Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 323 of 427
Found at i:94197914 original size:85 final size:85
Alignment explanation
Indices: 94197748--94197914 Score: 189
Period size: 83 Copynumber: 2.0 Consensus size: 85
94197738 AGCTCGTACA
* * *
94197748 ATGCCAACGTCCTAGACAAGGTCTTACATGTAATAAAATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCTAGACAAGGTCTTACACGTAATAAAATATCAATGCCACTGTCCCAGACAGGGT
*
94197813 CTTACATGAAATCATATATG
66 CTTACACGAAATCATATATG
* * ** *
94197833 ATGCCAATGTCCTAGACATGGTCTTACACGTTCT-CAA-ATCAATGCCAAC-GTCCCAGAC-GTG
1 ATGCCAACGTCCTAGACAAGGTCTTACACGTAATAAAATATCAATGCC-ACTGTCCCAGACAG-G
* *
94197894 GTCTTATACGAAATCACATAT
64 GTCTTACACGAAATCATATAT
94197915 CAAAATCCTA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
82 1 0.01
83 35 0.51
84 4 0.06
85 29 0.42
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (85 bp):
ATGCCAACGTCCTAGACAAGGTCTTACACGTAATAAAATATCAATGCCACTGTCCCAGACAGGGT
CTTACACGAAATCATATATG
Found at i:94204902 original size:14 final size:13
Alignment explanation
Indices: 94204885--94204924 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
94204875 AAAGTAGTTT
94204885 TAAAAAGATAAAAA
1 TAAAAA-ATAAAAA
94204899 TAAAAACATAAAAA
1 TAAAAA-ATAAAAA
*
94204913 TAATAAATAAAA
1 TAAAAAATAAAA
94204925 GTATTTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:94211987 original size:27 final size:27
Alignment explanation
Indices: 94211948--94212048 Score: 148
Period size: 27 Copynumber: 3.7 Consensus size: 27
94211938 CGTACCTAAA
* *
94211948 CCCTCATGTGATAAAATGATGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
* * *
94211975 CCCCTAAGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTT
94212002 CCCTTATGTGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
*
94212029 CCCTTATCTGATAAAATGAC
1 CCCTTATGTGATAAAATGAC
94212049 CGAAATACCC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATTTTT
Found at i:94212163 original size:23 final size:23
Alignment explanation
Indices: 94212137--94212186 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
94212127 CTGCATTTGA
94212137 GCATGCCATGT-T-ATATGTATGTT
1 GCAT-CCATGTATAATAT-TATGTT
94212160 GCATCCATGTATAATATTATGTT
1 GCATCCATGTATAATATTATGTT
94212183 GCAT
1 GCAT
94212187 TGGATAGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
GCATCCATGTATAATATTATGTT
Found at i:94212474 original size:18 final size:18
Alignment explanation
Indices: 94212453--94212487 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94212443 TTACTACTGC
94212453 TGCACTATTTACTGTTAT
1 TGCACTATTTACTGTTAT
*
94212471 TGCACTGTTTACTGTTA
1 TGCACTATTTACTGTTA
94212488 CTAATATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (18 bp):
TGCACTATTTACTGTTAT
Found at i:94216811 original size:41 final size:41
Alignment explanation
Indices: 94216766--94216883 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
94216756 TGAAAGATAA
94216766 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
94216807 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94216837 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94216878 ATGTAG
1 ATGTAG
94216884 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:94216831 original size:71 final size:71
Alignment explanation
Indices: 94216735--94216897 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
94216725 GAGATGTATC
94216735 CCATGTAGAC-AGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94216799 AGGACA
66 AGGACA
94216805 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94216870 AGGACA
66 AGGACA
94216876 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
94216898 AGACAAATGG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 10 0.11
71 82 0.89
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:94218451 original size:27 final size:27
Alignment explanation
Indices: 94218421--94218548 Score: 193
Period size: 27 Copynumber: 4.7 Consensus size: 27
94218411 CGTACCTGAA
* *
94218421 CCCTCATGTGATAAAATGAAAATTTTG
1 CCCTTATGTGATAAAATGACAATTTTG
* *
94218448 CCCTTAGGTGATAAAATGACAATTTTA
1 CCCTTATGTGATAAAATGACAATTTTG
* *
94218475 CCCTTATGTGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACAATTTTG
*
94218502 CCCTTATGTGATAAAATGATAATTTTG
1 CCCTTATGTGATAAAATGACAATTTTG
94218529 CCCTTATGTGATAAAATGAC
1 CCCTTATGTGATAAAATGAC
94218549 CGAAATACCC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACAATTTTG
Found at i:94218570 original size:27 final size:27
Alignment explanation
Indices: 94218540--94218602 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
94218530 CCTTATGTGA
*
94218540 TAAAATGACCGAAATACCCCAGTAGGG
1 TAAAATGACCGAAATACCCCAGTAAGG
* * * *
94218567 TAAAATGACTGTAATACCTCGGTAAGG
1 TAAAATGACCGAAATACCCCAGTAAGG
94218594 TAAAATGAC
1 TAAAATGAC
94218603 AAATTTGTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCAGTAAGG
Found at i:94218571 original size:54 final size:54
Alignment explanation
Indices: 94218455--94218575 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 54
94218445 TTGCCCTTAG
** ** *
94218455 GTGATAAAATGACAATTTTACCCTTATGTGATAAAATGACGATTTTTCCCTTAT
1 GTGATAAAATGACAATTTTACCCTTATGTGATAAAATGACGAAATACCCCGTAT
* *
94218509 GTGATAAAATGATAATTTTGCCCTTATGTGATAAAATGACCGAAATACCCCAGTA-
1 GTGATAAAATGACAATTTTACCCTTATGTGATAAAATGA-CGAAATACCCC-GTAT
*
94218564 G-GGTAAAATGAC
1 GTGATAAAATGAC
94218576 TGTAATACCT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 46 0.82
55 8 0.14
56 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (54 bp):
GTGATAAAATGACAATTTTACCCTTATGTGATAAAATGACGAAATACCCCGTAT
Found at i:94218680 original size:23 final size:23
Alignment explanation
Indices: 94218637--94218686 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
94218627 CTGTATTTGA
94218637 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
94218660 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
94218683 GCAT
1 GCAT
94218687 TGCATGAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:94218967 original size:18 final size:18
Alignment explanation
Indices: 94218940--94218990 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
94218930 GGACCTACAT
*
94218940 ACTG-TTACTGCTGCTGC
1 ACTGTTTACTGCTACTGC
* *
94218957 ACTGTTTACTGTTATTGC
1 ACTGTTTACTGCTACTGC
*
94218975 ACTGTTTACTGTTACT
1 ACTGTTTACTGCTACT
94218991 AATATGGGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (18 bp):
ACTGTTTACTGCTACTGC
Found at i:94219126 original size:24 final size:24
Alignment explanation
Indices: 94219095--94219142 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
94219085 TTGTTTGCTT
*
94219095 ATATGGGATTACACATTGAGTTTA
1 ATATGGGATTACACACTGAGTTTA
94219119 ATATGGGATTACACACTGAGTTTA
1 ATATGGGATTACACACTGAGTTTA
94219143 CGTAAACTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.35
Consensus pattern (24 bp):
ATATGGGATTACACACTGAGTTTA
Found at i:94239472 original size:43 final size:43
Alignment explanation
Indices: 94239402--94239561 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 43
94239392 AAAGCTCGTA
* *
94239402 CAATGCCAACGTCCCAGAC-GAGCTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACAG-GGTCTTACACGTAATCAAATAT
** *
94239445 CAATGCC-ACTGTCCCAGACAGGGTCTTACACAAAATCATATA-
1 CAATGCCAAC-GTCCCAGACAGGGTCTTACACGTAATCAAATAT
* * * *
94239487 CGATGCCAATGTCCCATACATGGTCTTACACGTAAATCTCAAAT-T
1 CAATGCCAACGTCCCAGACAGGGTCTTACACGT-AA--TCAAATAT
* *
94239532 -GATGCCAACGTCCCAGACATGGTCTTACAC
1 CAATGCCAACGTCCCAGACAGGGTCTTACAC
94239562 AAAATCACAT
Statistics
Matches: 96, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
42 27 0.28
43 35 0.36
44 29 0.30
45 5 0.05
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACAGGGTCTTACACGTAATCAAATAT
Found at i:94239512 original size:42 final size:44
Alignment explanation
Indices: 94239447--94239576 Score: 151
Period size: 44 Copynumber: 3.0 Consensus size: 44
94239437 TCAAATATCA
* * *
94239447 ATGCCACTGTCCCAGACAGGGTCTTACACAAAATCAT-ATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCATCAAATCG
* * *
94239489 ATGCCAATGTCCCATACATGGTCTTACACGTAAATC-TCAAATTG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-AAAATCATCAAATCG
* *
94239533 ATGCCAACGTCCCAGACATGGTCTTACACAAAATCA-CATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCATCAAATCG
94239576 A
1 A
94239577 AATCCTATGC
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 27 0.37
43 18 0.25
44 28 0.38
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCATCAAATCG
Found at i:94241131 original size:53 final size:52
Alignment explanation
Indices: 94241066--94241357 Score: 176
Period size: 53 Copynumber: 5.5 Consensus size: 52
94241056 AGAATACTTT
* *
94241066 AGTTTATCAAATTACTGAAATACCCCCAATTGTAAAATTACCAAAGTACCCCC
1 AGTTTATAAAATTACTGAAATACCCCCAATTGTAAAATTACCAAA-TACCCTC
** * * * * *
94241119 AGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACTGAAATACCGTC
1 AGTTTATAAAATTACTGAAATA-CCCCCAATTGTAAAATTAC-CAAATACCCTC
* * * * *
94241173 -GATTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCTTT
1 AGTTTATAAAATTACTGAAATACCCCCAA-TTGTAAAATTACC-AAATACCCTC
* ** ** * * *
