Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 46 of 66
Found at i:16581307 original size:18 final size:19
Alignment explanation
Indices: 16581271--16581308 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
16581261 TATTATTGAT
* *
16581271 GAAATTAATTATAAGAAAA
1 GAAATTAATTAGAAAAAAA
16581290 GAAA-TAATTAGAAAAAAA
1 GAAATTAATTAGAAAAAAA
16581308 G
1 G
16581309 TTTAGGAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (19 bp):
GAAATTAATTAGAAAAAAA
Found at i:16594923 original size:38 final size:38
Alignment explanation
Indices: 16594872--16594999 Score: 170
Period size: 38 Copynumber: 3.4 Consensus size: 38
16594862 CAAAATAAAA
16594872 CATTGATAATGGTACAATCCCTACTATCTTGGAGAAAG
1 CATTGATAATGGTACAATCCCTACTATCTTGGAGAAAG
* * *
16594910 CATTGATAATGGTACAATCCCTACTATCTTTGACAAAA
1 CATTGATAATGGTACAATCCCTACTATCTTGGAGAAAG
** *
16594948 TGTTGATAATGGTACATTCTCC-ACTATCTTGGACG-AAG
1 CATTGATAATGGTACAATC-CCTACTATCTTGGA-GAAAG
16594986 CATTGATAATGGTA
1 CATTGATAATGGTA
16595000 TAGTCTTCAC
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 75 0.97
39 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (38 bp):
CATTGATAATGGTACAATCCCTACTATCTTGGAGAAAG
Found at i:16595016 original size:38 final size:38
Alignment explanation
Indices: 16594872--16595056 Score: 164
Period size: 38 Copynumber: 4.9 Consensus size: 38
16594862 CAAAATAAAA
*
16594872 CATTGATAATGGTACAATC-CCTACTATCTTGGA-GAAAG
1 CATTGATAATGGTACAGTCTCC-ACTATCTTGGACG-AAG
* * * *
16594910 CATTGATAATGGTACAATC-CCTACTATCTTTGACAAAA
1 CATTGATAATGGTACAGTCTCC-ACTATCTTGGACGAAG
** *
16594948 TGTTGATAATGGTACATTCTCCACTATCTTGGACGAAG
1 CATTGATAATGGTACAGTCTCCACTATCTTGGACGAAG
* * *
16594986 CATTGATAATGGTATAGTCTTCACTGTCTTGGACGAATG
1 CATTGATAATGGTACAGTCTCCACTATCTTGGACGAA-G
* * * *
16595025 --TTAATAATGGCACAATTTCCACTATCTTGGAC
1 CATTGATAATGGTACAGTCTCCACTATCTTGGAC
16595057 AGTATTAAGG
Statistics
Matches: 122, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
37 25 0.20
38 94 0.77
39 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (38 bp):
CATTGATAATGGTACAGTCTCCACTATCTTGGACGAAG
Found at i:16595056 original size:75 final size:77
Alignment explanation
Indices: 16594877--16595056 Score: 210
Period size: 76 Copynumber: 2.4 Consensus size: 77
16594867 TAAAACATTG
*
16594877 ATAATGGTACAA-TCCCTACTATCTTGGA-GAAAGCATTGATAATGGTACAATCCCTACTATCTT
1 ATAATGGTACAATTTCC-ACTATCTTGGACGAAAGCATTGATAATGGTACAATCCCTACTATCTT
* *
16594940 TGACAAAATGTTG
65 GGACAAAATGTTA
* * * *
16594953 ATAATGGTAC-ATTCTCCACTATCTTGGACG-AAGCATTGATAATGGTATAGT-CTTCACTGTCT
1 ATAATGGTACAATT-TCCACTATCTTGGACGAAAGCATTGATAATGGTACAATCCCT-ACTATCT
*
16595015 TGGAC-GAATGTTA
64 TGGACAAAATGTTA
*
16595028 ATAATGGCACAATTTCCACTATCTTGGAC
1 ATAATGGTACAATTTCCACTATCTTGGAC
16595057 AGTATTAAGG
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
75 33 0.37
76 54 0.60
77 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (77 bp):
ATAATGGTACAATTTCCACTATCTTGGACGAAAGCATTGATAATGGTACAATCCCTACTATCTTG
GACAAAATGTTA
Found at i:16597690 original size:18 final size:18
Alignment explanation
Indices: 16597669--16597704 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
16597659 TCTTAAAATT
16597669 TTTTATA-CTTTTTATAAA
1 TTTTATATC-TTTTATAAA
16597687 TTTTATATCTTTTATAAA
1 TTTTATATCTTTTATAAA
16597705 AAAAATAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATATCTTTTATAAA
Found at i:16598053 original size:24 final size:23
Alignment explanation
Indices: 16598018--16598063 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
16598008 AGATTTATAA
16598018 TAAAATTATTAATATAATATATT
1 TAAAATTATTAATATAATATATT
* *
16598041 TAAAATATATTAATTTATTATAT
1 TAAAAT-TATTAATATAATATAT
16598064 CTATGTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAAATTATTAATATAATATATT
Found at i:16599492 original size:2 final size:2
Alignment explanation
Indices: 16599485--16599530 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
16599475 NNNNNNNNNN
16599485 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16599527 AT AT
1 AT AT
16599531 GAACTGATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16612637 original size:23 final size:23
Alignment explanation
Indices: 16612608--16612686 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
16612598 TGTGAGACGG
16612608 GTGTGACACGGCATGGTG-GCAAT
1 GTGTGACACGGCATGGTGAG-AAT
*
16612631 GTGTGACACGTCATGGTGAGAAT
1 GTGTGACACGGCATGGTGAGAAT
* * * * *
16612654 ATGTGACACGACAGGGTTTAGAGT
1 GTGTGACACGGCATGG-TGAGAAT
16612678 GTGTGACAC
1 GTGTGACAC
16612687 ATTAGGGTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 33 0.70
24 14 0.30
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.24
Consensus pattern (23 bp):
GTGTGACACGGCATGGTGAGAAT
Found at i:16612640 original size:57 final size:57
Alignment explanation
Indices: 16612552--16612659 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 57
16612542 TTTTAGAGTT
* * *
16612552 TGTGATACGGAATTGTGGGAATGTGTGACACGTCATGGTGAGAATATGTGAGACGGG
1 TGTGACACGGAATGGTGGCAATGTGTGACACGTCATGGTGAGAATATGTGAGACGGG
*
16612609 TGTGACACGGCATGGTGGCAATGTGTGACACGTCATGGTGAGAATATGTGA
1 TGTGACACGGAATGGTGGCAATGTGTGACACGTCATGGTGAGAATATGTGA
16612660 CACGACAGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.26, C:0.11, G:0.37, T:0.26
Consensus pattern (57 bp):
TGTGACACGGAATGGTGGCAATGTGTGACACGTCATGGTGAGAATATGTGAGACGGG
Found at i:16612803 original size:23 final size:23
Alignment explanation
Indices: 16612776--16612831 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
16612766 TGGTCAAACT
** *
16612776 TGTGACACGGCAGGGTTATAATG
1 TGTGACACGGCACAGTGATAATG
*
16612799 TGTGAAACGGCACAGTGATAATG
1 TGTGACACGGCACAGTGATAATG
16612822 TGTGACACGG
1 TGTGACACGG
16612832 GTGTGACACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (23 bp):
TGTGACACGGCACAGTGATAATG
Found at i:16612903 original size:104 final size:101
Alignment explanation
Indices: 16612678--16613594 Score: 565
Period size: 104 Copynumber: 9.1 Consensus size: 101
16612668 GGTTTAGAGT
** *
16612678 GTGTGACACATTAGGGTGATAATGTGTGAGACAGCAC-GATGAGAA--TGTGACA-GAGGTGTGA
1 GTGTGACACGGTAGGGTGATAATGTGTGAAACAGCACAG-TGAGAATGTGTGACACG-GGTGTGA
*
16612739 CAC-G-A-GTTTAGAGTGTGTAACACGCCATGGTCAAAC
64 CACAGTAGGTTTAGAGTGTGTGACACGCCATGGTC-AAC
* * * * *
16612775 TTGTGACACGGCAGGGTTATAATGTGTGAAACGGCACAGTGATAATGTGTGACACGGGTGTGACA
1 GTGTGACACGGTAGGGTGATAATGTGTGAAACAGCACAGTGAGAATGTGTGACACGGGTGTGACA
**
16612840 CAGTAAGGTTTAGAGTGTGTGACACGCCATAGAGGGAATC
66 CAGT-AGGTTTAGAGTGTGTGACACGCCAT-G-GTCAA-C
* * * *
16612880 -TGTGACACGGTAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACA
1 GTGTGACACGGTAGGGTGATAATGTGTGAAACAGCACAGTGAGAATGTGTGACACGGGTGTGACA
* *
16612944 TAGTAGCGTTTAGAGTGTGTGACACGCCACGGTCAGAC
66 CAGTAG-GTTTAGAGTGTGTGACACGCCATGGTCA-AC
* * * * *
16612982 GTGTGACACGATAAGGTCATAATGTGTGAAACAACACAGTGATAATGTGTGACA------TG--A
1 GTGTGACACGGTAGGGTGATAATGTGTGAAACAGCACAGTGAGAATGTGTGACACGGGTGTGACA
* **
16613039 CAG--GGTTTAGAGTGTGTGACACGGCATGGAGGGAATC
66 CAGTAGGTTTAGAGTGTGTGACACGCCAT-G-GTCAA-C
** * * * * *
16613076 -TGTGACACAATAGGGTGATAATGTGTGAGAC-GACACGGTAAGAATATGTGACATGGGTGTGAC
1 GTGTGACACGGTAGGGTGATAATGTGTGAAACAG-CACAGTGAGAATGTGTGACACGGGTGTGAC
* * *
16613139 ACGGCAGCGTTTAGAGTGTGTGACACACCATGGTCAGAC
65 ACAGTAG-GTTTAGAGTGTGTGACACGCCATGGTCA-AC
* ** * * * *
16613178 TTGTGACACGGTAAAGTGATAATGTTTGAAAC-GACACAGTGATAATGTGTGAAATGGGTGTGAC
1 GTGTGACACGGTAGGGTGATAATGTGTGAAACAG-CACAGTGAGAATGTGTGACACGGGTGTGAC
* * * **
16613242 ACGGCAGGGTTTAGAGTGTGTGACACGGCATGGAGAGAATC
65 ACAGTA-GGTTTAGAGTGTGTGACACGCCAT-G-GTCAA-C
** * * * *
16613283 -TGTGACATAGCAGGGTGATAATGTGTGAGACGGCACAGTGAGAATATGTGACAC------G--A
1 GTGTGACACGGTAGGGTGATAATGTGTGAAACAGCACAGTGAGAATGTGTGACACGGGTGTGACA
* * *
16613339 CAG--CGTTTAGAGTGTATGACACGCCATGGTTAGAAC
66 CAGTAGGTTTAGAGTGTGTGACACGCCATGG-T-CAAC
* * * * *
16613375 GTGTGACACGGCAGGGTCATAATGTGTGAAAC-GACACAGTGATAATGTGTGATACAGGTGTGAC
1 GTGTGACACGGTAGGGTGATAATGTGTGAAACAG-CACAGTGAGAATGTGTGACACGGGTGTGAC
** * * **
16613439 ACAACAAGGTTTAGAGTGTGTGATAGGCCATGGAGGGAATC
65 AC-AGTAGGTTTAGAGTGTGTGACACGCCAT-G-GTCAA-C
* * ** * * ** * * **
16613480 -TGTGACA-GGCCAAGGCAAAAATGTGT-AAGACAACATGGTGAAAATATGTGGGACGGGTGTGA
1 GTGTGACACGG-TAGGGTGATAATGTGTGAA-ACAGCACAGTGAGAATGTGTGACACGGGTGTGA
* * *
16613542 CACCGTAACGTTTAGAGTGTGGGACACGCCATGGTCAAAC
64 CACAGT-AGGTTTAGAGTGTGTGACACGCCATGGTC-AAC
16613582 GTGTGACACGGTA
1 GTGTGACACGGTA
16613595 TGGCATGAAA
Statistics
Matches: 644, Mismatches: 115, Indels: 116
0.74 0.13 0.13
Matches are distributed among these distances:
91 1 0.00
92 24 0.04
93 115 0.18
94 3 0.00
95 3 0.00
96 3 0.00
97 37 0.06
98 2 0.00
99 20 0.03
100 2 0.00
101 5 0.01
102 10 0.02
103 167 0.26
104 243 0.38
105 8 0.01
106 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (101 bp):
GTGTGACACGGTAGGGTGATAATGTGTGAAACAGCACAGTGAGAATGTGTGACACGGGTGTGACA
CAGTAGGTTTAGAGTGTGTGACACGCCATGGTCAAC
Found at i:16612906 original size:23 final size:23
Alignment explanation
Indices: 16612875--16612935 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
16612865 GCCATAGAGG
* * *
16612875 GAATCTGTGACACGGTAGGGTGA
1 GAATATGTGACACGGCACGGTGA
* * *
16612898 TAATGTGTGAGACGGCACGGTGA
1 GAATATGTGACACGGCACGGTGA
16612921 GAATATGTGACACGG
1 GAATATGTGACACGG
16612936 GTGTGACATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.13, G:0.38, T:0.21
Consensus pattern (23 bp):
GAATATGTGACACGGCACGGTGA
Found at i:16613074 original size:196 final size:197
Alignment explanation
Indices: 16612679--16613594 Score: 884
Period size: 196 Copynumber: 4.6 Consensus size: 197
16612669 GTTTAGAGTG
** *
16612679 TGTGACACATTAGGGTGATAATGTGTGAGAC-AGCACGATGAG-A-ATGTGACA-GAGGTGTGAC
1 TGTGACACAGCAGGGTGATAATGTGTGAGACGA-CACGGTGAGAATATGTGACACG-GGTGTGAC
* * * * * *
16612740 ACG-A--GTTTAGAGTGTGTAACACGCCATGGTCAAACTTGTGACACGGCAGGGTTATAATGTGT
64 ACGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGTAAGGTCATAATGTGT
* *
16612802 GAAACGGCACAGTGATAATGTGTGACACGGGTGTGACACAGTAAGGTTTAGAGTGTGTGACACGC
129 GAAACGACACAGTGATAATGTGTGACA-----GTGA-ACAG---GGTTTAGAGTGTGTGACACGG
*
16612867 CATAGAGGGAATC
185 CATGGAGGGAATC
* * *
16612880 TGTGACACGGTAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACAT
1 TGTGACACAGCAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGTGACACGGGTGTGACA-
* * *
16612945 AGTAGCGTTTAGAGTGTGTGACACGCCACGGTCAGACGTGTGACACGATAAGGTCATAATGTGTG
65 CGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGTAAGGTCATAATGTGTG
*
16613010 AAACAACACAGTGATAATGTGTGACA-TG-ACAGGGTTTAGAGTGTGTGACACGGCATGGAGGGA
130 AAACGACACAGTGATAATGTGTGACAGTGAACAGGGTTTAGAGTGTGTGACACGGCATGGAGGGA
16613073 ATC
195 ATC
** * *
16613076 TGTGACACAATAGGGTGATAATGTGTGAGACGACACGGTAAGAATATGTGACATGGGTGTGACAC
1 TGTGACACAGCAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGTGACACGGGTGTGACAC
* * * * * *
16613141 GGCAGCGTTTAGAGTGTGTGACACACCATGGTCAGACTTGTGACACGGTAAAGTGATAATGTTTG
66 -GTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGTAAGGTCATAATGTGTG
*
16613206 AAACGACACAGTGATAATGTGTGAAATGGGTGTGACACGGCAGGGTTTAGAGTGTGTGACACGGC
130 AAACGACACAGTGATAATGTGTGACA-----GTGA-A---CAGGGTTTAGAGTGTGTGACACGGC
*
16613271 ATGGAGAGAATC
186 ATGGAGGGAATC
* * *
16613283 TGTGACATAGCAGGGTGATAATGTGTGAGACGGCACAGTGAGAATATGTGACAC------G--AC
1 TGTGACACAGCAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGTGACACGGGTGTGACAC
* * * *
16613340 --AGCGTTTAGAGTGTATGACACGCCATGGTTAGAACGTGTGACACGGCAGGGTCATAATGTGTG
66 GTAGCGTTTAGAGTGTGTGACACGCCATGGTCAG-ACGTGTGACACGGTAAGGTCATAATGTGTG
* *
16613403 AAACGACACAGTGATAATGTGTGATACAGGTGTGACACAACAAGGTTTAGAGTGTGTGATA-GGC
130 AAACGACACAGTGATAATGTGTG--ACA---GTG----AACAGGGTTTAGAGTGTGTGACACGG-
16613467 CATGGAGGGAATC
185 CATGGAGGGAATC
* * ** * * * * * **
16613480 TGTGACA-GGCCAAGGCAAAAATGTGTAAGACAACATGGTGAAAATATGTGGGACGGGTGTGACA
1 TGTGACACAG-CAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGTGACACGGGTGTGACA
* * *
16613544 CCGTAACGTTTAGAGTGTGGGACACGCCATGGTCAAACGTGTGACACGGTA
65 -CGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGTA
16613595 TGGCATGAAA
Statistics
Matches: 602, Mismatches: 73, Indels: 74
0.80 0.10 0.10
Matches are distributed among these distances:
196 203 0.34
197 123 0.20
199 8 0.01
200 1 0.00
201 41 0.07
202 3 0.00
203 18 0.03
204 3 0.00
205 2 0.00
206 1 0.00
207 172 0.29
208 27 0.04
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (197 bp):
TGTGACACAGCAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGTGACACGGGTGTGACAC
GTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGTAAGGTCATAATGTGTGA
AACGACACAGTGATAATGTGTGACAGTGAACAGGGTTTAGAGTGTGTGACACGGCATGGAGGGAA
TC
Found at i:16613128 original size:93 final size:93
Alignment explanation
Indices: 16612951--16613414 Score: 324
Period size: 93 Copynumber: 4.8 Consensus size: 93
16612941 ACATAGTAGC
* ** * * *
16612951 GTTTAGAGTGTGTGACACGCCACGGTCAG-A-CGTGTGACACGATAAGGTCATAATGTGTGAAAC
1 GTTTAGAGTGTGTGACACGCCATGGAGAGAATC-TGTGACACGGTAGGGTGATAATGTGTGAAAC
* * * * *
16613014 AACACAGTGATAATGTGTGACATGACAGG
65 GACACAGTAAGAATATGTGACACGACAGG
* * ** *
16613043 GTTTAGAGTGTGTGACACGGCATGGAGGGAATCTGTGACACAATAGGGTGATAATGTGTGAGACG
1 GTTTAGAGTGTGTGACACGCCATGGAGAGAATCTGTGACACGGTAGGGTGATAATGTGTGAAACG
* *
16613108 ACACGGTAAGAATATGTGACATGGGTGTGACACGGCAG
66 ACACAGTAAGAATATGTGACA------CGACA--G--G
* ** * ** *
16613146 CGTTTAGAGTGTGTGACACACCATGGTCAGACT-TGTGACACGGTAAAGTGATAATGTTTGAAAC
1 -GTTTAGAGTGTGTGACACGCCATGGAGAGAATCTGTGACACGGTAGGGTGATAATGTGTGAAAC
* *
16613210 GACACAGTGATAATGTGTGAAATGGGTGTGACACGGCAGG
65 GACACA--G-TAA-----G-AAT--ATGTGACACGACAGG
* ** * *
16613250 GTTTAGAGTGTGTGACACGGCATGGAGAGAATCTGTGACATAGCAGGGTGATAATGTGTGAGACG
1 GTTTAGAGTGTGTGACACGCCATGGAGAGAATCTGTGACACGGTAGGGTGATAATGTGTGAAACG
* * *
16613315 GCACAGTGAGAATATGTGACACGACAGC
66 ACACAGTAAGAATATGTGACACGACAGG
* ** * *
16613343 GTTTAGAGTGTATGACACGCCATGGTTAGAA-CGTGTGACACGGCAGGGTCATAATGTGTGAAAC
1 GTTTAGAGTGTGTGACACGCCATGGAGAGAATC-TGTGACACGGTAGGGTGATAATGTGTGAAAC
16613407 GACACAGT
65 GACACAGT
16613415 GATAATGTGT
Statistics
Matches: 290, Mismatches: 56, Indels: 51
0.73 0.14 0.13
Matches are distributed among these distances:
92 25 0.09
93 118 0.41
94 1 0.00
95 3 0.01
96 1 0.00
99 5 0.02
101 3 0.01
102 1 0.00
103 58 0.20
104 56 0.19
105 1 0.00
106 4 0.01
108 3 0.01
111 1 0.00
112 3 0.01
114 7 0.02
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (93 bp):
GTTTAGAGTGTGTGACACGCCATGGAGAGAATCTGTGACACGGTAGGGTGATAATGTGTGAAACG
ACACAGTAAGAATATGTGACACGACAGG
Found at i:16613138 original size:300 final size:301
Alignment explanation
Indices: 16612744--16613591 Score: 875
Period size: 300 Copynumber: 2.8 Consensus size: 301
16612734 TGTGACACGA
* * ** * ** *
16612744 GTTTAGAGTGTGTAACACGCCATGGTCA-AACTTGTGACACGGCAGGGTTATAATGTGTGAAACG
1 GTTTAGAGTGTATGACACGCCATGGAGAGAACGTGTGACACAACAGGGTCATAATGTGTGAAACG
* * *
16612808 GCACAGTGATAATGTGTGACACGGGTGTGACACAGTAAGGTTTAGAGTGTGTGACACGCCATAGA
66 ACACAGTGATAATGTGTGACACGGGTGTGACACAGCAAGGTTTAGAGTGTGTGACACGCCATGGA
* * * *
16612873 GGGAATCTGTGACACGGTAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGT
131 GGGAATCTGTGACACGGTAAGGTGATAATGTGTGAGACGACACGGTGAAAATATGTGAAACGGGT
* * *
16612938 GTGACATAGTAGCGTTTAGAGTGTGTGACACGCCACGGTCAGACGTGTGACACGA-TAAGGTCAT
196 GTGACACAGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGAGCAAGGTCAT
* * * *
16613002 AATGTGTGAAACAACACAGTGATAATGTGTGACATGACAGG
261 AATGTGTGAAACAACACAGTGAGAATATGTGACACGACAGC
* * * * * *
16613043 GTTTAGAGTGTGTGACACGGCATGGAGGGAATC-TGTGACACAATAGGGTGATAATGTGTGAGAC
1 GTTTAGAGTGTATGACACGCCATGGAGAGAA-CGTGTGACACAACAGGGTCATAATGTGTGAAAC
* * * * * * *
16613107 GACACGGTAAGAATATGTGACATGGGTGTGACACGGC-AGCGTTTAGAGTGTGTGACACACCATG
65 GACACAGTGATAATGTGTGACACGGGTGTGACACAGCAAG-GTTTAGAGTGTGTGACACGCCATG
*** * * * * * * * *
16613171 GTCAGACT-TGTGACACGGTAAAGTGATAATGTTTGAAACGACACAGTGATAATGTGTGAAATGG
129 GAGGGAATCTGTGACACGGTAAGGTGATAATGTGTGAGACGACACGGTGAAAATATGTGAAACGG
* * * * ** * *
16613235 GTGTGACACGGCAGGGTTTAGAGTGTGTGACACGGCATGGAGAGAATC-TGTGACA-TAGCAGGG
194 GTGTGACACAGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAG-A-CGTGTGACACGAGCAAGG
* * **
16613298 TGATAATGTGTGAGACGGCACAGTGAGAATATGTGACACGACAGC
257 TCATAATGTGTGAAACAACACAGTGAGAATATGTGACACGACAGC
** **
16613343 GTTTAGAGTGTATGACACGCCATGGTTAGAACGTGTGACACGGCAGGGTCATAATGTGTGAAACG
1 GTTTAGAGTGTATGACACGCCATGGAGAGAACGTGTGACACAACAGGGTCATAATGTGTGAAACG
* * * * *
16613408 ACACAGTGATAATGTGTGATACAGGTGTGACACAACAAGGTTTAGAGTGTGTGATAGGCCATGGA
66 ACACAGTGATAATGTGTGACACGGGTGTGACACAGCAAGGTTTAGAGTGTGTGACACGCCATGGA
* ** * * * * **
16613473 GGGAATCTGTGACA-GGCCAAGGCAAAAATGTGTAAGACAACATGGTGAAAATATGTGGGACGGG
131 GGGAATCTGTGACACGG-TAAGGTGATAATGTGTGAGACGACACGGTGAAAATATGTGAAACGGG
* * * *
16613537 TGTGACACCGTAACGTTTAGAGTGTGGGACACGCCATGGTCAAACGTGTGACACG
195 TGTGACACAGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACG
16613592 GTATGGCATG
Statistics
Matches: 432, Mismatches: 105, Indels: 22
0.77 0.19 0.04
Matches are distributed among these distances:
299 110 0.25
300 246 0.57
301 76 0.18
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.23
Consensus pattern (301 bp):
GTTTAGAGTGTATGACACGCCATGGAGAGAACGTGTGACACAACAGGGTCATAATGTGTGAAACG
ACACAGTGATAATGTGTGACACGGGTGTGACACAGCAAGGTTTAGAGTGTGTGACACGCCATGGA
GGGAATCTGTGACACGGTAAGGTGATAATGTGTGAGACGACACGGTGAAAATATGTGAAACGGGT
GTGACACAGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGAGCAAGGTCAT
AATGTGTGAAACAACACAGTGAGAATATGTGACACGACAGC
Found at i:16613401 original size:23 final size:23
Alignment explanation
Indices: 16613235--16613426 Score: 100
Period size: 23 Copynumber: 8.3 Consensus size: 23
16613225 TGTGAAATGG
*
16613235 GTGTGACACGGCAGGGT-TTAGAGT
1 GTGTGACACGGCAGGGTGATA-A-T
* * *
16613259 GTGTGACACGGCATGGAGAGAAT
1 GTGTGACACGGCAGGGTGATAAT
* **
16613282 CTGTGACATAGCAGGGTGATAAT
1 GTGTGACACGGCAGGGTGATAAT
* ** *
16613305 GTGTGAGACGGCACAGTGAGAAT
1 GTGTGACACGGCAGGGTGATAAT
* * * *
16613328 ATGTGACACGACAGCGT-TTAGAGT
1 GTGTGACACGGCAGGGTGATA-A-T
* * * * * *
16613352 GTATGACACGCCATGGTTAGAAC
1 GTGTGACACGGCAGGGTGATAAT
*
16613375 GTGTGACACGGCAGGGTCATAAT
1 GTGTGACACGGCAGGGTGATAAT
* * **
16613398 GTGTGAAACGACACAGTGATAAT
1 GTGTGACACGGCAGGGTGATAAT
16613421 GTGTGA
1 GTGTGA
16613427 TACAGGTGTG
Statistics
Matches: 121, Mismatches: 43, Indels: 9
0.70 0.25 0.05
Matches are distributed among these distances:
22 1 0.01
23 88 0.73
24 30 0.25
25 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (23 bp):
GTGTGACACGGCAGGGTGATAAT
Found at i:16613481 original size:197 final size:196
Alignment explanation
Indices: 16613133--16613486 Score: 521
Period size: 197 Copynumber: 1.8 Consensus size: 196
16613123 GTGACATGGG
* * * * *
16613133 TGTGACACGGCAGCGTTTAGAGTGTGTGACACACCATGGTCAGACTTGTGACACGGTAAAGTGAT
1 TGTGACACGACAGCGTTTAGAGTGTATGACACACCATGGTCAGACGTGTGACACGGCAAAGTCAT
* ** ** *
16613198 AATGTTTGAAACGACACAGTGATAATGTGTGAAATGGGTGTGACACGGCAGGGTTTAGAGTGTGT
66 AATGTGTGAAACGACACAGTGATAATGTGTGAAACAGGTGTGACACAACAAGGTTTAGAGTGTGT
16613263 GACACGGCATGGAGAGAATCTGTGACATAGCAGGGTGATAATGTGTGAGACGGCACAGTGAGAAT
131 GACACGGCATGGAGAGAATCTGTGACATAGCAGGGTGATAATGTGTGAGACGGCACAGTGAGAAT
16613328 A
196 A
* * **
16613329 TGTGACACGACAGCGTTTAGAGTGTATGACACGCCATGGTTAGAACGTGTGACACGGCAGGGTCA
1 TGTGACACGACAGCGTTTAGAGTGTATGACACACCATGGTCAG-ACGTGTGACACGGCAAAGTCA
*
16613394 TAATGTGTGAAACGACACAGTGATAATGTGTGATACAGGTGTGACACAACAAGGTTTAGAGTGTG
65 TAATGTGTGAAACGACACAGTGATAATGTGTGAAACAGGTGTGACACAACAAGGTTTAGAGTGTG
* *
16613459 TGATA-GGCCATGGAGGGAATCTGTGACA
130 TGACACGG-CATGGAGAGAATCTGTGACA
16613487 GGCCAAGGCA
Statistics
Matches: 138, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
196 41 0.30
197 97 0.70
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.23
Consensus pattern (196 bp):
TGTGACACGACAGCGTTTAGAGTGTATGACACACCATGGTCAGACGTGTGACACGGCAAAGTCAT
AATGTGTGAAACGACACAGTGATAATGTGTGAAACAGGTGTGACACAACAAGGTTTAGAGTGTGT
GACACGGCATGGAGAGAATCTGTGACATAGCAGGGTGATAATGTGTGAGACGGCACAGTGAGAAT
A
Found at i:16613528 original size:197 final size:196
Alignment explanation
Indices: 16613133--16613529 Score: 492
Period size: 197 Copynumber: 2.0 Consensus size: 196
16613123 GTGACATGGG
* * * * *
16613133 TGTGACACGGCAGCGTTTAGAGTGTGTGACACACCATGGTCAGACTTGTGACACGGTAAAGTGAT
1 TGTGACACGACAGCGTTTAGAGTGTATGACACACCATGGTCAGACGTGTGACACGGCAAAGTCAT
* ** ** *
16613198 AATGTTTGAAACGACACAGTGATAATGTGTGAAATGGGTGTGACACGGCAGGGTTTAGAGTGTGT
66 AATGTGTGAAACGACACAGTGATAATGTGTGAAACAGGTGTGACACAACAAGGTTTAGAGTGTGT
* ** * * ** *
16613263 GACACGGCATGGAGAGAATCTGTGACATAGCAGGGTGATAATGTGTGAGACGGCACAGTGAGAAT
131 GACACGGCATGGAGAGAATCTGTGACATAGCAAGGCAAAAATGTGTAAGACAACACAGTGAAAAT
16613328 A
196 A
* * **
16613329 TGTGACACGACAGCGTTTAGAGTGTATGACACGCCATGGTTAGAACGTGTGACACGGCAGGGTCA
1 TGTGACACGACAGCGTTTAGAGTGTATGACACACCATGGTCAG-ACGTGTGACACGGCAAAGTCA
*
16613394 TAATGTGTGAAACGACACAGTGATAATGTGTGATACAGGTGTGACACAACAAGGTTTAGAGTGTG
65 TAATGTGTGAAACGACACAGTGATAATGTGTGAAACAGGTGTGACACAACAAGGTTTAGAGTGTG
* * * **
16613459 TGATA-GGCCATGGAGGGAATCTGTGACA-GGCCAAGGCAAAAATGTGTAAGACAACATGGTGAA
130 TGACACGG-CATGGAGAGAATCTGTGACATAG-CAAGGCAAAAATGTGTAAGACAACACAGTGAA
16613522 AATA
193 AATA
16613526 TGTG
1 TGTG
16613530 GGACGGGTGT
Statistics
Matches: 169, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
196 42 0.25
197 127 0.75
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (196 bp):
TGTGACACGACAGCGTTTAGAGTGTATGACACACCATGGTCAGACGTGTGACACGGCAAAGTCAT
AATGTGTGAAACGACACAGTGATAATGTGTGAAACAGGTGTGACACAACAAGGTTTAGAGTGTGT
GACACGGCATGGAGAGAATCTGTGACATAGCAAGGCAAAAATGTGTAAGACAACACAGTGAAAAT
A
Found at i:16614136 original size:55 final size:55
Alignment explanation
Indices: 16614039--16614521 Score: 560
Period size: 55 Copynumber: 8.8 Consensus size: 55
16614029 CGTCTGCATA
* * * *
16614039 TGGCGTGTTGTAGGTTAACTAGTTTTTT-GGATTTTTAACGTGTCACGGCTGTTCT
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTAGG-TTTTTAGCGTGTCACGGCTGTTCC
* * * * *
16614094 TGACGTATTGTGGGTTAACTAGTTTTTTAGGTTTTTAGCGTGTCACGACTATTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTAGGTTTTTAGCGTGTCACGGCTGTTCC
* * *
16614149 TGGCGTGTTGTGGGTTAACTGGTTTTTTAGGTTTTTAGTGTGTCACAGCTATTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTAGGTTTTTAGCGTGTCACGGCTGTTCC
* **
16614204 TGGCGTGTTGTGGGTTAACTGGTTTTTTAGGTTTTTAGCGTGTCACGACTGTTAT
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTAGGTTTTTAGCGTGTCACGGCTGTTCC
* * * * *
16614259 TGACGTGTTGTAGGTTAACTGGTTTTTTAAGTTTTTATCGTGTCACAGCTGTTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTAGGTTTTTAGCGTGTCACGGCTGTTCC
** * * *
16614314 TGGCGTGTAATGGGTTAATTGGATTTTTT-GGTTTTTGGCGTGTCACGGTTGTTCC
1 TGGCGTGTTGTGGGTTAACTGG-TTTTTTAGGTTTTTAGCGTGTCACGGCTGTTCC
* * * * *
16614369 TGGTGTGTTGTGGGTTAACTGGATTTTTT-GGTTGTTGGCTTGTCACGACTGTTCC
1 TGGCGTGTTGTGGGTTAACTGG-TTTTTTAGGTTTTTAGCGTGTCACGGCTGTTCC
* * * * *
16614424 TGACGTGTTATGGGTTAACTGGTTTTTTAGGTTTTTAGCGTGTCATGGTTGTTCT
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTAGGTTTTTAGCGTGTCACGGCTGTTCC
** *
16614479 TGGCGTGTTGTGGGTTAACT-GAATTTTAGGGTTTTTGGCGTGT
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTA-GGTTTTTAGCGTGT
16614522 TGTGGGTTAA
Statistics
Matches: 364, Mismatches: 60, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
54 12 0.03
55 344 0.95
56 8 0.02
ACGTcount: A:0.13, C:0.12, G:0.29, T:0.46
Consensus pattern (55 bp):
TGGCGTGTTGTGGGTTAACTGGTTTTTTAGGTTTTTAGCGTGTCACGGCTGTTCC
Found at i:16614524 original size:35 final size:35
Alignment explanation
Indices: 16614478--16614556 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
16614468 ATGGTTGTTC
16614478 TTGGCGTGTTGTGGGTTAACTGAATTTT-AGGGTTT
1 TTGGCGTGTTGTGGGTTAACTG-ATTTTCAGGGTTT
* *
16614513 TTGGCGTGTTGTGGGTTAACTGGTTTTCTGGGTTT
1 TTGGCGTGTTGTGGGTTAACTGATTTTCAGGGTTT
*
16614548 TTGACGTGT
1 TTGGCGTGT
16614557 CACGGCTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 4 0.10
35 36 0.90
ACGTcount: A:0.10, C:0.08, G:0.35, T:0.47
Consensus pattern (35 bp):
TTGGCGTGTTGTGGGTTAACTGATTTTCAGGGTTT
Found at i:16614649 original size:31 final size:31
