Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 173 of 295
Found at i:54939655 original size:46 final size:46
Alignment explanation
Indices: 54939488--54939662 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
54939478 TGTAACCCGC
* *
54939488 CCATAAGCGAACTCGGACTCAACTCAA-GAGCTCGGGCGCTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGATTGCAT
* * *
54939533 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---CGA-TTGCAT
* * *
54939583 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGATT-GCAT
*
54939626 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
54939663 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 28 0.26
46 36 0.34
47 28 0.26
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGATTGCAT
Found at i:54945949 original size:45 final size:45
Alignment explanation
Indices: 54945898--54946070 Score: 183
Period size: 45 Copynumber: 3.8 Consensus size: 45
54945888 TGTAACCCGC
54945898 CCATAAGCGAACTCGGACTCAACTCAA-GAGCTCGGGCGCTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-CTTGCAT
* * *
54945943 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--GCCTTGCAT
* * * * *
54945989 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCCTT-GCAT
*
54946035 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
54946071 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
44 4 0.04
45 52 0.50
46 16 0.15
47 28 0.27
48 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCCTTGCAT
Found at i:54946035 original size:92 final size:92
Alignment explanation
Indices: 54945905--54946074 Score: 281
Period size: 92 Copynumber: 1.8 Consensus size: 92
54945895 CGCCCATAAG
* *
54945905 CGAACTCGGACTCAACTCAAGAGCTCGGGCGCTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAAGAGCTCGGACGATTGCATCCATAAGTGAACTCGGACTCAACTCAA
54945970 CGAGCTCGGATGCCTAGTTACATTTCA
66 CGAGCTCGGATGCCTAGTTACATTTCA
*
54945997 CGAACTCGGACTCAACTCAACGAGTTC-GAC-ATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAA-GAGCTCGGACGATT-GCATCCATAAGTGAACTCGGACTCAACTC
54946060 AACGAGCTCGGATGC
64 AACGAGCTCGGATGC
54946075 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
91 2 0.03
92 66 0.90
93 5 0.07
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAAGAGCTCGGACGATTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCA
Found at i:54975901 original size:42 final size:42
Alignment explanation
Indices: 54975820--54975905 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 42
54975810 CAGTGCCGAC
*
54975820 GCCATGTCCCAGACATGGTCTTACACAGAACCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTACACAGAACATCATATCGAT
*
54975862 GCCATGTCCCAGACATGGTCTTATAC-GAA-ATCATTTATCGAT
1 GCCATGTCCCAGACATGGTCTTACACAGAACATCA--TATCGAT
54975904 GC
1 GC
54975906 TAAAGCCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 3 0.08
41 3 0.08
42 34 0.85
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTACACAGAACATCATATCGAT
Found at i:54975914 original size:90 final size:90
Alignment explanation
Indices: 54975722--54975953 Score: 243
Period size: 90 Copynumber: 2.6 Consensus size: 90
54975712 GCCAAATAGG
* * ** * *
54975722 GTGCCAAATCCATGTCCCAGACATGGACTTACATGGGACCACACATCGATGCCATATCCCAGATA
1 GTGCCAAAGCCATGTCCCAGACATGGTCTTACACAGGACCACATATCGATGCCATATCCCAGACA
* *
54975787 TGGTCTTATATGAAGTCTCAAATCA
66 TGGTCTTATACGAAATCTCAAATCA
* * * * *
54975812 GTGCCGACGCCATGTCCCAGACATGGTCTTACACAGAACCTCATATCGATGCCATGTCCCAGACA
1 GTGCCAAAGCCATGTCCCAGACATGGTCTTACACAGGACCACATATCGATGCCATATCCCAGACA
**
54975877 TGGTCTTATACGAAATCAT-TTATC-
66 TGGTCTTATACGAAATC-TCAAATCA
* * * * * *
54975901 GATGCTAAAGCCATATCCCTGATATGGTCTTAAACAGGATCACATATCGATGC
1 G-TGCCAAAGCCATGTCCCAGACATGGTCTTACACAGGACCACATATCGATGC
54975954 TGATGCCATG
Statistics
Matches: 115, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
89 1 0.01
90 113 0.98
91 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (90 bp):
GTGCCAAAGCCATGTCCCAGACATGGTCTTACACAGGACCACATATCGATGCCATATCCCAGACA
TGGTCTTATACGAAATCTCAAATCA
Found at i:54975979 original size:48 final size:48
Alignment explanation
Indices: 54975769--54975980 Score: 138
Period size: 48 Copynumber: 4.5 Consensus size: 48
54975759 ACCACACATC
* * * * * * * *
54975769 GATGCCATATCCCAGATATGGTCTTATATGAAGTCTCAAATC-AGTGCC
1 GATGCCATGTCCCAGACATGGTCTTAAACGAAATCACATATCGA-TGCT
* *
54975817 GACGCCATGTCCCAGACATGGTCTTACAC-AGAA-C-C-TCAT--AT-C-
1 GATGCCATGTCCCAGACATGGTCTTAAACGA-AATCACAT-ATCGATGCT
* **
54975859 GATGCCATGTCCCAGACATGGTCTTATACGAAATCATTTATCGATGCT
1 GATGCCATGTCCCAGACATGGTCTTAAACGAAATCACATATCGATGCT
* * * * * *
54975907 AAAGCCATATCCCTGATATGGTCTTAAAC-AGGATCACATATCGATGCT
1 GATGCCATGTCCCAGACATGGTCTTAAACGA-AATCACATATCGATGCT
*
54975955 GATGCCATGTCCCAGACATAGTCTTA
1 GATGCCATGTCCCAGACATGGTCTTA
54975981 TATGGGATCT
Statistics
Matches: 128, Mismatches: 25, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
42 29 0.23
43 3 0.02
44 3 0.02
45 2 0.02
46 5 0.04
47 4 0.03
48 82 0.64
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTAAACGAAATCACATATCGATGCT
Found at i:54975989 original size:48 final size:48
Alignment explanation
Indices: 54975859--54975989 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
54975849 ACCTCATATC
** **
54975859 GATGCCATGTCCCAGACATGGTCTTATACGAAATCATTTATCGATGCT
1 GATGCCATGTCCCAGACATGGTCTTATACGGGATCACATATCGATGCT
* * * * * * *
54975907 AAAGCCATATCCCTGATATGGTCTTAAACAGGATCACATATCGATGCT
1 GATGCCATGTCCCAGACATGGTCTTATACGGGATCACATATCGATGCT
* *
54975955 GATGCCATGTCCCAGACATAGTCTTATATGGGATC
1 GATGCCATGTCCCAGACATGGTCTTATACGGGATC
54975990 TCGTTAATCA
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTATACGGGATCACATATCGATGCT
Found at i:54980130 original size:28 final size:28
Alignment explanation
Indices: 54979970--54980125 Score: 231
Period size: 28 Copynumber: 5.6 Consensus size: 28
54979960 GGGTATATAC
54979970 GACACTTAGTGTGCGAGACATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
* * *
54979998 AACACTTAGTGTGTGAGACATTGAGAAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
* *
54980026 GGCACTTAGTGTACGAGACATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
*
54980054 GGCACTTAGTGTGCGAGACATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
* * *
54980082 GGCACTTAGTGTGCGAGATATTGAATAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
54980110 GACACTTAGTGTGCGA
1 GACACTTAGTGTGCGA
54980126 AATATCGAGT
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 116 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (28 bp):
GACACTTAGTGTGCGAGACATTGAGTAT
Found at i:54983007 original size:29 final size:29
Alignment explanation
Indices: 54982944--54983011 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
54982934 TAATCAACCG
*
54982944 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
54982973 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
54983002 CGCACACTTA
1 CGCACACTTA
54983012 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:54983123 original size:174 final size:174
Alignment explanation
Indices: 54982833--54983302 Score: 877
Period size: 174 Copynumber: 2.7 Consensus size: 174
54982823 AACTCAAGGT
* *
54982833 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
54982898 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
54982963 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
54983007 ACTTACCTTTTCCGCTGTCCAAAATCGACTAGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
54983072 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
54983137 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
54983181 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
54983246 GAAAACATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAG
54983303 GGCACGTTTG
Statistics
Matches: 287, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 287 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:54983181 original size:29 final size:29
Alignment explanation
Indices: 54983118--54983185 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
54983108 TAATCAACCG
54983118 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
54983147 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
54983176 CGCACACTTA
1 CGCACACTTA
54983186 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:54983340 original size:16 final size:16
Alignment explanation
Indices: 54983319--54983387 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
54983309 TTTGGTTCGC
54983319 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
54983335 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
54983351 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
54983368 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
54983384 TGTA
1 TGTA
54983388 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:54983365 original size:33 final size:32
Alignment explanation
Indices: 54983319--54983387 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
54983309 TTTGGTTCGC
54983319 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
54983351 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
54983384 TGTA
1 TGTA
54983388 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:54983452 original size:44 final size:45
Alignment explanation
Indices: 54983368--54983458 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
54983358 GGATTAGAGG
* * *
54983368 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
54983413 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
54983457 TG
1 TG
54983459 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:54983644 original size:18 final size:17
Alignment explanation
Indices: 54983623--54983657 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54983613 TTATTATTAA
*
54983623 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
54983641 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