94241226 AATTTGCAAAATTACTGAAATACCCTGATTTGTAAAATTACGAAAATACCTTC
1 AGTTTATAAAATTACTGAAATACCCCCAATTGTAAAATTAC-CAAATACCCTC
* * * ** ****
94241279 -GACTTGTAAAATTAC-CAAAGTACCCCCAAATTACAAAATTATCGTTTTACCCTC
1 AG-TTTATAAAATTACTGAAA-TACCCCC-AATTGTAAAATTA-CCAAATACCCTC
* *
94241333 AATTTACAAAATTACTGAAATACCC
1 AGTTTATAAAATTACTGAAATACCC
94241358 TTGTAGGATA
Statistics
Matches: 181, Mismatches: 46, Indels: 23
0.72 0.18 0.09
Matches are distributed among these distances:
52 6 0.03
53 93 0.51
54 75 0.41
55 7 0.04
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (52 bp):
AGTTTATAAAATTACTGAAATACCCCCAATTGTAAAATTACCAAATACCCTC
Found at i:94241209 original size:80 final size:79
Alignment explanation
Indices: 94241074--94241302 Score: 257
Period size: 80 Copynumber: 2.9 Consensus size: 79
94241064 TTAGTTTATC
* * * * * *
94241074 AAATTACTGAAATACCCCCAATTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAA
1 AAATTACTGAAATACCCTCGATTGTAAAATTACGAAA-TACCCTCAATTTGTAAAATTACCCAAA
* *
94241139 TATCC-TCGATTTGTA
65 TA-CCTTCAATTTGCA
* *
94241154 AAATTACTGAAATACCGTCGATTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAA
1 AAATTACTGAAATACCCTCGATTGTAAAATTAC-GAAATACCCTCAATTTGTAAAATTACCCAAA
*
94241219 TACCTTTAATTTGCA
65 TACCTTCAATTTGCA
* * *
94241234 AAATTACTGAAATACCCT-GATTTGTAAAATTACGAAAATACCTTCGACTTGTAAAATTA-CCAA
1 AAATTACTGAAATACCCTCGA-TTGTAAAATTACG-AAATACCCTCAATTTGTAAAATTACCCAA
94241297 AGTACC
64 A-TACC
94241303 CCCAAATTAC
Statistics
Matches: 128, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
79 9 0.07
80 116 0.91
81 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (79 bp):
AAATTACTGAAATACCCTCGATTGTAAAATTACGAAATACCCTCAATTTGTAAAATTACCCAAAT
ACCTTCAATTTGCA
Found at i:94241316 original size:80 final size:80
Alignment explanation
Indices: 94241074--94241358 Score: 222
Period size: 80 Copynumber: 3.5 Consensus size: 80
94241064 TTAGTTTATC
* * * * ** * *
94241074 AAATTACTGAAATACCCCCAATTGTAAAATTAC-CAAAGTACCCCCAGTTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGATTGTAAAATTACTGAAA-TACCCTCAACTTGTAAAATTACCGAA
* * * * **
94241138 ATATCCTCGATTTGTA
65 ATACCCCCAAATTACA
* *
94241154 AAATTACTGAAATACCGTCGATTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAA
1 AAATTACTGAAATACCCTCGATTGTAAAATTACTGAAATACCCTCAACTTGTAAAATTACCGAAA
*** * *
94241219 TACCTTTAATTTGCA
66 TACCCCCAAATTACA
* *
94241234 AAATTACTGAAATACCCT-GATTTGTAAAATTAC-GAAAATACCTTCGACTTGTAAAATTACC-A
1 AAATTACTGAAATACCCTCGA-TTGTAAAATTACTG-AAATACCCTCAACTTGTAAAATTACCGA
94241296 AAGTACCCCCAAATTACA
64 AA-TACCCCCAAATTACA
*** *
94241314 AAATTA-TCGTTTTACCCTCAATT-TACAAAATTACTGAAATACCCT
1 AAATTACT-GAAATACCCTCGATTGT--AAAATTACTGAAATACCCT
94241359 TGTAGGATAG
Statistics
Matches: 169, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
79 8 0.05
80 140 0.83
81 20 0.12
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGATTGTAAAATTACTGAAATACCCTCAACTTGTAAAATTACCGAAA
TACCCCCAAATTACA
Found at i:94241356 original size:27 final size:27
Alignment explanation
Indices: 94241074--94241358 Score: 224
Period size: 27 Copynumber: 10.7 Consensus size: 27
94241064 TTAGTTTATC
*
94241074 AAATTACTGAAATACCCCCAA-TTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * * *
94241100 AAATTAC-CAAAGTACCCCCAGTTTATA
1 AAATTACTGAAA-TACCCTCAATTTGTA
** * *
94241127 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* *
94241154 AAATTACTGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
94241180 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * * *
94241207 AAATTACCGAAATACCTTTAATTTGCA
1 AAATTACTGAAATACCCTCAATTTGTA
*
94241234 AAATTACTGAAATACCCT-GATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
94241260 AAATTAC-GAAAATACCTTCGACTTGTA
1 AAATTACTG-AAATACCCTCAATTTGTA
* * * **
94241287 AAATTAC-CAAAGTACCCCCAAATTACA
1 AAATTACTGAAA-TACCCTCAATTTGTA
*** **
94241314 AAATTA-TCGTTTTACCCTCAATTTACA
1 AAATTACT-GAAATACCCTCAATTTGTA
94241341 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
94241359 TGTAGGATAG
Statistics
Matches: 209, Mismatches: 40, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
25 4 0.02
26 63 0.30
27 137 0.66
28 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTGTA
Found at i:94241426 original size:108 final size:108
Alignment explanation
Indices: 94241350--94241809 Score: 660
Period size: 108 Copynumber: 4.3 Consensus size: 108
94241340 AAAATTACTG
* *
94241350 AAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAAGGTAGAATTA-TCGAAATACCCCT
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCT
* * * * * *
94241414 GTAGGGTAAAATTA-CTGAAATACACTTGTAGGGTAGAATTACTA
65 GTAAGGTAGAATTATC-GAAATACCCTTGTAGGGTAAAAATACCA
* * *
94241458 AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTG
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTG
* *
94241523 TAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCA
66 TAAGGTAGAATTATCGAAATACCCTTGTAGGGTAAAAATACCA
94241566 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGT-AGGATAGAATTACTGAAATACCCCT
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGG-TAGAATTACTGAAATACCCCT
* *
94241630 GTAAGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCG
65 GTAAGGTAGAATTATCGAAATACCCTTGTAGGGTAAAAATACCA
*
94241674 AAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTG
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTG
* * *
94241739 T-AGGATAGAATTACCAAAATACCCTTGTAGGGTAGAAATACCA
66 TAAGG-TAGAATTATCGAAATACCCTTGTAGGGTAAAAATACCA
*
94241782 AAATA-CCTCTGTAGGGTAGAATTACCGA
1 AAATACCCT-TGTAGGGTAGAAATACCGA
94241810 GTTTTGCCCC
Statistics
Matches: 326, Mismatches: 20, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
107 8 0.02
108 313 0.96
109 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (108 bp):
AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTG
TAAGGTAGAATTATCGAAATACCCTTGTAGGGTAAAAATACCA
Found at i:94241807 original size:27 final size:27
Alignment explanation
Indices: 94241342--94241809 Score: 585
Period size: 27 Copynumber: 17.3 Consensus size: 27
94241332 CAATTTACAA
* * *
94241342 AATTACTGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
94241369 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94241396 AATTATCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
94241423 AATTACTGAAATACACTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
94241450 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94241477 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
94241504 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
94241531 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
94241558 AAATACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94241585 AAATACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94241612 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94241639 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94241666 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
94241693 AAATATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94241720 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94241747 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
94241774 AAATACCAAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
94241801 AATTACCGA
1 AATTACCGA
94241810 GTTTTGCCCC
Statistics
Matches: 385, Mismatches: 56, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 385 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:94242189 original size:22 final size:22
Alignment explanation
Indices: 94242157--94242215 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
94242147 CCCGTTATCG
*
94242157 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
94242179 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
94242201 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
94242216 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:94242428 original size:28 final size:27
Alignment explanation
Indices: 94242373--94242454 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
94242363 ATTCTATTAA
* *
94242373 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTATGCCACAATATCTGATTCTG
94242400 GTGGCTATGCCACAAATATCTGCA-TCTG
1 GTGGCTATGCCAC-AATATCTG-ATTCTG
* * *
94242428 GTGACTCTGTCACAATATCTG-TTCTG
1 GTGGCTATGCCACAATATCTGATTCTG
94242454 G
1 G
94242455 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
26 5 0.11
27 20 0.43
28 21 0.45
29 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGATTCTG
Found at i:94242581 original size:6 final size:6
Alignment explanation
Indices: 94242572--94242669 Score: 67
Period size: 6 Copynumber: 15.8 Consensus size: 6
94242562 TTGCATTCAC
* * *
94242572 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
94242622 ATTCTG ATTCTG ATTCT- ATCACCTG ATTCTG ATTCTA ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
94242670 CATTTTAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
5 6 0.08
6 53 0.75
7 7 0.10
8 5 0.07
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:94242606 original size:25 final size:25
Alignment explanation
Indices: 94242572--94242657 Score: 127
Period size: 25 Copynumber: 3.4 Consensus size: 25
