA-CCTCATCGAGTCAATCCCATAG
** **
54765004 CTTGACTTCAGTTATTGGTTCAACTCCAA-AGGTAGTCAGTC
64 CTCAACTTCAGTTATCAGTTCAACTCCAAGAGG-AGTCAGTC
* * * * * * * * * *
54765045 CAACTCGGATGGG-A-ACA-TCCACCTC-ATCGA-GTCAATCC-CAT-AGCTCAACTTCAGT--T
1 CAACTC-CAAGGGTAGTCAGTCCAACTCGAT-GAGGAC-ATCCACCTCA--TCGA-GTCAATCCC
* * ** * * * * *
54765101 ATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCAA-ATGTTA-TCATTT
60 AT-AGCTCAACTTC-AG-TTA-TCAGTTCAACTCCAAGA-G-GAGTCAGTC
* * *
54765150 CAATTCCAAGAGG-AGTCAGTCCAACTCCAATCAGGACATCCACCTCATCGAGTCAATCCCATAG
1 CAACTCCAAG-GGTAGTCAGTCCAACT-CGATGAGGACATCCACCTCATCGAGTCAATCCCATAG
54765214 CTCAACTTCAGTTATCAGTTCAACTCCAAGAGG-GTTCAGTC
64 CTCAACTTCAGTTATCAGTTCAACTCCAAGAGGAG-TCAGTC
*
54765255 CAACTCCAAGGGTAGTTAGTCCAACTCGGATGAGGACATCCACCTCATCGAGTCAATCCCATAGC
1 CAACTCCAAGGGTAGTCAGTCCAACTC-GATGAGGACATCCACCTCATCGAGTCAATCCCATAGC
* *
54765320 TCCACTTCAGTTATCAGTTCAACTCCAAGAGGAGCCAGTC
65 TCAACTTCAGTTATCAGTTCAACTCCAAGAGGAGTCAGTC
* *
54765360 CAACTCCAAGGGTAGTTAGTCCAACTCAGATGAGGACATCCATCTCATCGAGTCAATCCCATAGC
1 CAACTCCAAGGGTAGTCAGTCCAACTC-GATGAGGACATCCACCTCATCGAGTCAATCCCATAGC
*
54765425 TCAACTTCAGTTA-CAAGTCCAACTCCAA
65 TCAACTTCAGTTATC-AGTTCAACTCCAA
54765453 TGGTAGCTAG
Statistics
Matches: 671, Mismatches: 110, Indels: 88
0.77 0.13 0.10
Matches are distributed among these distances:
100 4 0.01
101 5 0.01
102 95 0.14
103 15 0.02
104 19 0.03
105 478 0.71
106 16 0.02
107 12 0.02
108 18 0.03
109 8 0.01
110 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (104 bp):
CAACTCCAAGGGTAGTCAGTCCAACTCGATGAGGACATCCACCTCATCGAGTCAATCCCATAGCT
CAACTTCAGTTATCAGTTCAACTCCAAGAGGAGTCAGTC
Found at i:54765497 original size:84 final size:83
Alignment explanation
Indices: 54765355--54765620 Score: 406
Period size: 84 Copynumber: 3.2 Consensus size: 83
54765345 CAAGAGGAGC
* * * *
54765355 CAGTCCAACTCCAAGGGTAGTTAGTCCAACTCAGATGAGGACATCCATCTCATCGAGTCAATCCC
1 CAGTCCAACTCCAATGGTAGCTAGTCCAACTCAGATGAGGACGTCCACCTCATCGAGTCAATCCC
54765420 ATAGCTCAACTTCAGTTA
66 ATAGCTCAACTTCAGTTA
*
54765438 CAAGTCCAACTCCAATGGTAGCTAGTCCAACTCAGATGAGGACGTCCACCTCATCGAGTCAATCT
1 C-AGTCCAACTCCAATGGTAGCTAGTCCAACTCAGATGAGGACGTCCACCTCATCGAGTCAATCC
*
54765503 CATAGCTCAACTTCTGTTA
65 CATAGCTCAACTTCAGTTA
* *
54765522 CCAGTCCAACTCCAATGGTAGCTAGTCCAACTCAGATAAGGACGTCCACCTCATCGAATCAATCC
1 -CAGTCCAACTCCAATGGTAGCTAGTCCAACTCAGATGAGGACGTCCACCTCATCGAGTCAATCC
* *
54765587 CATAGCTCGACCTCAGTTA
65 CATAGCTCAACTTCAGTTA
*
54765606 TCAGTTCAACTCCAA
1 -CAGTCCAACTCCAA
54765621 GAGGAGTCAG
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
83 1 0.01
84 165 0.99
85 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.24
Consensus pattern (83 bp):
CAGTCCAACTCCAATGGTAGCTAGTCCAACTCAGATGAGGACGTCCACCTCATCGAGTCAATCCC
ATAGCTCAACTTCAGTTA
Found at i:54765554 original size:420 final size:420
Alignment explanation
Indices: 54764747--54765536 Score: 1164
Period size: 420 Copynumber: 1.9 Consensus size: 420
54764737 AAGCGTAGTG
*
54764747 AGTCCAACTCAGATAAGGACATACACCTCATCAAGTCAATCCCATAGTTCAACTTCAGTTATCAG
1 AGTCCAACTCAGATAAGGACATACACCTCATCAAGTCAATCCCATAGCTCAACTTCAGTTATCAG
* *
54764812 TTCAACTCCAAGAGGAGTCATTCCAACTCCAAGGGTAGTGAGTCCAACTGGGATGAGGACATCCA
66 TTCAACTCCAAGAGGAGTCAGTCCAACTCCAAGGGTAGTGAGTCCAACTCGGATGAGGACATCCA
* *
