Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 163 of 320
Found at i:53695353 original size:28 final size:27
Alignment explanation
Indices: 53695267--53695356 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
53695257 GTGACAGAGT
*
53695267 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
53695296 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
53695323 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
53695351 CACCAG
1 CACCAG
53695357 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:53695507 original size:27 final size:28
Alignment explanation
Indices: 53695461--53695524 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
53695451 AAATTAACCC
*
53695461 TAGGGGTATAAAGGTCATTTT-CACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
** *
53695488 TAGGGGTATAGTGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
53695516 TAGGGGTAT
1 TAGGGGTAT
53695525 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:53695532 original size:28 final size:27
Alignment explanation
Indices: 53695477--53695532 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
53695467 TATAAAGGTC
* *
53695477 ATTTTCACACATAGGGGTATAGTGGTA
1 ATTTTCACACATAGGGGTATACTAGTA
* *
53695504 ATTTTGCATACATAGGGGTATTCTAGTA
1 ATTTT-CACACATAGGGGTATACTAGTA
53695532 A
1 A
53695533 ATCTAACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTTCACACATAGGGGTATACTAGTA
Found at i:53696605 original size:12 final size:13
Alignment explanation
Indices: 53696586--53696618 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
53696576 GGGTTTGGCT
53696586 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
53696599 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
53696611 ATGGAGAA
1 ATGGAGAA
53696619 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:53700921 original size:22 final size:22
Alignment explanation
Indices: 53700878--53700921 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
53700868 TCACTAATTC
* *
53700878 ATCATAATATCATCCATTTCAT
1 ATCATAAAATCATCCATATCAT
53700900 ATCATAAAACTCAT-CATATCAT
1 ATCATAAAA-TCATCCATATCAT
53700922 CATCTCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (22 bp):
ATCATAAAATCATCCATATCAT
Found at i:53704887 original size:48 final size:48
Alignment explanation
Indices: 53704821--53704964 Score: 207
Period size: 48 Copynumber: 3.0 Consensus size: 48
53704811 ATGCTGAATA
**
53704821 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
* * **
53704869 TGCCTGTGTAAGACCATGTCTGGAACATGGCGTCGGTGATGATATGCG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
* * *
53704917 TGCCAGTGTAAGACCATGTCTTGGATATGGCATCGGTGATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
53704965 GATTCATATA
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
Found at i:53704977 original size:48 final size:48
Alignment explanation
Indices: 53704827--53704997 Score: 145
Period size: 48 Copynumber: 3.6 Consensus size: 48
53704817 AATATGCCTG
* ** * * *
53704827 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTG-CCTG
1 TGTAAGACCATGTCTTGGACATGGCATCGGTGATGATATATGCGTTC-A
* *
53704875 TGTAAGACCATGTC-TGGAACATGGCGTCGGTGATG--ATATGCGTGCCA
1 TGTAAGACCATGTCTTGG-ACATGGCATCGGTGATGATATATGCGT-TCA
*
53704922 GTGTAAGACCATGTCTTGGATATGGCATCGGTGATGATATATG-GATTCA
1 -TGTAAGACCATGTCTTGGACATGGCATCGGTGATGATATATGCG-TTCA
* * **
53704971 TATAAGACCCTGTCGAGGACATGGCAT
1 TGTAAGACCATGTCTTGGACATGGCAT
53704998 TGGTACTTTA
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
46 6 0.06
47 2 0.02
48 81 0.80
49 6 0.06
50 6 0.06
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTTGGACATGGCATCGGTGATGATATATGCGTTCA
Found at i:53711805 original size:38 final size:38
Alignment explanation
Indices: 53711754--53711972 Score: 350
Period size: 38 Copynumber: 5.8 Consensus size: 38
53711744 CCTAAAGACT
53711754 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
53711792 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
*
53711830 TGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
*
53711868 CGCAGGCTTCGTGCT-GTAATATATCTGGGTTAAATCC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
*
53711905 CGCAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
* * * * * *
53711943 CACGGGCCTAGTGCTGGTATTATATTCGGG
1 CGCAGGCTTCGTGCTGGTAATATATCCGGG
53711973 CCTTCGTGCC
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
37 36 0.21
38 134 0.79
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (38 bp):
CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
Found at i:53711843 original size:76 final size:76
Alignment explanation
Indices: 53711754--53711972 Score: 350
Period size: 75 Copynumber: 2.9 Consensus size: 76
53711744 CCTAAAGACT
53711754 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
53711819 GGGTTAAATCC
66 GGGTTAAATCC
* *
53711830 TGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATATATCT
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
53711894 GGGTTAAATCC
66 GGGTTAAATCC
* * * * * * *
53711905 CGCAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCCCACGGGCCTAGTGCTGGTATTATATTC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
53711970 GGG
66 GGG
53711973 CCTTCGTGCC
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
75 68 0.52
76 63 0.48
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (76 bp):
CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
GGGTTAAATCC
Found at i:53711957 original size:113 final size:114
Alignment explanation
Indices: 53711754--53711972 Score: 350
Period size: 113 Copynumber: 1.9 Consensus size: 114
53711744 CCTAAAGACT
53711754 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
** * *
53711819 GGGTTAAATCCTGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
66 GGGTTAAATCCCACAGGCCTAGTGCTGGTAATATATCCGGGTTAAATCC
* *
53711868 CGCAGGCTTCGTGCT-GTAATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCT
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
* * *
53711932 GGGTTAAATCCCACGGGCCTAGTGCTGGTATTATATTCGGG
66 GGGTTAAATCCCACAGGCCTAGTGCTGGTAATATATCCGGG
53711973 CCTTCGTGCC
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
113 81 0.84
114 15 0.16
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (114 bp):
CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
GGGTTAAATCCCACAGGCCTAGTGCTGGTAATATATCCGGGTTAAATCC
Found at i:53712047 original size:42 final size:43
Alignment explanation
Indices: 53711965--53712116 Score: 220
Period size: 43 Copynumber: 3.6 Consensus size: 43
53711955 GCTGGTATTA
*
53711965 TATTCGGGCCTTCGTGCCTAGA-AGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTA-ACAGGCTTCGTGCCGATGATGTG
* *
53712008 TATTCGGGTCTTCGTG-CTAACAGGCTTCGTACCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGATGATGTG
* *
53712050 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCC-AGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGA-TGATGTG
53712093 TATTCGGGCCTTCGTGCCTAACAG
1 TATTCGGGCCTTCGTGCCTAACAG
53712117 ACGTAATGCC
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 38 0.39
43 58 0.60
ACGTcount: A:0.14, C:0.24, G:0.30, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGATGATGTG
Found at i:53713487 original size:48 final size:48
Alignment explanation
Indices: 53713392--53713495 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
53713382 TGTGCTAAGC
* * **
53713392 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTTCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
**
53713440 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGT
*
53713488 ATAAGACC
1 GTAAGACC
53713496 ATAGTTGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.17
48 39 0.83
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
Found at i:53717032 original size:38 final size:38
Alignment explanation
Indices: 53716981--53717201 Score: 327
Period size: 38 Copynumber: 5.8 Consensus size: 38
53716971 GGCCTAAAGA
*
53716981 CCCGCAGGCTTCGTGCTGGTAATATATCGGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
53717019 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTCAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* *
53717057 CTCGCAGGCTTCGTGCTGGTAATATATCCGGGTTCAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
53717095 CCCGCAGGCTTTGTGCT-GTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* *
53717132 CCCGTAGGCTTCGTGCTGGTAATATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * * *
53717170 CCCGCGGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG
53717202 CCTTTGTGCC
Statistics
Matches: 166, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
37 34 0.20
38 132 0.80
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:53717132 original size:113 final size:114
Alignment explanation
Indices: 53716981--53717201 Score: 336
Period size: 113 Copynumber: 1.9 Consensus size: 114
53716971 GGCCTAAAGA
*
53716981 CCCGCAGGCTTCGTGCTGGTAATATATCGGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
* * * *
53717046 CCGGGTTCAATCTCGCAGGCTTCGTGCTGGTAATATATCCGGGTTCAAT
66 CCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATATCCGGGTTCAAT
* *
53717095 CCCGCAGGCTTTGTGCT-GTAATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
* * * *
53717159 CTGGGTTAAATCCCGCGGGCCTAGTGCTGGTATTATATTCGGG
66 CCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATATCCGGG
53717202 CCTTTGTGCC
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 80 0.83
114 16 0.17
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.31
Consensus pattern (114 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
CCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATATCCGGGTTCAAT
Found at i:53717165 original size:75 final size:76
Alignment explanation
Indices: 53716981--53717201 Score: 327
Period size: 75 Copynumber: 2.9 Consensus size: 76
53716971 GGCCTAAAGA
* *
53716981 CCCGCAGGCTTCGTGCTGGTAATATATCGGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATAT
*
53717046 CCGGGTTCAAT
66 CCGGGTTAAAT
* * *