94242562 TTGCATTCAC
94242572 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* * *
94242597 ATACTAATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTG
* *
94242622 ATTCTGATTCTGATTCTATCACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
94242647 ATTCTGATTCT
1 ATTCTGATTCT
94242658 AATTTTGATT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:94251894 original size:21 final size:21
Alignment explanation
Indices: 94251870--94251914 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
94251860 TCATCAACAT
* *
94251870 CATTTTAATGCTTAGTGTGAA
1 CATTTTAATGATTAGTATGAA
*
94251891 CATTTTAATTATTAGTATGAA
1 CATTTTAATGATTAGTATGAA
94251912 CAT
1 CAT
94251915 CTTTGATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.44
Consensus pattern (21 bp):
CATTTTAATGATTAGTATGAA
Found at i:94259743 original size:46 final size:45
Alignment explanation
Indices: 94259693--94259868 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
94259683 ATGGTTGGCA
94259693 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
94259739 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
94259786 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
94259832 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94259869 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:94259848 original size:93 final size:93
Alignment explanation
Indices: 94259689--94259860 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
94259679 TAGGATGGTT
* *
94259689 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94259754 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
94259782 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94259847 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94259861 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:94262811 original size:15 final size:15
Alignment explanation
Indices: 94262772--94262850 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
94262762 GTATCTTGGG
*
94262772 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
94262787 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
94262802 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
94262816 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
94262831 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
94262845 TTTCTT
1 TTTCTT
94262851 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:94262835 original size:29 final size:29
Alignment explanation
Indices: 94262763--94262849 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
94262753 CATAGTATCG
* * * *
94262763 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
94262793 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
94262822 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
94262850 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:94265275 original size:46 final size:45
Alignment explanation
Indices: 94265225--94265400 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
94265215 ATGGTTGGCA
94265225 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
94265271 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
94265318 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
94265364 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94265401 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:94265380 original size:93 final size:93
Alignment explanation
Indices: 94265221--94265392 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
94265211 TAGGATGGTT
* *
94265221 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94265286 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
94265314 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94265379 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94265393 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:94268338 original size:15 final size:15
Alignment explanation
Indices: 94268299--94268377 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
94268289 GTATCTTGGG
*
94268299 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
94268314 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
94268329 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
94268343 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
94268358 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
94268372 TTTCTT
1 TTTCTT
94268378 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:94268362 original size:29 final size:29
Alignment explanation
Indices: 94268290--94268376 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
94268280 CATAGTATCG
* * * *
94268290 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
94268320 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
94268349 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
94268377 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:94270802 original size:46 final size:46
Alignment explanation
Indices: 94270752--94270927 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
94270742 TGGTTGAGCA
*
94270752 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
94270798 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
94270845 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
94270891 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94270928 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:94270908 original size:93 final size:93
Alignment explanation
Indices: 94270749--94270920 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
94270739 GGATGGTTGA
* *
94270749 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
94270814 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
94270842 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
94270907 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
94270921 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:94278866 original size:40 final size:40
Alignment explanation
Indices: 94278808--94278955 Score: 215
Period size: 40 Copynumber: 3.7 Consensus size: 40
94278798 CGATGACTAA
* * *
94278808 TCGGCTATTTGTGGCACTTAGTGTGGGATTTGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTTGACATAGCT
* *
94278848 TCGGCTATATATGACACTTAGTGTGCGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTTGACATAGCT
* *
94278888 TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTTGACATAGCT
* *
94278928 TCGGCTATGTACGGCACTTAGTGTGCGA
1 TCGGCTATATATGGCACTTAGTGTGCGA
94278956 GGCATTGACT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTTGACATAGCT
Found at i:94282088 original size:28 final size:28
Alignment explanation
Indices: 94282056--94282112 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
94282046 AATAAATGAT
*
94282056 TTGTGTTTATAAGAAAACAGAAAGAGAA
1 TTGTGTTTATAAGAAAACAAAAAGAGAA
94282084 TTGTGTTTATAAGAAAACAAAAAGAGAA
1 TTGTGTTTATAAGAAAACAAAAAGAGAA
94282112 T
1 T
94282113 GATATGTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (28 bp):
TTGTGTTTATAAGAAAACAAAAAGAGAA
Found at i:94284093 original size:42 final size:42
Alignment explanation
Indices: 94284020--94284142 Score: 135
Period size: 42 Copynumber: 2.9 Consensus size: 42
94284010 TCAAAACACT
* * *
94284020 AATACAATGCCAAC-GTCCCAGAC-GTGATCTTACATGTAATCA
1 AATACGATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCA
* *
94284062 AATATGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCA
1 AATACGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCA
* *
94284104 AATACGATGTCGA-TGTCCCAGACATGGTCTTACACGTAA
1 AATACGATG-CCACTGTCCCAGACAGGGTCTTACACGTAA
94284143 ATTTCAAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.03
42 64 0.93
43 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
AATACGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCA
Found at i:94288467 original size:48 final size:48
Alignment explanation
Indices: 94288403--94288528 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 48
94288393 AGGTAAATAT
* * *
94288403 ATATATATGTGTGGTAAAGCCGAATGGCTAATATGAGACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
* *
94288451 ATATGTATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
** *
94288499 GGATGTATATTTGGTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
94288529 TTGTGCAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
Found at i:94288554 original size:48 final size:47
Alignment explanation
Indices: 94288414--94288557 Score: 164
Period size: 48 Copynumber: 3.0 Consensus size: 47
94288404 TATATATGTG
* * *
94288414 TGGTAAAGCCGAATGGCTAATATGAGACATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATATGA-ATATGTATGAGATGTGTATATT
* *
94288462 TGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG-GGATGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATG-TGTATATT
* * * *
94288510 TGGTAAAGCCGAATGGCTATTGTGCAATACGTAGGAGATGTGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATGTGTATATT
94288558 GTGGCCGAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
48 79 0.98
49 2 0.02
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (47 bp):
TGGTAAAGCCGAATGGCTAATATGAATATGTATGAGATGTGTATATT