Alignment explanation
Indices: 16614611--16614700 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
16614601 GTCACGACAC
**
16614611 TGATATGCATGGCATGTCATGACATTTAACT
1 TGATATGCATGGCATGTCACAACATTTAACT
* * * *
16614642 TGATATGCATGGCGTGTTACAATATTTTACT
1 TGATATGCATGGCATGTCACAACATTTAACT
* *
16614673 TGATATGCATGGCGTGTAACAACATTTA
1 TGATATGCATGGCATGTCACAACATTTA
16614701 TTTCTTTCTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (31 bp):
TGATATGCATGGCATGTCACAACATTTAACT
Found at i:16617223 original size:81 final size:81
Alignment explanation
Indices: 16617104--16617274 Score: 211
Period size: 81 Copynumber: 2.1 Consensus size: 81
16617094 ATCAGATGAT
* * *
16617104 GCTGAAGGTGTCCATGTTCCTCAAGCTTATTCGATTATCGATGCATCTGCGGGAGG-GAAAGGGG
1 GCTGAAGGAGTCCATGTTCCTCAAGCTGATTCGATTATCGATGCATCTGCGAGAGGAG-AAGGGG
**
16617168 ACCTTCACTTGCTCGTG
65 ACCTTCACTCACTCGTG
* * * *
16617185 GCTGAAGGAGTCCATGTTCTTGAGGCTGATTTCG-TTATCGATGCATCTGCGAGAGGAGAGGGGG
1 GCTGAAGGAGTCCATGTTCCTCAAGCTGA-TTCGATTATCGATGCATCTGCGAGAGGAGAAGGGG
*
16617249 ACCTTCAGTCACTCGTG
65 ACCTTCACTCACTCGTG
*
16617266 GTTGAAGGA
1 GCTGAAGGA
16617275 CAGCATCTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 72 0.94
82 5 0.06
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.27
Consensus pattern (81 bp):
GCTGAAGGAGTCCATGTTCCTCAAGCTGATTCGATTATCGATGCATCTGCGAGAGGAGAAGGGGA
CCTTCACTCACTCGTG
Found at i:16618709 original size:9 final size:9
Alignment explanation
Indices: 16618697--16618729 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
16618687 CAAAAGCTAA
16618697 AATTTTATT
1 AATTTTATT
16618706 AATTTTATT
1 AATTTTATT
16618715 AATTTTATT
1 AATTTTATT
16618724 AATTTT
1 AATTTT
16618730 GTGCCATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
AATTTTATT
Found at i:16618891 original size:86 final size:86
Alignment explanation
Indices: 16618736--16619114 Score: 483
Period size: 86 Copynumber: 4.4 Consensus size: 86
16618726 TTTTGTGCCA
* * * * *
16618736 TGTCA-CCCACAAGATTGCAACAAGTCAGCATGTCACATTAGAAGTTTGCATGCACTCAGCGTGT
1 TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGTCAGAAGTCTGCATGCACTCAGCGTGT
* **
16618800 CACCACAATTGGGCTGTGTCG
66 CACCACAATTGGCCCCTGTCG
* * *
16618821 TGTCACCCCACAGGACTGCAACAAGTCAGCGTGTCACGTCATAAGTCTGCATTCACTCAGCGTGT
1 TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGTCAGAAGTCTGCATGCACTCAGCGTGT
* *
16618886 GACCACAATTGGCCCCCGTCG
66 CACCACAATTGGCCCCTGTCG
* * * *
16618907 TGTCA-CCCATAAGATTGCAACAAGTCAGCGTGTCACGTCATAAGTCTGCATGCACTCAACGTGT
1 TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGTCAGAAGTCTGCATGCACTCAGCGTGT
* *
16618971 CACCACAATTGTCCCGTGTCG
66 CACCACAATTGGCCCCTGTCG
* * * * * * *
16618992 TGTCACCCCATAAGACTGCAACAAGTTAGCATGTCACTTCAGAAGTCTGTATTCATTCAGCGTGT
1 TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGTCAGAAGTCTGCATGCACTCAGCGTGT
*
16619057 CACCACAATTGGCCCCTGCCG
66 CACCACAATTGGCCCCTGTCG
* *
16619078 TGTCACCCCACAAGACTACAACAAGCCAGCGTGTCAC
1 TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCAC
16619115 CATAAGATGT
Statistics
Matches: 253, Mismatches: 39, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
85 81 0.32
86 172 0.68
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (86 bp):
TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGTCAGAAGTCTGCATGCACTCAGCGTGT
CACCACAATTGGCCCCTGTCG
Found at i:16619040 original size:171 final size:171
Alignment explanation
Indices: 16618736--16619114 Score: 533
Period size: 171 Copynumber: 2.2 Consensus size: 171
16618726 TTTTGTGCCA
* * * *
16618736 TGTCACCCACAAGATTGCAACAAGTCAGCATGTCACATTAGAAGTTTGCATGCACTCAGCGTGTC
1 TGTCACCCACAAGATTGCAACAAGTCAGCGTGTCACATCAGAAGTCTGCATGCACTCAACGTGTC
* * * * *
16618801 ACCACAATTGGGCTGTGTCGTGTCACCCCACAGGACTGCAACAAGTCAGCGTGTCACGTCATAAG
66 ACCACAATTGGCCCGTGTCGTGTCACCCCACAAGACTGCAACAAGTCAGCATGTCACGTCAGAAG
* *
16618866 TCTGCATTCACTCAGCGTGTGACCACAATTGGCCCCCGTCG
131 TCTGCATTCACTCAGCGTGTCACCACAATTGGCCCCCGCCG
* * *
16618907 TGTCACCCATAAGATTGCAACAAGTCAGCGTGTCACGTCATAAGTCTGCATGCACTCAACGTGTC
1 TGTCACCCACAAGATTGCAACAAGTCAGCGTGTCACATCAGAAGTCTGCATGCACTCAACGTGTC
* * * *
16618972 ACCACAATTGTCCCGTGTCGTGTCACCCCATAAGACTGCAACAAGTTAGCATGTCACTTCAGAAG
66 ACCACAATTGGCCCGTGTCGTGTCACCCCACAAGACTGCAACAAGTCAGCATGTCACGTCAGAAG
* * *
16619037 TCTGTATTCATTCAGCGTGTCACCACAATTGGCCCCTGCCG
131 TCTGCATTCACTCAGCGTGTCACCACAATTGGCCCCCGCCG
* * *
16619078 TGTCACCCCACAAGACTACAACAAGCCAGCGTGTCAC
1 TGTCA-CCCACAAGATTGCAACAAGTCAGCGTGTCAC
16619115 CATAAGATGT
Statistics
Matches: 182, Mismatches: 25, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
171 155 0.85
172 27 0.15
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (171 bp):
TGTCACCCACAAGATTGCAACAAGTCAGCGTGTCACATCAGAAGTCTGCATGCACTCAACGTGTC
ACCACAATTGGCCCGTGTCGTGTCACCCCACAAGACTGCAACAAGTCAGCATGTCACGTCAGAAG
TCTGCATTCACTCAGCGTGTCACCACAATTGGCCCCCGCCG
Found at i:16619746 original size:120 final size:119
Alignment explanation
Indices: 16619593--16619829 Score: 447
Period size: 120 Copynumber: 2.0 Consensus size: 119
16619583 ACAATTGAAT
*
16619593 ATTATAAAATACCACAAATCCTATTGAATTTATAAATAACAACTTTACTCTATTTTATTAATATA
1 ATTATAAAAAACCACAAATCCTATTGAATTTATAAATAACAACTTTACTCTATTTTATTAATATA
16619658 TTTTTTAAATTAAAAATATAAACTCATGACATATAAATTATATAAATATAAANAA
66 TTTTTTAAATTAAAAATATAAACTCATGACATATAAATTATATAAATATAAA-AA
16619713 ATTATAAAAAACCACAAATCCTATTGAATTTATAAATAACAACTTTACTCTATTTTATTAATATA
1 ATTATAAAAAACCACAAATCCTATTGAATTTATAAATAACAACTTTACTCTATTTTATTAATATA
*
16619778 TTTTTTAAATTAAAAATATAAATTCATGACATATAAATTATATAAATATAAA
66 TTTTTTAAATTAAAAATATAAACTCATGACATATAAATTATATAAATATAAA
16619830 TAAAAGTGCT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (119 bp):
ATTATAAAAAACCACAAATCCTATTGAATTTATAAATAACAACTTTACTCTATTTTATTAATATA
TTTTTTAAATTAAAAATATAAACTCATGACATATAAATTATATAAATATAAAAA
Found at i:16619826 original size:15 final size:14
Alignment explanation
Indices: 16619783--16619830 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
16619773 ATATATTTTT
16619783 TAAATTA-AAAATA
1 TAAATTATAAAATA
* *
16619796 TAAATTCATGACATA
1 TAAATT-ATAAAATA
16619811 TAAATTATATAAATA
1 TAAATTATA-AAATA
16619826 TAAAT
1 TAAAT
16619831 AAAAGTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 6 0.21
14 3 0.11
15 19 0.68
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (14 bp):
TAAATTATAAAATA
Found at i:16623594 original size:31 final size:31
Alignment explanation
Indices: 16623541--16623877 Score: 406
Period size: 31 Copynumber: 10.8 Consensus size: 31
16623531 TTTGTCAGTC
* *
16623541 ATGTTGTTACACGTCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
16623572 ATGTAGTAACACGCCATACATATAACATAAAA
1 ATGTTGTAACACGCCATGCATATAACGT-AAA
* *
16623604 ATATTGTAACACGCCATGCATATAGCGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* ** *
16623635 ATG-TGATAACATGCCATGCATATGGCATAAA
1 ATGTTG-TAACACGCCATGCATATAACGTAAA
* *
16623666 ATGTGGTAACACGCCATGCATATAGCGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
16623697 ATGTGGTAACATGCCATGCATATGACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
16623728 ATATGGTAACACGCCATCCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
16623759 ATGTTATAACACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
** *
16623790 ATGTTGTAACATACCATGCATATAACGTACA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
16623821 ATGTTGTAACATGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
16623852 TTATTGTAACATGCCATGCATATAAC
1 ATGTTGTAACACGCCATGCATATAAC
16623878 CAATGTCGTG
Statistics
Matches: 266, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
30 2 0.01
31 237 0.89
32 27 0.10
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACGTAAA
Found at i:16628298 original size:67 final size:67
Alignment explanation
Indices: 16628215--16628347 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 67
16628205 AAGTTCACGA
** *
16628215 GTTATTTTCATCTTAAGATGTTTTGGAGAATTTGA-TTGAGTAGCTCAAATATAGAGATAGTTAA
1 GTTATTTTCATCTTAAGATGTTTCAGAGAATTTGATTTGA-TAACTCAAATATAGAGATAGTTAA
16628279 GAG
65 GAG
* *
16628282 GTTATTTTCATCTTAAGATGTTTCAGAGAATTTGATTTGATAACTCAGATATGGAGATAGTTAAG
1 GTTATTTTCATCTTAAGATGTTTCAGAGAATTTGATTTGATAACTCAAATATAGAGATAGTTAAG
16628347 A
66 A
16628348 AGTCTTCCTC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 56 0.93
68 4 0.07
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (67 bp):
GTTATTTTCATCTTAAGATGTTTCAGAGAATTTGATTTGATAACTCAAATATAGAGATAGTTAAG
AG
Found at i:16629837 original size:96 final size:96
Alignment explanation
Indices: 16629663--16629851 Score: 297
Period size: 96 Copynumber: 2.0 Consensus size: 96
16629653 TCCTGTGAAG
* *
16629663 CAAACAAGTTATTAGAGGAGATTAATTAGAAATAAGAGAATGACTATTCTATTCCCAATCAAGTA
1 CAAACAAGTTATTAGAGGAGATTAATTAGAAATAAGAGAATGACTATTCTATTCCCAACCAAGCA
* *
16629728 CTTATAGTAACTACTCCAATCTTCTTCTTCA
66 CTCAGAGTAACTACTCCAATCTTCTTCTTCA
* * * *
16629759 CAAACAAGTTATTAGAGGAGATTAATTAGAAATAGGAGAATGGCTATTCTATTTCCAACCAAGCG
1 CAAACAAGTTATTAGAGGAGATTAATTAGAAATAAGAGAATGACTATTCTATTCCCAACCAAGCA
*
16629824 CTCAGAGTGACTACTCCAATCTTCTTCT
66 CTCAGAGTAACTACTCCAATCTTCTTCT
16629852 ATATCTCTTC
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (96 bp):
CAAACAAGTTATTAGAGGAGATTAATTAGAAATAAGAGAATGACTATTCTATTCCCAACCAAGCA
CTCAGAGTAACTACTCCAATCTTCTTCTTCA
Found at i:16642634 original size:39 final size:38
Alignment explanation
Indices: 16642580--16642680 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 38
16642570 GTGATTCAGA
*
16642580 CCTCTGGTTTGTTTAGCTGACTTTCTGATATTTGGTTT
1 CCTCTGGTTTGTTTAGCTCACTTTCTGATATTTGGTTT
*
16642618 GCCTCTGGTTTGTTTAGCTCACTTTCTGCTATTTGGTTT
1 -CCTCTGGTTTGTTTAGCTCACTTTCTGATATTTGGTTT
* *
16642657 CTCTCTGGTTTCTTTACCTCACTT
1 C-CTCTGGTTTGTTTAGCTCACTT
16642681 CCTTCTGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
38 1 0.02
39 56 0.98
ACGTcount: A:0.09, C:0.22, G:0.18, T:0.51
Consensus pattern (38 bp):
CCTCTGGTTTGTTTAGCTCACTTTCTGATATTTGGTTT
Found at i:16665833 original size:2 final size:2
Alignment explanation
Indices: 16665826--16665857 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16665816 GGGGNGTAAG
16665826 GA GA GA GA GA GA GA GA GA -A GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
16665858 GGAAGAAGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16665849 original size:15 final size:15
Alignment explanation
Indices: 16665829--16665857 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16665819 GNGTAAGGAG
16665829 AGAGAGAGAGAGAGA
1 AGAGAGAGAGAGAGA
16665844 AGAGAGAGAGAGAG
1 AGAGAGAGAGAGAG
16665858 GGAAGAAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (15 bp):
AGAGAGAGAGAGAGA
Found at i:16665849 original size:17 final size:17
Alignment explanation
Indices: 16665827--16665863 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
16665817 GGGNGTAAGG
16665827 AGAGAGAGAGAGAGAGA
1 AGAGAGAGAGAGAGAGA
*
16665844 AGAGAGAGAGAGAGGGA
1 AGAGAGAGAGAGAGAGA
16665861 AGA
1 AGA
16665864 AGCCATTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (17 bp):
AGAGAGAGAGAGAGAGA
Found at i:16671294 original size:14 final size:13
Alignment explanation
Indices: 16671275--16671322 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
16671265 TTAAATATGT
16671275 TTATATATATTATA
1 TTATATATA-TATA
* *
16671289 TTATATTTATACAA
1 TTATATATATA-TA
16671303 TTATATATATATA
1 TTATATATATATA
16671316 -TATATAT
1 TTATATAT
16671323 TCATAACATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 19 0.66
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATATATATA
Found at i:16671318 original size:38 final size:36
Alignment explanation
Indices: 16671250--16671323 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
16671240 AGTTATAGTA
* *
16671250 ATATTTATGTATAAATTAAATATGTTTATATATATT
1 ATATTTATGTATAAATTAAATATATATATATATATT
* *
16671286 ATATTATATTTATACAATTATATATATATATATATATT
1 ATATT-TATGTATA-AATTAAATATATATATATATATT
16671324 CATAACATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 5 0.16
37 7 0.22
38 20 0.62