54764877 CCTCATCAAGTCAATCCCATAGCTCAACTTCAGTTCACATTTCAACCCTAAGAGGAGTCAGTCCA
131 CCTCATCAAGTCAATCCCATAGCTCAACTTCAGTTCACAGTTCAACCCTAAGAGGAGCCAGTCCA
* * * *
54764942 ATTTCAAGGGTAGTCAGTCCAATTCGAATAAGAACATCCAGCATATCGAGCCAATCCCATAGCTT
196 ACTCCAAGGGTAGTCAGTCCAACTCGAATAAGAACATCCAGCATATCGAGCCAATCCCATAGCTC
* *** * *
54765007 GACTTCAGTTATTGGTTCAACTCCAAAGGTAGTCAGTCCAACTCGGATGGGAACATCCACCTCAT
261 AACTTCAGTTACAAGTCCAACTCCAAAGGTAGTCAGTCCAACTCAGATGGGAACATCCACCTCAT
* *
54765072 CGAGTCAATCCCATAGCTCAACTTCAGTTATCAGTTCAACTCCAAGAGGAGTAAGTCCAACTCCA
326 CGAGTCAATCCCATAGCTCAACTTCAGTTACCAGTCCAACTCCAAGAGGAGTAAGTCCAACTCCA
54765137 AATGTTATCATTTCAATTCCAAGAGGAGTC
391 AATGTTATCATTTCAATTCCAAGAGGAGTC
* * *
54765167 AGTCCAACTCCA-ATCAGGACATCCACCTCATCGAGTCAATCCCATAGCTCAACTTCAGTTATCA
1 AGTCCAACT-CAGATAAGGACATACACCTCATCAAGTCAATCCCATAGCTCAACTTCAGTTATCA
*
54765231 GTTCAACTCCAAGAGG-GTTCAGTCCAACTCCAAGGGTAGTTAGTCCAACTCGGATGAGGACATC
65 GTTCAACTCCAAGAGGAG-TCAGTCCAACTCCAAGGGTAGTGAGTCCAACTCGGATGAGGACATC
* *
54765295 CACCTCATCGAGTCAATCCCATAGCTCCACTTCAGTT-ATCAGTTCAACTCC-AAGAGGAGCCAG
129 CACCTCATCAAGTCAATCCCATAGCTCAACTTCAGTTCA-CAGTTCAAC-CCTAAGAGGAGCCAG
* * * * *
54765358 TCCAACTCCAAGGGTAGTTAGTCCAACTC-AGATGAGGACATCCATC-TCATCGAGTCAATCCCA
192 TCCAACTCCAAGGGTAGTCAGTCCAACTCGA-ATAAGAACATCCAGCAT-ATCGAGCCAATCCCA
* *
54765421 TAGCTCAACTTCAGTTACAAGTCCAACTCCAATGGTAG-CTAGTCCAACTCAGATGAGG-ACGTC
255 TAGCTCAACTTCAGTTACAAGTCCAACTCCAAAGGTAGTC-AGTCCAACTCAGATG-GGAACATC
* *
54765484 CACCTCATCGAGTCAATCTCATAGCTCAACTTCTGTTACCAGTCCAACTCCAA
318 CACCTCATCGAGTCAATCCCATAGCTCAACTTCAGTTACCAGTCCAACTCCAA
54765537 TGGTAGCTAG
Statistics
Matches: 330, Mismatches: 32, Indels: 16
0.87 0.08 0.04
Matches are distributed among these distances:
419 5 0.02
420 319 0.97
421 6 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (420 bp):
AGTCCAACTCAGATAAGGACATACACCTCATCAAGTCAATCCCATAGCTCAACTTCAGTTATCAG
TTCAACTCCAAGAGGAGTCAGTCCAACTCCAAGGGTAGTGAGTCCAACTCGGATGAGGACATCCA
CCTCATCAAGTCAATCCCATAGCTCAACTTCAGTTCACAGTTCAACCCTAAGAGGAGCCAGTCCA
ACTCCAAGGGTAGTCAGTCCAACTCGAATAAGAACATCCAGCATATCGAGCCAATCCCATAGCTC
AACTTCAGTTACAAGTCCAACTCCAAAGGTAGTCAGTCCAACTCAGATGGGAACATCCACCTCAT
CGAGTCAATCCCATAGCTCAACTTCAGTTACCAGTCCAACTCCAAGAGGAGTAAGTCCAACTCCA
AATGTTATCATTTCAATTCCAAGAGGAGTC
Found at i:54765636 original size:21 final size:21
Alignment explanation
Indices: 54765606--54765659 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
54765596 ACCTCAGTTA
*
54765606 TCAGTTCAACTCCAAGAGG-AG
1 TCAGTCCAACTCCAAG-GGTAG
54765627 TCAGTCCAACTCCAAGGGTAG
1 TCAGTCCAACTCCAAGGGTAG
*
54765648 TTAGTCCAACTC
1 TCAGTCCAACTC
54765660 GGATGAGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (21 bp):
TCAGTCCAACTCCAAGGGTAG
Found at i:54765637 original size:105 final size:105
Alignment explanation
Indices: 54765523--54765716 Score: 300
Period size: 105 Copynumber: 1.8 Consensus size: 105
54765513 CTTCTGTTAC
* *
54765523 CAGTCCAACTCCAATGGTAGCTAGTCCAACTCAGATAAGGACGTCCACCTCATCGAATCAATCCC
1 CAGTCCAACTCCAAGGGTAGCTAGTCCAACTCAGATAAGGACATCCACCTCATCGAATCAATCCC
* *
54765588 ATAGCTCGAC-CTCAGTTATCAGTTCAACTCCAAGAGGAGT
66 ATAGCTCAACTC-CAGATATCAGTTCAACTCCAAGAGGAGT
* * * *
54765628 CAGTCCAACTCCAAGGGTAGTTAGTCCAACTCGGATGAGGACATCCACCTCATCGAGTCAATCCC
1 CAGTCCAACTCCAAGGGTAGCTAGTCCAACTCAGATAAGGACATCCACCTCATCGAATCAATCCC