Found at i:94288737 original size:37 final size:37
Alignment explanation
Indices: 94288687--94288767 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
94288677 GGAAATATAT
* *
94288687 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
* *
94288724 TCCGGGTAAGACCCGATGACCACTTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
94288761 TCCGGGT
1 TCCGGGT
94288768 TAAAACCCTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
Found at i:94296282 original size:43 final size:43
Alignment explanation
Indices: 94296213--94296383 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 43
94296203 AACTCGTACA
* *
94296213 ATGCCTAC-GTCCTAGAC-GTGATCTTACATGAAATCAAATATCG
1 ATGCC-ACTGTCCTAGACTG-GGTCTTACACGAAATCAAATATCG
*
94296256 ATGCCACTGTCCCAGACTGGGTCTTACACGAAATCAAATA-CG
1 ATGCCACTGTCCTAGACTGGGTCTTACACGAAATCAAATATCG
* * * *
94296298 ATGCGA-TGTCCTAGACAT-GGTCTTACAAGTAAATCTTAA-ATCA
1 ATGCCACTGTCCTAGAC-TGGGTCTTACACG-AAATC-AAATATCG
*
94296341 ATGCCAAC-GTCCTAGAC-GTGGTCTTACACGAAATCATATATCG
1 ATGCC-ACTGTCCTAGACTG-GGTCTTACACGAAATCAAATATCG
94296384 GAATCCTATG
Statistics
Matches: 104, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
41 19 0.18
42 17 0.16
43 47 0.45
44 21 0.20
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCTAGACTGGGTCTTACACGAAATCAAATATCG
Found at i:94297823 original size:3 final size:3
Alignment explanation
Indices: 94297815--94297895 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
94297805 ATTTGAAATA
94297815 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
94297863 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
94297896 GGTAATAGTA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:94299764 original size:44 final size:43
Alignment explanation
Indices: 94299602--94300091 Score: 252
Period size: 45 Copynumber: 10.8 Consensus size: 43
94299592 TGCAGGTTCG
* * * *
94299602 ATCTACTCCACTGGAACTTAAAGGAGATAAGATT-TGGTAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGG---TTTCA
** * * * **
94299647 GCCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTGTATTTTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTG-GTTTCA
* * *
94299692 ATCTTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGTTTCA
1 ATC-TGCTCCACTGCAACTTCAGGGAGATAA-GATTGTGGTTTCA
* **
94299737 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTTATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTGGT-TTCA
* * * ** *
94299782 ATCTACTCTACTGCAACATT-AGGTAGATAAGACTTGTTATCTTTA
1 ATCTGCTCCACTGCAAC-TTCAGGGAGATAAGA-TTGTGGT-TTCA
* * * ** * * *
94299827 GTTTGCTCCATTATAAC-TCTTGGGAGATAAGACTTGGGGCTTCA
1 ATCTGCTCCACTGCAACTTC-AGGGAGATAAGA-TTGTGGTTTCA
*
94299871 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGATTTGTAGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G---TG----GT---TTCA
* * * * *
94299925 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACT-TTCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--GTGGT-TTCA
* * * *
94299970 GTCTGCTTCGCTGCAACTTCAGGGAGATAAGACTTGTGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTGGTTTCA
* * * *
94300014 ATCTGTTCTA-TCGCAACTTCAGGGAGATAAGACTTATGGCTTCA
1 ATCTGCTCCACT-GCAACTTCAGGGAGATAAGA-TTGTGGTTTCA
*
94300058 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
94300092 CGCCATGATG
Statistics
Matches: 342, Mismatches: 76, Indels: 56
0.72 0.16 0.12
Matches are distributed among these distances:
43 9 0.03
44 123 0.36
45 131 0.38
46 38 0.11
47 4 0.01
51 1 0.00
52 1 0.00
54 35 0.10
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGGTTTCA
Found at i:94301714 original size:40 final size:40
Alignment explanation
Indices: 94301629--94301779 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
94301619 AATTGAATGA
* * *
94301629 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
94301669 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
94301710 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
94301749 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
94301780 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:94301793 original size:40 final size:40
Alignment explanation
Indices: 94301666--94301795 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
94301656 ATGCTGGAAA
* * * *
94301666 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
94301706 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
94301746 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
94301786 TTATATCCGG
1 TTATATCCGG
94301796 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:94323501 original size:16 final size:18
Alignment explanation
Indices: 94323475--94323507 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
94323465 CTAAACTCCC
94323475 TAAATACCTAAG-GGGAA
1 TAAATACCTAAGAGGGAA
94323492 TAAA-ACCTAAGAGGGA
1 TAAATACCTAAGAGGGA
94323508 TCCTGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.15
Consensus pattern (18 bp):
TAAATACCTAAGAGGGAA
Found at i:94329224 original size:31 final size:31
Alignment explanation
Indices: 94329183--94329246 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
94329173 CCTTTTCATA
*
94329183 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
94329214 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
94329245 TT
1 TT
94329247 ACGGTAAACG
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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:94329514 original size:23 final size:23
Alignment explanation
Indices: 94329460--94329578 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
94329450 CCTAGCCTCT
94329460 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
94329482 TTTTTAATAACTTGGGCATAAGCCC
1 --TTTAATAACTGGGGCATAAGCCC
94329507 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
94329530 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
94329553 TTTAATAACTGGGGCATAAGACC
1 TTTAATAACTGGGGCATAAGCCC
94329576 TTT
1 TTT
94329579 TGCACTTCCT
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 68 0.76
24 15 0.17
25 6 0.07
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:94329653 original size:9 final size:9
Alignment explanation
Indices: 94329639--94329713 Score: 51
Period size: 9 Copynumber: 7.7 Consensus size: 9
94329629 CTCGTGTGCC
94329639 TATCATACA
1 TATCATACA
*
94329648 TATCATGTGCA
1 TATCA--TACA
94329659 TATCATACA
1 TATCATACA
* **
94329668 TGTCATGTGTA
1 TATCA--TACA
94329679 TATCATACA
1 TATCATACA
*
94329688 TATCATGTGCA
1 TATCA--TACA
94329699 TATCATACA
1 TATCATACA
94329708 TATCAT
1 TATCAT
94329714 GTTTATCAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 28 0.56
11 22 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (9 bp):
TATCATACA
Found at i:94329656 original size:20 final size:20
Alignment explanation
Indices: 94329633--94329715 Score: 139
Period size: 20 Copynumber: 4.2 Consensus size: 20
94329623 GAACATCTCG
*
94329633 TGTGCCTATCATACATATCA
1 TGTGCATATCATACATATCA
*
94329653 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
94329673 TGTGTATATCATACATATCA
1 TGTGCATATCATACATATCA
94329693 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
94329713 TGT
1 TGT
94329716 TTATCAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:94329662 original size:11 final size:11
Alignment explanation
Indices: 94329646--94329704 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
94329636 GCCTATCATA
94329646 CATATCATGTG
1 CATATCATGTG
*
94329657 CATATCA--TA
1 CATATCATGTG
*
94329666 CATGTCATGTG
1 CATATCATGTG
* *
94329677 TATATCA--TA
1 CATATCATGTG
94329686 CATATCATGTG
1 CATATCATGTG
94329697 CATATCAT
1 CATATCAT
94329705 ACATATCATG
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
9 14 0.39
11 22 0.61
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (11 bp):
CATATCATGTG
Found at i:94337574 original size:24 final size:24
Alignment explanation
Indices: 94337527--94337644 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
94337517 GCTTTATCAT
*
94337527 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
94337552 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
94337576 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
94337599 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
94337622 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
94337645 GCCTTCCTCC
Statistics
Matches: 88, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 47 0.53
24 27 0.31
25 14 0.16
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:94337717 original size:9 final size:9
Alignment explanation
Indices: 94337703--94337777 Score: 60
Period size: 9 Copynumber: 7.7 Consensus size: 9
94337693 CTCGTGTGCC
94337703 TATCATACA
1 TATCATACA
*
94337712 TATCATGTGCA
1 TATCA--TACA
94337723 TATCATACA
1 TATCATACA
* *
94337732 TGTCATGTGCA
1 TATCA--TACA
94337743 TATCATACA
1 TATCATACA
*
94337752 TATCATGTGCA
1 TATCA--TACA
94337763 TATCATACA
1 TATCATACA
94337772 TATCAT
1 TATCAT
94337778 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 29 0.56
11 23 0.44
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (9 bp):
TATCATACA
Found at i:94337720 original size:20 final size:20