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATTTATGTATAAATTAAATATATATATATATATT
Found at i:16671336 original size:38 final size:37
Alignment explanation
Indices: 16671259--16671337 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 37
16671249 AATATTTATG
* * **
16671259 TATAAATTAAATATGTTTATATATATTATATTATATT
1 TATAAATTAAATATATATATATATATTATAACATATT
*
16671296 TATACAATTATATATATATATATATATTCATAACAT-TT
1 TATA-AATTAAATATATATATATATATT-ATAACATATT
16671334 TATA
1 TATA
16671338 TTACGAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 4 0.11
38 26 0.74
39 5 0.14
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (37 bp):
TATAAATTAAATATATATATATATATTATAACATATT
Found at i:16671337 original size:28 final size:30
Alignment explanation
Indices: 16671274--16671338 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 30
16671264 ATTAAATATG
*
16671274 TTTATATATATTATATTATATTTATACAAT
1 TTTATATATATTATATTATATTCATACAAT
*
16671304 TATATATATA-TATA-TATATTCATA-ACAT
1 TTTATATATATTATATTATATTCATACA-AT
16671332 TTTATAT
1 TTTATAT
16671339 TACGAAACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 17 0.55
29 4 0.13
30 9 0.29
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTATATATATTATATTATATTCATACAAT
Found at i:16673213 original size:26 final size:25
Alignment explanation
Indices: 16673184--16673243 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
16673174 TTCTCAACAC
*
16673184 AACTATTTTTAATATTTCCAAATATT
1 AACT-TTTTTAATATTTCAAAATATT
16673210 AACTTTTTTTAATATTTCAAAATATT
1 AAC-TTTTTTAATATTTCAAAATATT
*
16673236 CACTTTTT
1 AACTTTTT
16673244 GGAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 5 0.16
26 25 0.81
27 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (25 bp):
AACTTTTTTAATATTTCAAAATATT
Found at i:16685811 original size:19 final size:19
Alignment explanation
Indices: 16685787--16685824 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16685777 CTGCCAAACC
*
16685787 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
16685806 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
16685825 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:16686354 original size:34 final size:34
Alignment explanation
Indices: 16686315--16686418 Score: 109
Period size: 34 Copynumber: 3.1 Consensus size: 34
16686305 GGAAAAGAGA
* *
16686315 GCCATTTAAGGGCTGGTTTTGGAGGCTGAAAAGT
1 GCCATTTAAGGGCTGATTTTGGAGGCTAAAAAGT
****
16686349 GCCATTTTTTTGCTGATTTTGGAGGCTAAAAAGT
1 GCCATTTAAGGGCTGATTTTGGAGGCTAAAAAGT
**** *
16686383 GCCATTTTTCTGCTGATTTTGGAGGCCAAAAAGT
1 GCCATTTAAGGGCTGATTTTGGAGGCTAAAAAGT
16686417 GC
1 GC
16686419 AGATTTTTGC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (34 bp):
GCCATTTAAGGGCTGATTTTGGAGGCTAAAAAGT
Found at i:16686736 original size:16 final size:15
Alignment explanation
Indices: 16686692--16686736 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
16686682 TGGAGGAAAG
*
16686692 AAAGAAAGAAAAAAA
1 AAAGAAAGAAAATAA
16686707 AAAGAAAAGAAAATAA
1 AAAG-AAAGAAAATAA
*
16686723 CAAGAAAGGAAAAT
1 AAAGAAA-GAAAAT
16686737 GGGCATGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (15 bp):
AAAGAAAGAAAATAA
Found at i:16686751 original size:27 final size:27
Alignment explanation
Indices: 16686721--16686776 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
16686711 AAAAGAAAAT
* *
16686721 AACAAGAAAGGAAAATGGGCATGGCCC
1 AACAAGAAAGAAAAATGGACATGGCCC
* *
16686748 AACAAGCAAGAAAAATGGACATGGTCC
1 AACAAGAAAGAAAAATGGACATGGCCC
16686775 AA
1 AA
16686777 TAAAGGAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.25, T:0.09
Consensus pattern (27 bp):
AACAAGAAAGAAAAATGGACATGGCCC
Found at i:16692232 original size:21 final size:22
Alignment explanation
Indices: 16692198--16692239 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
16692188 TTTCCAATTT
*
16692198 GGGCTTGATGTATCAATACATA
1 GGGCTTGATATATCAATACATA
*
16692220 GGGC-TGATATATCGATACAT
1 GGGCTTGATATATCAATACAT
16692240 TGTGCCTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (22 bp):
GGGCTTGATATATCAATACATA
Found at i:16704462 original size:67 final size:67
Alignment explanation
Indices: 16704300--16704465 Score: 171
Period size: 67 Copynumber: 2.5 Consensus size: 67
16704290 AGAAACAGCC
*
16704300 AAAAAGCAACTAAAAGCACTATGAAAAAGCAATGTCGACCAAAACAACCAAAAACAGAAGAATAA
1 AAAAAGCAACTGAAAGCACTATGAAAAAGCAATGTCGACCAAAACAACCAAAAACAGAAGAAT--
16704365 ACCA
64 ACCA
* * * ** *
16704369 AAAATAGC--C-GAAAGCACTCTGAAAAAGCAGTGTCGACCAAAACAGCCCAAAAGTAGAAGGAT
1 AAAA-AGCAACTGAAAGCACTATGAAAAAGCAATGTCGACCAAAACA-ACCAAAAACAGAAGAAT
16704431 -CCA
64 ACCA
* *
16704434 TAAAAAGCAACTGAAAGCATTTTG-AAAAGCAA
1 -AAAAAGCAACTGAAAGCACTATGAAAAAGCAA
16704466 AAAAAAACAA
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
65 6 0.07
66 4 0.05
67 40 0.49
68 24 0.30
69 4 0.05
70 3 0.04
ACGTcount: A:0.53, C:0.20, G:0.16, T:0.11
Consensus pattern (67 bp):
AAAAAGCAACTGAAAGCACTATGAAAAAGCAATGTCGACCAAAACAACCAAAAACAGAAGAATAC
CA
Found at i:16711426 original size:27 final size:29
Alignment explanation
Indices: 16711396--16711452 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
16711386 ATAGAAAAAA
* *
16711396 AGAAAAA-AAAA-TACAAAAGTGATTGTT
1 AGAAAAAGAAAAGAACAAAAGAGATTGTT
16711423 AGAAAAAGGAAAAGAACAAAAGAGATTGTT
1 AGAAAAA-GAAAAGAACAAAAGAGATTGTT
16711453 TTTGCCACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.28
29 4 0.16
30 14 0.56
ACGTcount: A:0.60, C:0.04, G:0.19, T:0.18
Consensus pattern (29 bp):
AGAAAAAGAAAAGAACAAAAGAGATTGTT
Found at i:16724164 original size:47 final size:47
Alignment explanation
Indices: 16724089--16724186 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 47
16724079 TCGATATTTG
*
16724089 CTTTGATTCTATATATTGACTGTACAAAAAGGAACTGATGCAAGACA
1 CTTTGATTCTATATATCGACTGTACAAAAAGGAACTGATGCAAGACA
* * *
16724136 CTTTGATTCTATATATCGACTAG-GCAAAAAGGAACTGATGCCAGACC
1 CTTTGATTCTATATATCGACT-GTACAAAAAGGAACTGATGCAAGACA
16724183 CTTT
1 CTTT
16724187 TTTTGGCACA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 45 0.98
48 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (47 bp):
CTTTGATTCTATATATCGACTGTACAAAAAGGAACTGATGCAAGACA
Found at i:16734260 original size:39 final size:39
Alignment explanation
Indices: 16734162--16734284 Score: 161
Period size: 39 Copynumber: 3.3 Consensus size: 39
16734152 GGTGTGGTAT
* *
16734162 GGAGTGTACATGATGAT-ATTGC--CT-TGTGCGGTGTG
1 GGAGTGCACATGATGATGATTCCAGCTATGTGCGGTGTG
*
16734197 GGAGTGCAC---ATGATGATTCTAGCTATGTGCGGTGTG
1 GGAGTGCACATGATGATGATTCCAGCTATGTGCGGTGTG
*
16734233 GGAGTGCACATGATGATGATTCCAGCTATATGCGGTGTG
1 GGAGTGCACATGATGATGATTCCAGCTATGTGCGGTGTG
16734272 GGAGTGCACATGA
1 GGAGTGCACATGA
16734285 GCTGGAGAGA
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
32 5 0.07
33 3 0.04
35 10 0.13
36 20 0.26
39 38 0.50
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (39 bp):
GGAGTGCACATGATGATGATTCCAGCTATGTGCGGTGTG
Found at i:16735711 original size:35 final size:34
Alignment explanation
Indices: 16735672--16735780 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 34
16735662 CAGACTTAGT
*
16735672 CAAAACCTTTCATAATGGTTTTT-ATCGGGATCAAC
1 CAAAACCTTTCA-AATGGTTTTTCA-CGGGCTCAAC
**
16735707 CAAAACC---CAAAGTGGTTTTTCAAAGGCTCAAC
1 CAAAACCTTTCAAA-TGGTTTTTCACGGGCTCAAC
16735739 CATAAA-CTTTCACAATGGTTTTTCACGGGCTCAAC
1 CA-AAACCTTTCA-AATGGTTTTTCACGGGCTCAAC
16735774 CAAAACC
1 CAAAACC
16735781 CAAAGTGATT
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
31 2 0.03
32 20 0.33
33 4 0.07
34 3 0.05
35 30 0.49
36 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (34 bp):
CAAAACCTTTCAAATGGTTTTTCACGGGCTCAAC
Found at i:16735773 original size:67 final size:66
Alignment explanation
Indices: 16735678--16735806 Score: 206
Period size: 67 Copynumber: 1.9 Consensus size: 66
16735668 TAGTCAAAAC
* *
16735678 CTTTCATAATGGTTTTTATCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCATA
1 CTTTCACAATGGTTTTTATCGGGATCAACCAAAACCCAAAGTGATTTTT-AAAGGCTCAACCATA
16735743 AA
65 AA
*
16735745 CTTTCACAATGGTTTTTCA-CGGGCTCAACCAAAACCCAAAGTGATTTTTAAAGGCTCAACCA
1 CTTTCACAATGGTTTTT-ATCGGGATCAACCAAAACCCAAAGTGATTTTTAAAGGCTCAACCA
16735807 CAACCTACAA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
66 13 0.22
67 44 0.76
68 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (66 bp):
CTTTCACAATGGTTTTTATCGGGATCAACCAAAACCCAAAGTGATTTTTAAAGGCTCAACCATAA
A
Found at i:16735841 original size:66 final size:67
Alignment explanation
Indices: 16735700--16735846 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 67
16735690 TTTTTATCGG
* * * *
16735700 GATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCATAAACTTTCACAATGGTTTTTCAC
1 GATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCATAAACCTACACAAAGGTTTTTCAC
**
16735765 GG
66 AA
* *
16735767 GCTCAACCAAAACCCAAAGTGATTTTT-AAAGGCTCAACCA-CAACCTACAACAAAGGTTTTTCA
1 GATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCATAAACCTAC-ACAAAGGTTTTTCA
16735830 CAA
65 CAA
*
16735833 GATTAACCAAAACC
1 GATCAACCAAAACC
16735847 TAAAACTAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
65 5 0.07
66 39 0.57
67 25 0.36
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (67 bp):
GATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCATAAACCTACACAAAGGTTTTTCAC
AA
Found at i:16737771 original size:60 final size:60
Alignment explanation
Indices: 16737649--16737947 Score: 424
Period size: 60 Copynumber: 5.0 Consensus size: 60
16737639 AGACATCATC
* * * * * *
16737649 ACCTACTCGTGGGAATTGCCCACGCCACC--ATATGAATCGGGGCTTCAGGTCTCTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAAGTCCCCTTTT
* * *
16737707 ACCTACTCGTGGGAACTACCCACGCCACTATATATAAATCGAGGCTTCAGGTCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAAGTCCCCTTTT
* * *
16737767 ACCTACTAGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAAGT-TCCTCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAAGTCCCCT-TTT
* * *
16737827 ACCTACTCGTGGGAGCTACCCACGCCACCATACATAAATCGGGGCTTCAAGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAAGTCCCCTTTT
16737887 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAAGTCTCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAAGTC-CCCTTTT
16737948 TAAATCAAAT
Statistics
Matches: 216, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
58 26 0.12
59 3 0.01
60 179 0.83
61 8 0.04
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAAGTCCCCTTTT
Found at i:16738637 original size:20 final size:22
Alignment explanation
Indices: 16738607--16738650 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
16738597 CTAGTCGACG
*
16738607 TTTCTCTTTCTCTTTTTCC-CT
1 TTTCTCTTTCTCTTCTTCCTCT
16738628 TTTC-CTTTCTCTTCTTCCTCT
1 TTTCTCTTTCTCTTCTTCCTCT
16738649 TT
1 TT
16738651 CTTCTCTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTCTCTTTCTCTTCTTCCTCT
Found at i:16738770 original size:18 final size:18
Alignment explanation
Indices: 16738747--16738782 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16738737 CTGCTCTCTC
16738747 TCTCTTTATTCTTCTTTT
1 TCTCTTTATTCTTCTTTT
* *
16738765 TCTCTTTCTTTTTCTTTT
1 TCTCTTTATTCTTCTTTT
16738783 CCTCGAGACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (18 bp):
TCTCTTTATTCTTCTTTT
Found at i:16738879 original size:13 final size:14
Alignment explanation
Indices: 16738848--16738879 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16738838 GAGTCCCCAC
16738848 TCTCTTTCTTCTCT
1 TCTCTTTCTTCTCT
16738862 T-TCTTTCTTCT-T
1 TCTCTTTCTTCTCT
16738874 TCTCTT
1 TCTCTT
16738880 GATCGGCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.12
13 14 0.82
14 1 0.06
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TCTCTTTCTTCTCT
Found at i:16738998 original size:19 final size:19
Alignment explanation
Indices: 16738983--16739023 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
16738973 TCTTCTTCTT
16738983 TCTTTTCTCTTCTCTTTTG
1 TCTTTTCTCTTCTCTTTTG
*
16739002 TCTTTTTTCTTCTCTTTTG
1 TCTTTTCTCTTCTCTTTTG
16739021 TCT
1 TCT
16739024 CCACCTGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (19 bp):
TCTTTTCTCTTCTCTTTTG