54983658 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:54983764 original size:18 final size:17
Alignment explanation
Indices: 54983743--54983777 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54983733 TTATTATTAA
*
54983743 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
54983761 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
54983778 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:54983819 original size:120 final size:120
Alignment explanation
Indices: 54983606--54984352 Score: 1291
Period size: 120 Copynumber: 6.2 Consensus size: 120
54983596 ATCATATTTA
54983606 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
54983671 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
54983726 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
54983791 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
54983846 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
54983911 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
54983966 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
54984031 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
* *
54984086 AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * * *
54984151 TATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
54984206 GAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAAT-ATTA
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-
* * * *
54984269 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTT
64 AATATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
54984326 AAAATAATTATTATTAAATATAATTTT
1 AACATAATTATTATTAAATAT-ATTTT
54984353 TCTAAATATA
Statistics
Matches: 610, Mismatches: 13, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
119 4 0.01
120 599 0.98
121 7 0.01
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:54984124 original size:18 final size:17
Alignment explanation
Indices: 54984101--54984137 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
54984091 AATTATTATT
54984101 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
54984117 AAATATATGATTTAATA
1 AAATATATGATTTAATA
54984134 AAAT
1 AAAT
54984138 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:54984244 original size:18 final size:17
Alignment explanation
Indices: 54984221--54984257 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
54984211 AATTATTATT
54984221 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
54984237 AAATATATGATTTAATA
1 AAATATATGATTTAATA
54984254 AAAT
1 AAAT
54984258 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:54988206 original size:29 final size:30
Alignment explanation
Indices: 54988173--54988239 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
54988163 AAACAAGCTG
*
54988173 TTAGTGCCATGTAC-TTTAAACTCGCACAC
1 TTAGTGCCATGTACATTTAAACCCGCACAC
54988202 TTAGTG-C-TGTACAATTTAAACCCGCACAC
1 TTAGTGCCATGTAC-ATTTAAACCCGCACAC
54988231 TTAGTGCCA
1 TTAGTGCCA
54988240 ATCTCATGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 5 0.15
28 1 0.03
29 26 0.79
30 1 0.03
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
TTAGTGCCATGTACATTTAAACCCGCACAC
Found at i:54990655 original size:17 final size:19
Alignment explanation
Indices: 54990613--54990656 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
54990603 ATGAAATTTT
*
54990613 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
54990632 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
54990650 AA-TATTA
1 AATTATTA
54990657 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:54991307 original size:26 final size:26
Alignment explanation
Indices: 54991271--54991322 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
54991261 TAGTCCAGGC
54991271 GCAAGTATGTTTTAAATTTATATTTT
1 GCAAGTATGTTTTAAATTTATATTTT
54991297 GCAAGTATGTTTTAAATTTATATTTT
1 GCAAGTATGTTTTAAATTTATATTTT
54991323 TAAAATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.54
Consensus pattern (26 bp):
GCAAGTATGTTTTAAATTTATATTTT
Found at i:54995309 original size:24 final size:24
Alignment explanation
Indices: 54995277--54995324 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
54995267 GAAAGTGTGT
54995277 GTTGGTTGATAAAGTGTACAAGAA
1 GTTGGTTGATAAAGTGTACAAGAA
54995301 GTTGGTTGATAAAGTGTACAAGAA
1 GTTGGTTGATAAAGTGTACAAGAA
54995325 CTGTCCGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (24 bp):
GTTGGTTGATAAAGTGTACAAGAA
Found at i:55000517 original size:39 final size:40
Alignment explanation
Indices: 55000417--55000601 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
55000407 TTGAATGATG
* * *
55000417 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
55000456 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
55000497 TCCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
55000536 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
55000575 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
55000602 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:55000554 original size:79 final size:81
Alignment explanation
Indices: 55000417--55000601 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
55000407 TTGAATGATG
*
55000417 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
55000481 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
55000496 TTCCGAGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
55000558 TTTGTGTGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
55000576 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55000602 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:55000623 original size:79 final size:79
Alignment explanation
Indices: 55000470--55000624 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
55000460 GGACTAAGAT
* **
55000470 CCGAAGGCATTTGTGCGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
55000535 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
55000549 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
55000612 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
55000625 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:55013392 original size:22 final size:22
Alignment explanation
Indices: 55013364--55013486 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
55013354 TTTCACATTC
55013364 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** ** *
55013386 ATCACATATATACGC-TTCCACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
*
55013410 CATCACATGGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
** * * *
55013433 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
55013457 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
55013480 ATCACAT
1 ATCACAT
55013487 ATATACACTT
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 26 0.38
23 12 0.17
24 12 0.17
25 19 0.28
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:55013776 original size:47 final size:47
Alignment explanation
Indices: 55013148--55013775 Score: 977
Period size: 47 Copynumber: 13.3 Consensus size: 47
55013138 CCCTTCGGGA
* * * *
55013148 CTTATCACATTTATACACTTTCACATCCATCACGTCGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
55013195 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
55013242 CATATCACTTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
55013289 CTTATCACATATATACGCTTCCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
55013336 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
55013383 CTTATCACATATATACGCTTCCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
55013430 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
55013477 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
55013524 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
55013571 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATCCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
55013618 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
55013665 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
55013714 CTTATCACATATATACACACTTTCACATTCATCACATTGACCATTCGGT
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTCGGC
55013763 CTTATCACATATA
1 CTTATCACATATA
55013776 CTATCAAGTA
Statistics
Matches: 538, Mismatches: 39, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
47 449 0.83
49 89 0.17
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:55016483 original size:27 final size:27
Alignment explanation
Indices: 55016411--55016804 Score: 341
Period size: 27 Copynumber: 14.6 Consensus size: 27
55016401 TACCCTACAG
* * *
55016411 GGGTATGTCGATCATTTTAC-ACTACAA
1 GGGTATTTCGATAATTTTACAAAT-CAA
* * * *
55016438 GGGTATTTTGGTAACTTTAC-ACTGCAA
1 GGGTATTTCGATAATTTTACAAAT-CAA
* **
55016465 GGGTATTTAGATAATTTTACAAATTGA
1 GGGTATTTCGATAATTTTACAAATCAA
* *
55016492 GGTTGTTTCGATAATTTTACAAATCAA
1 GGGTATTTCGATAATTTTACAAATCAA
55016519 GGGTATTTCGATAATTTTACAAATCAA
1 GGGTATTTCGATAATTTTACAAATCAA
* *
55016546 AGGTATTTTGATAATTTTACAAATCAA
1 GGGTATTTCGATAATTTTACAAATCAA
* * * *
55016573 GGGTGTTTCGGTAATTTTAAAAATCGA
1 GGGTATTTCGATAATTTTACAAATCAA
* * *
55016600 GGGTGTTTAGGTAATTTTACAAATCAA
1 GGGTATTTCGATAATTTTACAAATCAA
* * **
55016627 GGGTGTTTCGATAATTTTACAAGTTGA
1 GGGTATTTCGATAATTTTACAAATCAA
* **
55016654 GGGTA-TTCTAGTAATTTTACAAATTGA
1 GGGTATTTCGA-TAATTTTACAAATCAA
* *
55016681 GGGTATTTC-AGTAATTTCAC-AATTAA
1 GGGTATTTCGA-TAATTTTACAAATCAA
* * *
55016707 GGGTATTTCAATAATTCTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCAA
*
55016734 GGGTATTTC-AGTAATTTTACAAATCGA
1 GGGTATTTCGA-TAATTTTACAAATCAA
* * * **
55016761 TGGTATTTTGATAATTTTACAAACCGG
1 GGGTATTTCGATAATTTTACAAATCAA
*
55016788 GGGTACTTCGATAATTT
1 GGGTATTTCGATAATTT
55016805 CTCTTTATTA
Statistics
Matches: 308, Mismatches: 52, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
26 26 0.08
27 276 0.90
28 6 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATCAA
Found at i:55017157 original size:28 final size:28
Alignment explanation
Indices: 55017119--55017184 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
55017109 TTTGGCCCCT
*
55017119 TTAGGCCCAATC-TCATTCACATGGCCCA
1 TTAGGCCCAATCAT-ATTCAAATGGCCCA
55017147 TTAGGCCCAATCATATTCAAATGGCCCA
1 TTAGGCCCAATCATATTCAAATGGCCCA
*
55017175 TCAGGCCCAA
1 TTAGGCCCAA
55017185 CTACTTCCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (28 bp):
TTAGGCCCAATCATATTCAAATGGCCCA
Found at i:55018804 original size:28 final size:28
Alignment explanation
Indices: 55018759--55018949 Score: 222
Period size: 28 Copynumber: 6.6 Consensus size: 28
55018749 TTTAACTATA
55018759 TATGGCACTTAGTGTGCGAGACATTGAG
1 TATGGCACTTAGTGTGCGAGACATTGAG
*** *
55018787 TACAACACTTAGTGTGCGAGACATTAAG
1 TATGGCACTTAGTGTGCGAGACATTGAG
55018815 TATGGCACTTAGTGTGCGAGACATTGAG
1 TATGGCACTTAGTGTGCGAGACATTGAG
55018843 TATGGCACTTAGTGTGCGAGTGCGAGACATTGAG
1 TATGGCACTTA--GT----GTGCGAGACATTGAG
* * *
55018877 TATGGCACTTAGTGTGTGAGACATTAAC
1 TATGGCACTTAGTGTGCGAGACATTGAG
* *
55018905 TATGACACTTAGTATGCGAGACATTTG-G
1 TATGGCACTTAGTGTGCGAGACA-TTGAG
*
55018933 TATGGCACTTTGTGTGC
1 TATGGCACTTAGTGTGC
55018950 AAAATATCGA
Statistics
Matches: 137, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
28 105 0.77
29 2 0.01
30 2 0.01
32 2 0.01
34 26 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
TATGGCACTTAGTGTGCGAGACATTGAG
Found at i:55018886 original size:90 final size:90
Alignment explanation
Indices: 55018772--55018949 Score: 268
Period size: 90 Copynumber: 2.0 Consensus size: 90
55018762 GGCACTTAGT
* * *
55018772 GTGCGAGACATTGAGTACAACACTTAGTGTGCGAGACATTAAGTATGGCACTTAGTGTGCGAGAC
1 GTGCGAGACATTGAGTACAACACTTAGTGTGCGAGACATTAACTATGACACTTAGTATGCGAGAC
55018837 A-TTGAGTATGGCACTTAGTGTGCGA
66 ATTTG-GTATGGCACTTAGTGTGCGA
*** *
55018862 GTGCGAGACATTGAGTATGGCACTTAGTGTGTGAGACATTAACTATGACACTTAGTATGCGAGAC
1 GTGCGAGACATTGAGTACAACACTTAGTGTGCGAGACATTAACTATGACACTTAGTATGCGAGAC
*
55018927 ATTTGGTATGGCACTTTGTGTGC
66 ATTTGGTATGGCACTTAGTGTGC
55018950 AAAATATCGA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 76 0.96
91 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (90 bp):
GTGCGAGACATTGAGTACAACACTTAGTGTGCGAGACATTAACTATGACACTTAGTATGCGAGAC
ATTTGGTATGGCACTTAGTGTGCGA
Found at i:55018898 original size:62 final size:62
Alignment explanation
Indices: 55018759--55018924 Score: 218
Period size: 62 Copynumber: 2.8 Consensus size: 62
55018749 TTTAACTATA
**
55018759 TATGGCACTTAGTGTGCGAGACATTGAGTACAACACTTA--GT----GTGCGAGACATTAAG
1 TATGGCACTTAGTGTGCGAGACATTGAGTATGACACTTAGTGTGCGAGTGCGAGACATTAAG
* *
55018815 TATGGCACTTAGTGTGCGAGACATTGAGTATGGCACTTAGTGTGCGAGTGCGAGACATTGAG
1 TATGGCACTTAGTGTGCGAGACATTGAGTATGACACTTAGTGTGCGAGTGCGAGACATTAAG
* * * *
55018877 TATGGCACTTAGTGTGTGAGACATTAACTATGACACTTAGTATGCGAG
1 TATGGCACTTAGTGTGCGAGACATTGAGTATGACACTTAGTGTGCGAG
55018925 ACATTTGGTA
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
56 36 0.38
58 2 0.02
62 57 0.60
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (62 bp):
TATGGCACTTAGTGTGCGAGACATTGAGTATGACACTTAGTGTGCGAGTGCGAGACATTAAG
Found at i:55022881 original size:39 final size:40
Alignment explanation
Indices: 55022838--55023005 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
55022828 CTCGTTCAAG
* * *
55022838 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACGAA
* **
55022877 TGCCTTCGGGACATAACCCGGATTCAACAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACGAA
*
55022917 TGCCTTCGGGACTTAACCCGGATTTTA-TAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGA-TTTAGTAACTCGCACGAA
* * *
55022957 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACGAA
*
55022997 GGCCTTCGG
1 TGCCTTCGG
55023006 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 35 0.31
40 76 0.67
41 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACGAA
Found at i:55023018 original size:40 final size:39
Alignment explanation
Indices: 55022838--55023058 Score: 205
Period size: 40 Copynumber: 5.6 Consensus size: 39
55022828 CTCGTTCAAG
* * * *
55022838 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTA-TAACTCGCACGAA
* * *
55022877 TGCCTTCGGGACATAACCCGGATTCAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATT-TATAACTCGCACGAA
55022917 TGCCTTCGGGACTTAACCCGGATTTTATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGA-TTTATAACTCGCACGAA
* *
55022957 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTA-TAACTCGCACGAA
* ** * * *
55022997 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTTA-TAAC-TCGCACGAA
* *
55023037 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
55023059 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.24
40 108 0.70
41 10 0.06
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGATTTATAACTCGCACGAA
Found at i:55023067 original size:41 final size:41
Alignment explanation
Indices: 55022990--55023067 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55022980 TTAGTATCTC
* * *
55022990 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
55023031 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
55023068 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:55027762 original size:42 final size:42
Alignment explanation
Indices: 55027715--55027836 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
55027705 ATATGGTTAT
55027715 TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
55027757 TGAGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * * **
55027800 CGAGATTACATGTAAGACCATATCTGCAATATGGCAT
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCAT
55027837 TGGTATGGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 34 0.50
43 34 0.50
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (42 bp):
TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:55027814 original size:43 final size:42
Alignment explanation
Indices: 55027716--55027836 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
55027706 TATGGTTATT
* * *
55027716 GAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATAC
*
55027758 GAGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATCGATAC
1 GAGA-TTACGTGTAAGACCATAGCTGGGATA-TGGCATCGATAC
* * **
55027801 GAGATTACATGTAAGACCATATCTGCAATATGGCAT
1 GAGATTACGTGTAAGACCATAGCTGGGATATGGCAT
55027837 TGGTATGGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATAC
Found at i:55029206 original size:40 final size:40
Alignment explanation
Indices: 55029146--55029252 Score: 178
Period size: 40 Copynumber: 2.7 Consensus size: 40
55029136 CCAACCCAAT
* * *
55029146 TGCCTTCGGGATTTAGCCCGGATATAACAATCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
*
55029186 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
55029226 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
55029253 TCCTCAATTG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
Found at i:55036858 original size:40 final size:40
Alignment explanation
Indices: 55036814--55037000 Score: 320
Period size: 40 Copynumber: 4.7 Consensus size: 40
55036804 CCAACCCAAT
*
55036814 TGCCTTCGGGACTTAGCCCGGATATAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
55036854 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
* **
55036894 TGCCTTCGGGACTTAACCCGGATATAACAACCAACATGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
*
55036934 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
*
55036974 TGCCTTCGAGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
55037001 TCCTCAATTG
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
Found at i:55040797 original size:37 final size:37
Alignment explanation
Indices: 55040747--55040825 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
55040737 TTATTACGAA
* * * *
55040747 GTCTTACCCGGACATAATCTCCACACGAATTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55040784 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55040821 GTCTT
1 GTCTT
55040826 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55041020 original size:49 final size:47
Alignment explanation
Indices: 55040943--55041051 Score: 182
Period size: 49 Copynumber: 2.3 Consensus size: 47
55040933 GCCCTTCGGG
55040943 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
*
55040993 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
55041040 ACTTTCACATTC
1 ACTTTCACATTC
55041052 TCAAAGTAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
47 20 0.34
49 34 0.59
50 4 0.07
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
Found at i:55041368 original size:23 final size:23
Alignment explanation
Indices: 55041321--55041377 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
55041311 TAATCAAACA
55041321 TTATTATATATATATCATATCA-T
1 TTATTAT-TATATATCATATCATT
*
55041344 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
55041368 TTATT-TTATA
1 TTATTATTATA
55041378 CTTTTCAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 5 0.17
22 5 0.17
23 13 0.45
24 6 0.21
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:55049794 original size:27 final size:27
Alignment explanation
Indices: 55049772--55050050 Score: 292
Period size: 27 Copynumber: 10.3 Consensus size: 27
55049762 TTAGTTTACC
*
55049772 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
55049799 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
55049826 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
55049853 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
55049880 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
55049907 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
55049934 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
55049961 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
55049988 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * * *
55050015 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
55050042 AAATTACCA
1 AAATTACCA
55050051 TTTTACCCTC
Statistics
Matches: 217, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.01
27 211 0.97
28 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:55049837 original size:54 final size:54
Alignment explanation
Indices: 55049772--55050050 Score: 326
Period size: 54 Copynumber: 5.2 Consensus size: 54
55049762 TTAGTTTACC
* *
55049772 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
55049826 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
55049880 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * ** * ** *
55049934 AAATTACCAAAATACCCTTGATTTGTGAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*** ** * *
55049988 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
55050042 AAATTACCA
1 AAATTACCA
55050051 TTTTACCCTC
Statistics
Matches: 190, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 3 0.02
54 187 0.98
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:55049910 original size:81 final size:81
Alignment explanation
Indices: 55049772--55050050 Score: 346
Period size: 81 Copynumber: 3.4 Consensus size: 81
55049762 TTAGTTTACC
* * ** *
55049772 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
1 AAATTACCAAAATACCCTTGA-TTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAA
55049836 AATACCCCTGGTTTGTA
65 AATACCCCTGGTTTGTA
* *
55049853 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAA
*
55049918 ATACCCCTAGTTTGTA
66 ATACCCCTGGTTTGTA
* * ** * ** **
55049934 AAATTACCAAAATACCCTTGATTTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTATTGAA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAA
**
55049999 ATA-CCCTCGACTTGTA
66 ATACCCCT-GGTTTGTA
*
55050015 AAATTACCAAAGTACCCTTGATTTATAAAATTACCA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCA
55050051 TTTTACCCTC
Statistics
Matches: 169, Mismatches: 27, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
80 4 0.02
81 165 0.98
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAA
ATACCCCTGGTTTGTA
Found at i:55050057 original size:27 final size:27
Alignment explanation
Indices: 55049772--55050085 Score: 118
Period size: 27 Copynumber: 11.6 Consensus size: 27
55049762 TTAGTTTACC
* * *
55049772 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAGTACCCTC-AATTTATA
* *** *
55049799 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAGTACCCTCAATTTATA
* ** *
55049826 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAGTACCCTC-AATTTATA
* * ***
55049853 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAGTACCCTCAATTTATA
* *** *
55049880 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAGTACCCTCAATTTATA
* * * *
55049907 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAGTACCCTC-AATTTATA
* ** * *
55049934 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAGTACCCTCAATTTATA
* * * *
55049961 AAATTACTGAAA-TACCCTCGACTTGTA
1 AAATTAC-CAAAGTACCCTCAATTTATA
** * * *
55049988 AAATTATTGAAA-TACCCTCGACTTGTA
1 AAATTA-CCAAAGTACCCTCAATTTATA
**
55050015 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAGTACCCTCAATTTATA
*** *
55050042 AAATTACCATTTTACCCTCAATTTACA
1 AAATTACCAAAGTACCCTCAATTTATA
55050069 AAATTACCGAAA-TACCC
1 AAATTACC-AAAGTACCC
55050086 CTGTACGGTA
Statistics
Matches: 240, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.01
27 233 0.97
28 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAGTACCCTCAATTTATA
Found at i:55050058 original size:54 final size:54
Alignment explanation
Indices: 55049772--55050085 Score: 310
Period size: 54 Copynumber: 5.8 Consensus size: 54
55049762 TTAGTTTACC
* * *
55049772 AAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCTTGATTTATA
* * *
55049826 AAATTACCAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAATACCCTTGATTTATA
* * * * *
55049880 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGA-TTTATA
* * ** * * *
55049934 AAATTACCAAAATACCCTTGATTTGTGAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGATTTATA
*** * *
55049988 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGATTTATA
*** * ** *
55050042 AAATTACCATTTTACCCTCAATTTACAAAATTACCGAAATACCC
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC
55050086 CTGTACGGTA
Statistics
Matches: 214, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
54 213 1.00
55 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGATTTATA
Found at i:55050100 original size:27 final size:27
Alignment explanation
Indices: 55050070--55050122 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
55050060 CAATTTACAA
* *
55050070 AATTACCGAAATACCCCTGTACGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
55050097 AATTATCGAAATACCCCTGTAAGGTA
1 AATTATCGAAATACCCCTGTAGGGTA
55050123 ATTACCCCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:55050101 original size:81 final size:80
Alignment explanation
Indices: 55049772--55050087 Score: 294
Period size: 81 Copynumber: 3.9 Consensus size: 80
55049762 TTAGTTTACC
* * * *
55049772 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
1 AAATTACCAAAATACCCTTGA-TTTATAAAATTACC-AAATACCCTCGATTTACAAAATTACCAA
* *
55049836 AATACCCCTGGTTTGTA
64 AATACCCCTAGTCTGTA
* * * * ** *
55049853 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACC-AAATACCCTCGATTTACAAAATTACCAAA
*
55049918 ATACCCCTAGTTTGTA
65 ATACCCCTAGTCTGTA
* * * * ** ***
55049934 AAATTACCAAAATACCCTTGATTTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTATTGAA
1 AAATTACCAAAATACCCTTGATTTATAAAATTAC-CAAATACCCTCGATTTACAAAATTACCAAA
* *
55049999 ATA-CCCTCGACTTGTA
65 ATACCCCTAGTC-TGTA
* ** * *
55050015 AAATTACCAAAGTACCCTTGATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCGAA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCA-AATACCCTCGATTTACAAAATTACCAAA
55050080 ATACCCCT
65 ATACCCCT
55050088 GTACGGTAGA
Statistics
Matches: 197, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
80 6 0.03
81 187 0.95
82 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (80 bp):
AAATTACCAAAATACCCTTGATTTATAAAATTACCAAATACCCTCGATTTACAAAATTACCAAAA
TACCCCTAGTCTGTA
Found at i:55050144 original size:44 final size:44
Alignment explanation
Indices: 55050081--55050166 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
55050071 ATTACCGAAA
55050081 TACCCCTGTACGGTAGAATTATCGAAATACCCCTGTAAGGTAAT
1 TACCCCTGTACGGTAGAATTATCGAAATACCCCTGTAAGGTAAT
* *
55050125 TACCCCTGTA-GGATAGAATTATCGAAATACCCTTGTAGGGTA
1 TACCCCTGTACGG-TAGAATTATCGAAATACCCCTGTAAGGTA
55050167 GAATTACCAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
TACCCCTGTACGGTAGAATTATCGAAATACCCCTGTAAGGTAAT
Found at i:55050163 original size:27 final size:27
Alignment explanation
Indices: 55050125--55050372 Score: 304
Period size: 27 Copynumber: 9.1 Consensus size: 27
55050115 GTAAGGTAAT
*
55050125 TACCCCTGTAGGATAGAATTATCGAAA
1 TACCCCTGTAGGGTAGAATTATCGAAA
* *
55050152 TACCCTTGTAGGGTAGAATTA-CCAGAA
1 TACCCCTGTAGGGTAGAATTATCGA-AA
*
55050179 TACCCCTGTAGGGTAGAATTA-CTAAAA
1 TACCCCTGTAGGGTAGAATTATC-GAAA
*
55050206 TACCCCTGTAGGGTAGAATTATCGCAA
1 TACCCCTGTAGGGTAGAATTATCGAAA
* *
55050233 TACCCTTGTAGGGTAGAATTACCGAAA
1 TACCCCTGTAGGGTAGAATTATCGAAA
* *
55050260 TACCCCTATAGGGTAGAATTATTGAAA
1 TACCCCTGTAGGGTAGAATTATCGAAA
* *
55050287 TACCCCTATAGGGTAAAATTATCGAAA
1 TACCCCTGTAGGGTAGAATTATCGAAA
* *
55050314 TACCCCCTATAGGGTAGAATTA-CTAAAA
1 TA-CCCCTGTAGGGTAGAATTATC-GAAA
* *
55050342 TACCCCTGTAGGGTGGAATTATCGAGA
1 TACCCCTGTAGGGTAGAATTATCGAAA
55050369 TACC
1 TACC
55050373 TTGTGGGGTA
Statistics
Matches: 193, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.01
27 165 0.85
28 26 0.13
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
TACCCCTGTAGGGTAGAATTATCGAAA
Found at i:55050262 original size:81 final size:80
Alignment explanation
Indices: 55050125--55050362 Score: 341
Period size: 81 Copynumber: 2.9 Consensus size: 80
55050115 GTAAGGTAAT
*
55050125 TACCCCTGTAGGATAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCAGAATACCCCTGTAG
1 TACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCA-AATACCCCTGTAG
55050190 GGTAGAATTACTAAAA
65 GGTAGAATTACTAAAA
* *
55050206 TACCCCTGTAGGGTAGAATTATCGCAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAG
1 TACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACC-AAATACCCCTGTAG
* *
55050271 GGTAGAATTATTGAAA
65 GGTAGAATTACTAAAA
* * * * *
55050287 TACCCCTATAGGGTAAAATTATCGAAATACCCCCTATAGGGTAGAATTACTAAAATACCCCTGTA
1 TACCCCTGTAGGGTAGAATTATCGAAATA-CCCTTGTAGGGTAGAATTAC-CAAATACCCCTGTA
*
55050352 GGGTGGAATTA
64 GGGTAGAATTA
55050363 TCGAGATACC
Statistics
Matches: 141, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
81 100 0.71
82 41 0.29
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (80 bp):
TACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCAAATACCCCTGTAGG
GTAGAATTACTAAAA
Found at i:55050869 original size:22 final size:22
Alignment explanation
Indices: 55050817--55050881 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
55050807 TTAAAGCCTT
* *
55050817 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
55050839 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
55050861 CTGATTATGGCTGTGTACCAA
1 CTGATTATGGCTCTGTGCCAA
55050882 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:55051070 original size:27 final size:27
Alignment explanation
Indices: 55051040--55051138 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
55051030 ATTCTGTTAA
* *
55051040 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
55051067 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
55051094 ATGGCTCTGCCACAATATCTGTATT-TG
1 GTGGCTATGCCACAATATCTGT-TTCTG
* * *
55051121 GTGACTCTGTCACAATAT
1 GTGGCTATGCCACAATAT
55051139 TTGATAACTG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.13