Alignment explanation
Indices: 94337697--94337779 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
94337687 GAACATCTCG
*
94337697 TGTGCCTATCATACATATCA
1 TGTGCATATCATACATATCA
*
94337717 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
94337737 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
94337757 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
94337777 TGT
1 TGT
94337780 TTATCAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:94337726 original size:11 final size:11
Alignment explanation
Indices: 94337710--94337768 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
94337700 GCCTATCATA
94337710 CATATCATGTG
1 CATATCATGTG
*
94337721 CATATCA--TA
1 CATATCATGTG
*
94337730 CATGTCATGTG
1 CATATCATGTG
*
94337741 CATATCA--TA
1 CATATCATGTG
94337750 CATATCATGTG
1 CATATCATGTG
94337761 CATATCAT
1 CATATCAT
94337769 ACATATCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 15 0.39
11 23 0.61
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
CATATCATGTG
Found at i:94337844 original size:25 final size:25
Alignment explanation
Indices: 94337816--94337863 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94337806 ATGTATAAAC
* * *
94337816 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
94337841 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
94337864 CATATTATAA
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:94341864 original size:46 final size:48
Alignment explanation
Indices: 94341814--94341998 Score: 175
Period size: 47 Copynumber: 3.9 Consensus size: 48
94341804 ATCGACCTCG
94341814 AGATGTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACA
1 AGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACA
* *
94341860 AGATGT--GTCAGTGTAAGACCATGTATGGGACATGGCATCGGC-ACA
1 AGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACA
* * * * * * * **
94341905 GATATGTTAAAGTCACTGTAAGAACATTTCTGGGACATCGCATCGACTTGA
1 -AGATG-T-AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACA
* * *
94341956 TG-TGTAAGCTAGTGTACGACCATGTCTGGGACATGGCATCGGC
1 AGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
94341999 ATTATACCTT
Statistics
Matches: 110, Mismatches: 21, Indels: 15
0.75 0.14 0.10
Matches are distributed among these distances:
44 11 0.10
45 16 0.15
46 18 0.16
47 31 0.28
48 1 0.01
49 2 0.02
50 30 0.27
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
AGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACA
Found at i:94341939 original size:50 final size:45
Alignment explanation
Indices: 94341827--94341949 Score: 124
Period size: 50 Copynumber: 2.6 Consensus size: 45
94341817 TGTAAGCCAG
*
94341827 TGTAAG-ACATGTCTGGGACATGCATCGGCTACAAGATGTGTCAG
1 TGTAAGAACATGTCTGGGACATGCATCGGCTACAAGATGTGTCAC
* * *
94341871 TGTAAGACCATGTATGGGACATGGCATCGGC-ACAGATATGTTAAAGTCAC
1 TGTAAGAACATGTCTGGGACAT-GCATCGGCTACA-AGATG-T---GTCAC
*
94341921 TGTAAGAACATTTCTGGGACATCGCATCG
1 TGTAAGAACATGTCTGGGACAT-GCATCG
94341950 ACTTGATGTG
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
44 6 0.09
45 16 0.25
46 12 0.19
47 1 0.02
50 29 0.45
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (45 bp):
TGTAAGAACATGTCTGGGACATGCATCGGCTACAAGATGTGTCAC
Found at i:94354055 original size:21 final size:21
Alignment explanation
Indices: 94354029--94354069 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
94354019 AGCTTAAATG
94354029 ATGGTTGAATAAGTA-GAATTC
1 ATGGTTGAA-AAGTATGAATTC
94354050 ATGGTTGAAAAGTATGAATT
1 ATGGTTGAAAAGTATGAATT
94354070 GAAATTCCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
ATGGTTGAAAAGTATGAATTC
Found at i:94355789 original size:33 final size:33
Alignment explanation
Indices: 94355740--94355837 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 33
94355730 ACGGACGTAA
* *
94355740 CCTTTTCCAGTCGTACACTCGAGGTGTACAT-T
1 CCTTTTCAAGTCGTACACTCAAGGTGTACATAT
* * *
94355772 CCCTTTTCAAGTGGTACACTCAAAGTGTACGTAT
1 -CCTTTTCAAGTCGTACACTCAAGGTGTACATAT
** *
94355806 CCTTTTCAAGTTTTACACACAAGGTGTACATA
1 CCTTTTCAAGTCGTACACTCAAGGTGTACATA
94355838 GCAGTAAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 53 0.98
34 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAGTCGTACACTCAAGGTGTACATAT
Found at i:94373319 original size:19 final size:20
Alignment explanation
Indices: 94373276--94373321 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
94373266 GTAGAGTGTT
*
94373276 TAATTAGCTTTAATTAAGTG
1 TAATTAGCTTTAATTAAGAG
* *
94373296 AAATTAGC-TTAATTTAGAG
1 TAATTAGCTTTAATTAAGAG
94373315 TAATTAG
1 TAATTAG
94373322 TGAAAAGGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.41
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:94373914 original size:17 final size:18
Alignment explanation
Indices: 94373892--94373925 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
94373882 TAAATGAGTT
94373892 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
94373909 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
94373926 AATAGAAATT
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:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:94374453 original size:23 final size:22
Alignment explanation
Indices: 94374426--94374488 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
94374416 TTTGCTGATC
94374426 AGGCACTTTATGTATCGTATTTT
1 AGGCAC-TTATGTATCGTATTTT
* * * *
94374449 AGGCACCT-CGTGT-GTTGTTTT
1 AGGCACTTATGTATCG-TATTTT
94374470 AGGCACTTATGTATCGTAT
1 AGGCACTTATGTATCGTAT
94374489 ACTGATCATG
Statistics
Matches: 29, Mismatches: 8, Indels: 7
0.66 0.18 0.16
Matches are distributed among these distances:
20 1 0.03
21 15 0.52
22 6 0.21
23 7 0.24
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (22 bp):
AGGCACTTATGTATCGTATTTT
Found at i:94375531 original size:28 final size:27
Alignment explanation
Indices: 94375446--94375535 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
94375436 GTGACAGAGT
*
94375446 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* * * *
94375475 CACCAAAACTGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
94375502 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
94375530 CACCAG
1 CACCAG
94375536 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 22 0.44
29 6 0.12
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:94375687 original size:28 final size:28
Alignment explanation
Indices: 94375642--94375704 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
94375632 AATTAACCCT
*
94375642 AGGGTATAAAGGTCATTTTGCATACATA
1 AGGGTATAAAGGTAATTTTGCATACATA
* *
94375670 GGGGTATAATGGTAATTTTGCATACATA
1 AGGGTATAAAGGTAATTTTGCATACATA
94375698 AGGGTAT
1 AGGGTAT
94375705 TCTAGTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (28 bp):
AGGGTATAAAGGTAATTTTGCATACATA
Found at i:94381774 original size:27 final size:28
Alignment explanation
Indices: 94381722--94381799 Score: 106
Period size: 27 Copynumber: 2.8 Consensus size: 28
94381712 GTGACAGAGT
* *
94381722 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
94381751 CACCAGAACAGATA-TATGTGGCAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
94381778 CACCAGAACAGATAATT-TGTGG
1 CACCAGAACAGAT-ATTATGTGG
94381800 TATAGCCACC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
27 24 0.53
28 13 0.29
29 8 0.18
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:94381807 original size:28 final size:27
Alignment explanation
Indices: 94381722--94381811 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
94381712 GTGACAGAGT
*
94381722 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
94381751 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
94381778 CACCAGAACAGATAATTTGTGGTATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
94381806 CACCAG
1 CACCAG
94381812 GGCGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 24 0.45
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:94381964 original size:28 final size:28
Alignment explanation
Indices: 94381917--94381981 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
94381907 AAATTAACCC
*
94381917 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
94381945 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
94381973 TAGGGGTAT
1 TAGGGGTAT
94381982 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:94388775 original size:40 final size:40
Alignment explanation
Indices: 94388701--94388846 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
94388691 CCGCACCAAG
* * * * * *
94388701 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
94388741 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
94388781 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
94388821 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
94388847 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:94388861 original size:40 final size:40
Alignment explanation
Indices: 94388733--94388884 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
94388723 ATCACGATTT
* * * * *
94388733 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
94388773 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