Found at i:16738999 original size:26 final size:26
Alignment explanation
Indices: 16738959--16739012 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
16738949 AACTTTTTTT
16738959 TTTTCTCTTTCCTTTCT-TCTTCTTTC
1 TTTTCTCTTTCCTTT-TGTCTTCTTTC
*
16738985 TTTTCTC-TTCTCTTTTGTCTTTTTTC
1 TTTTCTCTTTC-CTTTTGTCTTCTTTC
16739011 TT
1 TT
16739013 CTCTTTTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTTCTCTTTCCTTTTGTCTTCTTTC
Found at i:16741305 original size:37 final size:37
Alignment explanation
Indices: 16741254--16741333 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
16741244 ATGCCAAGTT
* *
16741254 ATGGTGGTGTTAAAAATTTGTCGATGACAAATACCCC
1 ATGGTGGTGCTAAAAATTTGTCAATGACAAATACCCC
* * *
16741291 ATGGTGGTGCTAAAAATTTGTTAATGGCAAATGCCCC
1 ATGGTGGTGCTAAAAATTTGTCAATGACAAATACCCC
16741328 ATGGTG
1 ATGGTG
16741334 TCAAACATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (37 bp):
ATGGTGGTGCTAAAAATTTGTCAATGACAAATACCCC
Found at i:16742461 original size:17 final size:17
Alignment explanation
Indices: 16742441--16742483 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
16742431 GGCTTAGATC
16742441 CAATCATGCAATCATAT
1 CAATCATGCAATCATAT
16742458 CAATCATGCAATCATAT
1 CAATCATGCAATCATAT
*
16742475 CATTCATGC
1 CAATCATGC
16742484 TAAATGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (17 bp):
CAATCATGCAATCATAT
Found at i:16745280 original size:18 final size:17
Alignment explanation
Indices: 16745235--16745283 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
16745225 TTAGTTATTT
16745235 TTAG-TTATTTT-TTAA
1 TTAGTTTATTTTATTAA
16745250 TTAGTTTATTTTTATTAA
1 TTAGTTTA-TTTTATTAA
*
16745268 GTTATTTTATTTTATT
1 -TTAGTTTATTTTATT
16745284 CTAATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.14
16 3 0.10
17 4 0.14
18 11 0.38
19 7 0.24
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTAGTTTATTTTATTAA
Found at i:16760688 original size:23 final size:23
Alignment explanation
Indices: 16760637--16760689 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
16760627 TAATTTAATT
* * *
16760637 AATTTGTTTAAATTGGTTAGAAG
1 AATTTGATTAAATTGGTTAAAAA
**
16760660 GTTTTGATTAAATTGGTTAAAAA
1 AATTTGATTAAATTGGTTAAAAA
16760683 AATTTGA
1 AATTTGA
16760690 AGTCGGTTAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (23 bp):
AATTTGATTAAATTGGTTAAAAA
Found at i:16765349 original size:59 final size:56
Alignment explanation
Indices: 16765218--16765364 Score: 152
Period size: 55 Copynumber: 2.6 Consensus size: 56
16765208 ACTTAATAGC
* * * *
16765218 TATATGAATGCCTACATGAGTATGCCTAGCCTAGAGAACTATATATATGCATGCGA
1 TATATGATTGCCTAGATGAGTATGCCTAGGCTAGAGAACTATATATATACATGCGA
* * ** *
16765274 -ATCTAATTGCCTAGATGAGTATGCCTAGGCTAGAGAACTATGTATATATATGTGTGTA
1 TATATGATTGCCTAGATGAGTATGCCTAGGCTAGAGAACTA--TATATATACATGCG-A
* * *
16765332 TATATGATTGCCTAGATGAATGTGCCTAAGCTA
1 TATATGATTGCCTAGATGAGTATGCCTAGGCTA
16765365 AATATATCTA
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
55 35 0.48
57 10 0.14
58 1 0.01
59 27 0.37
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (56 bp):
TATATGATTGCCTAGATGAGTATGCCTAGGCTAGAGAACTATATATATACATGCGA
Found at i:16766079 original size:30 final size:29
Alignment explanation
Indices: 16766027--16766091 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
16766017 GATTGTGTAT
*
16766027 ATGATGCCATTTGTCTGAGATTACTCTGG
1 ATGATGCCATCTGTCTGAGATTACTCTGG
*
16766056 ATGATGCCATCTGT-TGGGAGATTACTTTGG
1 ATGATGCCATCTGTCT--GAGATTACTCTGG
*
16766086 ACGATG
1 ATGATG
16766092 ATTTGATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 13 0.42
30 17 0.55
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (29 bp):
ATGATGCCATCTGTCTGAGATTACTCTGG
Found at i:16778967 original size:27 final size:28
Alignment explanation
Indices: 16778904--16778970 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
16778894 CCAAAGTAGT
*
16778904 AATAGTAATTTTGCCACCCTAGGGGCAA
1 AATAGTAATTTTGCCACCCTAAGGGCAA
16778932 AATAGTAATTTTGCCACCC-AAGGGCAA
1 AATAGTAATTTTGCCACCCTAAGGGCAA
16778959 AATTA-TAATTTT
1 AA-TAGTAATTTT
16778971 ACACCACCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 16 0.43
28 21 0.57
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (28 bp):
AATAGTAATTTTGCCACCCTAAGGGCAA
Found at i:16787856 original size:25 final size:25
Alignment explanation
Indices: 16787792--16787875 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
16787782 GACCTATTAG
*
16787792 ACGTGGCTAGGCCACGGTCTGTGATTAT
1 ACGTGGCTAGGCCACGG-GT-TGA-TAT
* *
16787820 ACGTGACAAGGCCACGGGTTGATAT
1 ACGTGGCTAGGCCACGGGTTGATAT
* **
16787845 ATGTGGCTAGGCCACAAGTTGATAT
1 ACGTGGCTAGGCCACGGGTTGATAT
16787870 ACGTGG
1 ACGTGG
16787876 TTGCGACCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 28 0.60
26 3 0.06
27 1 0.02
28 15 0.32
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (25 bp):
ACGTGGCTAGGCCACGGGTTGATAT
Found at i:16803105 original size:20 final size:19
Alignment explanation
Indices: 16803073--16803136 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
16803063 CCTCTTCTTT
16803073 TTTTTTTTA-TATATTTTA
1 TTTTTTTTATTATATTTTA
*
16803091 TTTTATTTTATTATAATTTA
1 TTTT-TTTTATTATATTTTA
**
16803111 AATTTTTTATT-TATTATTA
1 TTTTTTTTATTATATT-TTA
16803130 TTTTTTT
1 TTTTTTT
16803137 AGGTGTCTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 7 0.19
19 20 0.54
20 10 0.27
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTTTATTATATTTTA
Found at i:16803954 original size:55 final size:55
Alignment explanation
Indices: 16803849--16803954 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
16803839 AAATGCTATA
* * * *
16803849 TGATTGCCTAGATGAGTATGTCAAGGCTAGAGAACTATATATATGCATGTGAATC
1 TGATTGCCTAAATGAGTATGCCAAGGCTAAAGAACTATATATATACATGTGAATC
* * * *
16803904 TGATTGCTTAAATGAGTATGCCTAGGCTAAAGAACTATGTATATATATGTG
1 TGATTGCCTAAATGAGTATGCCAAGGCTAAAGAACTATATATATACATGTG
16803955 TGTGTATATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (55 bp):
TGATTGCCTAAATGAGTATGCCAAGGCTAAAGAACTATATATATACATGTGAATC
Found at i:16807348 original size:25 final size:25
Alignment explanation
Indices: 16807310--16807361 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
16807300 GTGTGCCTAT
* *
16807310 AGAGCCTAGTTTGATGATGGCTTTA
1 AGAGCCTAGCTTGATGACGGCTTTA
16807335 AGAGCCTAGCTTGATGACGGCTTTA
1 AGAGCCTAGCTTGATGACGGCTTTA
16807360 AG
1 AG
16807362 GTTAAGCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (25 bp):
AGAGCCTAGCTTGATGACGGCTTTA
Found at i:16808972 original size:21 final size:21
Alignment explanation
Indices: 16808948--16808988 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16808938 GATTTCTATC
*
16808948 TATCGATAGATGTTCTTCATT
1 TATCGATAGATGTTCATCATT
*
16808969 TATCGATAGTTGTTCATCAT
1 TATCGATAGATGTTCATCAT
16808989 ATCATTTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (21 bp):
TATCGATAGATGTTCATCATT
Found at i:16810657 original size:13 final size:13
Alignment explanation
Indices: 16810639--16810663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16810629 GGAGAAATTG
16810639 TGATTTTATAAAA
1 TGATTTTATAAAA
16810652 TGATTTTATAAA
1 TGATTTTATAAA
16810664 TTTTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:16827396 original size:14 final size:14
Alignment explanation
Indices: 16827377--16827408 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16827367 TAATTCGTTT
16827377 CAAAAAAATTCAAA
1 CAAAAAAATTCAAA
16827391 CAAAAAAATTCAAA
1 CAAAAAAATTCAAA
16827405 -AAAA
1 CAAAA
16827409 TAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (14 bp):
CAAAAAAATTCAAA
Found at i:16832112 original size:14 final size:14
Alignment explanation
Indices: 16832093--16832124 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
16832083 TGTTGGTTTA
*
16832093 AATTTTAGTTAATT
1 AATTTTAGTTAATC
16832107 AATTTTAGTTAATC
1 AATTTTAGTTAATC
16832121 AATT
1 AATT
16832125 AATTTTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (14 bp):
AATTTTAGTTAATC
Found at i:16842174 original size:28 final size:29
Alignment explanation
Indices: 16842133--16842192 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
16842123 GTCTATGGGC
* *
16842133 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
16842161 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
16842191 AA
1 AA
16842193 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:16850356 original size:28 final size:29
Alignment explanation
Indices: 16850315--16850374 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
16850305 GTCTATGGGC
*
16850315 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
16850343 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
16850373 AA
1 AA
16850375 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:16861771 original size:2 final size:2
Alignment explanation
Indices: 16861764--16861797 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16861754 AATTGAGTCT
16861764 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16861798 ATTTTAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16863911 original size:41 final size:41
Alignment explanation
Indices: 16863866--16863979 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 41
16863856 ATATATTCTC
* * *
16863866 TATTAAATTTAAATAATACTAAATAATATT-TTTATTACATT
1 TATTATATTTAAATAATA-TAAATAATATTCCTTATAACATT
*
16863907 TATTATATTTAAATAATAATATTAAATAATATTCCTTATAATATT
1 TATTATATTT--A-AATAATA-TAAATAATATTCCTTATAACATT
*
16863952 TATTATAGTTAAATAATATAAAT-ATATT
1 TATTATATTTAAATAATATAAATAATATT
16863980 AAATGATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
40 5 0.08
41 14 0.22
42 7 0.11
43 2 0.03
44 18 0.29
45 17 0.27
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (41 bp):
TATTATATTTAAATAATATAAATAATATTCCTTATAACATT
Found at i:16863938 original size:44 final size:45
Alignment explanation
Indices: 16863877--16863969 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
16863867 ATTAAATTTA
* * *
16863877 AATAATACTAAATAATATT-TTTATTACATTTATTATATTTAAAT
1 AATAATACTAAATAATATTCCTTATAACATTTATTATAGTTAAAT
* *
16863921 AATAATATTAAATAATATTCCTTATAATATTTATTATAGTTAAAT
1 AATAATACTAAATAATATTCCTTATAACATTTATTATAGTTAAAT
16863966 AATA
1 AATA
16863970 TAAATATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (45 bp):
AATAATACTAAATAATATTCCTTATAACATTTATTATAGTTAAAT
Found at i:16867284 original size:46 final size:46
Alignment explanation
Indices: 16867217--16867306 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
16867207 GGACAAAGCT
* *
16867217 GCAAAGACTATGTGGACCCTCCACCAACACTACTTGTTGGCATGCC
1 GCAAAGACTATATGGACCCTCCACCAACACTACTTGTTGACATGCC
*
16867263 GCAAAGACTCTATGGACCCTCCACCAACACTACTTGTTGACATG
1 GCAAAGACTATATGGACCCTCCACCAACACTACTTGTTGACATG
16867307 GTGTCACGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (46 bp):
GCAAAGACTATATGGACCCTCCACCAACACTACTTGTTGACATGCC
Found at i:16869157 original size:21 final size:20
Alignment explanation
Indices: 16869117--16869171 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
16869107 ATTATAAAGG
* *
16869117 AATATAATTACTATTATATA
1 AATATATTTACTTTTATATA
* *
16869137 TATGTATTTACTTTTAATATA
1 AATATATTTACTTTT-ATATA
16869158 AATATATTTACTTT
1 AATATATTTACTTT
16869172 CTATTTTGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (20 bp):
AATATATTTACTTTTATATA
Found at i:16873983 original size:19 final size:19
Alignment explanation
Indices: 16873945--16873990 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
16873935 TATGTATAAC
*
16873945 AAAAATAATAAAAATTAAA
1 AAAAATAATAAAAATGAAA
16873964 AAAAATAATAAAGAA-GAAA
1 AAAAATAATAAA-AATGAAA
16873983 AGAAAATA
1 A-AAAATA
16873991 GAGGGGAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAAATAATAAAAATGAAA
Found at i:16888066 original size:37 final size:37
Alignment explanation
Indices: 16888023--16888472 Score: 465
Period size: 37 Copynumber: 11.8 Consensus size: 37
16888013 AAAAAGGTTA
* * *
16888023 CGTTGCCTCAATTTTGAGGAATTCATTTTTAAAGGT-A
1 CGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAA-GTCT
* * * *
16888060 CGTTGCCTCAGCTTTGAGGAGCTCATTTGTAAAAAAAATTCT