27 45 0.73
28 9 0.15
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:55051312 original size:6 final size:6
Alignment explanation
Indices: 55051303--55051494 Score: 184
Period size: 6 Copynumber: 31.8 Consensus size: 6
55051293 CTGTCACCTA
*
55051303 ATTCTG ATTCTG ATTCTG ATTCTG -TTAC-G AATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG -ATTCTG ATTCTG ATTCTG
* *
55051351 ATTCT- ATTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
55051400 ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
*
55051448 ATAT-TG ATTCTG ATTCTG ATTATG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
55051495 CATTTTGGTT
Statistics
Matches: 155, Mismatches: 14, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
5 14 0.09
6 128 0.83
7 11 0.07
8 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:55051342 original size:30 final size:30
Alignment explanation
Indices: 55051278--55051494 Score: 284
Period size: 30 Copynumber: 7.4 Consensus size: 30
55051268 TTGCATTCAC
* * *
55051278 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
*
55051309 ATTCTGATTCTGATTCTGTTACGAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
55051339 ATTCTGATTCTGATTC---TA-T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
55051363 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
55051394 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
55051424 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * *
55051454 ATTCTGATTCTGATTATGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
55051484 ATTCTGATTCT
1 ATTCTGATTCT
55051495 CATTTTGGTT
Statistics
Matches: 165, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
24 21 0.13
27 3 0.02
29 1 0.01
30 97 0.59
31 43 0.26
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:55051421 original size:85 final size:85
Alignment explanation
Indices: 55051278--55051494 Score: 325
Period size: 85 Copynumber: 2.6 Consensus size: 85
55051268 TTGCATTCAC
*
55051278 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACGAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACGAATACTGATTC
*
55051343 TGATTCTGATTCTATTACTG
66 TGATTCTGATTCTATTACTA
*
55051363 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACGAATACTGATTC
*
55051428 TGATTCTGATTCTGTTACTA
66 TGATTCTGATTCTATTACTA
* *
55051448 ATAT-TGATTCTGATTCTG--A-TTATGTTACTGATTCTGATTCTGATTCT
1 AT-TCTGATTCTGATTCTGTCACCTA-ATT-CTGATTCTGATTCTGATTCT
55051495 CATTTTGGTT
Statistics
Matches: 123, Mismatches: 6, Indels: 7
0.90 0.04 0.05
Matches are distributed among these distances:
82 2 0.02
83 3 0.02
84 20 0.16
85 97 0.79
86 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACGAATACTGATTC
TGATTCTGATTCTATTACTA
Found at i:55054649 original size:30 final size:30
Alignment explanation
Indices: 55054615--55054675 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55054605 TCCTTAACTC
55054615 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
55054645 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
55054675 A
1 A
55054676 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:55056439 original size:48 final size:47
Alignment explanation
Indices: 55056379--55056472 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 47
55056369 ATTCTGTAAG
55056379 ATTGGTTTTGGGTACGGCTTTTTCTGCTTCTTCTTCTTTTCCCTGAA
1 ATTGGTTTTGGGTACGGCTTTTTCTGCTTCTTCTTCTTTTCCCTGAA
* *
55056426 ATTGGTTTTTGGGTATGGCTTTTTCTTCTTCTTCTTCTTTTCCCTGA
1 ATTGG-TTTTGGGTACGGCTTTTTCTGCTTCTTCTTCTTTTCCCTGA
55056473 CTGATCTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 5 0.11
48 39 0.89
ACGTcount: A:0.07, C:0.20, G:0.18, T:0.54
Consensus pattern (47 bp):
ATTGGTTTTGGGTACGGCTTTTTCTGCTTCTTCTTCTTTTCCCTGAA
Found at i:55057199 original size:18 final size:18
Alignment explanation
Indices: 55057154--55057217 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
55057144 ATGAAATAAG
55057154 TTATATGTTGTTGTTC-T
1 TTATATGTTGTTGTTCAT
*
55057171 TTAGGGA-GTTGTTGTTCAT
1 TTA--TATGTTGTTGTTCAT
55057190 TTATATGTTGTTGTTCAT
1 TTATATGTTGTTGTTCAT
*
55057208 TTATAAGTTG
1 TTATATGTTG
55057218 AAGTTTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.56
Consensus pattern (18 bp):
TTATATGTTGTTGTTCAT
Found at i:55059014 original size:14 final size:14
Alignment explanation
Indices: 55058995--55059053 Score: 91
Period size: 14 Copynumber: 4.2 Consensus size: 14
55058985 CCAGAAAAGT
*
55058995 AAATCATTTTTCAG
1 AAATCATTTTCCAG
55059009 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
55059023 AAATCATTTTCCAA
1 AAATCATTTTCCAG
*
55059037 AAATCAGTTTCCAG
1 AAATCATTTTCCAG
55059051 AAA
1 AAA
55059054 ATATTTTACC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.34
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:55067521 original size:43 final size:43
Alignment explanation
Indices: 55067474--55067628 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 43
55067464 TGTGTTCTCA
* *
55067474 TGTAAGACCACATTTGGGACATTGGCATGGATATGTGATTGCG
1 TGTAAGACCACGTTTGGGACATTGGCATCGATATGTGATTGCG
* * * * *
55067517 TGTAAAACCATGTATGGGAAATTGGCATCG-TATTTGATT-CG
1 TGTAAGACCACGTTTGGGACATTGGCATCGATATGTGATTGCG
* * * * * * *
55067558 TGTAAGACC-CTGTCTGGGGCAGTGTCATCAATATGTGATAGCA
1 TGTAAGACCAC-GTTTGGGACATTGGCATCGATATGTGATTGCG
* *
55067601 TGAAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTTTGGGACATTGGCAT
55067629 TGTAAGATAT
Statistics
Matches: 86, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
41 23 0.27
42 15 0.17
43 47 0.55
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTTTGGGACATTGGCATCGATATGTGATTGCG
Found at i:55071278 original size:41 final size:41
Alignment explanation
Indices: 55071116--55071282 Score: 164
Period size: 41 Copynumber: 4.0 Consensus size: 41
55071106 TGCTAATCGG
*
55071116 GGTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GGTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
55071158 -G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GGTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* * **
55071201 -GTCATAATCGGA-CTTAGT-TCCGAAGGGCCTGCGAGCCAGT
1 GGTC-TAATCCGAGCTTAGTCT-CGAAGGGCTTTTGAGCCAGT
*
55071241 GGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GGTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
55071282 G
1 G
55071283 CTAAGAGTCG
Statistics
Matches: 103, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
39 3 0.03
40 17 0.17
41 47 0.46
42 19 0.18
43 12 0.12
44 1 0.01
45 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (41 bp):
GGTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:55071307 original size:41 final size:41
Alignment explanation
Indices: 55071138--55071308 Score: 152
Period size: 41 Copynumber: 4.1 Consensus size: 41
55071128 AGCTTGGTCT
* * *
55071138 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGCTAATAATCGGACTTAGTTC
*
55071179 CGAAGGGCTTTTTAGAGCCAGTG-TCATAATCGGACTTAGTTC
1 CGAAGGGC-TTTT-GAGCCAGTGCTAATAATCGGACTTAGTTC
* ** * * * *
55071221 CGAAGGGCCTGCGAGCCAGTGGT-CTAATCCGAGCTT-GGTC
1 CGAAGGGCTTTTGAGCCAGTGCTAATAATCGGA-CTTAGTTC
* *
55071261 TCGAAGGGCTTTTGAGCCAGTGCTAAGAGTCGGACTTTA-TTC
1 -CGAAGGGCTTTTGAGCCAGTGCTAATAATCGGAC-TTAGTTC
55071303 CGAAGG
1 CGAAGG
55071309 ATGTTGCACC
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
40 19 0.18
41 39 0.38
42 36 0.35
43 9 0.09
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (41 bp):
CGAAGGGCTTTTGAGCCAGTGCTAATAATCGGACTTAGTTC
Found at i:55078362 original size:39 final size:39
Alignment explanation
Indices: 55078241--55078464 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 39
55078231 GCTACTCGTT
* *
55078241 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* * *
55078281 CAATTGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
55078321 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* *
55078360 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTA-GTAACTCGCA
* * * *
55078399 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
55078440 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55078465 CATCATTCAA
Statistics
Matches: 160, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
38 4 0.03
39 68 0.43
40 75 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:55078458 original size:79 final size:79
Alignment explanation
Indices: 55078222--55078464 Score: 221
Period size: 79 Copynumber: 3.1 Consensus size: 79
55078212 CGGAATTTAA
** * * * * *
55078222 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAT
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTAGCACAAA
*
55078285 TGCCTTCGGGACTTAAC
63 TGCCTTCGGGACTTAGC
* * *
55078302 CCAGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGC
*
55078367 CTTC-GGATCTTAGT
66 CTTCGGGA-CTTAGC
* * * *
55078381 CCGGATAT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCA-CTTAGCACAA
1 CCGGATATAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGT-ATC-TAGCACAA
55078443 A-GCCTTCGGGACTTAGC
62 ATGCCTTCGGGACTTAGC
55078460 CCGGA
1 CCGGA
55078465 CATCATTCAA
Statistics
Matches: 137, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
78 27 0.20
79 70 0.51
80 40 0.29
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGC
CTTCGGGACTTAGC
Found at i:55085650 original size:42 final size:42
Alignment explanation
Indices: 55085539--55085652 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 42
55085529 TACCATACCA
* * *
55085539 ATGCCATATCCTAGATATAGTCTTACATGAGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCG
*
55085581 ATGCCAATAGCCCAGATATGGTCTTACACGA-AGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAGA-TCTCATATCG
55085624 ATGCCATATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
55085653 TAATTTCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCG
Found at i:55099492 original size:40 final size:40
Alignment explanation