94388813 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
94388853 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
94388885 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:94396886 original size:40 final size:40
Alignment explanation
Indices: 94396812--94396957 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
94396802 CCGCACCAAG
* * * * * *
94396812 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
94396852 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
94396892 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
94396932 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
94396958 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:94396972 original size:40 final size:40
Alignment explanation
Indices: 94396844--94396995 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
94396834 ATCACGATTT
* * * * *
94396844 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
94396884 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
94396924 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
94396964 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
94396996 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:94408297 original size:33 final size:33
Alignment explanation
Indices: 94408255--94408329 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
94408245 ATTACAATAG
94408255 CCTTTTCAAATTCTACACACAAAGTGTACATAA
1 CCTTTTCAAATTCTACACACAAAGTGTACATAA
* *
94408288 CCTTTTCAAATTGTACACACAAAGTGTACGTAA
1 CCTTTTCAAATTCTACACACAAAGTGTACATAA
94408321 CCTTTTCAA
1 CCTTTTCAA
94408330 GTGTACCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAATTCTACACACAAAGTGTACATAA
Found at i:94412893 original size:6 final size:6
Alignment explanation
Indices: 94412878--94412921 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
94412868 TCCATTTGTC
* * * *
94412878 TTTATG TTTATT TTTATG TTTATT TTTCTT TTTATG TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
94412922 GTCTTTATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:94412909 original size:18 final size:18
Alignment explanation
Indices: 94412878--94412927 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
94412868 TCCATTTGTC
* *
94412878 TTTATGTTTATTTTTATG
1 TTTATTTTTCTTTTTATG
94412896 TTTATTTTTCTTTTTATG
1 TTTATTTTTCTTTTTATG
94412914 TTTATTTTGTCTTT
1 TTTATTTT-TCTTT
94412928 ATATTTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTATTTTTCTTTTTATG
Found at i:94418712 original size:2 final size:2
Alignment explanation
Indices: 94418705--94418731 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94418695 AGTCATATTC
94418705 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
94418732 AATCATAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94419276 original size:2 final size:2
Alignment explanation
Indices: 94419269--94419298 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
94419259 ATATTATAAG
94419269 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94419299 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:94420328 original size:17 final size:17
Alignment explanation
Indices: 94420302--94420336 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
94420292 AACCATAAAC
94420302 ACATAAGCTAATCATAT
1 ACATAAGCTAATCATAT
*
94420319 ACATATGCTAATCATAT
1 ACATAAGCTAATCATAT
94420336 A
1 A
94420337 ACCGAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (17 bp):
ACATAAGCTAATCATAT
Found at i:94420431 original size:11 final size:11
Alignment explanation
Indices: 94420415--94420439 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94420405 AAAGCCAAAT
94420415 ATACATATCAC
1 ATACATATCAC
94420426 ATACATATCAC
1 ATACATATCAC
94420437 ATA
1 ATA
94420440 AGATAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (11 bp):
ATACATATCAC
Found at i:94426706 original size:2 final size:2
Alignment explanation
Indices: 94426694--94426726 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
94426684 CCCGTGGTAC
*
94426694 AT AT A- AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94426727 TACAAAGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
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:94427628 original size:17 final size:17
Alignment explanation
Indices: 94427606--94427638 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94427596 AAAGATAGAT
*
94427606 AAAATACGAAAAAAATG
1 AAAATACAAAAAAAATG
94427623 AAAATACAAAAAAAAT
1 AAAATACAAAAAAAAT
94427639 CAGAAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAATACAAAAAAAATG
Found at i:94428376 original size:19 final size:19
Alignment explanation
Indices: 94428354--94428397 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
94428344 TTTTTGGGAA
94428354 TTTTATATGATTTTTA-TTT
1 TTTTATAT-ATTTTTAGTTT
* *
94428373 TTTTAGATTTTTTTAGTTT
1 TTTTATATATTTTTAGTTT
94428392 TTTTAT
1 TTTTAT
94428398 TTTTTTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (19 bp):
TTTTATATATTTTTAGTTT
Found at i:94428382 original size:10 final size:9
Alignment explanation
Indices: 94428364--94428419 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
94428354 TTTTATATGA
94428364 TTTTT-ATT
1 TTTTTAATT
94428372 TTTTTAGATT
1 TTTTTA-ATT
*
94428382 TTTTTAGTT
1 TTTTTAATT
*
94428391 TTTTTATTT
1 TTTTTAATT
94428400 TTTTTCAATT
1 TTTTT-AATT
*
94428410 TTTTAAATT
1 TTTTTAATT
94428419 T
1 T
94428420 ATTCTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 5 0.12
9 20 0.49
10 16 0.39
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (9 bp):
TTTTTAATT
Found at i:94428404 original size:9 final size:8
Alignment explanation
Indices: 94428364--94428403 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
94428354 TTTTATATGA
94428364 TTTTTATT
1 TTTTTATT
94428372 TTTTTAGATT
1 TTTTT--ATT
94428382 TTTTTAGTT
1 TTTTTA-TT
94428391 TTTTTATT
1 TTTTTATT
94428399 TTTTT
1 TTTTT
94428404 TCAATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 13 0.45
9 8 0.28
10 8 0.28
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:94428411 original size:19 final size:19
Alignment explanation
Indices: 94428364--94428413 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
94428354 TTTTATATGA
94428364 TTTTT-ATTTTTTTAGATT
1 TTTTTAATTTTTTTAGATT
* *
94428382 TTTTTAGTTTTTTTA-TTT
1 TTTTTAATTTTTTTAGATT
94428400 TTTTTCAATTTTTT
1 TTTTT-AATTTTTT
94428414 AAATTTATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTTTAATTTTTTTAGATT
Found at i:94428935 original size:2 final size:2
Alignment explanation
Indices: 94428928--94428969 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
94428918 AAGCAAGTAC
94428928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94428970 GTTAGAAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94434365 original size:39 final size:39
Alignment explanation
Indices: 94434311--94434506 Score: 304
Period size: 39 Copynumber: 5.0 Consensus size: 39
94434301 GATGTGTATG
94434311 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
94434350 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
94434389 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
94434428 ATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
94434467 ATTGTGCGAGTTGTAATA-CTCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATC-CGGGCTAAG-CCCGAAGGCA
94434507 TTTGTGCGGG
Statistics
Matches: 149, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 1 0.01
39 138 0.93
40 10 0.07
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:94434445 original size:78 final size:78
Alignment explanation
Indices: 94434311--94434545 Score: 319
Period size: 78 Copynumber: 3.0 Consensus size: 78
94434301 GATGTGTATG
* * *
94434311 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGCT
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
94434376 AAGCCCGAAGGCA
66 AAGCCCGAAGGCA
94434389 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
94434454 AAGCCCGAAGGCA
66 AAGCCCGAAGGCA
* * * * * * ** *
94434467 ATTGTGCGAGTTGTAATA-CTCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGG
1 AATGTGCGAATTGTGATATC-CGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATGATATCCGGG
*
94434531 CTATGTCCCGAAGGC
64 CTAAG-CCCGAAGGC
94434546 GTTTGAACGA
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
77 1 0.01
78 98 0.70
79 33 0.23
80 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
AAGCCCGAAGGCA
Found at i:94434539 original size:40 final size:39
Alignment explanation
Indices: 94434330--94434545 Score: 227
Period size: 39 Copynumber: 5.5 Consensus size: 39
94434320 ATTGTGATAT
* * * * *
94434330 CCGGGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATAT
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATAATAA
* * * * *
94434369 CCGGGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATAT
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATAATAA
* *
94434408 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATAT
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATAATAA
*
94434447 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTAAT-A