53717057 CTCGCAGGCTTCGTGCTGGTAATATATCCGGGTTCAATCCCGCAGGCTTTGTGCT-GTAATATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATAT
53717121 CCGGGTTAAAT
66 CCGGGTTAAAT
* * * * *
53717132 CCCGTAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCCCGCGGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATAT
*
53717197 TCGGG
66 CCGGG
53717202 CCTTTGTGCC
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
75 67 0.52
76 63 0.48
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.31
Consensus pattern (76 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATAT
CCGGGTTAAAT
Found at i:53718913 original size:37 final size:38
Alignment explanation
Indices: 53718843--53718987 Score: 220
Period size: 38 Copynumber: 3.8 Consensus size: 38
53718833 GACCTAAAGA
*
53718843 CCCGCAGGCTTCGTGCTGGTAATATATCGGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
53718881 CCCGCAGGCTTCGTGCT-ATAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
53718918 CCCGCAGGCTTCGTGCTGGTAATATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * *
53718956 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG
53718988 CCTTCGTGCC
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 35 0.36
38 62 0.64
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:53719041 original size:43 final size:43
Alignment explanation
Indices: 53718980--53719134 Score: 265
Period size: 43 Copynumber: 3.6 Consensus size: 43
53718970 GCTGGTATTA
*
53718980 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
53719023 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
53719066 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
53719109 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
53719135 GTAATGCCGG
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:53723504 original size:48 final size:48
Alignment explanation
Indices: 53723433--53723768 Score: 476
Period size: 48 Copynumber: 7.0 Consensus size: 48
53723423 ACCGTGCTGA
53723433 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
53723481 ATGTGTCTGTGTAAGACCATGTCTGGGACATGACAACGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * ** *
53723529 ATGTGCTTGTGTAAGACCATGTCTAGGACATGGCATTAGAGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
53723577 ATGTTCTTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGGTAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
53723625 ATGTGCCTGTTTAAGACCATGTTTGGGATATGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
*
53723673 ATGGGCCTGTGTAAGACCATGTCT-GGAGCATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGA-CATGGCATCGGCGATGATAT
* * *
53723721 ATGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
53723769 GTGGATTCAT
Statistics
Matches: 253, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
47 3 0.01
48 247 0.98
49 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:53729981 original size:23 final size:24
Alignment explanation
Indices: 53729906--53729987 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
53729896 AGGAAGTGCA
53729906 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGC-TTTGCCCCAGTTTATT
* *
53729931 AAAAGGGTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATT
* *
53729955 AAAAGGGCATTGCCCTAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATT
53729978 AAAAGAGGCT
1 AAAAG-GGCT
53729988 AGGCCTCCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 9 0.18
24 33 0.67
25 7 0.14
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATT
Found at i:53733392 original size:37 final size:37
Alignment explanation
Indices: 53733342--53733420 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
53733332 TTATTACGAA
* *
53733342 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
53733379 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
53733416 GTCTT
1 GTCTT
53733421 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:53733617 original size:47 final size:47
Alignment explanation
Indices: 53733539--53733889 Score: 549
Period size: 47 Copynumber: 7.5 Consensus size: 47
53733529 CCCTTCGGGA
** * * * * * *
53733539 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
53733586 CCTGTCACAAATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53733633 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53733680 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53733727 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53733774 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
53733821 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53733868 CTTATCACATATATACACTTTC
1 CTTATCACACATATACACTTTC
53733890 TTGGCTGAAT
Statistics
Matches: 286, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 286 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53736374 original size:27 final size:27
Alignment explanation
Indices: 53736344--53736521 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
53736334 ATATTGAGCC
* *
53736344 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
53736371 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
53736398 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
53736426 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
53736453 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
53736480 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
53736507 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53736522 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:53736483 original size:82 final size:81
Alignment explanation
Indices: 53736365--53736520 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
53736355 TGCTATATAA
* * *
53736365 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
53736430 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53736447 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
53736511 CACTTAGTGC
65 CACTTAGTGC
53736521 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53748038 original size:20 final size:20
Alignment explanation
Indices: 53748013--53748059 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
53748003 GATTTGATAT
53748013 ACATGAT-TGATATGATATGC
1 ACATGATAT-ATATGATATGC
53748033 ACATGATATATATGATATGC
1 ACATGATATATATGATATGC
53748053 ACATGAT
1 ACATGAT
53748060 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (20 bp):
ACATGATATATATGATATGC
Found at i:53748145 original size:26 final size:25
Alignment explanation
Indices: 53748109--53748211 Score: 140
Period size: 26 Copynumber: 4.1 Consensus size: 25
53748099 GAGGAAGTGC
53748109 AAAAGGG-TTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
53748133 GAAAAGGGCTTATGCCCCAGTTTATTT
1 -AAAAGGGCTTATGCCCCAGTTTA-TT
*
53748160 AAAAGGGCTTATGCCCCAGTTTACCT
1 AAAAGGGCTTATGCCCCAGTTTA-TT
*
53748186 AAAAGGGCTT-TGCCCC-GGTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
53748209 AAA
1 AAA
53748212 GAGGCTAGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 4 0.06
24 4 0.06
25 13 0.18
26 49 0.68
27 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTTATT
Found at i:53758335 original size:42 final size:43
Alignment explanation
Indices: 53758201--53758338 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 43
53758191 TATGTGTTAT
* * * *
53758201 CGTGTAAGACCACGTCTGGGA-TGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCATGTCTGGGACAG-TGGCATCGATATATGA-TTA
* * *
53758245 CGTGTAAGACCATGTCTGGGACATTGACATCG-TATATGATTT
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
* * *
53758287 TGTGTAAGTCCCTGTCTGGGACAGTGGCATCGATAT-TGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
*
53758329 CATGTAAGAC
1 CGTGTAAGAC
53758339 AACTTCTGAG
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 41 0.54
43 8 0.11
44 27 0.36
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTA
Found at i:53765022 original size:42 final size:42
Alignment explanation
Indices: 53764963--53765051 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
53764953 TCCTAATTGG
53764963 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
53765005 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
53765047 TAAAA
1 GAAAA
53765052 ATATTCCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:53765072 original size:43 final size:42
Alignment explanation
Indices: 53764964--53765073 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
53764954 CCTAATTGGG
* * * *
53764964 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAG
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
* * * *
53765006 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAA-A
53765049 AAAATA-TT-CCTAGAATATGAATAAA
1 AAAATAGTTCCCT-GAATAT-AATAAA
53765074 ACTTATCTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 45 0.75
43 12 0.20
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
Found at i:53769735 original size:42 final size:42
Alignment explanation
Indices: 53769676--53769761 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 42
53769666 TAATTGGGAC
53769676 AATAGTTCTCTTATTCTAATAAACTACTAAAAC-ATAAAAGAA
1 AATAGTTCTCTTATTCTAATAAACTACT-AAACGATAAAAGAA
*
53769718 AATAGTTCTCTTATTCTAATAAACTACTAAACGATAAAATAA
1 AATAGTTCTCTTATTCTAATAAACTACTAAACGATAAAAGAA
53769760 AA
1 AA
53769762 ATATTCCTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
41 4 0.10
42 38 0.90
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (42 bp):
AATAGTTCTCTTATTCTAATAAACTACTAAACGATAAAAGAA
Found at i:53769808 original size:19 final size:18
Alignment explanation
Indices: 53769786--53769825 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
53769776 TGAATAAAAC
53769786 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
53769805 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
53769823 TTA
1 TTA
53769826 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:53771391 original size:42 final size:42
Alignment explanation
Indices: 53771285--53771548 Score: 383
Period size: 42 Copynumber: 6.4 Consensus size: 42
53771275 GTGATATTCG
* **
53771285 GGCTTTATTGCCTAGCATGCTTTATGCTGGTGTATTATATCG
1 GGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATTA
53771327 GGC-TTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATTA
1 GGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATTA
* **
53771368 GGCTTCATTGCCTAGCAGGCTTTATGCTGGTGTATTATATCG
1 GGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATTA
*
53771410 GGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATTG
1 GGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATTA
*
53771452 GGCTTTATTGCCTAGCAGGCTTTATACTGGTGTATTATATTA
1 GGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATTA
* * *
53771494 GGC-CTATTGCCTAGCAGG-TTCTGTGCTGGTGTATTATACTA
1 GGCTTTATTGCCTAGCAGGCTT-TATGCTGGTGTATTATATTA
*
53771535 GGCTTT-TCGCCTAG
1 GGCTTTATTGCCTAG
53771549 TAAATTTTAT
Statistics
Matches: 203, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
40 2 0.01
41 79 0.39
42 122 0.60
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (42 bp):
GGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATTA
Found at i:53771504 original size:125 final size:125
Alignment explanation
Indices: 53771282--53771531 Score: 423
Period size: 125 Copynumber: 2.0 Consensus size: 125
53771272 TCGGTGATAT
*
53771282 TCGGGCTTTATTGCCTAGCATGCTTTATGCTGGTGTATTATATCGGGCTTATTGCCTAGCAGGCT
1 TCGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATCGGGCTTATTGCCTAGCAGGCT
* *
53771347 TTATGCTGGTGTATTATATTAGGCTTCATTGCCTAGCAGGCTT-TATGCTGGTGTATTATA
66 TTATACTGGTGTATTATATTAGGCCTCATTGCCTAGCAGG-TTCTATGCTGGTGTATTATA
*
53771407 TCGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATTGGGCTTTATTGCCTAGCAGGC
1 TCGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATCGGGC-TTATTGCCTAGCAGGC
*
53771472 TTTATACTGGTGTATTATATTAGGCCT-ATTGCCTAGCAGGTTCTGTGCTGGTGTATTATA
65 TTTATACTGGTGTATTATATTAGGCCTCATTGCCTAGCAGGTTCTATGCTGGTGTATTATA
53771532 CTAGGCTTTT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
124 2 0.02
125 75 0.64
126 41 0.35
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (125 bp):
TCGGGCTTTATTGCCTAGCAGGCTTTATGCTGGTGTATTATATCGGGCTTATTGCCTAGCAGGCT
TTATACTGGTGTATTATATTAGGCCTCATTGCCTAGCAGGTTCTATGCTGGTGTATTATA
Found at i:53775942 original size:27 final size:27
Alignment explanation
Indices: 53775912--53776089 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
53775902 ATATTGAGTC
* * * *
53775912 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
53775939 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53775966 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53775994 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53776021 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53776048 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53776075 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53776090 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53776051 original size:82 final size:81
Alignment explanation
Indices: 53775933--53776088 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
53775923 TGCTATATAA
*
53775933 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53775998 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53776015 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53776079 CACTTAGTGC
65 CACTTAGTGC
53776089 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53782206 original size:24 final size:24
Alignment explanation
Indices: 53782035--53782194 Score: 257
Period size: 24 Copynumber: 6.7 Consensus size: 24
53782025 GATTCAACTC
* * *
53782035 CGCACACATAGTGCCAAATAACTA
1 CGCACACATAGTGCCATACAAATA
*
53782059 CGCACACATAGTGCCATACATATA
1 CGCACACATAGTGCCATACAAATA
*
53782083 TGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
53782107 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
53782131 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
* *
53782155 CGCACACATAGTGTCATACAATTA
1 CGCACACATAGTGCCATACAAATA
53782179 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
53782195 CTCAAATCCG
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 126 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.19
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:53789752 original size:28 final size:28
Alignment explanation
Indices: 53789720--53789784 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
53789710 ATTTACTAGA
*
53789720 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
53789748 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
53789776 ATACCCCTA
1 ATACCCCTA
53789785 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:53789931 original size:28 final size:29
Alignment explanation
Indices: 53789890--53789952 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
53789880 AGGAAGTGTC
*
53789890 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
53789918 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
53789947 CTGGTG
1 CTGGTG
53789953 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:53789963 original size:29 final size:28
Alignment explanation
Indices: 53789900--53789963 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
53789890 CTGGTGGCTA
* *
53789900 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
53789928 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
53789957 TGTCACA
1 TGCCACA
53789964 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:53792775 original size:24 final size:24
Alignment explanation
Indices: 53792604--53792763 Score: 239
Period size: 24 Copynumber: 6.7 Consensus size: 24
53792594 GATTCAACTC
* * *
53792604 CGCACACATAGTGCCAAATAATTA
1 CGCACACATAGTGCCATACAAATA
* *
53792628 CGCACGCATAGTGCCATACATATA
1 CGCACACATAGTGCCATACAAATA
*
53792652 CGAACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
*
53792676 CACACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
*
53792700 CACACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
*
53792724 CGCACACATAGTGCCATACAATTA
1 CGCACACATAGTGCCATACAAATA
53792748 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
53792764 CTCAAATCCG
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 124 1.00
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:53809927 original size:16 final size:16
Alignment explanation
Indices: 53809908--53809939 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
53809898 ATTGTAACGC
53809908 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
*
53809924 CCCAAAAATCCTAAAA
1 CCCAAAAATCCCAAAA
53809940 TCTTGAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:53812356 original size:38 final size:38
Alignment explanation
Indices: 53812305--53812547 Score: 200
Period size: 38 Copynumber: 5.9 Consensus size: 38
53812295 ATAAAAAAAT
*
53812305 GTGGTGCTAAGTGGATATACCATTGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
*
53812343 GTGGTGCTAAGTGGATATGCCATGGTTACATTTATTGATTCAT-TAAC
1 GTGGTGCTAAGTGGATATACCATGGTT--A---A---A--CATGTAAC
* *
53812390 GTGGTGCTGAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
** * *
53812428 GTGGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCATGGTTA-A-ACA-TG------TAAC
53812475 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
* * * *
53812513 GTGGTGCTGAGTGGATATGCCACGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGT
53812548 TAATTTGAAA
Statistics
Matches: 168, Mismatches: 17, Indels: 40
0.75 0.08 0.18
Matches are distributed among these distances:
37 3 0.02
38 89 0.53
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 57 0.34
48 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAAC
Found at i:53812417 original size:47 final size:46
Alignment explanation
Indices: 53812339--53812502 Score: 184
Period size: 47 Copynumber: 3.7 Consensus size: 46
53812329 GTTAAACATG
* *
53812339 TAACGTGGTGCTAAGTGGATATGCCATGGTTACATTTATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACA-TTATTGATTCAT
*
53812386 TAACGTGGTGCTGAGTGGATATACCACGGTT--A--A---A--CAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATTATTGATTCAT
**
53812423 GTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACAT-TATTGATTCAT
*
53812471 TAACGTGGTGCTAAGTGGATATACCATGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
53812503 AACATGTAAC
Statistics
Matches: 97, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
37 3 0.03
38 28 0.29
39 1 0.01
40 1 0.01
42 1 0.01
43 1 0.01
45 1 0.01
46 1 0.01
47 57 0.59
48 3 0.03
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (46 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATTATTGATTCAT
Found at i:53812455 original size:85 final size:85
Alignment explanation
Indices: 53812305--53812540 Score: 409
Period size: 85 Copynumber: 2.8 Consensus size: 85
53812295 ATAAAAAAAT
* *
53812305 GTGGTGCTAAGTGGATATACCATTGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCATGGTT
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTT
*
53812370 ACATTTATTGATTCATTAAC
66 ACATATATTGATTCATTAAC
* * *
53812390 GTGGTGCTGAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGTCACGGTT
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTT
53812455 ACATATATTGATTCATTAAC
66 ACATATATTGATTCATTAAC
*
53812475 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTGAGTGGATATGCCACGGTT
1 GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTT
53812540 A
66 A
53812541 TACATGTTAA
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 141 1.00
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (85 bp):
GTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTT
ACATATATTGATTCATTAAC
Found at i:53814767 original size:29 final size:29
Alignment explanation
Indices: 53814725--53814842 Score: 125
Period size: 29 Copynumber: 4.1 Consensus size: 29
53814715 GAGAGCATGA
*
53814725 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
*
53814753 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* * * *
53814782 ATATGAATGTGAATTGGGTCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* * *
53814811 ATATAAATGAGA-TTGGGCC-AAGTGGGTC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
53814839 ATAT
1 ATAT