Indices: 55099447--55099638 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 40
55099437 TATAACCACA
** *
55099447 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
55099487 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
55099527 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * *
55099567 CGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
55099607 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
55099639 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:55099567 original size:80 final size:79
Alignment explanation
Indices: 55099419--55099639 Score: 309
Period size: 80 Copynumber: 2.8 Consensus size: 79
55099409 ACCCAAGTTT
* * * * * *
55099419 CTTCGGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGT
1 CTTCGG-ATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
55099483 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
55099498 CTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
55099563 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * *
55099578 CTTCGGGTCTTAGCCCAGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55099640 CATTCAAATT
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
78 2 0.02
79 10 0.08
80 114 0.90
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:55101029 original size:27 final size:27
Alignment explanation
Indices: 55100999--55101176 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
55100989 ATATTGAGCC
* *
55100999 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
55101026 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
55101053 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
55101081 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55101108 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
55101135 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
55101162 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55101177 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55101111 original size:55 final size:54
Alignment explanation
Indices: 55100999--55101176 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
55100989 ATATTGAGCC
* * * * *
55100999 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
55101053 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
55101108 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
55101162 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55101177 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:55108885 original size:27 final size:27
Alignment explanation
Indices: 55108855--55109032 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
55108845 ATATTGAGCC
* *
55108855 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
55108882 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
55108909 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
55108937 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55108964 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
55108991 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
55109018 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55109033 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55108967 original size:55 final size:54
Alignment explanation
Indices: 55108855--55109032 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
55108845 ATATTGAGCC
* * * * *
55108855 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
55108909 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
55108964 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
55109018 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55109033 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:55118609 original size:40 final size:40
Alignment explanation
Indices: 55118564--55118755 Score: 231
Period size: 40 Copynumber: 4.8 Consensus size: 40
55118554 TATAACCACA
** *
55118564 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
55118604 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
55118644 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
55118684 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
55118724 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
55118756 TCATTCAAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:55118684 original size:80 final size:79
Alignment explanation
Indices: 55118536--55118756 Score: 318
Period size: 80 Copynumber: 2.8 Consensus size: 79
55118526 ACCCAAGTTT
* * * * * *
55118536 CTTCGGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGT
1 CTTCGG-ATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
55118600 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
55118615 CTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
55118680 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
55118695 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55118757 CATTCAAATG
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
78 2 0.02
79 10 0.08
80 115 0.91
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:55123256 original size:19 final size:19
Alignment explanation
Indices: 55123232--55123271 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
55123222 GATGTGGTTT
55123232 GTGATTGTGTATATGATGG
1 GTGATTGTGTATATGATGG
55123251 GTGATTGTGTATATGATGG
1 GTGATTGTGTATATGATGG
55123270 GT
1 GT
55123272 TATGTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (19 bp):
GTGATTGTGTATATGATGG
Found at i:55135427 original size:22 final size:22
Alignment explanation
Indices: 55135402--55135445 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
55135392 ATTCAACACA
55135402 AAGGCAAGATAAGCTTCATAGC
1 AAGGCAAGATAAGCTTCATAGC
55135424 AAGGCAAGATAAGCTTCATAGC
1 AAGGCAAGATAAGCTTCATAGC
55135446 CCTTTCTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (22 bp):
AAGGCAAGATAAGCTTCATAGC
Found at i:55138439 original size:27 final size:27
Alignment explanation
Indices: 55138404--55138518 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
55138394 ACGGGTAAAA
* *
55138404 CGGTCATTTTACCCTACAAGGGTATTT
1 CGGTAATTTTACACTACAAGGGTATTT
**
55138431 TTGTAATTTTACACTACAAGGGTATTT
1 CGGTAATTTTACACTACAAGGGTATTT
* *
55138458 CGGTAATTTCACA-T-CAGGGGTATTT
1 CGGTAATTTTACACTACAAGGGTATTT
* * * *
55138483 CGATAATTTTACAATGCTAGGGTATTT
1 CGGTAATTTTACACTACAAGGGTATTT
*
55138510 CAGTAATTT
1 CGGTAATTT
55138519 CACAAATCAG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
25 21 0.29
26 2 0.03
27 49 0.68
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
CGGTAATTTTACACTACAAGGGTATTT
Found at i:55138484 original size:25 final size:27
Alignment explanation
Indices: 55138418--55138532 Score: 94
Period size: 27 Copynumber: 4.3 Consensus size: 27
55138408 CATTTTACCC
* ** * *
55138418 TACAAGGGTATTTTTGTAATTTTACAC
1 TACAGGGGTATTTCGGTAATTTCACAA
*
55138445 TACAAGGGTATTTCGGTAATTTCAC-A
1 TACAGGGGTATTTCGGTAATTTCACAA
* *
55138471 T-CAGGGGTATTTCGATAATTTTACAA
1 TACAGGGGTATTTCGGTAATTTCACAA
* *
55138497 TGCTA-GGGTATTTCAGTAATTTCACAA
1 TAC-AGGGGTATTTCGGTAATTTCACAA
55138524 -ATCAGGGGT
1 TA-CAGGGGT
55138533 TTTAACGACC
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
25 20 0.28
26 4 0.06
27 47 0.65
28 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (27 bp):
TACAGGGGTATTTCGGTAATTTCACAA
Found at i:55142847 original size:27 final size:27
Alignment explanation
Indices: 55142817--55142874 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
55142807 TAAAATAGTC
*
55142817 ATTTTATC-CTACATGGGTATTTCAGTA
1 ATTTTA-CACTACAAGGGTATTTCAGTA
*
55142844 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
55142871 ATTT
1 ATTT
55142875 CACAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:55151605 original size:30 final size:30
Alignment explanation
Indices: 55151569--55151628 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
55151559 TTCCCAAGCC
*
55151569 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* * *
55151599 TAGGGGCAAAAATGTAGTTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
55151629 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:55153880 original size:27 final size:27
Alignment explanation
Indices: 55153850--55153901 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
55153840 CAATTTACTG
55153850 TAGCATCATGAAGTGTCAACCAATCTA
1 TAGCATCATGAAGTGTCAACCAATCTA
*
55153877 TAGCATCATGTAGTGTCAACCAATC
1 TAGCATCATGAAGTGTCAACCAATC
55153902 CATATCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (27 bp):
TAGCATCATGAAGTGTCAACCAATCTA
Found at i:55164113 original size:26 final size:27
Alignment explanation
Indices: 55164077--55164128 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
55164067 ACCAAATTCA
55164077 TAAAATGACTATTATG-CCTTATGAGG
1 TAAAATGACTATTATGCCCTTATGAGG
55164103 TAAAATGACTATTATGCCCTTATGAG
1 TAAAATGACTATTATGCCCTTATGAG
55164129 ATGTATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (27 bp):
TAAAATGACTATTATGCCCTTATGAGG
Found at i:55164481 original size:34 final size:33
Alignment explanation
Indices: 55164422--55164486 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
55164412 GTCACTGAAT
* *
55164422 TGGGCTAAGGCCCACACTGATACTGATACTGTAA
1 TGGGCTAAGGCCCACACCGAAACTGA-ACTGTAA
55164456 TGGGCTAAGGCCCTA-ACCGAAACTGAACTGT
1 TGGGCTAAGGCCC-ACACCGAAACTGAACTGT
55164487 TACTGATACG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.18
34 22 0.79
35 1 0.04
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (33 bp):
TGGGCTAAGGCCCACACCGAAACTGAACTGTAA
Found at i:55169596 original size:20 final size:20
Alignment explanation
Indices: 55169567--55169605 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
55169557 TGTAAGCAAT
55169567 GATCTATAAATCATGAGATG
1 GATCTATAAATCATGAGATG
*
55169587 GATCTGTAAATCATGAGAT
1 GATCTATAAATCATGAGAT
55169606 ATAATGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