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATAATAA
* * * **
94434485 CTCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 C-CGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATAATAA
*
94434526 CCGGGCTATGTCCCGAAGGC
1 CCGGGCTAAG-CCCGAAGGC
94434546 GTTTGAACGA
Statistics
Matches: 160, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 118 0.74
40 39 0.24
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATAATAA
Found at i:94434572 original size:79 final size:77
Alignment explanation
Indices: 94434326--94434583 Score: 203
Period size: 78 Copynumber: 3.3 Consensus size: 77
94434316 GCGAATTGTG
* * * *** * *
94434326 ATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 ATATCC-GGTTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGCAAT
** * * *
94434391 TGTGCGAATTGTG
65 TGAACGAGTAGTA
* ** *
94434404 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATCC-GGTTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGCAAT
** *
94434469 TGTGCGAGTTGTA
65 TGAACGAGTAGTA
* * * * *
94434482 ATACTCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGCG
1 ATA-TCCGGTTAAG-CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAG-CCCGAAGGCA
*
94434547 TTTGAACGAGTAGCT-
63 ATTGAACGAGTAG-TA
*
94434562 ATATCCGGTTAAACTCCGAAGG
1 ATATCCGGTTAAGC-CCGAAGG
94434584 TATGTGATTT
Statistics
Matches: 154, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
78 82 0.53
79 50 0.32
80 21 0.14
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (77 bp):
ATATCCGGTTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGCAATT
GAACGAGTAGTA
Found at i:94443717 original size:6 final size:6
Alignment explanation
Indices: 94443701--94443731 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
94443691 CATTATCAGG
94443701 ATATCAA ATATAA ATATAA ATATAA ATATAA
1 ATAT-AA ATATAA ATATAA ATATAA ATATAA
94443732 GAATGGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:94444669 original size:41 final size:41
Alignment explanation
Indices: 94444619--94444712 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
94444609 TTTTTTGCAG
* * *
94444619 GTCTTGAGACTTAGGGGTTATGTTTTGAGACCTA-TC-CTCAT
1 GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCGC-C-T
*
94444660 GTCTCGAGACTTAGGGGTTATGTCTAGATACCTAGTCGCCT
1 GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCGCCT
94444701 GTCTCGAGACTT
1 GTCTCGAGACTT
94444713 TGGATCTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 43 0.91
42 3 0.06
43 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (41 bp):
GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCGCCT
Found at i:94447021 original size:77 final size:77
Alignment explanation
Indices: 94446894--94447052 Score: 318
Period size: 77 Copynumber: 2.1 Consensus size: 77
94446884 AATTGATTGG
94446894 TATGTGTTTGGACGTGATTTGAGGTGCTTTTGGCAAGTTTTTCGTCTCTTTGCACCTAGGTTTCG
1 TATGTGTTTGGACGTGATTTGAGGTGCTTTTGGCAAGTTTTTCGTCTCTTTGCACCTAGGTTTCG
94446959 ATACTTGAAGGC
66 ATACTTGAAGGC
94446971 TATGTGTTTGGACGTGATTTGAGGTGCTTTTGGCAAGTTTTTCGTCTCTTTGCACCTAGGTTTCG
1 TATGTGTTTGGACGTGATTTGAGGTGCTTTTGGCAAGTTTTTCGTCTCTTTGCACCTAGGTTTCG
94447036 ATACTTGAAGGC
66 ATACTTGAAGGC
94447048 TATGT
1 TATGT
94447053 ATCGGTACAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.42
Consensus pattern (77 bp):
TATGTGTTTGGACGTGATTTGAGGTGCTTTTGGCAAGTTTTTCGTCTCTTTGCACCTAGGTTTCG
ATACTTGAAGGC
Found at i:94449018 original size:44 final size:42
Alignment explanation
Indices: 94448931--94449103 Score: 145
Period size: 44 Copynumber: 4.0 Consensus size: 42
94448921 AAGCCCCATA
* * * * *
94448931 CGATTTGAGATTTACGTGTAAGACCATATTTGTGACGTTGGCAT
1 CGATTT-AGATTTACATGTAAGACCATGTCTGGGAAG-TGGCAT
* *
94448975 CGATTTGAGATTTACGTGTAAGACCATGTCTGGGAAATCGGCAT
1 CGATTT-AGATTTACATGTAAGACCATGTCTGGGAAGT-GGCAT
* *
94449019 CGTATTTA-ATTT-CATGTAAGACCCTGTTTGGGATAGTGGCAT
1 CG-ATTTAGATTTACATGTAAGACCATGTCTGGGA-AGTGGCAT
* * *
94449061 CGATATTTGA-TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGAT-TTAGATTTACATGTAAGACCATGTCTGGGAAG-TGGCAT
94449104 TGAACGAGCT
Statistics
Matches: 108, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.28
43 32 0.30
44 40 0.37
45 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
CGATTTAGATTTACATGTAAGACCATGTCTGGGAAGTGGCAT
Found at i:94449051 original size:42 final size:43
Alignment explanation
Indices: 94448969--94449094 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 43
94448959 TTTGTGACGT
* *
94448969 TGGCATCGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGA-AA
1 TGGCATCGATATTTA-A-TTACATGTAAGACCATGTCTGGGATAA
* * * *
94449012 TCGGCATCG-TATTTAATTTCATGTAAGACCCTGTTTGGGATAG
1 T-GGCATCGATATTTAATTACATGTAAGACCATGTCTGGGATAA
* *
94449055 TGGCATCGATATTTGATTACATGTAAGACCACGTCTGGGA
1 TGGCATCGATATTTAATTACATGTAAGACCATGTCTGGGA
94449095 CGTTGGCATT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 27 0.40
43 31 0.46
44 10 0.15
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATTTAATTACATGTAAGACCATGTCTGGGATAA
Found at i:94451504 original size:33 final size:33
Alignment explanation
Indices: 94451467--94451544 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
94451457 TGGCCCTGTC
*
94451467 ATGGTCTTACACTCGTAG-TGCCATAACCCAGTT
1 ATGGTCTTACACTC-AAGATGCCATAACCCAGTT
*
94451500 ATGGTCTTATC-TTCAAGATGCCATAACCCAGTT
1 ATGGTCTTA-CACTCAAGATGCCATAACCCAGTT
94451533 ATGGTCTTACAC
1 ATGGTCTTACAC
94451545 ATATATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
32 3 0.08
33 35 0.90
34 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACTCAAGATGCCATAACCCAGTT
Found at i:94452409 original size:19 final size:19
Alignment explanation
Indices: 94452387--94452423 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
94452377 AAATATCAAG
94452387 AAAAGAGCAAGAATTGAAA
1 AAAAGAGCAAGAATTGAAA
94452406 AAAAGAGCAAGAATTGAA
1 AAAAGAGCAAGAATTGAA
94452424 CTCACATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAAGAGCAAGAATTGAAA
Found at i:94464456 original size:21 final size:21
Alignment explanation
Indices: 94464430--94464513 Score: 105
Period size: 21 Copynumber: 4.0 Consensus size: 21
94464420 CGAGATTGTA
*
94464430 CCGCTATCATACGGGCGTGTG
1 CCGCTATCACACGGGCGTGTG
*
94464451 CCGCTATCACATGGGCGTGTG
1 CCGCTATCACACGGGCGTGTG
* *
94464472 CCACTATCACACGGCCGTGTG
1 CCGCTATCACACGGGCGTGTG
* * *
94464493 CCTCTATCACATGGTCGTGTG
1 CCGCTATCACACGGGCGTGTG
94464514 TTACCCTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.15, C:0.31, G:0.29, T:0.25
Consensus pattern (21 bp):
CCGCTATCACACGGGCGTGTG
Found at i:94464492 original size:42 final size:42
Alignment explanation
Indices: 94464433--94464513 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
94464423 GATTGTACCG
* *
94464433 CTATCATACGGGCGTGTGCCGCTATCACATGGGCGTGTGCCA
1 CTATCACACGGCCGTGTGCCGCTATCACATGGGCGTGTGCCA
* *
94464475 CTATCACACGGCCGTGTGCCTCTATCACATGGTCGTGTG
1 CTATCACACGGCCGTGTGCCGCTATCACATGGGCGTGTG
94464514 TTACCCTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (42 bp):
CTATCACACGGCCGTGTGCCGCTATCACATGGGCGTGTGCCA
Found at i:94473798 original size:24 final size:24
Alignment explanation
Indices: 94473771--94473816 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
94473761 AAAAGTGAAG
*
94473771 AATAAATTATGGTTAATCCATAAT
1 AATAAACTATGGTTAATCCATAAT
*
94473795 AATAAACTATGGTTAATTCATA
1 AATAAACTATGGTTAATCCATA
94473817 TTTGGCTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (24 bp):
AATAAACTATGGTTAATCCATAAT
Found at i:94482113 original size:26 final size:26
Alignment explanation
Indices: 94482081--94482132 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
94482071 TGAATAAGTT
94482081 AAATTTGAATTTATTTAGATCAAGAA
1 AAATTTGAATTTATTTAGATCAAGAA
94482107 AAATTTGAATTTATTTAGATCAAGAA
1 AAATTTGAATTTATTTAGATCAAGAA
94482133 TTAAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (26 bp):
AAATTTGAATTTATTTAGATCAAGAA
Found at i:94485285 original size:40 final size:40
Alignment explanation
Indices: 94485239--94485421 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
94485229 CTCGCACAAG
* *
94485239 GCCTTCGGGTCTTAGCCCAGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* * *
94485279 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* * *
94485319 GCCGTCGGGTCTTAGCCCGGATATAG-CAACTCGCA-CAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAAT
* * *
94485358 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
*
94485398 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
94485422 CATCGAATAA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 33 0.27
40 88 0.73
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
Found at i:94485359 original size:79 final size:79
Alignment explanation
Indices: 94485203--94485421 Score: 248
Period size: 79 Copynumber: 2.8 Consensus size: 79
94485193 ACCCAAGTAT
* ** * * * *
94485203 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCAGATATGGTC
1 CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTC
94485267 ACTAGCATAAATGC
66 ACTAGCATAAATGC
* * *
94485281 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCGTCGGGTCTTAGCCCGGATATAG-