53814843 GCATGTATGT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
27 2 0.03
28 19 0.25
29 56 0.73
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:53817538 original size:29 final size:28
Alignment explanation
Indices: 53817491--53817574 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
53817481 GCATGACTAT
*
53817491 GAATGTGATTGGGCCTAATGGGTCATAA
1 GAATGTGATTGGGCCTAATGGGCCATAA
* *
53817519 GAATGTGATTTGGGCTTAATGGGCCATAT
1 GAATGTGA-TTGGGCCTAATGGGCCATAA
* *
53817548 GAAAGAT-ATTGGGCCTAGTGGGCCATA
1 GAATG-TGATTGGGCCTAATGGGCCATA
53817575 TGCATGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 25 0.52
29 22 0.46
30 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (28 bp):
GAATGTGATTGGGCCTAATGGGCCATAA
Found at i:53819315 original size:27 final size:26
Alignment explanation
Indices: 53819259--53819370 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
53819249 CAGCATGGCT
* * *
53819259 ACCAGAACAGGTAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
*
53819285 ACCAGAGCAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
53819312 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
53819339 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
53819366 ACCAG
1 ACCAG
53819371 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.18
27 60 0.79
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:53819342 original size:54 final size:53
Alignment explanation
Indices: 53819259--53819370 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
53819249 CAGCATGGCT
* *
53819259 ACCAGAACAGGTAATGTGACAGAGTCACCAGAGCAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGAGCAGATAATCGTGGCAGAGCC
* * * *
53819312 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGAGCAGATAATCGTGGCAGAGCC
53819366 ACCAG
1 ACCAG
53819371 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (53 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGAGCAGATAATCGTGGCAGAGCC
Found at i:53820808 original size:24 final size:24
Alignment explanation
Indices: 53820773--53820849 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
53820763 CCAACACTGT
*
53820773 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
53820797 TTTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
53820821 TCTCCTTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
53820845 TCTCC
1 TCTCC
53820850 TGACAGACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.22, C:0.40, G:0.03, T:0.35
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:53823337 original size:40 final size:40
Alignment explanation
Indices: 53823259--53823439 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
53823249 ACCCAAGTAT
* *
53823259 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
53823298 CTTCGAGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
53823338 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
53823378 CTTCGGGACTTAGCCCGGATATAGTAACTTGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
53823418 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
53823440 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.08
40 116 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:53835985 original size:20 final size:20
Alignment explanation
Indices: 53835962--53836015 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
53835952 ATAACAGAGG
53835962 CACCGAAGTGCAAACAAAGA
1 CACCGAAGTGCAAACAAAGA
* * * *
53835982 CACCAAAGTGTATACAAAGG
1 CACCGAAGTGCAAACAAAGA
*
53836002 CACCGAAGGGCAAA
1 CACCGAAGTGCAAA
53836016 GATAGGCAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.24, G:0.22, T:0.07
Consensus pattern (20 bp):
CACCGAAGTGCAAACAAAGA
Found at i:53838666 original size:24 final size:25
Alignment explanation
Indices: 53838629--53838676 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
53838619 CCTGATAGGC
*
53838629 TCTTTATGAGCTTCCCGA-TATGGT
1 TCTTTATGAACTTCCCGATTATGGT
* *
53838653 TCTTTGTGAACTTCTCGATTATGG
1 TCTTTATGAACTTCCCGATTATGG
53838677 CTCATATGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.44
Consensus pattern (25 bp):
TCTTTATGAACTTCCCGATTATGGT
Found at i:53843538 original size:12 final size:12
Alignment explanation
Indices: 53843523--53843561 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
53843513 TTCTTTTTTC
53843523 TTTTTT-TTTAT
1 TTTTTTATTTAT
*
53843534 TTTTTAATTTAT
1 TTTTTTATTTAT
*
53843546 TTATTTATTTAT
1 TTTTTTATTTAT
53843558 TTTT
1 TTTT
53843562 GGTTAAGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:53843677 original size:96 final size:97
Alignment explanation
Indices: 53843553--53843754 Score: 309
Period size: 96 Copynumber: 2.1 Consensus size: 97
53843543 TATTTATTTA
* *
53843553 TTTATTTTTGGTTAAGAATATACTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTA-TTTTGCTTAAGAACATACTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
53843618 CCCCGGTTACTCAGCCCAACATACTCTTAA-TT
65 CCCCGATTACTCAGCCCAACATACTCTTAAGTT
* *
53843650 TTTATTTTGCTTAAGAACATAAC-GAACCTTTTGACGTGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTGCTTAAGAACAT-ACTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
53843714 CCCCGATTACTCAGCCCAACATATTCTTAAGTTT
65 CCCCGATTACTCAGCCCAACATACTCTTAAG-TT
53843748 TTTATTT
1 TTTATTT
53843755 CCGATTAGTG
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
96 81 0.84
97 6 0.06
98 9 0.09
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (97 bp):
TTTATTTTGCTTAAGAACATACTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCAC
CCCGATTACTCAGCCCAACATACTCTTAAGTT
Found at i:53845782 original size:16 final size:16
Alignment explanation
Indices: 53845761--53845795 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
53845751 CCGACAAATC
53845761 CTGAAATGCAGAAAAG
1 CTGAAATGCAGAAAAG
*
53845777 CTGAAATGCCGAAAAG
1 CTGAAATGCAGAAAAG
53845793 CTG
1 CTG
53845796 GAAGTTTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (16 bp):
CTGAAATGCAGAAAAG
Found at i:53846045 original size:28 final size:28
Alignment explanation
Indices: 53846012--53846114 Score: 161
Period size: 28 Copynumber: 3.7 Consensus size: 28
53846002 ATTTCATGAC
53846012 TATGAATGTGATTGGGCCTGATTGGCCA
1 TATGAATGTGATTGGGCCTGATTGGCCA
* *
53846040 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATTGGCCA
* *
53846068 TATGAATGTGATTGTGCCCGATTGGCCA
1 TATGAATGTGATTGGGCCTGATTGGCCA
*
53846096 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
53846115 AAAGGGGCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATTGGCCA
Found at i:53853714 original size:16 final size:16
Alignment explanation
Indices: 53853693--53853727 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
53853683 GCAAATCCCA
* *
53853693 AAATGCCGAAAAGTCG
1 AAATGCCAAAAAGCCG
53853709 AAATGCCAAAAAGCCG
1 AAATGCCAAAAAGCCG
53853725 AAA
1 AAA
53853728 GTTAGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.09
Consensus pattern (16 bp):
AAATGCCAAAAAGCCG
Found at i:53854888 original size:16 final size:16
Alignment explanation
Indices: 53854867--53854897 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53854857 CGACAAATCC
53854867 TGAAATGCAGAAAAGT
1 TGAAATGCAGAAAAGT
*
53854883 TGAAATGCCGAAAAG
1 TGAAATGCAGAAAAG
53854898 CTGGAAGTTT
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:0.48, C:0.10, G:0.26, T:0.16
Consensus pattern (16 bp):
TGAAATGCAGAAAAGT
Found at i:53855164 original size:28 final size:27
Alignment explanation
Indices: 53855117--53855219 Score: 134
Period size: 28 Copynumber: 3.7 Consensus size: 27
53855107 ATTTCATGAC
53855117 TATGAATGTGATTGGGCCTGACTGGCCA
1 TATGAATGTGATTGGGCCTGA-TGGCCA
* *
53855145 TACGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGAT-GGCCA
* *
53855173 TATGAATGTGATTGTGCCCGATTGGCCA
1 TATGAATGTGATTGGGCCTGA-TGGCCA
*
53855201 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
53855220 AAAGGGGCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.02
28 62 0.97
29 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (27 bp):
TATGAATGTGATTGGGCCTGATGGCCA
Found at i:53856508 original size:17 final size:18
Alignment explanation
Indices: 53856475--53856508 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53856465 TTCAAAGAAG
53856475 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
53856493 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
53856509 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:53856953 original size:25 final size:28
Alignment explanation
Indices: 53856928--53857005 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 28
53856918 CCCAAACAAA
53856928 ATAAAGTAATAAAT-AAT-AA-AATAAA
1 ATAAAGTAATAAATAAATAAATAATAAA
*
53856953 ATAAAGTAATGAATAAATAAATAATAAA
1 ATAAAGTAATAAATAAATAAATAATAAA
*
53856981 ATAAAG--A-AAATAAAGAAA-AATAAA
1 ATAAAGTAATAAATAAATAAATAATAAA
53857005 A
1 A
53857006 ATTGGGTTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
24 7 0.15
25 22 0.47
26 4 0.09
27 2 0.04
28 12 0.26
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (28 bp):
ATAAAGTAATAAATAAATAAATAATAAA
Found at i:53856972 original size:16 final size:15
Alignment explanation
Indices: 53856935--53857004 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 15
53856925 AAAATAAAGT
*
53856935 AATAAATAATAAAATAA
1 AATAAATAAT-GAAT-A
53856952 AATAAAGTAATGAATA
1 AATAAA-TAATGAATA
*
53856968 AATAAATAATAAAATA
1 AATAAATAAT-GAATA
* *
53856984 AAGAAAATAAAGAA-A
1 AA-TAAATAATGAATA
53856999 AATAAA
1 AATAAA
53857005 AATTGGGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
14 3 0.07
15 7 0.16
16 15 0.34
17 15 0.34
18 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (15 bp):
AATAAATAATGAATA
Found at i:53860674 original size:20 final size:20
Alignment explanation
Indices: 53860651--53860710 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
53860641 TTAAATTCTA
53860651 AAAGATAAATACAA-ATAAAT
1 AAAGATAAATA-AATATAAAT
* *
53860671 AAAGATAATTAAATATAATT
1 AAAGATAAATAAATATAAAT
53860691 AAAGATAAATGAAAT-TAAAT
1 AAAGATAAAT-AAATATAAAT
53860711 CTTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.82