1 CGTTGCCTCAGTTTTGAGGAGTTCATTT-T----TAAAGTCT
* *
16888102 CGTTGCCTCAGTTTTGAGGAGTTTATTCTTAAAGTCT
1 CGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCT
* * * *
16888139 TGGTGTCTCAGGTTTGAGGAGTTCATTTTTAAAGTCT
1 CGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCT
16888176 CGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCT
1 CGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCT
* *
16888213 CGTTACCTCAGTTTTGAGGAGTTC-GTTTTAAAGTCT
1 CGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCT
*
16888249 CGGTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCTT
1 CGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTC-T
* * *
16888287 AG-TGCCTCAGATTTGAGGAGTTCATTTTTAAAATCT
1 CGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCT
16888323 CGTTGCCTCAGTTTTGAGGAGTTCATTTTTTTTAAAAAAAAAGTCT
1 CGTTGCCTCAGTTTTGAGGAGTTCA---TTTTT------AAAGTCT
* * *
16888369 CATTGCCTCAATTTTGAGGAATTCATTTTTAAAAGTCT
1 CGTTGCCTCAGTTTTGAGGAGTTCATTTTT-AAAGTCT
* * *
16888407 CGTGGCCTCAATTTTGAGGAGTTCATTTTTAAAAGTCG
1 CGTTGCCTCAGTTTTGAGGAGTTCATTTTT-AAAGTCT
* * *
16888445 CATTGCCTTAGTTTTGAGGAATTCATTT
1 CGTTGCCTCAGTTTTGAGGAGTTCATTT
16888473 AAAAAAAAAT
Statistics
Matches: 349, Mismatches: 46, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
36 35 0.10
37 179 0.51
38 68 0.19
40 5 0.01
41 2 0.01
42 27 0.08
43 5 0.01
46 28 0.08
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (37 bp):
CGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCT
Found at i:16888285 original size:110 final size:110
Alignment explanation
Indices: 16888026--16888472 Score: 466
Period size: 110 Copynumber: 3.9 Consensus size: 110
16888016 AAGGTTACGT
* * *
16888026 TGCCTCAATTTTGAGGAATTCATTTTTAAAGGT-ACGTTGCCTCAGCTTTGAGGAGCTCATTTGT
1 TGCCTCAATTTTGAGGAATTCATTTTTAAA-GTCTCGTTGCCTCAGTTTTGAGGAGTTCATTT-T
* * * *
16888090 AAAAAAAATTCTCGTTGCCTCAGTTTTGAGGAGTTTATTCTTAAAGTCTTGG
64 ----TAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATT-TTAAAGTCTCGG
* ** *
16888142 TGTCTCAGGTTTGAGGAGTTCATTTTTAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTA
1 TGCCTCAATTTTGAGGAATTCATTTTTAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTA
* *
16888207 AAGTCTCGTTACCTCAGTTTTGAGGAGTTCGTTTTAAAGTCTCGG
66 AAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAGTCTCGG
* * * *
16888252 TGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCTTAG-TGCCTCAGATTTGAGGAGTTCATTTTT
1 TGCCTCAATTTTGAGGAATTCATTTTTAAAGTC-TCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* **
16888316 AAAATCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTTTTAAAAAAAAAGTCTCAT
65 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCA----TTTT------AAAGTCTCGG
* *
16888372 TGCCTCAATTTTGAGGAATTCATTTTTAAAAGTCTCGTGGCCTCAATTTTGAGGAGTTCATTTTT
1 TGCCTCAATTTTGAGGAATTCATTTTT-AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* * * *
16888437 AAAAGTCGCATTGCCTTAGTTTTGAGGAATTCATTT
65 -AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTT
16888473 AAAAAAAAAT
Statistics
Matches: 283, Mismatches: 33, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
110 97 0.34
111 32 0.11
114 4 0.01
115 3 0.01
116 52 0.18
118 3 0.01
120 35 0.12
121 30 0.11
122 27 0.10
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (110 bp):
TGCCTCAATTTTGAGGAATTCATTTTTAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTA
AAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAGTCTCGG
Found at i:16888436 original size:83 final size:83
Alignment explanation
Indices: 16888279--16888436 Score: 246
Period size: 83 Copynumber: 1.9 Consensus size: 83
16888269 GTTCATTTTT
* * * *
16888279 AAAGTCTTAGTGCCTCAGATTTGAGGAGTTCATTTTTAAAATCTCGTTGCCTCAGTTTTGAGGAG
1 AAAGTCTCAGTGCCTCAGATTTGAGGAATTCATTTTTAAAATCTCGTGGCCTCAATTTTGAGGAG
16888344 TTCATTTTTTTTAAAAAA
66 TTCATTTTTTTTAAAAAA
*
16888362 AAAGTCTCATTGCCTCA-ATTTTGAGGAATTCATTTTTAAAAGTCTCGTGGCCTCAATTTTGAGG
1 AAAGTCTCAGTGCCTCAGA-TTTGAGGAATTCATTTTTAAAA-TCTCGTGGCCTCAATTTTGAGG
16888426 AGTTCATTTTT
64 AGTTCATTTTT
16888437 AAAAGTCGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
82 1 0.01
83 36 0.53
84 31 0.46
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (83 bp):
AAAGTCTCAGTGCCTCAGATTTGAGGAATTCATTTTTAAAATCTCGTGGCCTCAATTTTGAGGAG
TTCATTTTTTTTAAAAAA
Found at i:16888480 original size:120 final size:119
Alignment explanation
Indices: 16888242--16888481 Score: 306
Period size: 120 Copynumber: 2.0 Consensus size: 119
16888232 AGTTCGTTTT
* * *
16888242 AAAGTCTCGGTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCTTAGTGCCTCAGATTTGAGGAG
1 AAAGTCTCAGTGCCTCAATTTTGAGGAATTCATTTTTAAAGTCTTAGTGCCTCAGATTTGAGGAG
* * * ***
16888307 TTCATTTTTAAAATCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTTTTAAAAAA
66 TTCATTTTTAAAATCGCATTGCCTCAGTTTTGAGGAATTCA-TTTTAAAAAAAAA
* *
16888362 AAAGTCTCATTGCCTCAATTTTGAGGAATTCATTTTTAAAAGTC-TCGTGGCCTCA-ATTTTGAG
1 AAAGTCTCAGTGCCTCAATTTTGAGGAATTCATTTTT-AAAGTCTTAGT-GCCTCAGA-TTTGAG
*
16888425 GAGTTCATTTTTAAAAGTCGCATTGCCTTAGTTTTGAGGAATTCA-TTTAAAAAAAAA
63 GAGTTCATTTTTAAAA-TCGCATTGCCTCAGTTTTGAGGAATTCATTTTAAAAAAAAA
16888482 TTTTGGTAAA
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
120 46 0.44
121 34 0.33
122 24 0.23
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (119 bp):
AAAGTCTCAGTGCCTCAATTTTGAGGAATTCATTTTTAAAGTCTTAGTGCCTCAGATTTGAGGAG
TTCATTTTTAAAATCGCATTGCCTCAGTTTTGAGGAATTCATTTTAAAAAAAAA
Found at i:16888634 original size:9 final size:9
Alignment explanation
Indices: 16888622--16888656 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
16888612 AAAAATATAT
16888622 ATAATAAAA
1 ATAATAAAA
16888631 ATAATAAAA
1 ATAATAAAA
16888640 ATTAA-AAAA
1 A-TAATAAAA
16888649 ATAATAAA
1 ATAATAAA
16888657 GAAGAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 3 0.12
9 18 0.75
10 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
ATAATAAAA
Found at i:16890326 original size:14 final size:14
Alignment explanation
Indices: 16890307--16890333 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16890297 CGACAAAAAT
16890307 AAAAAATAAATAAC
1 AAAAAATAAATAAC
16890321 AAAAAATAAATAA
1 AAAAAATAAATAA
16890334 ATGATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAATAAATAAC
Found at i:16890327 original size:21 final size:20
Alignment explanation
Indices: 16890301--16890347 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
16890291 TACACACGAC
16890301 AAAAATAAA-AAATAAATAACA
1 AAAAATAAATAAAT-AATAA-A
*
16890322 AAAAATAAATAAATGATAAA
1 AAAAATAAATAAATAATAAA
16890342 AAAAAT
1 AAAAAT
16890348 CTAAGATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 13 0.54
22 4 0.17
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAAATAAATAAATAATAAA
Found at i:16890484 original size:11 final size:12
Alignment explanation
Indices: 16890471--16890512 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
16890461 TAGTAATTAG
16890471 AAATAAAATAGA
1 AAATAAAATAGA
16890483 AAATAAAA-AGA
1 AAATAAAATAGA
16890494 TATAATAAAATA-A
1 -A-AATAAAATAGA
16890507 AAATAA
1 AAATAA
16890513 TAATTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 8 0.30
12 10 0.37
13 8 0.30
14 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (12 bp):
AAATAAAATAGA
Found at i:16890515 original size:17 final size:17
Alignment explanation
Indices: 16890482--16890540 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
16890472 AATAAAATAG
*
16890482 AAAATAAAAAGATATAAT
1 AAAATAAAAATA-ATAAT
16890500 AAAATAAAAATAATAAT
1 AAAATAAAAATAATAAT
* * * *
16890517 TAATTAATAATAACTAAA
1 AAAATAAAAATAA-TAAT
16890535 AAAATA
1 AAAATA
16890541 TAGATAATTG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
17 15 0.45
18 18 0.55
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAATAAAAATAATAAT
Found at i:16890524 original size:25 final size:26
Alignment explanation
Indices: 16890456--16890540 Score: 76
Period size: 25 Copynumber: 3.4 Consensus size: 26
16890446 GTAAGGTGTA
*
16890456 AAAAATAGTAATTAGA--AATAAAAT
1 AAAAATAATAATTAGATTAATAAAAT
16890480 AGAAAATAA-AA--AGATATAATAAAAT
1 A-AAAATAATAATTAGAT-TAATAAAAT
16890505 AAAAATAATAATTA-ATTAATAATAACT
1 AAAAATAATAATTAGATTAATAA-AA-T
16890532 AAAAA-AATA
1 AAAAATAATA
16890541 TAGATAATTG
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
22 3 0.06
24 10 0.20
25 23 0.45
26 8 0.16
27 7 0.14
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (26 bp):
AAAAATAATAATTAGATTAATAAAAT
Found at i:16890591 original size:16 final size:14
Alignment explanation
Indices: 16890538--16890592 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 14
16890528 AACTAAAAAA
16890538 ATATAGATA-ATTGC
1 ATATA-ATATATTGC
16890552 ATAT-ATATATTGC
1 ATATAATATATTGC
16890565 ATCATACATATCATTGC
1 AT-ATA-ATAT-ATTGC
16890582 ATATAA-ATATT
1 ATATAATATATT
16890593 TCTATTTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.08
13 10 0.28
14 8 0.22
15 1 0.03
16 7 0.19
17 7 0.19
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (14 bp):
ATATAATATATTGC
Found at i:16893109 original size:6 final size:6
Alignment explanation
Indices: 16893098--16893134 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
16893088 GGAAAAGAAA
* *
16893098 GCAAAG GCAAAG GCAAAT GCAAAT GCAAAT GCAAAT G
1 GCAAAT GCAAAT GCAAAT GCAAAT GCAAAT GCAAAT G
16893135 GAATCAGCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.24, T:0.11
Consensus pattern (6 bp):
GCAAAT
Found at i:16902079 original size:9 final size:9
Alignment explanation
Indices: 16902059--16902097 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
16902049 ACACAATTAA
*
16902059 TAACACGTT
1 TAACACGAT
*
16902068 TAACATGAT
1 TAACACGAT
*
16902077 TAACACGTT
1 TAACACGAT
16902086 TAACACGAT
1 TAACACGAT
16902095 TAA
1 TAA
16902098 ATAAAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (9 bp):
TAACACGAT
Found at i:16902082 original size:18 final size:18
Alignment explanation
Indices: 16902059--16902097 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
16902049 ACACAATTAA
*
16902059 TAACACGTTTAACATGAT
1 TAACACGTTTAACACGAT
16902077 TAACACGTTTAACACGAT
1 TAACACGTTTAACACGAT
16902095 TAA
1 TAA
16902098 ATAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (18 bp):
TAACACGTTTAACACGAT
Found at i:16902182 original size:20 final size:20
Alignment explanation
Indices: 16902154--16902191 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16902144 ATCTATAATT
*
16902154 ATAAAAATAATTATAACAAA
1 ATAAAAATAATAATAACAAA
*
16902174 ATAATAATAATAATAACA
1 ATAAAAATAATAATAACA
16902192 TCAAATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAAAATAATAATAACAAA
Found at i:16903519 original size:66 final size:66
Alignment explanation
Indices: 16903413--16903645 Score: 360
Period size: 66 Copynumber: 3.5 Consensus size: 66
16903403 ATATATTGGA
***
16903413 TGATGTATTGTTTGCTTTGGTATGTTGGATTCATGGGTTGTGTGTCACGGTCCACATCAATCCCT
1 TGATGTATTGTTTGCTTTGGTCCATTGGATTCATGGGTTGTGTGTCACGGTCCACATCAATCCCT
16903478 G
66 G
* * *
16903479 TGATGTATTGTTTGCTTTGATCCAATGGATTCATGGGTTGTGTGTCACAGTCCACATCAATCCCT
1 TGATGTATTGTTTGCTTTGGTCCATTGGATTCATGGGTTGTGTGTCACGGTCCACATCAATCCCT
*
16903544 T
66 G
*
16903545 TGATGTATTGTTTGCTTTGGTCCATTGGATTCATGAGTTGTGTGTCACGGTCCACATCAAT-CCT
1 TGATGTATTGTTTGCTTTGGTCCATTGGATTCATGGGTTGTGTGTCACGGTCCACATCAATCCCT
16903609 G
66 G
* * *
16903610 TGATGTATTGTTTGCTTTAGTTCATTGGACTCATGG
1 TGATGTATTGTTTGCTTTGGTCCATTGGATTCATGG
16903646 TTTTGTTCAA
Statistics
Matches: 151, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
65 35 0.23
66 116 0.77
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (66 bp):
TGATGTATTGTTTGCTTTGGTCCATTGGATTCATGGGTTGTGTGTCACGGTCCACATCAATCCCT
G
Found at i:16908223 original size:55 final size:54
Alignment explanation
Indices: 16908040--16908225 Score: 192
Period size: 55 Copynumber: 3.4 Consensus size: 54
16908030 GTTAGAGTTA
* * * * *
16908040 TTTTAGTGTGTTACGACTGTTCCTGGCGTGTTGTGGGTTAACTAGTTTTTTGGGT
1 TTTTAGCGTGTCACGGCTGTTCCTGG-GTGTCGTGGGTTAACTGGTTTTTTGGGT
* * * ** *