54765693 ATAGCTCAACTCCAGATATCAGTT
66 ATAGCTCAACTCCAGATATCAGTT
54765717 TTATCACTGA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 79 0.99
106 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGTCCAACTCCAAGGGTAGCTAGTCCAACTCAGATAAGGACATCCACCTCATCGAATCAATCCC
ATAGCTCAACTCCAGATATCAGTTCAACTCCAAGAGGAGT
Found at i:54774520 original size:59 final size:64
Alignment explanation
Indices: 54774380--54774524 Score: 203
Period size: 59 Copynumber: 2.3 Consensus size: 64
54774370 CTAGCCAGTT
54774380 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACA
1 TATC-CGTAGCTCTCTTGTCTACATGGTGTCCTTCA-CTGGAACCAC-CATGCGACCTAGCTACA
54774445 TA
63 TA
54774447 TATCCCGTAGCTCTCTTGTCTACAT-G-GTCCTTCA-T-G-ACCA-CATGCGACCTAGCTACATC
1 TAT-CCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTGGAACCACCATGCGACCTAGCTACAT-
54774506 A
64 A
54774507 TATCCGTAGCTCTCTTGT
1 TATCCGTAGCTCTCTTGT
54774525 ACACATGATG
Statistics
Matches: 76, Mismatches: 0, Indels: 12
0.86 0.00 0.14
Matches are distributed among these distances:
59 33 0.43
60 4 0.05
61 4 0.05
62 1 0.01
63 1 0.01
65 8 0.11
66 1 0.01
67 23 0.30
68 1 0.01
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.32
Consensus pattern (64 bp):
TATCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTGGAACCACCATGCGACCTAGCTACATA
Found at i:54777486 original size:49 final size:45
Alignment explanation
Indices: 54777447--54777569 Score: 158
Period size: 41 Copynumber: 3.0 Consensus size: 45
54777437 TATTCGAATG
*
54777447 ATATCCGGGTTAAGTCC-CGAAGGCATTTGTGCTAGTG---A-TT
1 ATATCCGGGCTAAGTCCGCGAAGGCATTTGTGCTAGTGATTATTT
54777487 ATATCCGGGCTAAGTCCGCGAAGGCATTTGTGCTAGTG---A-TT
1 ATATCCGGGCTAAGTCCGCGAAGGCATTTGTGCTAGTGATTATTT
*
54777528 ATATCCGGGCTAAGTCC-CGAAGGCATTTTTGCTAGTGATTAT
1 ATATCCGGGCTAAGTCCGCGAAGGCATTTGTGCTAGTGATTAT
54777570 ATCCGGGCTA
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
40 35 0.46
41 40 0.53
43 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (45 bp):
ATATCCGGGCTAAGTCCGCGAAGGCATTTGTGCTAGTGATTATTT
Found at i:54777520 original size:41 final size:40
Alignment explanation
Indices: 54777447--54777579 Score: 239
Period size: 40 Copynumber: 3.3 Consensus size: 40
54777437 TATTCGAATG
*
54777447 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
54777487 ATATCCGGGCTAAGTCCGCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCC-CGAAGGCATTTGTGCTAGTGATT
*
54777528 ATATCCGGGCTAAGTCCCGAAGGCATTTTTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
54777568 ATATCCGGGCTA
1 ATATCCGGGCTA
54777580 NNNNNNNNNN
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 50 0.56
41 40 0.44
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:54782029 original size:43 final size:43
Alignment explanation
Indices: 54781974--54782084 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
54781964 AAGTTTGGTT
54781974 TAATATAA-TGGCACTAAGTGTGCGATACAATTATAGCTTCGAC
1 TAATA-AATTGGCACTAAGTGTGCGATACAATTATAGCTTCGAC
* * * **
54782017 TAATAAATTGGCACTTAGTCTGCAATACAATTATAGCTTCGGT
1 TAATAAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGAC
* * *
54782060 TAATTAATTAGCACTAACTGTGCGA
1 TAATAAATTGGCACTAAGTGTGCGA
54782085 GTTCGTTGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 2 0.04
43 54 0.96
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (43 bp):
TAATAAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGAC
Found at i:54782999 original size:13 final size:13
Alignment explanation
Indices: 54782965--54782999 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
54782955 AAATATTTAA
*
54782965 CTTGTTCTTAATT
1 CTTGTTTTTAATT
54782978 CTGTGTTTTTAATT
1 CT-TGTTTTTAATT
54782992 CTTGTTTT
1 CTTGTTTT
54783000 GATATCCCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.66
Consensus pattern (13 bp):
CTTGTTTTTAATT
Found at i:54785045 original size:47 final size:47
Alignment explanation
Indices: 54784976--54785070 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
54784966 ACCAACAACC
*
54784976 ACCCTACCAATAGGAAAAGAAGCTGAATCTTG-AGAAGATGCTCTCAA
1 ACCCTACCAACAGGAAAAGAAGCTGAATCTTGAAG-AGATGCTCTCAA
54785023 ACCCTACCAACAGGAAAAGAAGCTGAATCTTGAAGAGATGCTCTCAA
1 ACCCTACCAACAGGAAAAGAAGCTGAATCTTGAAGAGATGCTCTCAA
54785070 A
1 A
54785071 GTTCATATCA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 44 0.96
48 2 0.04
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (47 bp):
ACCCTACCAACAGGAAAAGAAGCTGAATCTTGAAGAGATGCTCTCAA
Found at i:54791791 original size:13 final size:13
Alignment explanation
Indices: 54791775--54791799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54791765 AGGCCGTGTG
54791775 AGGGACACGGGCT
1 AGGGACACGGGCT
54791788 AGGGACACGGGC
1 AGGGACACGGGC
54791800 GTGTGATTGG
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:0.24, C:0.24, G:0.48, T:0.04
Consensus pattern (13 bp):
AGGGACACGGGCT
Found at i:54792701 original size:15 final size:15
Alignment explanation
Indices: 54792681--54792712 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
54792671 CAAATTATCA
54792681 TGCACACCTGAGGAG
1 TGCACACCTGAGGAG
54792696 TGCACACCTGAGGAG
1 TGCACACCTGAGGAG
54792711 TG
1 TG
54792713 TTTAAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.34, T:0.16
Consensus pattern (15 bp):
TGCACACCTGAGGAG
Found at i:54799368 original size:27 final size:28
Alignment explanation
Indices: 54799312--54799380 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
54799302 AAATTTGTAC
54799312 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
54799340 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
54799367 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
54799381 AGACTCACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:54799392 original size:27 final size:27
Alignment explanation
Indices: 54799312--54799393 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
54799302 AAATTTGTAC
* *
54799312 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
54799340 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
54799367 AGCACTAAGTGTGC-AGACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
54799394 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 2 0.04
27 29 0.59
28 18 0.37
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:54801402 original size:9 final size:9
Alignment explanation
Indices: 54801385--54801416 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
54801375 CATTTCTACC
54801385 ACACATTTT
1 ACACATTTT
*
54801394 ACACCTTTT
1 ACACATTTT
54801403 ACACATTTT
1 ACACATTTT
54801412 ACACA
1 ACACA
54801417 CATCCAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (9 bp):
ACACATTTT
Done.