21 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAATATAAAT
Found at i:53860678 original size:10 final size:10
Alignment explanation
Indices: 53860651--53860700 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
53860641 TTAAATTCTA
53860651 AAAGATAAAT
1 AAAGATAAAT
53860661 ACAA-ATAAAT
1 A-AAGATAAAT
*
53860671 AAAGATAATT
1 AAAGATAAAT
* *
53860681 AAATATAATT
1 AAAGATAAAT
53860691 AAAGATAAAT
1 AAAGATAAAT
53860701 GAAATTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:53864062 original size:20 final size:19
Alignment explanation
Indices: 53864037--53864106 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
53864027 CTCTCAACAA
53864037 AAAAATACAAAATAATTTT
1 AAAAATACAAAATAATTTT
*
53864056 CAAAAATTCAAAATAAATTTT
1 -AAAAATACAAAAT-AATTTT
*
53864077 -AAAATTCAAAAT-ATTTAT
1 AAAAATACAAAATAATTT-T
53864095 AAAAATTACAAA
1 AAAAA-TACAAA
53864107 TATATATCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 16 0.36
20 17 0.39
21 6 0.14
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATACAAAATAATTTT
Found at i:53864082 original size:19 final size:20
Alignment explanation
Indices: 53864037--53864106 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 20
53864027 CTCTCAACAA
*
53864037 AAAAATACAAAAT-AATTTT
1 AAAAATTCAAAATAAATTTT
53864056 CAAAAATTCAAAATAAATTTT
1 -AAAAATTCAAAATAAATTTT
53864077 -AAAATTCAAAAT--ATTTAT
1 AAAAATTCAAAATAAATTT-T
53864095 AAAAATTACAAA
1 AAAAATT-CAAA
53864107 TATATATCTA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 18 0.40
20 16 0.36
21 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATTCAAAATAAATTTT
Found at i:53864118 original size:21 final size:19
Alignment explanation
Indices: 53864057--53864120 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
53864047 AATAATTTTC
* *
53864057 AAAAATTCAAAATAAATTT
1 AAAAATTCAAAATATATAT
* *
53864076 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATATAT
*
53864095 AAAAATTACAAATATATATCT
1 AAAAATT-CAAA-ATATATAT
53864116 AAAAA
1 AAAAA
53864121 AATTATAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 21 0.58
20 4 0.11
21 11 0.31
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATATATAT
Found at i:53864119 original size:39 final size:39
Alignment explanation
Indices: 53864038--53864119 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 39
53864028 TCTCAACAAA
*
53864038 AAAATACAAAATAATTTTCAAAAATTCAAAATAAATTTT
1 AAAATACAAAATAATTTTCAAAAATTCAAAATAAATTCT
* *
53864077 AAAATTCAAAAT-ATTTAT-AAAAATT-ACAAATATATATCT
1 AAAATACAAAATAATTT-TCAAAAATTCA-AAATAAAT-TCT
53864116 AAAA
1 AAAA
53864120 AAATTATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
37 1 0.03
38 18 0.49
39 18 0.49
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (39 bp):
AAAATACAAAATAATTTTCAAAAATTCAAAATAAATTCT
Found at i:53869050 original size:29 final size:30
Alignment explanation
Indices: 53868991--53869051 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
53868981 AACTTCTGAC
* *
53868991 TTGCAATTTTTTCTTTTTATTAAATTATTT
1 TTGCAATTCTTTCTTTTTATTAAATCATTT
*
53869021 TTGCAAGTTCTTT-TTTTT-TTAAATCCTTT
1 TTGCAA-TTCTTTCTTTTTATTAAATCATTT
53869050 TT
1 TT
53869052 CCCTCCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 11 0.41
30 11 0.41
31 5 0.19
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.66
Consensus pattern (30 bp):
TTGCAATTCTTTCTTTTTATTAAATCATTT
Found at i:53870817 original size:16 final size:16
Alignment explanation
Indices: 53870796--53870831 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
53870786 TAAGAGTTTC
53870796 TATTGGCTGGAATCTG
1 TATTGGCTGGAATCTG
53870812 TATTGGCTGGAATCTG
1 TATTGGCTGGAATCTG
53870828 TATT
1 TATT
53870832 TTCAAGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.42
Consensus pattern (16 bp):
TATTGGCTGGAATCTG
Found at i:53876022 original size:39 final size:39
Alignment explanation
Indices: 53875965--53876059 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 39
53875955 CACGGCTCGA
* * *
53875965 AAGTGCTATCAGGAGTACCGAAGTACAATAGGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
*
53876004 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
*
53876043 AAGTGCGATTAGGGGTA
1 AAGTGCGATCAGGGGTA
53876060 TAATTATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.18
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
Found at i:53876027 original size:20 final size:20
Alignment explanation
Indices: 53875965--53876037 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
53875955 CACGGCTCGA
* *
53875965 AAGTGCTATCAGGAGTACCG
1 AAGTGCAATCAGGGGTACCG
* *
53875985 AAGTACAAT-AGGGGCA-CG
1 AAGTGCAATCAGGGGTACCG
*
53876003 TAAGTGCGATCAGGGGTACCG
1 -AAGTGCAATCAGGGGTACCG
*
53876024 AAGTACAA-CAGGGG
1 AAGTGCAATCAGGGG
53876038 CATGTAAGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
18 2 0.05
19 18 0.44
20 19 0.46
21 2 0.05
ACGTcount: A:0.33, C:0.18, G:0.34, T:0.15
Consensus pattern (20 bp):
AAGTGCAATCAGGGGTACCG
Found at i:53876037 original size:19 final size:19
Alignment explanation
Indices: 53875974--53876037 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
53875964 AAAGTGCTAT
*
53875974 CAGGAGTACCGAAGTACAA
1 CAGGGGTACCGAAGTACAA
* * * *
53875993 TAGGGGCA-CGTAAGTGCGAT
1 CAGGGGTACCG-AAGTAC-AA
53876013 CAGGGGTACCGAAGTACAA
1 CAGGGGTACCGAAGTACAA
53876032 CAGGGG
1 CAGGGG
53876038 CATGTAAGTG
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.06
19 17 0.52
20 12 0.36
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.36, T:0.12
Consensus pattern (19 bp):
CAGGGGTACCGAAGTACAA
Found at i:53879695 original size:23 final size:23
Alignment explanation
Indices: 53879652--53879753 Score: 109
Period size: 23 Copynumber: 4.4 Consensus size: 23
53879642 GCTTACCTAA
*
53879652 GAGCTTACTATTCTCAGCTCGTAT
1 GAGCTTACTGTT-TCAGCTCGTAT
53879676 GAGCTTACTGTTTCAGCTCGTAT
1 GAGCTTACTGTTTCAGCTCGTAT
*
53879699 GAGCATACTGTTTCAGCTCGTCA-
1 GAGCTTACTGTTTCAGCTCGT-AT
* * * *
53879722 AAGTTTACCGTTTCAGCTC-AAT
1 GAGCTTACTGTTTCAGCTCGTAT
53879744 AGAGCTTACT
1 -GAGCTTACT
53879754 ATCCATCAGC
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.02
23 52 0.80
24 12 0.18
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCGTAT
Found at i:53887598 original size:43 final size:43
Alignment explanation
Indices: 53887537--53887680 Score: 207
Period size: 43 Copynumber: 3.3 Consensus size: 43
53887527 ATAAACTCGC
* *
53887537 ACACTTAGTGCTAATTAATTAACCGAAGCTATAATTGTATCGA
1 ACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGA
* * *
53887580 ACACTTAGTGCCAATTAATTAGCCGTAGATATAATTGTATCGC
1 ACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGA
* * * *
53887623 ACACTTAGTTCCAATTAATTAGCCGAAGCTATAGTTTTATCGT
1 ACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGA
53887666 ACACTTAGTGCCAAT
1 ACACTTAGTGCCAAT
53887681 AGTTTAAACC
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (43 bp):
ACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGA
Found at i:53891397 original size:40 final size:40
Alignment explanation
Indices: 53891342--53891603 Score: 364
Period size: 40 Copynumber: 6.8 Consensus size: 40
53891332 GATGATAACG
* * *
53891342 GGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
53891382 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
53891422 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
53891462 GGGCTAAGTCCCGAAGGCA----T----GTTACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
53891494 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
53891534 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* *
53891574 GGGCTAAGTCCCAAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
53891604 AGCTATATCC
Statistics
Matches: 202, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
32 30 0.15
36 2 0.01
39 2 0.01
40 168 0.83
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:53891491 original size:32 final size:32
Alignment explanation
Indices: 53891450--53891513 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
53891440 ATTTGTGCGA
53891450 GTTACTAATTCCGGGCTAAGTCCCGAAGGCAT
1 GTTACTAATTCCGGGCTAAGTCCCGAAGGCAT
*
53891482 GTTACTAATTCTGGGCTAAGTCCCGAAGGCAT
1 GTTACTAATTCCGGGCTAAGTCCCGAAGGCAT
53891514 TTGTGCGAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (32 bp):
GTTACTAATTCCGGGCTAAGTCCCGAAGGCAT
Found at i:53891527 original size:72 final size:72
Alignment explanation
Indices: 53891410--53891615 Score: 272
Period size: 72 Copynumber: 2.8 Consensus size: 72
53891400 ATTTGTGCGA
53891410 GTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAGTCCC
1 GTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCC
53891474 GAAGGCAT
65 GAAGGCAT
*
53891482 GTTACTAATTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
1 GTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
53891547 AAGGCATTT
66 AAGGCA--T
* * *
53891556 GTGCGAACTACTATATCCGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATATCCGG
1 GT---TACTA--AT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
53891616 TTAAATCCCG
Statistics
Matches: 119, Mismatches: 5, Indels: 12
0.88 0.04 0.09
Matches are distributed among these distances:
72 68 0.57
73 1 0.01
74 3 0.03
77 4 0.03
79 4 0.03
80 39 0.33
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (72 bp):
GTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
AAGGCAT
Found at i:53891575 original size:112 final size:112
Alignment explanation
Indices: 53891373--53891593 Score: 374
Period size: 112 Copynumber: 2.0 Consensus size: 112
53891363 TGTGCTAGTG
53891373 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAG
1 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAG
** *
53891438 GCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATGTT
66 GCATTTGTGCGAACTACTAATTCCGGGCTAAGTCCCAAAGGCATGTT
*
53891485 ACTAATTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAA
1 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAA
53891549 GGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCCAAAGGCAT
65 GGCATTTGTGCGAACTACTAAT-TCCGGGCTAAGTCCCAAAGGCAT