16908095 TGTTAGCGTGTCACGGCTATTCCTAGGGTGTGGTGGGTTAACTGAATTTATGGGT
1 TTTTAGCGTGTCACGGCTGTTCCT-GGGTGTCGTGGGTTAACTGGTTTTTTGGGT
* * * * * *
16908150 TTTTGGTGTGTCACGGCTGTCCCTGGTGTGTCGTTGGTTAATTGGTTTTTTGAGT
1 TTTTAGCGTGTCACGGCTGTTCCTGG-GTGTCGTGGGTTAACTGGTTTTTTGGGT
16908205 TTTTAGCGTGTCACGGCTGTT
1 TTTTAGCGTGTCACGGCTGTT
16908226 GGTGTAACCA
Statistics
Matches: 104, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
54 2 0.02
55 100 0.96
56 2 0.02
ACGTcount: A:0.11, C:0.13, G:0.32, T:0.44
Consensus pattern (54 bp):
TTTTAGCGTGTCACGGCTGTTCCTGGGTGTCGTGGGTTAACTGGTTTTTTGGGT
Found at i:16908289 original size:23 final size:23
Alignment explanation
Indices: 16908254--16908314 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
16908244 TTATAGTGAT
*
16908254 TGGCGTGTCACGACAGTGATGCA
1 TGGCGTGTCACGACACTGATGCA
* * *
16908277 TGGCATGTAACGATACTGATGCA
1 TGGCGTGTCACGACACTGATGCA
16908300 TGGCGTGTCACGACA
1 TGGCGTGTCACGACA
16908315 TTTGACTTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (23 bp):
TGGCGTGTCACGACACTGATGCA
Found at i:16908331 original size:31 final size:31
Alignment explanation
Indices: 16908295--16908376 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
16908285 AACGATACTG
*
16908295 ATGCATGGCGTGTCACGACATTTGAC-TTGAT
1 ATGCATGGCGTGTCACAACATTTGACATT-AT
* * *
16908326 TTGCATGGCGTGTTACAACATTTTACATTAT
1 ATGCATGGCGTGTCACAACATTTGACATTAT
* *
16908357 ATGCATGGCATGTAACAACA
1 ATGCATGGCGTGTCACAACA
16908377 CGACTGACAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 41 0.95
32 2 0.05
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAACATTTGACATTAT
Found at i:16911890 original size:31 final size:31
Alignment explanation
Indices: 16911846--16912207 Score: 388
Period size: 31 Copynumber: 11.7 Consensus size: 31
16911836 ATAAATATGA
16911846 GACACGCCATGCATAACAAGTAAAATGTTGT
1 GACACGCCATGCATAACAAGTAAAATGTTGT
* * * * *
16911877 GACACGTCGTGCATATCAAATAAAATATTGT
1 GACACGCCATGCATAACAAGTAAAATGTTGT
* * *
16911908 GACACGCCATGCATAACAAGAAAAATTTTAT
1 GACACGCCATGCATAACAAGTAAAATGTTGT
* * *
16911939 GACACGACATGCATAACAAGTTAAACGTTGT
1 GACACGCCATGCATAACAAGTAAAATGTTGT
* * *
16911970 GACACACCATGCATAACAGGT-TAATCGTTGT
1 GACACGCCATGCATAACAAGTAAAAT-GTTGT
* *
16912001 GACATGCCATGCATAACAAGTAAATTG-TGCT
1 GACACGCCATGCATAACAAGTAAAATGTTG-T
* *
16912032 GACACGCCATGCATAACAAGTTAAACGTTGT
1 GACACGCCATGCATAACAAGTAAAATGTTGT
* * *
16912063 GACACGCCATGCATAACAATTAAATTGTTCT
1 GACACGCCATGCATAACAAGTAAAATGTTGT
* * *
16912094 GACCCACCATGCATAACAAGTAAATTG-TGCT
1 GACACGCCATGCATAACAAGTAAAATGTTG-T
* * *
16912125 GACACGTCATGCATAACAAGTTAAACGTTGT
1 GACACGCCATGCATAACAAGTAAAATGTTGT
* * * *
16912156 GACACGCCATGCATAACAATTAAATTATTCT
1 GACACGCCATGCATAACAAGTAAAATGTTGT
*
16912187 GACCCGCCATGCATAACAAGT
1 GACACGCCATGCATAACAAGT
16912208 TCTGGTGTGT
Statistics
Matches: 269, Mismatches: 56, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
30 5 0.02
31 258 0.96
32 6 0.02
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (31 bp):
GACACGCCATGCATAACAAGTAAAATGTTGT
Found at i:16912010 original size:93 final size:91
Alignment explanation
Indices: 16911846--16912207 Score: 447
Period size: 93 Copynumber: 3.9 Consensus size: 91
16911836 ATAAATATGA
* * * * * * *
16911846 GACACGCCATGCATAACAAGTAAAATGTTGTGACACGTCGTGCATATCAAATAAAATATTGTGAC
1 GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAAC-AAT-TAATGTTGTGAC
* **
16911911 ACGCCATGCATAACAAGAAAAATT-TTAT
64 ACGCCATGCATAACAAG-TAAATTGTGCT
* * *
16911939 GACACGACATGCATAACAAGTTAAACGTTGTGACACACCATGCATAACAGGTTAATCGTTGTGAC
1 GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACA-ATTAAT-GTTGTGAC
*
16912004 ATGCCATGCATAACAAGTAAATTGTGCT
64 ACGCCATGCATAACAAGTAAATTGTGCT
*
16912032 GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATTAAATTGTTCTGAC
1 GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATT-AA-TGTTGTGAC
* *
16912097 CCACCATGCATAACAAGTAAATTGTGCT
64 ACGCCATGCATAACAAGTAAATTGTGCT
* * *
16912125 GACACGTCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATTAAATTATTCTGAC
1 GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATT-AA-TGTTGTGAC
*
16912190 CCGCCATGCATAACAAGT
64 ACGCCATGCATAACAAGT
16912208 TCTGGTGTGT
Statistics
Matches: 240, Mismatches: 24, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
92 11 0.05
93 228 0.95
94 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (91 bp):
GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATTAATGTTGTGACAC
GCCATGCATAACAAGTAAATTGTGCT
Found at i:16913330 original size:16 final size:14
Alignment explanation
Indices: 16913306--16913368 Score: 65
Period size: 14 Copynumber: 4.3 Consensus size: 14
16913296 CTTTACAATG
16913306 AATTGTATAAAATA
1 AATTGTATAAAATA
16913320 AATTATGTATACAAA-A
1 AA-T-TGTATA-AAATA
*
16913336 AATGTGTATAAAATG
1 AAT-TGTATAAAATA
*
16913351 AATTGTATAAAAAA
1 AATTGTATAAAATA
16913365 AATT
1 AATT
16913369 CTGTATACCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 18 0.44
15 11 0.27
16 9 0.22
17 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.33
Consensus pattern (14 bp):
AATTGTATAAAATA
Found at i:16913364 original size:29 final size:31
Alignment explanation
Indices: 16913309--16913367 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
16913299 TACAATGAAT
*
16913309 TGTATAAAATAAATTATGTATACAAAAAATG
1 TGTATAAAATAAATTATGTATAAAAAAAATG
*
16913340 TGTATAAAATGAA-T-TGTATAAAAAAAAT
1 TGTATAAAATAAATTATGTATAAAAAAAAT
16913368 TCTGTATACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.50
30 1 0.04
31 12 0.46
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (31 bp):
TGTATAAAATAAATTATGTATAAAAAAAATG
Found at i:16913368 original size:14 final size:14
Alignment explanation
Indices: 16913306--16913368 Score: 63
Period size: 15 Copynumber: 4.3 Consensus size: 14
16913296 CTTTACAATG
16913306 AATTGTATAAAATAA
1 AATTGTATAAAA-AA
* *
16913321 ATTATGTATACAAAA
1 AAT-TGTATAAAAAA
**
16913336 AATGTGTATAAAATG
1 AAT-TGTATAAAAAA
16913351 AATTGTATAAAAAA
1 AATTGTATAAAAAA
16913365 AATT
1 AATT
16913369 CTGTATACCA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
14 13 0.34
15 17 0.45
16 8 0.21
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.33
Consensus pattern (14 bp):
AATTGTATAAAAAA
Found at i:16913373 original size:16 final size:15
Alignment explanation
Indices: 16913308--16913386 Score: 70
Period size: 16 Copynumber: 5.1 Consensus size: 15
16913298 TTACAATGAA
*
16913308 TTGTATAAAATAAAT
1 TTGTATAAAAAAAAT
*
16913323 TATGTATACAAAAAAT
1 T-TGTATAAAAAAAAT
* **
16913339 GTGTATAAAATGAA-
1 TTGTATAAAAAAAAT
16913353 TTGTATAAAAAAAAT
1 TTGTATAAAAAAAAT
16913368 TCTGTATACCAAAAAAAT
1 T-TGTATA--AAAAAAAT
16913386 T
1 T
16913387 ATACAGACAA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
14 11 0.22
15 12 0.24
16 18 0.36
18 9 0.18
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (15 bp):
TTGTATAAAAAAAAT
Found at i:16914880 original size:31 final size:31
Alignment explanation
Indices: 16914842--16915140 Score: 289
Period size: 31 Copynumber: 9.6 Consensus size: 31
16914832 AACCATAAAC
*
16914842 AGTAAAATGTTGTGACACG-CAGTGCATACCA
1 AGTAAAATGTTGTGACACGCCA-TGCATAACA
* * *
16914873 AGTAAAATGTTGTCACACGTCATGCAAAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* *
16914904 AGTAAAATGTCGTGAGACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * * *
16914935 AGATAAACT-TGGTGACACGCCAAGGATAACG
1 AG-TAAAATGTTGTGACACGCCATGCATAACA
* * * * *
16914966 AGCAAAATGTTATGACACGTCATGAAAAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
16914997 AGTAAAATGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * *
16915028 AGATAAACT-TAGTGACACGCCAAGGATAACA
1 AG-TAAAATGTTGTGACACGCCATGCATAACA
* * *
16915059 AGCAAAATGTTGTGACACACCATGCATATCA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * * *
16915090 AATCAAACGTTGTGACACGCCATGAATAATA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
*
16915121 AGTAAAATGTTATGACACGC
1 AGTAAAATGTTGTGACACGC
16915141 TAAGGCTGAC
Statistics
Matches: 212, Mismatches: 51, Indels: 10
0.78 0.19 0.04
Matches are distributed among these distances:
30 8 0.04
31 192 0.91
32 12 0.06
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (31 bp):
AGTAAAATGTTGTGACACGCCATGCATAACA
Found at i:16914995 original size:93 final size:93
Alignment explanation
Indices: 16914871--16915076 Score: 340
Period size: 93 Copynumber: 2.2 Consensus size: 93
16914861 CAGTGCATAC
* * * *
16914871 CAAGTAAAATGTTGTCACACGTCATGCAAAACAAGTAAAATGTCGTGAGACGCCATGCATAACAA
1 CAAGCAAAATGTTGTGACACGTCATGAAAAACAAGTAAAATGTCGTGACACGCCATGCATAACAA
*
16914936 GATAAACTTGGTGACACGCCAAGGATAA
66 GATAAACTTAGTGACACGCCAAGGATAA
* * *
16914964 CGAGCAAAATGTTATGACACGTCATGAAAAACAAGTAAAATGTTGTGACACGCCATGCATAACAA
1 CAAGCAAAATGTTGTGACACGTCATGAAAAACAAGTAAAATGTCGTGACACGCCATGCATAACAA
16915029 GATAAACTTAGTGACACGCCAAGGATAA
66 GATAAACTTAGTGACACGCCAAGGATAA
16915057 CAAGCAAAATGTTGTGACAC
1 CAAGCAAAATGTTGTGACAC
16915077 ACCATGCATA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 103 1.00
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (93 bp):
CAAGCAAAATGTTGTGACACGTCATGAAAAACAAGTAAAATGTCGTGACACGCCATGCATAACAA
GATAAACTTAGTGACACGCCAAGGATAA
Found at i:16915137 original size:93 final size:93
Alignment explanation
Indices: 16914842--16915145 Score: 321
Period size: 93 Copynumber: 3.3 Consensus size: 93
16914832 AACCATAAAC
* * * *
16914842 AGTAAAATGTTGTGACACG-C-AGTGCATACCAAGTAAAATGTTGTCACACGTCATGCAAAACAA
1 AGTAAAATGTTATGACACGCCAAG-G-ATAACAAGCAAAATGTTGTGACACGTCATGCAAAACAA
* *
16914905 GTAAAATGTCGTGAGACGCCATGCATAACA
64 GTAAAATGTTGTGACACGCCATGCATAACA
* ** * * *
16914935 AGATAAACT-TGGTGACACGCCAAGGATAACGAGCAAAATGTTATGACACGTCATGAAAAACAAG
1 AG-TAAAATGTTATGACACGCCAAGGATAACAAGCAAAATGTTGTGACACGTCATGCAAAACAAG
16914999 TAAAATGTTGTGACACGCCATGCATAACA
65 TAAAATGTTGTGACACGCCATGCATAACA
* ** * *
16915028 AG-ATAAA-CTTAGTGACACGCCAAGGATAACAAGCAAAATGTTGTGACACACCATGCATATCAA
1 AGTA-AAATGTTA-TGACACGCCAAGGATAACAAGCAAAATGTTGTGACACGTCATGCAAAACAA
* * * * *
16915091 ATCAAACGTTGTGACACGCCATGAATAATA
64 GTAAAATGTTGTGACACGCCATGCATAACA
*
16915121 AGTAAAATGTTATGACACGCTAAGG
1 AGTAAAATGTTATGACACGCCAAGG
16915146 CTGACATGGC
Statistics
Matches: 176, Mismatches: 27, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
91 1 0.01
92 3 0.02
93 159 0.90
94 11 0.06
95 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (93 bp):
AGTAAAATGTTATGACACGCCAAGGATAACAAGCAAAATGTTGTGACACGTCATGCAAAACAAGT
AAAATGTTGTGACACGCCATGCATAACA
Found at i:16915816 original size:156 final size:155
Alignment explanation
Indices: 16915505--16915793 Score: 375
Period size: 156 Copynumber: 1.9 Consensus size: 155
16915495 ACTACAATAG
*
16915505 CATATATAACTGTGTTATTCAATAATCATATATGAAATTGTTAAACATTAGCCGTTACAACTTCA
1 CATATATAACTGTGTTATTCAATAATCATATATGAAATTGTTAAACATTAACCGTTACAACTTCA
* *
16915570 ATATCCTAACAGGCGGCTCGTTAGCAGTTTACGGTGGAGTCAGACCGATCGGTGCTTGAGAACCT
66 ATATCCTAACA-GCGGCTCATTAGCAGTCTACGGTGGAGTCAGACCGATCGGTGCTTGAGAACCT
*
16915635 GTCATCGCTTCCGCAAACTGCAATTA
130 ATCATCGCTTCCGCAAACTGCAATTA
* * * * *
16915661 CATATATAACTGTGTTATTGAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTTA
1 CATATATAACTGTGTTATTCAATAATCATATATGAAATTGTTAAACATTAACCGTTACAACTTCA
* * * * * * * *
16915726 ATATCCTTACCA-CAGGCTCATTAGCTGTCTGCGGTTGAG-CTGGACTGATCTGTGCTTGAGGAC
66 ATATCC-TAACAGC-GGCTCATTAGCAGTCTACGGTGGAGTC-AGACCGATCGGTGCTTGAGAAC
16915789 CTATC
128 CTATC
16915794 GTCTTTTTCG
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
155 2 0.02
156 107 0.95
157 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (155 bp):
CATATATAACTGTGTTATTCAATAATCATATATGAAATTGTTAAACATTAACCGTTACAACTTCA
ATATCCTAACAGCGGCTCATTAGCAGTCTACGGTGGAGTCAGACCGATCGGTGCTTGAGAACCTA
TCATCGCTTCCGCAAACTGCAATTA
Found at i:16915829 original size:156 final size:155
Alignment explanation
Indices: 16915510--16915847 Score: 356
Period size: 156 Copynumber: 2.2 Consensus size: 155
16915500 AATAGCATAT
*
16915510 ATAACTGTGTTATTCAATAATCATATATGAAATTGTTAAACATTAGCCGTTACAACTTCAATATC
1 ATAACTGTGTTATTCAATAATCATATATGAAATTGTTAAACATTAACCGTTACAACTTCAATATC