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
* *
94485345 CAACTCGCA-CAATGC
65 C-ACTAGCATAAATGC
* *
94485360 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
94485422 CATCGAATAA
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 15 0.12
79 74 0.62
80 31 0.26
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTC
ACTAGCATAAATGC
Found at i:94493441 original size:39 final size:38
Alignment explanation
Indices: 94493373--94493512 Score: 124
Period size: 40 Copynumber: 3.6 Consensus size: 38
94493363 ACCCAAGTAT
*
94493373 CTTCGGGAT-TTAG-CCGGATATAACCACTCGTACAAGGC
1 CTTCGGG-TCTTAGCCCGGATAT-AGCACTCGTACAAGGC
* *
94493411 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAGTAC
1 CTTCGGGTCTTAGCCCGGATATAGC-ACTCGTACAAG-GC
* * * *
94493451 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATA-AAAGC
1 CTTCGGGTCTTAGCCCGGATATAG-CACT--CGTACAAGGC
*
94493491 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
94493513 CATTCGAATA
Statistics
Matches: 83, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
37 1 0.01
38 13 0.16
39 18 0.22
40 46 0.55
41 3 0.04
42 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (38 bp):
CTTCGGGTCTTAGCCCGGATATAGCACTCGTACAAGGC
Found at i:94493469 original size:40 final size:39
Alignment explanation
Indices: 94493366--94493474 Score: 123
Period size: 39 Copynumber: 2.8 Consensus size: 39
94493356 TTCCCAAACC
* * * *
94493366 CAAGTATCTTCGGGAT-TTAGCCGGATATAACCACTCGTA
1 CAAGTACCTTC-GGATCTTAGCCGGATATAGCAACTCGCA
* *
94493405 CAAG-GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCA
1 CAAGTACCTTCGGATCTTAG-CCGGATATAGCAACTCGCA
94493444 CAAGTACCTTCGGATCTTAGTCCGGATATAG
1 CAAGTACCTTCGGATCTTAG-CCGGATATAG
94493475 TCACTAGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 3 0.05
38 8 0.14
39 24 0.41
40 23 0.40
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAGTACCTTCGGATCTTAGCCGGATATAGCAACTCGCA
Found at i:94496310 original size:59 final size:59
Alignment explanation
Indices: 94496188--94496337 Score: 166
Period size: 59 Copynumber: 2.5 Consensus size: 59
94496178 AATATAATGA
* * * *
94496188 ACTAACTTGGA-AAAAAAAGTTCAAGCCTTAATGTGAGAATAATTTCTAAGTTCAAGGGT
1 ACTAACTTGGACAAAAAAAGTT-AAGCCTTAGTGTGAGAATAATTACCAAGTTCAAGGAT
*
94496247 --TAACTTGGACCAAAAAAAGCTTAAGCCTTAGTGTGAGAATAATTACCAAGTT-TA-GAT
1 ACTAACTTGGA-CAAAAAAAG-TTAAGCCTTAGTGTGAGAATAATTACCAAGTTCAAGGAT
*
94496304 ACTAACTTGGACTAAAAAAAAGTTAAGCTTTAGT
1 ACTAACTTGGAC--AAAAAAAGTTAAGCCTTAGT
94496338 ATAGGAACAC
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
57 11 0.14
58 2 0.03
59 55 0.71
60 10 0.13
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (59 bp):
ACTAACTTGGACAAAAAAAGTTAAGCCTTAGTGTGAGAATAATTACCAAGTTCAAGGAT
Found at i:94496494 original size:58 final size:59
Alignment explanation
Indices: 94496420--94496585 Score: 194
Period size: 59 Copynumber: 2.8 Consensus size: 59
94496410 TTTATGTCAC
* * * *
94496420 CAATGTGAAAACAATTGTCCCGTTCAAGGACTAACTTTAAT-AAAAAAAA-TTCCAAGCT
1 CAATGTGAGAATAATTGTCCAGTTCAAGGACTAACTTGAATAAAAAAAAAGTT-CAAGCT
* * * *
94496478 CAGTGTGAGAATAATTG-CCAAGTTTAGGGACTAACTTGGATAAAAAAAAAGTTCAAGCT
1 CAATGTGAGAATAATTGTCC-AGTTCAAGGACTAACTTGAATAAAAAAAAAGTTCAAGCT
* *
94496537 CAATGTGAGAATAATTGTCTAGTTCAAGGACTAACTTGGACTAAAAAAA
1 CAATGTGAGAATAATTGTCCAGTTCAAGGACTAACTT-GAATAAAAAAA
94496586 GTTAAGCCTT
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
57 2 0.02
58 30 0.34
59 45 0.51
60 12 0.13
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (59 bp):
CAATGTGAGAATAATTGTCCAGTTCAAGGACTAACTTGAATAAAAAAAAAGTTCAAGCT
Found at i:94496548 original size:59 final size:58
Alignment explanation
Indices: 94496447--94496622 Score: 196
Period size: 59 Copynumber: 3.0 Consensus size: 58
94496437 TCCCGTTCAA
** *
94496447 GGACTAACTTTAATAAAAAAAA-TTCCAAGCTCAGTGTGAGAATAATTGCCAAGTTTAG
1 GGACTAACTTGGATAAAAAAAAGTT-CAAGCTCAATGTGAGAATAATTGCCAAGTTTAG
* * * *
94496505 GGACTAACTTGGATAAAAAAAAAGTTCAAGCTCAATGTGAGAATAATTGTCTAGTTCAA
1 GGACTAACTTGGAT-AAAAAAAAGTTCAAGCTCAATGTGAGAATAATTGCCAAGTTTAG
* * * *
94496564 GGACTAACTTGGACT-AAAAAAAGTT-AAGCCTTAATATGAGAACACTTGCCAAGTTTAG
1 GGACTAACTTGGA-TAAAAAAAAGTTCAAG-CTCAATGTGAGAATAATTGCCAAGTTTAG
94496622 G
1 G
94496623 CCCAAAATAG
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
57 3 0.03
58 44 0.44
59 49 0.49
60 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (58 bp):
GGACTAACTTGGATAAAAAAAAGTTCAAGCTCAATGTGAGAATAATTGCCAAGTTTAG
Found at i:94497092 original size:34 final size:34
Alignment explanation
Indices: 94497054--94497118 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
94497044 CTTGTATAGT
* *
94497054 TATTACCAATTATTGAATGCGTTATATGTATAAC
1 TATTACCAATTATTGAATACATTATATGTATAAC
* *
94497088 TATTATCAATTGTTGAATACATTATATGTAT
1 TATTACCAATTATTGAATACATTATATGTAT
94497119 GTTATAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (34 bp):
TATTACCAATTATTGAATACATTATATGTATAAC
Found at i:94497927 original size:39 final size:39
Alignment explanation
Indices: 94497877--94497971 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 39
94497867 AATTTATTTT
*
94497877 AGGAGTAGTTTTCTATATTATAGGAGGTAGAGGGCAAAC
1 AGGAGTAGTTTTCTATATTATAGGAAGTAGAGGGCAAAC
* *
94497916 AGGATTAGTTTTCTATATTATAGGAAGTAGAGGGCAAAT
1 AGGAGTAGTTTTCTATATTATAGGAAGTAGAGGGCAAAC
*
94497955 ATGAGTAGTTTTACTAT
1 AGGAGTAGTTTT-CTAT
94497972 TTTGATTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 46 0.92
40 4 0.08
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (39 bp):
AGGAGTAGTTTTCTATATTATAGGAAGTAGAGGGCAAAC
Found at i:94508503 original size:39 final size:39
Alignment explanation
Indices: 94508458--94508550 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
94508448 CTTATTTTAA
* * *
94508458 GAGTAGTTTTCTATATTATAGGAAGTAGATGGTGTATAG
1 GAGTAGTTTTCTATATTATAGGAAGTAAAGGGTGAATAG
94508497 GAGTAGTTTTCTATATTATAGGAAGTAAAGGGTGAATAG
1 GAGTAGTTTTCTATATTATAGGAAGTAAAGGGTGAATAG
*
94508536 GACTAGTTTTACTAT
1 GAGTAGTTTT-CTAT
94508551 TTTGATTCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 45 0.92
40 4 0.08
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (39 bp):
GAGTAGTTTTCTATATTATAGGAAGTAAAGGGTGAATAG
Found at i:94512066 original size:28 final size:27
Alignment explanation
Indices: 94512010--94512064 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
94512000 AAACTCTAAC
* * *
94512010 ATTTCAATCATTACACTAACATATAAT
1 ATTTCAATAATCACAATAACATATAAT
*
94512037 ATTTCAATAATCACAATAA-ACATAAT
1 ATTTCAATAATCACAATAACATATAAT
94512063 AT
1 AT
94512065 ATAACATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTTCAATAATCACAATAACATATAAT
Found at i:94514704 original size:31 final size:31
Alignment explanation
Indices: 94514660--94514728 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
94514650 GGATCCCGAA
*
94514660 AAATTTAACTACTAACTTAAGAAAAAATATC
1 AAATTTAACTACTAAATTAAGAAAAAATATC
* *
94514691 AAATTTCAA-TACTAAATTAAGAAAAAGTCTC
1 AAATTT-AACTACTAAATTAAGAAAAAATATC
94514722 AAATTTA
1 AAATTTA
94514729 GGAACCAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 1 0.03
31 31 0.91
32 2 0.06
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (31 bp):
AAATTTAACTACTAAATTAAGAAAAAATATC
Found at i:94515761 original size:2 final size:2
Alignment explanation
Indices: 94515754--94515802 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
94515744 AAGAATTGTT
94515754 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94515796 TA TA TA T
1 TA TA TA T
94515803 GGATTGACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:94516512 original size:2 final size:2
Alignment explanation
Indices: 94516505--94516550 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
94516495 AAACCATCCC
94516505 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
94516547 CT CT
1 CT CT
94516551 TTAATAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:94517783 original size:2 final size:2
Alignment explanation
Indices: 94517776--94517823 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
94517766 GAGTGTAAAT
94517776 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
94517818 GA GA GA
1 GA GA GA
94517824 CTTGGCTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:94522690 original size:24 final size:25
Alignment explanation
Indices: 94522656--94522703 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
94522646 GGTACTTAAC
*
94522656 ATTTATATTTTTTA-TAAATTTGAA
1 ATTTATATTTTTAACTAAATTTGAA
*
94522680 ATTTATTTTTTTAACTAAATTTGA
1 ATTTATATTTTTAACTAAATTTGA
94522704 CCCTAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
ATTTATATTTTTAACTAAATTTGAA
Found at i:94522698 original size:25 final size:24
Alignment explanation
Indices: 94522656--94522703 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
94522646 GGTACTTAAC
94522656 ATTTATATTTTTTATAAATTTGAA
1 ATTTATATTTTTTATAAATTTGAA
94522680 ATTTAT-TTTTTTAACTAAATTTGA
1 ATTTATATTTTTT-A-TAAATTTGA
94522704 CCCTAAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.27
24 7 0.32
25 9 0.41
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTATATTTTTTATAAATTTGAA
Done.