53891594 TTGAGCGAGT
Statistics
Matches: 103, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
111 4 0.04
112 99 0.96
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (112 bp):
ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAG
GCATTTGTGCGAACTACTAATTCCGGGCTAAGTCCCAAAGGCATGTT
Found at i:53899821 original size:27 final size:27
Alignment explanation
Indices: 53899785--53899881 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
53899775 GGGACAAAAT
53899785 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
53899812 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * * *
53899839 AATAACTGTAATACCCTCGTAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
53899866 AATGACTGTAATACCC
1 AATGACCGAAATACCC
53899882 ATGTAAGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.20
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:53899891 original size:27 final size:26
Alignment explanation
Indices: 53899804--53899899 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 26
53899794 AATACCCCCA
* * **
53899804 TAGGGTAAAATGACCGAAATACCCCCA
1 TAGGGTAAAATGACTGTAATA-CCCTG
*
53899831 TAGGGTAAAATAACTGTAATACCCTCG
1 TAGGGTAAAATGACTGTAATACCCT-G
53899858 TAGGGTAAAATGACTGTAATACCCATG
1 TAGGGTAAAATGACTGTAATACCC-TG
* *
53899885 TAAGGTAAAAAGACT
1 TAGGGTAAAATGACT
53899900 ATTTTACCCT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.05
27 55 0.93
28 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (26 bp):
TAGGGTAAAATGACTGTAATACCCTG
Found at i:53899920 original size:27 final size:27
Alignment explanation
Indices: 53899890--53900076 Score: 193
Period size: 27 Copynumber: 6.9 Consensus size: 27
53899880 CCATGTAAGG
* * *
53899890 TAAAAAGACTATTTTACCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGA
*
53899917 TAAAATGA-TAATTTTTCCCTTATGTGA
1 TAAAATGACT-ATTTTGCCCTTATGTGA
* *
53899944 TAAAATGACAATTTTGCCCTTATATGGA
1 TAAAATGACTATTTTGCCCTTATGT-GA
*
53899972 -AAAATGACTGTTTTGCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
*
53899998 TAAAATGAC-AGTTTTGCCCTTATGTGG
1 TAAAATGACTA-TTTTGCCCTTATGTGA
* * *
53900025 TAAAATGA-TGGTTTTGCCCTTATGAGG
1 TAAAATGACT-ATTTTGCCCTTATGTGA
* *
53900052 TAAAATTATTATTTTGCCCTTATGT
1 TAAAATGACTATTTTGCCCTTATGT
53900077 AGTAGGATAA
Statistics
Matches: 136, Mismatches: 16, Indels: 16
0.81 0.10 0.10
Matches are distributed among these distances:
26 3 0.02
27 130 0.96
28 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGA
Found at i:53899948 original size:54 final size:53
Alignment explanation
Indices: 53899890--53900106 Score: 229
Period size: 54 Copynumber: 4.0 Consensus size: 53
53899880 CCATGTAAGG
* * * * *
53899890 TAAAAAGACTATTTTACCCTTATGTGTTAAAATGATAATTTTTCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGAT-GTTTTGCCCTTATGTGA
* * *
53899944 TAAAATGACAATTTTGCCCTTATATGGAAAAATGACTGTTTTGCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGA-TGTTTTGCCCTTATGTGA
* *
53899998 TAAAATGAC-AGTTTTGCCCTTATGTGGTAAAATGATGGTTTTGCCCTTATGAGG
1 TAAAATGACTA-TTTTGCCCTTATGTGGTAAAATGAT-GTTTTGCCCTTATGTGA
* * * ** * *
53900052 TAAAATTATTATTTTGCCCTTATGTAGTAGGATAACTGTTTTGCCCCTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGA-TGTTTTGCCCTTATGTGA
53900106 T
1 T
53900107 GCATGTGATG
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.01
54 132 0.96
55 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (53 bp):
TAAAATGACTATTTTGCCCTTATGTGGTAAAATGATGTTTTGCCCTTATGTGA
Found at i:53899948 original size:81 final size:81
Alignment explanation
Indices: 53899863--53900032 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
53899853 CCTCGTAGGG
** * * *
53899863 TAAAATGACTGTAATACCCATGTAAGGTAAAAA-GACTATTTTACCCTTATGTGTTAAAATGATA
1 TAAAATGACAATAATACCCATATAAGG-AAAAATGACTATTTTACCCTTATGTGATAAAATGACA
*
53899927 ATTTTTCCCTTATGTGA
65 ATTTTGCCCTTATGTGA
** * * * * * *
53899944 TAAAATGACAATTTTGCCCTTATATGGAAAAATGACTGTTTTGCCCTTATGTGATAAAATGACAG
1 TAAAATGACAATAATACCCATATAAGGAAAAATGACTATTTTACCCTTATGTGATAAAATGACAA
*
53900009 TTTTGCCCTTATGTGG
66 TTTTGCCCTTATGTGA
53900025 TAAAATGA
1 TAAAATGA
53900033 TGGTTTTGCC
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 5 0.07
81 68 0.93
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (81 bp):
TAAAATGACAATAATACCCATATAAGGAAAAATGACTATTTTACCCTTATGTGATAAAATGACAA
TTTTGCCCTTATGTGA
Found at i:53900041 original size:81 final size:81
Alignment explanation
Indices: 53899891--53900076 Score: 232
Period size: 81 Copynumber: 2.3 Consensus size: 81
53899881 CATGTAAGGT
* * * *
53899891 AAAAA-GACTATTTTACCCTTATGTGTTAAAATGATAATTTTTCCCTTATGTGATAAAATGACAA
1 AAAAATGACTATTTTGCCCTTATGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGACAA
53899955 TTTTGCCCTTAT-ATGG
66 TTTTGCCCTTATGA-GG
* * * ***
53899971 AAAAATGACTGTTTTGCCCTTATGTGATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGATGG
1 AAAAATGACTATTTTGCCCTTATGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGACAA
53900036 TTTTGCCCTTATGAGG
66 TTTTGCCCTTATGAGG
* * *
53900052 TAAAATTATTATTTTGCCCTTATGT
1 AAAAATGACTATTTTGCCCTTATGT
53900077 AGTAGGATAA
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 5 0.06
81 84 0.93
82 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (81 bp):
AAAAATGACTATTTTGCCCTTATGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGACAA
TTTTGCCCTTATGAGG
Found at i:53900093 original size:27 final size:27
Alignment explanation
Indices: 53899889--53900103 Score: 163
Period size: 27 Copynumber: 8.0 Consensus size: 27
53899879 CCCATGTAAG
* * *
53899889 GTAAAAAGACTATTTTACCCTTATGT-
1 GTAAAATGACTGTTTTGCCCTTATGTA
* *
53899915 GTTAAAATGA-TAATTTTTCCCTTATGT-
1 G-TAAAATGACT-GTTTTGCCCTTATGTA
** * *
53899942 GATAAAATGACAATTTTGCCCTTATATG
1 G-TAAAATGACTGTTTTGCCCTTATGTA
*
53899970 GAAAAATGACTGTTTTGCCCTTATGT-
1 GTAAAATGACTGTTTTGCCCTTATGTA
* *
53899996 GATAAAATGACAGTTTTGCCCTTATGTG
1 G-TAAAATGACTGTTTTGCCCTTATGTA
53900024 GTAAAATGA-TGGTTTTGCCCTTATG-A
1 GTAAAATGACT-GTTTTGCCCTTATGTA
* * *
53900050 GGTAAAATTATTATTTTGCCCTTATGTA
1 -GTAAAATGACTGTTTTGCCCTTATGTA
** * *
53900078 GTAGGATAACTGTTTTGCCCCTATGT
1 GTAAAATGACTGTTTTGCCCTTATGT
53900104 GATGCATGTG
Statistics
Matches: 157, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
26 3 0.02
27 150 0.96
28 4 0.03
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAAAATGACTGTTTTGCCCTTATGTA
Found at i:53900093 original size:81 final size:81
Alignment explanation
Indices: 53899891--53900106 Score: 222
Period size: 81 Copynumber: 2.7 Consensus size: 81
53899881 CATGTAAGGT
* * * * * *
53899891 AAAAA-GACTATTTTACCCTTATGTGTTAAAATGATAATTTTTCCCTTATGTGATAAAATGACAA
1 AAAAATGACTATTTTGCCCTTATGTGATAAAATAACAGTTTTGCCCTTATGTGATAAAATGACAA
53899955 TTTTGCCCTTATATGG
66 TTTTGCCCTTATATGG
* * * ***
53899971 AAAAATGACTGTTTTGCCCTTATGTGATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGATGG
1 AAAAATGACTATTTTGCCCTTATGTGATAAAATAACAGTTTTGCCCTTATGTGATAAAATGACAA
53900036 TTTTGCCCTTATGA-GG
66 TTTTGCCCTTAT-ATGG
* * * ** * *
53900052 TAAAATTATTATTTTGCCCTTATGT-AGTAGGATAACTGTTTTGCCCCTATGTGAT
1 AAAAATGACTATTTTGCCCTTATGTGA-TAAAATAACAGTTTTGCCCTTATGTGAT
53900107 GCATGTGATG
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
80 6 0.05
81 106 0.94
82 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (81 bp):
AAAAATGACTATTTTGCCCTTATGTGATAAAATAACAGTTTTGCCCTTATGTGATAAAATGACAA
TTTTGCCCTTATATGG
Found at i:53900482 original size:18 final size:18
Alignment explanation
Indices: 53900437--53900475 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
53900427 GGACTGGCAT
* *
53900437 ACTGCTTACTGTTACTGC
1 ACTGATTACTGTTACTAC
53900455 ACTGATTACTGTTACTAC
1 ACTGATTACTGTTACTAC
53900473 ACT
1 ACT
53900476 ATTTACTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (18 bp):
ACTGATTACTGTTACTAC
Found at i:53902607 original size:19 final size:18
Alignment explanation
Indices: 53902578--53902614 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
53902568 GTCTCTCGGG
53902578 CTTTTTTTTACTCATTTT
1 CTTTTTTTTACTCATTTT
*
53902596 CTTTTTTATTACTTATTTT
1 CTTTTTT-TTACTCATTTT
53902615 GATTTGCGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (18 bp):
CTTTTTTTTACTCATTTT
Found at i:53903521 original size:27 final size:27
Alignment explanation
Indices: 53903485--53903649 Score: 186
Period size: 27 Copynumber: 6.1 Consensus size: 27
53903475 TGGGAAAAAT
* *
53903485 AATGACCAAAATACCCCAATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* ** *
53903512 AATGACCAAAATATTCCCATTGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * *
53903539 AATAACTGAAATACCCCTATAGGGCAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
53903566 AATGACTGAAATACCCCCATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
53903593 AATGACCGAAATACCCCCATAAGGCAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
53903620 AATAACCTAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
53903647 AAT
1 AAT
53903650 AACTGTAATA
Statistics
Matches: 116, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.45, C:0.23, G:0.14, T:0.18
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:53903674 original size:81 final size:81
Alignment explanation
Indices: 53903493--53903661 Score: 214
Period size: 81 Copynumber: 2.1 Consensus size: 81
53903483 ATAATGACCA
* * ** ** * *
53903493 AAATACCCCAATAGGGTAAAATGACCAAAATATTCCCATTGGGTAAAATAACTGAAATACCCCTA
1 AAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAAGGCAAAATAACTGAAATACCCCCA
*
53903558 TAGGGCAAAATGACTG
66 TAGGGCAAAATAACTG
*
53903574 AAATACCCCCATAAGGTAAAATGACCGAAATACCCCCATAAGGCAAAATAACCT-AAATACCCCC
1 AAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAAGGCAAAATAA-CTGAAATACCCCC
*
53903638 ATAGGGTAAAATAACTG
65 ATAGGGCAAAATAACTG
*
53903655 TAATACC
1 AAATACC
53903662 TTTGTAAGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
81 73 0.97
82 2 0.03
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.19
Consensus pattern (81 bp):
AAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAAGGCAAAATAACTGAAATACCCCCA
TAGGGCAAAATAACTG