GATCTATAAATCATGAGATG
Found at i:55176959 original size:20 final size:20
Alignment explanation
Indices: 55176934--55176975 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
55176924 GGTGTAAGCA
55176934 ATGGATCTATAAATCATGAG
1 ATGGATCTATAAATCATGAG
*
55176954 ATGGATCTGTAAATCATGAG
1 ATGGATCTATAAATCATGAG
55176974 AT
1 AT
55176976 ATAATGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGGATCTATAAATCATGAG
Found at i:55182793 original size:47 final size:44
Alignment explanation
Indices: 55182683--55182801 Score: 114
Period size: 47 Copynumber: 2.6 Consensus size: 44
55182673 GTTGTTGTTG
*
55182683 GCTAGTGTAAGACATGTCTGGGACATGCAGCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCAGCGG-C-CATTACGAGA
* * **
55182729 GCCAGCGTAAGACCATGTCTGGGACATGGCATTGG-CATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCAGCGGCCATT---ACGAGA
*
55182777 GCTAGTGTAAGACATGTTTGGGACA
1 GCTAGTGTAAGACATGTCTGGGACA
55182802 CACAAATCGG
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
45 4 0.07
46 10 0.17
47 26 0.43
48 20 0.33
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCAGCGGCCATTACGAGA
Found at i:55183971 original size:20 final size:21
Alignment explanation
Indices: 55183933--55183971 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55183923 CCGAGTTGGT
55183933 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
55183954 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
55183972 ATTTTAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:55188677 original size:28 final size:28
Alignment explanation
Indices: 55188614--55188736 Score: 158
Period size: 28 Copynumber: 4.4 Consensus size: 28
55188604 ATATTAAGTC
*
55188614 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
55188641 TGTACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55188669 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55188697 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55188726 CGCACACTTAG
1 CGCACACTTAG
55188737 CGCCAATCTC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
27 20 0.24
28 47 0.57
29 16 0.19
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55188684 original size:55 final size:57
Alignment explanation
Indices: 55188613--55188736 Score: 162
Period size: 55 Copynumber: 2.2 Consensus size: 57
55188603 TATATTAAGT
* * * * *
55188613 CCGCACACTCAGTGCTATATAATC-AACTTGTACACTTAGTGCTATATAA-TCAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATACAATTCAAAC
* * *
55188668 TCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATACAATTCAAAC
55188725 CCGCACACTTAG
1 CCGCACACTTAG
55188737 CGCCAATCTC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 21 0.36
56 21 0.36
57 16 0.28
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (57 bp):
CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATACAATTCAAAC
Found at i:55196712 original size:28 final size:28
Alignment explanation
Indices: 55196650--55196771 Score: 165
Period size: 28 Copynumber: 4.4 Consensus size: 28
55196640 TATTAAGTCT
* *
55196650 GCACACTCAGTGCTATATAATC-AACTT
1 GCACACTTAGTGCTATATAATCAAACTC
55196677 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
*
55196705 GCACACTTAGTGCTACATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * * *
55196733 GCACACTTAGTGCTGTACAATTTAAACCC
1 GCACACTTAGTGCTATATAA-TCAAACTC
55196762 GCACACTTAG
1 GCACACTTAG
55196772 CGCCAATTTC
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
27 21 0.25
28 48 0.56
29 16 0.19
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:55201094 original size:12 final size:12
Alignment explanation
Indices: 55201071--55201101 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
55201061 TTTTATCAAG
55201071 AATATT-TTTTT
1 AATATTATTTTT
55201082 AATATTATTTTT
1 AATATTATTTTT
55201094 AATATTAT
1 AATATTAT
55201102 AAAAATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
AATATTATTTTT
Found at i:55201489 original size:12 final size:14
Alignment explanation
Indices: 55201464--55201496 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
55201454 CTTTATTCGA
55201464 TATATATCACTTTT
1 TATATATCACTTTT
55201478 TATATAT-A-TTTT
1 TATATATCACTTTT
55201490 TATATAT
1 TATATAT
55201497 TATAGTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATATCACTTTT
Found at i:55203040 original size:22 final size:22
Alignment explanation
Indices: 55203015--55203068 Score: 56
Period size: 25 Copynumber: 2.4 Consensus size: 22
55203005 ATTGAACTAA
*
55203015 ATTTCTTACAAAGTGTTCTATT
1 ATTTCTTAAAAAGTGTTCTATT
*
55203037 ATTTTATATAAAAAAGTGTTCTATT
1 A-TTTCT-T-AAAAAGTGTTCTATT
55203062 A-TTCTTA
1 ATTTCTTA
55203069 TAACATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
21 1 0.04
22 2 0.08
23 7 0.27
24 1 0.04
25 15 0.58
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.50
Consensus pattern (22 bp):
ATTTCTTAAAAAGTGTTCTATT
Found at i:55203692 original size:19 final size:19
Alignment explanation
Indices: 55203665--55203717 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
55203655 TTTTTGATAT
55203665 GAAATTTTATGAAAGATGA
1 GAAATTTTATGAAAGATGA
* * *
55203684 GAAAATTTACG-CAGATGA
1 GAAATTTTATGAAAGATGA
*
55203702 GAAATTTTGTGAAAGA
1 GAAATTTTATGAAAGA
55203718 AAATTGATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.45, C:0.04, G:0.23, T:0.28
Consensus pattern (19 bp):
GAAATTTTATGAAAGATGA
Found at i:55208688 original size:79 final size:81
Alignment explanation
Indices: 55208549--55208733 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
55208539 TTGAATGATG
* *
55208549 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCAAT
55208613 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * ** *
55208628 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCA
*
55208690 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
55208708 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55208734 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCAAT
TGTGCGAGATACTATA
Found at i:55208740 original size:40 final size:40
Alignment explanation
Indices: 55208549--55208733 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
55208539 TTGAATGATG
* * * *
55208549 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
55208589 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
55208629 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55208668 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55208709 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55208734 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55208755 original size:79 final size:79
Alignment explanation
Indices: 55208605--55208766 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 79
55208595 CTAAGATCCA
* * **
55208605 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
*
55208670 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * *
55208684 AAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
*
55208747 ATCC-GGTTAAATTCCG
63 ATCCGGGTTAAATCCCG
55208763 AAGG
1 AAGG
55208767 TACGTGATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.62
80 25 0.35
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:55225494 original size:22 final size:23
Alignment explanation
Indices: 55225469--55225524 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
55225459 CTTATGATGC
55225469 ATGTTTTGAATGGCTCATATGG-
1 ATGTTTTGAATGGCTCATATGGT
55225491 ATGTTTTGAATGGCTCATATGGT
1 ATGTTTTGAATGGCTCATATGGT
55225514 ATGTTTTGAAT
1 ATGTTTTGAAT
55225525 TATTAAGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (23 bp):
ATGTTTTGAATGGCTCATATGGT
Found at i:55228787 original size:13 final size:13
Alignment explanation
Indices: 55228769--55228811 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
55228759 AGTATTAGTC
55228769 TTATTTTTATTAT
1 TTATTTTTATTAT
55228782 TTA-TTTTAGTTAT
1 TTATTTTTA-TTAT
55228795 TTATTTTTATT-T
1 TTATTTTTATTAT
55228807 TTATT
1 TTATT
55228812 GGGAATCACG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.39
13 12 0.43
14 5 0.18
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:55228805 original size:6 final size:6
Alignment explanation
Indices: 55228769--55228811 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
55228759 AGTATTAGTC
55228769 TTATTT TTATTAT TTA-TT TTAGTTAT TTATTT TTATTT TTATT
1 TTATTT TTATT-T TTATTT TTA-TT-T TTATTT TTATTT TTATT
55228812 GGGAATCACG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.12
6 18 0.55
7 7 0.21
8 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:55230843 original size:32 final size:32
Alignment explanation
Indices: 55230749--55230832 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
55230739 CAATTGAATC
* *
55230749 TCCGTACATACATGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTATACCAATT
55230781 TCCGTACATACCTGTACCATATTATACCAATT
1 TCCGTACATACCTGTACCATATTATACCAATT
* *
55230813 TTCGTAGATACCTGTACCAT
1 TCCGTACATACCTGTACCAT
55230833 CTCTTACCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.35
Consensus pattern (32 bp):
TCCGTACATACCTGTACCATATTATACCAATT
Found at i:55230977 original size:28 final size:28
Alignment explanation
Indices: 55230946--55231047 Score: 109
Period size: 28 Copynumber: 3.6 Consensus size: 28
55230936 TTCTGGATGT
55230946 TTCGCACACTAAGTGCCATCCTCGTTAC
1 TTCGCACACTAAGTGCCATCCTCGTTAC
* * *
55230974 TTCGCACACTAACTGCCATTCTGGATGTA-
1 TTCGCACACTAAGTGCCATCCTCG-T-TAC
* *
55231003 -TCGCACACTAAGTGCCATCCCCGATAC
1 TTCGCACACTAAGTGCCATCCTCGTTAC
* *
55231030 TTAGCACATTAAGTGCCA
1 TTCGCACACTAAGTGCCA
55231048 CATATCATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.03
28 55 0.92
29 1 0.02
30 2 0.03
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCGTTAC
Found at i:55230985 original size:56 final size:56
Alignment explanation
Indices: 55230886--55231047 Score: 175