* * *
16915575 CTAACAGGCGGCTCGTTAGCAGTTTACGGTGGAGTCAGACCGATCGGTGCTTGAGAACCTGTCAT
66 CTAACA-GCGGCTCATTAGCAGTCTACGGTGGAGTCAGACCGATCGGTGCTTGAGAACCTATCAT
* *
16915640 CGCTTCCGCAAACTGCAATTACATAT
130 CGCTTCCGCAAACTGCAATTACAGAA
* * * * *
16915666 ATAACTGTGTTATTGAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTTAATATC
1 ATAACTGTGTTATTCAATAATCATATATGAAATTGTTAAACATTAACCGTTACAACTTCAATATC
* * * * * * * *
16915731 CTTACCA-CAGGCTCATTAGCTGTCTGCGGTTGAG-CTGGACTGATCTGTGCTTGAGGACCTATC
66 C-TAACAGC-GGCTCATTAGCAGTCTACGGTGGAGTC-AGACCGATCGGTGCTTGAGAACCTATC
* ** * * * *
16915794 GTCTTTTTCGTAAACTGTAATTATAGAA
128 ATCGCTTCCGCAAACTGCAATTACAGAA
* * * *
16915822 ATTACTGTGTTACTCGATAAACATAT
1 ATAACTGTGTTATTCAATAATCATAT
16915848 GTGGGAATGT
Statistics
Matches: 147, Mismatches: 32, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
155 2 0.01
156 141 0.96
157 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (155 bp):
ATAACTGTGTTATTCAATAATCATATATGAAATTGTTAAACATTAACCGTTACAACTTCAATATC
CTAACAGCGGCTCATTAGCAGTCTACGGTGGAGTCAGACCGATCGGTGCTTGAGAACCTATCATC
GCTTCCGCAAACTGCAATTACAGAA
Found at i:16917488 original size:31 final size:31
Alignment explanation
Indices: 16917452--16917653 Score: 280
Period size: 31 Copynumber: 6.5 Consensus size: 31
16917442 AATAAGGAAT
16917452 AAATGTTGTGACACGCCATGCATAAT-AAGTA
1 AAATGTTGTGACACGCCATGCAT-ATCAAGTA
* *
16917483 AAATGTTGTGACACGCCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATATCAAGTA
*
16917514 AAATGTTATGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* *
16917545 AAATGTTGTCACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* **
16917576 AAATTTTGTGACACAACATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* *
16917607 AAATGCTGTCACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* *
16917638 AAATGCTGTCACACGC
1 AAATGTTGTGACACGC
16917654 TAATAATTAA
Statistics
Matches: 152, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
30 1 0.01
31 151 0.99
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATATCAAGTA
Found at i:16918207 original size:53 final size:52
Alignment explanation
Indices: 16918123--16918241 Score: 193
Period size: 53 Copynumber: 2.3 Consensus size: 52
16918113 TTTATTTCAA
* *
16918123 ACCATGACGTGTCAGCTGCTCAAGCACTGCCGTGTCACACACTCTAAATCATG
1 ACCATGGCGTGTCAGCTGCTCAAGCAATGCCGTGTCACACACTCTAAA-CATG
**
16918176 ACCATGGCGTGTCAGCTTTTCAAGCAATGCCGTGTCACACACTCTAAACATG
1 ACCATGGCGTGTCAGCTGCTCAAGCAATGCCGTGTCACACACTCTAAACATG
16918228 ACCATGGCGTGTCA
1 ACCATGGCGTGTCA
16918242 CCAACTATGA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
52 18 0.29
53 44 0.71
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (52 bp):
ACCATGGCGTGTCAGCTGCTCAAGCAATGCCGTGTCACACACTCTAAACATG
Found at i:16918262 original size:24 final size:23
Alignment explanation
Indices: 16918235--16918313 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
16918225 ATGACCATGG
16918235 CGTGTCACCAACTATGAACTCTGA
1 CGTGTCACCAACT-TGAACTCTGA
* ** *
16918259 CGTGTCA-CACCTT-CCCTCCATGG
1 CGTGTCACCAACTTGAACT-C-TGA
*
16918282 CGTGTCATCAACTCTGAACTCTGA
1 CGTGTCACCAACT-TGAACTCTGA
16918306 CGTGTCAC
1 CGTGTCAC
16918314 AGATTTCCTC
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 13 0.32
24 20 0.49
25 2 0.05
26 2 0.05
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.27
Consensus pattern (23 bp):
CGTGTCACCAACTTGAACTCTGA
Found at i:16918263 original size:53 final size:53
Alignment explanation
Indices: 16918153--16918314 Score: 151
Period size: 47 Copynumber: 3.2 Consensus size: 53
16918143 CAAGCACTGC
* * * * ** *
16918153 CGTGTCACACACTCTAAATCATGACCATGGCGTGTCAGC--TTTTCAAGCAATGC
1 CGTGTCACACACTCTAAA-CATGACCATGGCGTGTCACCAACTATGAA-CTCTGA
16918206 CGTGTCACACACTCTAAACATGACCATGGCGTGTCACCAACTATGAACTCTGA
1 CGTGTCACACACTCTAAACATGACCATGGCGTGTCACCAACTATGAACTCTGA
* * * *
16918259 CGTGTCACAC-CT-T--CCCT--CCATGGCGTGTCATCAACTCTGAACTCTGA
1 CGTGTCACACACTCTAAACATGACCATGGCGTGTCACCAACTATGAACTCTGA
16918306 CGTGTCACA
1 CGTGTCACA
16918315 GATTTCCTCC
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
47 37 0.39
49 2 0.02
51 1 0.01
52 21 0.22
53 31 0.32
54 4 0.04
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (53 bp):
CGTGTCACACACTCTAAACATGACCATGGCGTGTCACCAACTATGAACTCTGA
Found at i:16918483 original size:141 final size:141
Alignment explanation
Indices: 16918229--16918624 Score: 370
Period size: 140 Copynumber: 2.8 Consensus size: 141
16918219 CTAAACATGA
* * * * *
16918229 CCATGGCGTGTCACCAACTATGAACTCTGACGTGTCACACCTTCCCTCCATGGCGTGTCATCAAC
1 CCATGGCGTGTCACCAACTATGAACTCTGACGTCTCACACATTCCATCCATGGCGTCTCACCAAC
* * * *
16918294 TCTGAACTCTGACGTGTCACAGATTTCCTCCATGGCGTGTCACCAACTCTGAACGCTGAAGTGTC
66 TCTGAACTCTGACGTATCACAGATTCCCTCCATGCCATGTCACCAACTCTGAACGCTGAAGTGTC
16918359 ACAAATTCCCT
131 ACAAATTCCCT
* * * * * *
16918370 CCATGGTGTGTCACCAACTCTTAACTCT-AGCGTCTCACAGATTCTATCCATGGGGTCTCACCAA
1 CCATGGCGTGTCACCAACTATGAACTCTGA-CGTCTCACACATTCCATCCATGGCGTCTCACCAA
* * * ** **
16918434 CTCTGAACAT-TGGCGTATTACAGATTCCCTCCATGCCATGTCACCAACTCTTAA-TATGGCGTG
65 CTCTGAAC-TCTGACGTATCACAGATTCCCTCCATGCCATGTCACCAACTCTGAACGCTGAAGTG
* *
16918497 TCACAGATTCCTT
129 TCACAAATTCCCT
* * * ** * * *
16918510 CCATGGCATCTCACCAACTCTGAACGT-TGTTGTGTCACAGATTCCCA-CCATGGCGTGTCACCA
1 CCATGGCGTGTCACCAACTATGAAC-TCTGACGTCTCACACATT-CCATCCATGGCGTCTCACCA
* * * * * * *
16918573 ACTCTTAACTCTAACGTCTCACAAATTCCCTCCATGGCGTCTCACCAACTCT
64 ACTCTGAACTCTGACGTATCACAGATTCCCTCCATGCCATGTCACCAACTCT
16918625 AAGCGGTGCC
Statistics
Matches: 206, Mismatches: 43, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
139 1 0.00
140 105 0.51
141 99 0.48
142 1 0.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (141 bp):
CCATGGCGTGTCACCAACTATGAACTCTGACGTCTCACACATTCCATCCATGGCGTCTCACCAAC
TCTGAACTCTGACGTATCACAGATTCCCTCCATGCCATGTCACCAACTCTGAACGCTGAAGTGTC
ACAAATTCCCT
Found at i:16918570 original size:187 final size:188
Alignment explanation
Indices: 16918229--16918624 Score: 519
Period size: 187 Copynumber: 2.1 Consensus size: 188
16918219 CTAAACATGA
* * * * * ** * * *
16918229 CCATGGCGTGTCACCAACTATGAAC-TCTGACGTGTCACACCTTCCCTCCATGGCGTGTCATCAA
1 CCATGGCGTCTCACCAACTCTGAACAT-TGGCGTATTACAGATTCCCTCCATGCCATGTCACCAA
* * *
16918293 CTCTGAACTCTGACGTGTCACAGATTTCCTCCATGGCGTGTCACCAACTCTGAACGCTGAAGTGT
65 CTCTGAACTATGACGTGTCACAGATTTCCTCCATGGCATCTCACCAACTCTGAACGCTGAAGTGT
* * * * *
16918358 CACAAATTCCCTCCATGGTGTGTCACCAACTCTTAACTCTAGCGTCTCACAGATTCTAT
130 CACAAATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAACGTCTCACAAATTCCAT
*
16918417 CCATGGGGTCTCACCAACTCTGAACATTGGCGTATTACAGATTCCCTCCATGCCATGTCACCAAC
1 CCATGGCGTCTCACCAACTCTGAACATTGGCGTATTACAGATTCCCTCCATGCCATGTCACCAAC
* * * **
16918482 TCTTAA-TATGGCGTGTCACAGA-TTCCTTCCATGGCATCTCACCAACTCTGAACGTTGTTGTGT
66 TCTGAACTATGACGTGTCACAGATTTCC-TCCATGGCATCTCACCAACTCTGAACGCTGAAGTGT
* *
16918545 CACAGATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAACGTCTCACAAATTCCCT
130 CACAAATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAACGTCTCACAAATTCCAT
16918604 CCATGGCGTCTCACCAACTCT
1 CCATGGCGTCTCACCAACTCT
16918625 AAGCGGTGCC
Statistics
Matches: 179, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
186 4 0.02
187 117 0.65
188 57 0.32
189 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (188 bp):
CCATGGCGTCTCACCAACTCTGAACATTGGCGTATTACAGATTCCCTCCATGCCATGTCACCAAC
TCTGAACTATGACGTGTCACAGATTTCCTCCATGGCATCTCACCAACTCTGAACGCTGAAGTGTC
ACAAATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAACGTCTCACAAATTCCAT
Found at i:16918649 original size:47 final size:47
Alignment explanation
Indices: 16918229--16918624 Score: 431
Period size: 47 Copynumber: 8.4 Consensus size: 47
16918219 CTAAACATGA
* **
16918229 CCATGGCGTGTCACCAACTATGAACTCTGACGTGTCACACCTTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCT
* *
16918276 CCATGGCGTGTCATCAACTCTGAACTCTGACGTGTCACAGATTTCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCT
* * *
16918323 CCATGGCGTGTCACCAACTCTGAACGCTGAAGTGTCACAAATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCT
* * * **
16918370 CCATGGTGTGTCACCAACTCTTAACTCT-AGCGTCTCACAGATTCTAT
1 CCATGGCGTGTCACCAACTCTGAACTCTGA-CGTGTCACAGATTCCCT
* * * * *
16918417 CCATGGGGTCTCACCAACTCTGAACAT-TGGCGTATTACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAAC-TCTGACGTGTCACAGATTCCCT
* * * * * *
16918464 CCATGCCATGTCACCAACTCTTAA-TATGGCGTGTCACAGATTCCTT
1 CCATGGCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCT
* * ** *
16918510 CCATGGCATCTCACCAACTCTGAACGT-TGTTGTGTCACAGATTCCCA
1 CCATGGCGTGTCACCAACTCTGAAC-TCTGACGTGTCACAGATTCCCT
* * * *
16918557 CCATGGCGTGTCACCAACTCTTAACTCTAACGTCTCACAAATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCT
*
16918604 CCATGGCGTCTCACCAACTCT
1 CCATGGCGTGTCACCAACTCT
16918625 AAGCGGTGCC
Statistics
Matches: 291, Mismatches: 51, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
45 1 0.00
46 40 0.14
47 248 0.85
48 2 0.01
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (47 bp):
CCATGGCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCT
Found at i:16918670 original size:94 final size:94
Alignment explanation
Indices: 16918229--16918671 Score: 424
Period size: 94 Copynumber: 4.7 Consensus size: 94
16918219 CTAAACATGA
* * ** * ** *
16918229 CCATGGCGTGTCACCAACTATGAAC-TCTGACGTGTCACACCTTCCCTCCATGGCGTGTCATCAA
1 CCATGGCGTCTCACCAACTCTGAACGT-TGACGTGTCACAGATTCCCACCATGATGTGTCACCAA
* * * *
16918293 CTCTGAACTCTGACGTGTCACAGATTTCCT
65 CTCTTAACTCTAACGTCTCACAGATTCCCT
* * * * * *
16918323 CCATGGCGTGTCACCAACTCTGAACGCTGAAGTGTCACAAATTCCCTCCATGGTGTGTCACCAAC
1 CCATGGCGTCTCACCAACTCTGAACGTTGACGTGTCACAGATTCCCACCATGATGTGTCACCAAC
* **
16918388 TCTTAACTCTAGCGTCTCACAGATTCTAT
66 TCTTAACTCTAACGTCTCACAGATTCCCT
* * * * * * ***
16918417 CCATGGGGTCTCACCAACTCTGAACATTGGCGTATTACAGATTCCCTCCATGCCATGTCACCAAC
1 CCATGGCGTCTCACCAACTCTGAACGTTGACGTGTCACAGATTCCCACCATGATGTGTCACCAAC
* ** * *
16918482 TCTTAA-TATGGCGTGTCACAGATTCCTT
66 TCTTAACTCTAACGTCTCACAGATTCCCT
* ** **
16918510 CCATGGCATCTCACCAACTCTGAACGTTGTTGTGTCACAGATTCCCACCATGGCGTGTCACCAAC
1 CCATGGCGTCTCACCAACTCTGAACGTTGACGTGTCACAGATTCCCACCATGATGTGTCACCAAC
*
16918575 TCTTAACTCTAACGTCTCACAAATTCCCT
66 TCTTAACTCTAACGTCTCACAGATTCCCT
* * * * * *
16918604 CCATGGCGTCTCACCAACTCT-AAGCGGTGCCGTGTCACACATTCCCAACATGATGTTTCACAAA
1 CCATGGCGTCTCACCAACTCTGAA-CGTTGACGTGTCACAGATTCCCACCATGATGTGTCACCAA
16918668 CTCT
65 CTCT
16918672 AAACCCTGTC
Statistics
Matches: 289, Mismatches: 57, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
93 80 0.28
94 209 0.72
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (94 bp):
CCATGGCGTCTCACCAACTCTGAACGTTGACGTGTCACAGATTCCCACCATGATGTGTCACCAAC
TCTTAACTCTAACGTCTCACAGATTCCCT
Found at i:16951285 original size:6 final size:6
Alignment explanation
Indices: 16951274--16951299 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16951264 CACAAAGCCA
16951274 AGACAC AGACAC AGACAC AGACAC AG
1 AGACAC AGACAC AGACAC AGACAC AG
16951300 TTTTGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.31, G:0.19, T:0.00
Consensus pattern (6 bp):
AGACAC
Found at i:16956113 original size:82 final size:83
Alignment explanation
Indices: 16955975--16956142 Score: 259
Period size: 82 Copynumber: 2.0 Consensus size: 83
16955965 CCCGAAAAAT
* *
16955975 ATATATATATATATTAAAACTTTTTTGAATATTTAAAAAATTTTAAATAAATTTTTATTCTTTAT
1 ATATATAAATATATTAAAACATTTTTGAATATTTAAAAAATTTTAAATAAATTTTTATTCTTTAT
16956040 TATATTTAATTAAATCAA
66 TATATTTAATTAAATCAA
* * *
16956058 ATATATAAATAT-TTAAAACATTTTTGAATATTT-TAAAATGTTTAAATAATTTTTTATTTTTTA
1 ATATATAAATATATTAAAACATTTTTGAATATTTAAAAAAT-TTTAAATAAATTTTTATTCTTTA
*
16956121 TTATATTTAATTAGATCAA
65 TTATATTTAATTAAATCAA
16956140 ATA
1 ATA
16956143 ATTCATTAGG
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
81 5 0.06
82 62 0.79
83 11 0.14
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.51
Consensus pattern (83 bp):
ATATATAAATATATTAAAACATTTTTGAATATTTAAAAAATTTTAAATAAATTTTTATTCTTTAT
TATATTTAATTAAATCAA
Done.