Found at i:53903683 original size:16 final size:16
Alignment explanation
Indices: 53903664--53903698 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
53903654 GTAATACCTT
*
53903664 TGTAAGGTAAAGTGAC
1 TGTAAGGTAAAATGAC
53903680 TGTAAGGTAAAATGAC
1 TGTAAGGTAAAATGAC
53903696 TGT
1 TGT
53903699 TTTGCCCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (16 bp):
TGTAAGGTAAAATGAC
Found at i:53903862 original size:27 final size:27
Alignment explanation
Indices: 53903685--53903900 Score: 204
Period size: 27 Copynumber: 8.0 Consensus size: 27
53903675 GTGACTGTAA
*
53903685 GGTAAAATGACTGTTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
53903712 GGT-AAATGA-TAATTTTGCCCTTATGT
1 GGTAAAATGACT-ATTTTGCCCTTATGT
** ***
53903738 TATAAAATGACGGCTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * *
53903765 GGAAAAATTACTACTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
** ** *
53903792 TTTAAAATGACGGTTTTTCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* *
53903819 GGTAAAATAAC-AGTTTTGCCCTTATGA
1 GGTAAAATGACTA-TTTTGCCCTTATGT
* *
53903846 GGTAAAATGACTATTTTACACTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* **
53903873 TGTAGGATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
53903900 G
1 G
53903901 ATGTATGTTT
Statistics
Matches: 148, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
25 1 0.01
26 21 0.14
27 125 0.84
28 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGT
Found at i:53904943 original size:154 final size:154
Alignment explanation
Indices: 53904663--53904971 Score: 519
Period size: 154 Copynumber: 2.0 Consensus size: 154
53904653 ATAAACAAGA
53904663 TTTTGAAATTAATAACATTTTAAAGTAAATGCTTTTGATAGTGACACAAGGTTTAAAATTATTTT
1 TTTTGAAATTAATAACATTTTAAAGTAAATGCTTTTGATAGTGACACAAGGTTTAAAATTATTTT
* *
53904728 CTAGATCATACAAAGAGGCTAAATAAACATTCGGCTTTTCAAACAATATCATGCTTTACGAAAAG
66 CTAGATCACACAAAGAGGCTAAATAAACATTCGGCTTTTCAAACAATATCATGCTTTACGAAAAA
*
53904793 CACTTCAATGTGAGATCGCTAGAT
131 CACTTCAATGTGAGATCGCCAGAT
** *
53904817 TTTTGAAATTAATAATGTTTTAAAGTAAATGCTTTTGATAGTGACGCAAGGTTTAAAATTATTTT
1 TTTTGAAATTAATAACATTTTAAAGTAAATGCTTTTGATAGTGACACAAGGTTTAAAATTATTTT
* *
53904882 CTAGATCACACAAAGAGGCTAAATAAACATTGGGCTTTTCAAACGATATCATGCTTTACGAAAAA
66 CTAGATCACACAAAGAGGCTAAATAAACATTCGGCTTTTCAAACAATATCATGCTTTACGAAAAA
* * *
53904947 TACTTCAGTGTGATATCGCCAGAT
131 CACTTCAATGTGAGATCGCCAGAT
53904971 T
1 T
53904972 CGGCCATAGT
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
154 144 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (154 bp):
TTTTGAAATTAATAACATTTTAAAGTAAATGCTTTTGATAGTGACACAAGGTTTAAAATTATTTT
CTAGATCACACAAAGAGGCTAAATAAACATTCGGCTTTTCAAACAATATCATGCTTTACGAAAAA
CACTTCAATGTGAGATCGCCAGAT
Found at i:53908010 original size:18 final size:19
Alignment explanation
Indices: 53907987--53908025 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
53907977 TTTATCTCAA
*
53907987 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
53908005 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
53908024 TT
1 TT
53908026 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:53908069 original size:18 final size:18
Alignment explanation
Indices: 53908042--53908091 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
53908032 CAAACTCTTT
53908042 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
53908060 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
53908078 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
53908092 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:53908150 original size:42 final size:42
Alignment explanation
Indices: 53908095--53908191 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
53908085 CTTTTTCTTT
* * * *
53908095 TTCTTTCA-TTTCTTTGTTTCTTTTCTCGATTTCATTCAAGA
1 TTCTCTCATTTTCTTTATTTCTTCTCTCGATTTCATTCAAAA
53908136 TTCTCTCATTTTCTTTATTTCTTCTCTCGATTTCATTCAAAA
1 TTCTCTCATTTTCTTTATTTCTTCTCTCGATTTCATTCAAAA
*
53908178 TCCTCTCATTTTCT
1 TTCTCTCATTTTCT
53908192 CTCATAATCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 7 0.14
42 43 0.86
ACGTcount: A:0.15, C:0.24, G:0.04, T:0.57
Consensus pattern (42 bp):
TTCTCTCATTTTCTTTATTTCTTCTCTCGATTTCATTCAAAA
Found at i:53910674 original size:20 final size:19
Alignment explanation
Indices: 53910622--53910675 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
53910612 GCTGAAAGTA
53910622 AGCTCGGTTGAGCTCAAACG
1 AGCT-GGTTGAGCTCAAACG
** *
53910642 AGCTGGAACGAGCTCAAATG
1 AGCTGG-TTGAGCTCAAACG
53910662 AGCTGAGTTGAGCT
1 AGCTG-GTTGAGCT
53910676 GGACGGAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.20
Consensus pattern (19 bp):
AGCTGGTTGAGCTCAAACG
Found at i:53913178 original size:27 final size:27
Alignment explanation
Indices: 53913143--53913283 Score: 203
Period size: 27 Copynumber: 5.2 Consensus size: 27
53913133 GAGATAAAAT
53913143 AATGACCGAAATACCTCTATAGGGTAA
1 AATGACCGAAATACCTCTATAGGGTAA
53913170 AATGACCGAAATACCTCTATAGGGTAA
1 AATGACCGAAATACCTCTATAGGGTAA
* *
53913197 AATGACTGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCTCTATAGGGTAA
* *
53913224 AATGATCGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCTCTATAGGGTAA
* * *
53913251 AATGACTGTAATACCAT-TGTAGGGTAA
1 AATGACCGAAATACC-TCTATAGGGTAA
53913278 AATGAC
1 AATGAC
53913284 TGTGGGTAAG
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (27 bp):
AATGACCGAAATACCTCTATAGGGTAA
Found at i:53913336 original size:27 final size:27
Alignment explanation
Indices: 53913295--53913471 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
53913285 GTGGGTAAGG
53913295 TAAAATGACTGTTTTGCCCTTATGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
** *
53913322 TAAAATGACAATTTTTCCCTTATGT-T
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
53913348 ATAAAATGACGGCTTTGCCCTTATGTGGC
1 -TAAAATGACTGTTTTGCCCTTATGT-GT
* * *
53913377 AAAAAT-ACTATTTTGCCCTTATGTTT
1 TAAAATGACTGTTTTGCCCTTATGTGT
* *
53913403 TAAAATGACAGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* *
53913430 TAAAATGA-TGGTTTTGCCCTTATGAGG
1 TAAAATGACT-GTTTTGCCCTTATGTGT
*
53913457 TAAAATGACTATTTT
1 TAAAATGACTGTTTT
53913472 ACAATTATGT
Statistics
Matches: 122, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.05
27 110 0.90
28 6 0.05
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGT
Found at i:53913480 original size:81 final size:80
Alignment explanation
Indices: 53913292--53913511 Score: 262
Period size: 81 Copynumber: 2.7 Consensus size: 80
53913282 ACTGTGGGTA
* * *
53913292 AGGTAAAATGACTGTTTTGCCCTTATGTGTTAAAATGACAATTTTTCCCTTATGTTATAAAATGA
1 AGGTAAAATGACTATTTTGCCCTTATGTTTTAAAATGAC-ATTTTTCCCTTATGTGATAAAATGA
53913357 CGGCTTTGCCCTTATG
65 CGGCTTTGCCCTTATG
* * * *
53913373 TGGCAAAAAT-ACTATTTTGCCCTTATGTTTTAAAATGACAGTTTTGCCCTTATGTGGTAAAATG
1 AGG-TAAAATGACTATTTTGCCCTTATGTTTTAAAATGACA-TTTTTCCCTTATGTGATAAAATG
* *
53913437 ATGGTTTTGCCCTTATG
64 ACGGCTTTGCCCTTATG
* ** * **
53913454 AGGTAAAATGACTATTTTACAATTATGTTGTAGGATGACTATTTTTCCCTTATGTGAT
1 AGGTAAAATGACTATTTTGCCCTTATGTTTTAAAATGAC-ATTTTTCCCTTATGTGAT
53913512 GTATGTTTAT
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
80 6 0.05
81 104 0.90
82 6 0.05
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (80 bp):
AGGTAAAATGACTATTTTGCCCTTATGTTTTAAAATGACATTTTTCCCTTATGTGATAAAATGAC
GGCTTTGCCCTTATG
Found at i:53913857 original size:18 final size:18
Alignment explanation
Indices: 53913831--53913867 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
53913821 GGACTTGCAT
*
53913831 ACTGCTTACTGTTACTGC
1 ACTGCTTACTATTACTGC
*
53913849 ACTGTTTACTATTACTGC
1 ACTGCTTACTATTACTGC
53913867 A
1 A
53913868 ATGGGCCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (18 bp):
ACTGCTTACTATTACTGC
Found at i:53916643 original size:24 final size:23
Alignment explanation
Indices: 53916575--53916690 Score: 121
Period size: 23 Copynumber: 4.9 Consensus size: 23
53916565 GACTCACCGT
*
53916575 AGCTCGTATGAGCTTACTGATATATT
1 AGCTCGTATGAGCTTACTG-T-T-TC
*
53916601 AGCTCGTAAGAGCTTACTGTTCTC
1 AGCTCGTATGAGCTTACTGTT-TC
53916625 AGCTCGTATGAG-TTCACTGTTTC
1 AGCTCGTATGAGCTT-ACTGTTTC
*
53916648 AGCTCGTCA-GAGCTTACCGTTTC
1 AGCTCGT-ATGAGCTTACTGTTTC
53916671 AGCTC-TATAGAGCTTACTGT
1 AGCTCGTAT-GAGCTTACTGT
53916691 CCATCAACTC
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 36 0.46
24 22 0.28
25 1 0.01
26 18 0.23
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACTGTTTC
Found at i:53916660 original size:47 final size:49
Alignment explanation
Indices: 53916575--53916689 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 49
53916565 GACTCACCGT
* *
53916575 AGCTCGTATGAGCTTACTGATATATTAGCTCGTAAGAGCTTACTGTTCTC
1 AGCTCGTATGAGCTTACTGATATATCAGCTCGTAAGAGCTTACCGTT-TC
*
53916625 AGCTCGTATGAG-TTCACTG-T-T-TCAGCTCGTCAGAGCTTACCGTTTC
1 AGCTCGTATGAGCTT-ACTGATATATCAGCTCGTAAGAGCTTACCGTTTC
53916671 AGCTC-TATAGAGCTTACTG
1 AGCTCGTAT-GAGCTTACTG
53916690 TCCATCAACT
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
45 3 0.05
46 14 0.24
47 22 0.37
48 1 0.02
49 3 0.05
50 16 0.27
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (49 bp):
AGCTCGTATGAGCTTACTGATATATCAGCTCGTAAGAGCTTACCGTTTC
Found at i:53925346 original size:24 final size:24
Alignment explanation
Indices: 53925314--53925366 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
53925304 AAGTCTGTCA
*
53925314 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
53925338 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
53925362 GGAGA
1 GGAGA
53925367 ACAGTGTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.43, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:53926852 original size:54 final size:53
Alignment explanation
Indices: 53926760--53926870 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
53926750 AGGAAGCGTC
* *
53926760 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGGGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTATT
* * * *
53926814 CTGGGGGCTCTGCCACGATTATCTGTTCTGGTGACTCTGTCACATTATCTATT
1 CTGGGGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTATT
53926867 CTGG
1 CTGG