Period size: 56 Copynumber: 2.9 Consensus size: 56
55230876 TGAATATTCA
* ** * * * *
55230886 ATGTATCGCACA-TTAGATGCCATATCCTATACCTT-GCATACTAAGTGTCGTTCTGG
1 ATGTATCGCACACTAAG-TGCCATCCCCGATA-CTTAGCACACTAAGTGCCATTCTGG
* * * * *
55230942 ATGTTTCGCACACTAAGTGCCATCCTCGTTACTTCGCACACTAACTGCCATTCTGG
1 ATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACACTAAGTGCCATTCTGG
*
55230998 ATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACATTAAGTGCCA
1 ATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACACTAAGTGCCA
55231048 CATATCATTA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
55 3 0.03
56 81 0.93
57 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (56 bp):
ATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACACTAAGTGCCATTCTGG
Found at i:55233027 original size:14 final size:14
Alignment explanation
Indices: 55233008--55233063 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
55232998 CTAATAGTGC
55233008 TAGGACTTATGTGA
1 TAGGACTTATGTGA
55233022 TAGGACTTATGTGA
1 TAGGACTTATGTGA
* ** *
55233036 GAAAATTTA-GTTGA
1 TAGGACTTATG-TGA
55233050 TAGGACTTATGTGA
1 TAGGACTTATGTGA
55233064 GAAAATTTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (14 bp):
TAGGACTTATGTGA
Found at i:55233059 original size:28 final size:28
Alignment explanation
Indices: 55233019--55233073 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
55233009 AGGACTTATG
55233019 TGATAGGACTTATGTGAGAAAATTTAGT
1 TGATAGGACTTATGTGAGAAAATTTAGT
55233047 TGATAGGACTTATGTGAGAAAATTTAG
1 TGATAGGACTTATGTGAGAAAATTTAG
55233074 AAATGTGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (28 bp):
TGATAGGACTTATGTGAGAAAATTTAGT
Found at i:55233249 original size:56 final size:56
Alignment explanation
Indices: 55233184--55233303 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
55233174 ACAAGGGATG
55233184 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
55233240 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
55233296 ATGGGCAA
1 ATGGGCAA
55233304 TAAACTAATG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:55235182 original size:79 final size:81
Alignment explanation
Indices: 55235039--55235222 Score: 243
Period size: 79 Copynumber: 2.3 Consensus size: 81
55235029 GCTACTCGTT
* *
55235039 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGG
* *
55235103 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* **
55235118 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCG
* *
55235181 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
55235198 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55235223 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
78 34 0.37
79 39 0.42
80 19 0.21
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:55235222 original size:40 final size:40
Alignment explanation
Indices: 55235020--55235222 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
55235010 CGGAATTTAA
** *
55235020 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55235060 CCGGTTATAGTAACTCGCACAAATGCCTTC-GGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55235099 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55235138 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55235178 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55235218 CCGGA
1 CCGGA
55235223 CATCATTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 68 0.49
40 57 0.41
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55250508 original size:28 final size:28
Alignment explanation
Indices: 55250489--55250642 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
55250479 TATATAAGTC
*
55250489 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55250516 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
55250544 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
55250572 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55250600 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
55250629 CGTACACTTAGTGC
1 CGCACACTTAGTGC
55250643 CAATCTCATG
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 21 0.18
28 78 0.67
29 18 0.15
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55258670 original size:28 final size:28
Alignment explanation
Indices: 55258607--55258760 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
55258597 ATATTAAGTC
*
55258607 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55258634 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
55258662 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55258690 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55258718 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
55258747 CGTACACTTAGTGC
1 CGCACACTTAGTGC
55258761 CAATCTCATG
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
27 21 0.18
28 76 0.66
29 18 0.16
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55260653 original size:30 final size:30
Alignment explanation
Indices: 55260617--55260675 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
55260607 CTCAAGATGT
55260617 CCTACATTCATAAAGACACGAAATTCCTCG
1 CCTACATTCATAAAGACACGAAATTCCTCG
55260647 CCTACATTCATAAAGACACGAAATTCCTC
1 CCTACATTCATAAAGACACGAAATTCCTC
55260676 AAACCTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.31, G:0.08, T:0.24
Consensus pattern (30 bp):
CCTACATTCATAAAGACACGAAATTCCTCG
Found at i:55261437 original size:15 final size:15
Alignment explanation
Indices: 55261404--55261456 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
55261394 CATAACGGAG
* * *
55261404 AAATCCAGAATATAG
1 AAATCCAAAATAAAA
*
55261419 AAATCCAACATAAAA
1 AAATCCAAAATAAAA
* *
55261434 AAATCTAAAATAAGA
1 AAATCCAAAATAAAA
55261449 AAATCCAA
1 AAATCCAA
55261457 TCACGATACC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.62, C:0.15, G:0.06, T:0.17
Consensus pattern (15 bp):
AAATCCAAAATAAAA
Found at i:55263308 original size:95 final size:95
Alignment explanation
Indices: 55263195--55263394 Score: 341
Period size: 95 Copynumber: 2.1 Consensus size: 95
55263185 AGCTTTACTT
*
55263195 GGCCTAAGCCCTATTCAGAAATCAGAGTTAACTAGGCCTTAGCCCATATCAATATTAATCTGGGC
1 GGCCTAAGCCCTATTCAGAAATCAGAGTTAACTAGGCCTTAGCCCATATCAATATTAATCTGGAC
*
55263260 CATAGCCCCTTACAGT-TCCAGAGTATACCG
66 CATAGCCCCTTACAATAT-CAGAGTATACCG
*
55263290 GGCCTAAGCCCTATTCAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGAC
1 GGCCTAAGCCCTATTCAGAAATCAGAGTTAACTAGGCCTTAGCCCATATCAATATTAATCTGGAC
*
55263355 CATAGCCCCTTACAATATCAGAGTATACTG
66 CATAGCCCCTTACAATATCAGAGTATACCG
55263385 GGCCT-AGCCC
1 GGCCTAAGCCC
55263395 GTATCAGTAT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
94 5 0.05
95 94 0.94
96 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (95 bp):
GGCCTAAGCCCTATTCAGAAATCAGAGTTAACTAGGCCTTAGCCCATATCAATATTAATCTGGAC
CATAGCCCCTTACAATATCAGAGTATACCG
Found at i:55263385 original size:61 final size:61
Alignment explanation
Indices: 55263296--55263458 Score: 183
Period size: 60 Copynumber: 2.7 Consensus size: 61
55263286 ACCGGGCCTA
*
55263296 AGCCCTATTCAGAAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGACCAT
1 AGCCCTATT-ACAAATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATTAATCTGGACCAT
* * * * *
55263358 AGCCC-CTTACAATATCAGAGTATACTGGGCC-TAGCCCGTATCAGTATTAATCTGGGCCGT
1 AGCCCTATTACAA-ATCAGAGTATACTGGGCCTTAGCCCATATCAATATTAATCTGGACCAT
* *
55263418 AGCCCTATTACAAGTC-GAGATATATTGGGCCTT-GCCCATAT
1 AGCCCTATTACAAATCAGAG-TATACTGGGCCTTAGCCCATAT
55263459 TAACACAGTT
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
59 3 0.03
60 52 0.60
61 25 0.29
62 6 0.07
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (61 bp):
AGCCCTATTACAAATCAGAGTATACTGGGCCTTAGCCCATATCAATATTAATCTGGACCAT
Found at i:55263505 original size:19 final size:20
Alignment explanation
Indices: 55263463--55263506 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
55263453 CCATATTAAC
** *
55263463 ACAGTTGGGCCCATTGCAAT
1 ACAGTTGGGCCCATAACAAA
55263483 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
55263502 ACAGT
1 ACAGT
55263507 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:55267821 original size:95 final size:95
Alignment explanation
Indices: 55267652--55267856 Score: 306
Period size: 95 Copynumber: 2.2 Consensus size: 95
55267642 GTTCAAGCTT
*
55267652 TACTCGGCCTAAGCCCTATTCAAAAATCAGAGTTAACTGGGCCTTAACCCATATCAATATTAATC
1 TACTGGGCCTAAGCCCTATTCAAAAATCAGAGTTAACTGGGCCTTAACCCATATCAATATTAATC
* * * *
55267717 TGGGCCATAGCCCTTTACAGT-TCCAGAGTA
66 TAGGCCATAGCCCCTTACAATAT-CAAAGTA
* *
55267747 TACTGGGCCTAAGCCCTATTCAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATC
1 TACTGGGCCTAAGCCCTATTCAAAAATCAGAGTTAACTGGGCCTTAACCCATATCAATATTAATC
* *
55267812 TAGGTCATAGCCCCTTGCAATATCAAAGTA
66 TAGGCCATAGCCCCTTACAATATCAAAGTA
55267842 TACTGGGCCT-AGCCC
1 TACTGGGCCTAAGCCC
55267857 ATATCAGTAT
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
94 5 0.05
95 94 0.94
96 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (95 bp):
TACTGGGCCTAAGCCCTATTCAAAAATCAGAGTTAACTGGGCCTTAACCCATATCAATATTAATC
TAGGCCATAGCCCCTTACAATATCAAAGTA
Found at i:55267967 original size:19 final size:20
Alignment explanation
Indices: 55267925--55267968 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
55267915 CCATATTAAC
** *
55267925 ACAGTTGGGCCCATTGCAAT
1 ACAGTTGGGCCCATAACAAA
55267945 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
55267964 ACAGT
1 ACAGT
55267969 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:55274732 original size:16 final size:16
Alignment explanation
Indices: 55274696--55274732 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
55274686 ATGAATCTCT
55274696 ATTATCAATCCACATG
1 ATTATCAATCCACATG
* *
55274712 GTTATCAATCCACTTG
1 ATTATCAATCCACATG
55274728 ATTAT
1 ATTAT
55274733 ATATATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTATCAATCCACATG
Done.