53926871 CAGCCATACT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.24
54 39 0.76
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (53 bp):
CTGGGGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTATT
Found at i:53926868 original size:26 final size:26
Alignment explanation
Indices: 53926760--53926870 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
53926750 AGGAAGCGTC
*
53926760 CTGGTGGCTATGCCACAATTATCTGA-T
1 CTGGTGGCTCTGCCAC-ATTATCT-ATT
53926787 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTATT
* *
53926814 CTGGGGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
* *
53926841 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTATT
53926867 CTGG
1 CTGG
53926871 CAGCCATACT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 16 0.22
27 56 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:53928920 original size:28 final size:29
Alignment explanation
Indices: 53928880--53928973 Score: 93
Period size: 28 Copynumber: 3.3 Consensus size: 29
53928870 ATTGCATGAC
** *
53928880 TATGAATGTGATTGGGGTC-GATGGGCCA
1 TATGAATGTGATTGGGACCTAATGGGCCA
* *
53928908 TATGGATGTGATTTGGACCTAATGGGCCA
1 TATGAATGTGATTGGGACCTAATGGGCCA
* * *
53928937 TATGAATGAGATTGGG-CCTAGTGGCCCA
1 TATGAATGTGATTGGGACCTAATGGGCCA
*
53928965 TATGCATGT
1 TATGAATGT
53928974 ATGTAGACCT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 32 0.60
29 21 0.40
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (29 bp):
TATGAATGTGATTGGGACCTAATGGGCCA
Found at i:53932334 original size:24 final size:24
Alignment explanation
Indices: 53932302--53932350 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
53932292 GATAAATTCG
53932302 AACATGATAAATATATGTATTTTT
1 AACATGATAAATATATGTATTTTT
53932326 AACATGATAAATATATGTATTTTT
1 AACATGATAAATATATGTATTTTT
53932350 A
1 A
53932351 TGTTGCATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (24 bp):
AACATGATAAATATATGTATTTTT
Found at i:53935574 original size:21 final size:21
Alignment explanation
Indices: 53935548--53935629 Score: 103
Period size: 21 Copynumber: 3.9 Consensus size: 21
53935538 TCATGCTAAT
*
53935548 AGAAGCTCATAAGAGTTGAAC
1 AGAAGCTCATAAGAGCTGAAC
*
53935569 AGAAGCTCGA-AAGAGCTGAAT
1 AGAAGCTC-ATAAGAGCTGAAC
* * *
53935590 AGAAGCTCGTGAGAGCTAAAC
1 AGAAGCTCATAAGAGCTGAAC
53935611 AGAAGCTCATAAGAGCTGA
1 AGAAGCTCATAAGAGCTGA
53935630 TCCACCAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
21 49 0.98
22 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTGAAC
Found at i:53935612 original size:42 final size:42
Alignment explanation
Indices: 53935545--53935629 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
53935535 AGATCATGCT
* *
53935545 AATAGAAGCTCATAAGAGTTGAACAGAAGCTCGA-AAGAGCTG
1 AATAGAAGCTCATAAGAGCTAAACAGAAGCTC-ATAAGAGCTG
* *
53935587 AATAGAAGCTCGTGAGAGCTAAACAGAAGCTCATAAGAGCTG
1 AATAGAAGCTCATAAGAGCTAAACAGAAGCTCATAAGAGCTG
53935629 A
1 A
53935630 TCCACCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.16
Consensus pattern (42 bp):
AATAGAAGCTCATAAGAGCTAAACAGAAGCTCATAAGAGCTG
Found at i:53938819 original size:13 final size:13
Alignment explanation
Indices: 53938801--53938827 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53938791 GCCCGACAGG
53938801 GACACGCCCGTGT
1 GACACGCCCGTGT
53938814 GACACGCCCGTGT
1 GACACGCCCGTGT
53938827 G
1 G
53938828 CGATTGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:53956366 original size:27 final size:27
Alignment explanation
Indices: 53956336--53956513 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
53956326 ATATTGAGCC
* * **
53956336 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
53956363 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
53956390 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
* ** ** *
53956418 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
53956445 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
53956472 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
53956499 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
53956514 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:53956475 original size:82 final size:81
Alignment explanation
Indices: 53956362--53956512 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
53956352 TATAATCATC
* * * *
53956362 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACTCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCACCCTT
53956427 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
53956444 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
53956508 AGTGC
65 AGTGC
53956513 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 44 0.72
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
GTGCCGCATGGTCAAT
Found at i:53964340 original size:27 final size:27
Alignment explanation
Indices: 53964310--53964486 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
53964300 ATATTGAGCC
* * **
53964310 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
53964337 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
53964364 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
** ** *
53964392 CGCAC-CTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
53964418 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
53964445 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
53964472 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
53964487 GTACAATTTA
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.06
27 108 0.88
28 8 0.07
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:53964401 original size:54 final size:54
Alignment explanation
Indices: 53964310--53964486 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
53964300 ATATTGAGCC
* * * *
53964310 CGCACACTCAGTGCTATATAATCATCTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCATCTCGCACACTTAGTGCCACATAGTCAAAT
* * * * *
53964364 CGCACACTTAGTGCTACATAGTCAGACTCGCAC-CTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-TCTCGCACACTTAGTGCCACATAGTCAAAT
* * *
53964418 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCATCTCGCACACTTAGTGCCACATAGTCAAAT
*
53964472 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
53964487 GTACAATTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 7 0.07
54 88 0.86
55 7 0.07
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCATCTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:53964454 original size:81 final size:81
Alignment explanation
Indices: 53964336--53964485 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
53964326 TATAATCATC
* * *
53964336 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA-CCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCACCCTT
53964400 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
53964417 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
53964481 AGTGC
65 AGTGC
53964486 TGTACAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 8 0.13
81 53 0.87
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
GTGCCGCATGGTCAAT
Found at i:53972303 original size:27 final size:27
Alignment explanation
Indices: 53972273--53972449 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
53972263 ATATTGAGCC
* *
53972273 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
53972300 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
53972327 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
53972355 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
53972382 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
53972409 CGCACACTTAGTGCAACATAGTCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
*
53972435 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
53972450 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
26 14 0.11
27 88 0.70
28 24 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:53972412 original size:82 final size:80
Alignment explanation
Indices: 53972294--53972448 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
53972284 TGCTATATAA
* *
53972294 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-A-TCGCA
53972359 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * **
53972376 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAATCGCAC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCAC
*
53972440 CCTTAGTGC
65 ACTTAGTGC
53972449 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 14 0.22
81 3 0.05
82 48 0.74
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCACA
CTTAGTGCCGCATGG
Found at i:53972433 original size:54 final size:53
Alignment explanation
Indices: 53972273--53972448 Score: 194
Period size: 54 Copynumber: 3.3 Consensus size: 53
53972263 ATATTGAGCC
* * *
53972273 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCCACATAGTC-AAT
* * *
53972327 CGCACACTTAGTGC-TACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCA-ACTCGCACACTTAGTGCCACATAGTCAA-T
* ** *
53972382 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTCAAT
*
53972435 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
53972449 TGTACAATTT
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
52 1 0.01
53 14 0.13
54 44 0.42
55 44 0.42
56 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTCAAT
Found at i:53980262 original size:27 final size:27
Alignment explanation
Indices: 53980223--53980371 Score: 138
Period size: 27 Copynumber: 5.5 Consensus size: 27
53980213 ACATTGAGCC
* * * *
53980223 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAAAT
*
53980250 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAAAT
* ** *
53980277 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAAAT
* **
53980304 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAAAT
* * *
53980331 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCACATAATCAAAT
*
53980358 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
53980372 TGTACAATTT
Statistics
Matches: 99, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 97 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAAAT
Done.