Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 33
Found at i:145116 original size:124 final size:124
Alignment explanation
Indices: 144955--145187 Score: 344
Period size: 124 Copynumber: 1.9 Consensus size: 124
144945 GAACGATATC
* * ** *
144955 CTTCGTCGTGAAGTTGAAATCGTGGAGGGTCCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATAT
1 CTTCGTCGTGAAGTTGAAACCATGGAGGAACCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATAT
** *
145020 TTTTTG-CTGTAAAGTTGAAATCCAATCTGAAGATGAATGTTGCTGGTGGGCACAATTCT
66 CCTTTGTC-GTAAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCACAATTCT
*
145079 CTTCGTCGTGAAGTTGAAACCATGGA-TAACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CTTCGTCGTGAAGTTGAAACCATGGAGGAACCC-TTCGTTGTGAAGTTGAGCCTTGAATTGGATA
*
145143 TCCTTTGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCT
65 TCCTTTGTCGTAAAGTTGAAATCCAATCTAAAGATGAATGTTGCT
145188 TCGAGTCCAA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
123 3 0.03
124 93 0.96
125 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (124 bp):
CTTCGTCGTGAAGTTGAAACCATGGAGGAACCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATAT
CCTTTGTCGTAAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCACAATTCT
Found at i:145407 original size:110 final size:111
Alignment explanation
Indices: 145275--145721 Score: 461
Period size: 110 Copynumber: 3.9 Consensus size: 111
145265 CTTTGAATTA
* *
145275 GATATCCTTCGTCGTGAAGTTGAAATCGTGGAT-GTCCCATTCGTTGTGAAGTTGAGCCTTGACT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGGCCCCTTCGTTGTGAAGTTGAGCCTTGACT
* *
145339 TGAATATCTTTCGTCGTGAAGTTGAAATCCAAGCTTGAGTTAGCAC
66 TGAATATCATTCGTCGTGAAGTTGAAATCCAAGATTGAGTTAGCAC
*
145385 GATATCCTTCGTCGTGAAGTTGAAATCGTGGAT-GGCCCCTTCGTTTTGAAGTTGAGCCTTGACT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGGCCCCTTCGTTGTGAAGTTGAGCCTTGACT
* *
145449 TGAATATCATCCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTTTGTC-C
66 TGAATATCATTCGTCGTGAAGTTGAAATCCAAGATTG-A--G---TTAG-CAC
* * * * ***
145501 AATATCCTTCGCCGTGAAGTTGAAATTGGCTTTGAATGAAATTGGAAAGCCCCTTCACCGTGAAG
1 GATATCCTTCGTCGTGAAGTTGAAA-T--C---G--TG-GA-T---AGGCCCCTTCGTTGTGAAG
* * * * * * *
145566 TTGAGCTTTAAATTGGATATCATTCGTCGTGAAGTTAAAATCCAATATAGAGTTAGCAC
53 TTGAGCCTTGACTTGAATATCATTCGTCGTGAAGTTGAAATCCAAGATTGAGTTAGCAC
* *
145625 GATATCCTTCGTCGTGAAGTTGAAATTGTGGATA-GCCCCTTTGTTGTGAAGTTGAGCCTTGACT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGGCCCCTTCGTTGTGAAGTTGAGCCTTGACT
* *
145689 TGAATTTCCTTCGTCGTGAAGTTGAAATCCAAG
66 TGAATATCATTCGTCGTGAAGTTGAAATCCAAG
145722 CTTGTATTGT
Statistics
Matches: 275, Mismatches: 40, Indels: 44
0.77 0.11 0.12
Matches are distributed among these distances:
110 146 0.53
111 2 0.01
113 1 0.00
114 1 0.00
115 1 0.00
116 29 0.11
117 2 0.01
118 1 0.00
119 1 0.00
122 1 0.00
123 2 0.01
124 29 0.11
125 1 0.00
126 1 0.00
127 1 0.00
129 1 0.00
130 55 0.20
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (111 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGGCCCCTTCGTTGTGAAGTTGAGCCTTGACT
TGAATATCATTCGTCGTGAAGTTGAAATCCAAGATTGAGTTAGCAC
Found at i:145596 original size:130 final size:127
Alignment explanation
Indices: 145431--145850 Score: 426
Period size: 130 Copynumber: 3.4 Consensus size: 127
145421 CCCTTCGTTT
* *
145431 TGAAGTTGAGCCTTGACTTGAATATCATCCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTT
1 TGAAGTTGAGCCTTGAATTGAATATCATTCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTT
* *
145496 TGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTTTGAATGAAATTGGAAAGCCCCTTCACCG
66 AGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGC-TTGAATGAAA-TGG-AAGCCCCTTCGCCG
* * * * * *
145561 TGAAGTTGAGCTTTAAATTGGATATCATTCGTCGTGAAGTTAAAATCCAATATAG-A--G---TT
1 TGAAGTTGAGCCTTGAATTGAATATCATTCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTT
* * * **
145620 AG-CACGATATCCTTCGTCGTGAAGTTGAAATT-G--TG---G--AT---AGCCCCTTTGTTG
66 AGTC-CAATATCCTTCGCCGTGAAGTTGAAATTGGCTTGAATGAAATGGAAGCCCCTTCGCCG
* * * * *
145671 TGAAGTTGAGCCTTGACTTGAATTTCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTATTGTTTTG
1 TGAAGTTGAGCCTTGAATTGAATATCATTCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTT
* *
145736 AGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTAAATGAAACTGGGAAGCCCCATCGCCG
66 AGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCT-TGAATGAAA-T-GGAAGCCCCTTCGCCG
* * *
145801 TGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA
1 TGAAGTTGAGCCTTGAATTGAATATCATTCGTCGTGAAGTTGAAATCCAA
145851 TCTAGAGTAA
Statistics
Matches: 231, Mismatches: 37, Indels: 44
0.74 0.12 0.14
Matches are distributed among these distances:
110 54 0.23
111 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 29 0.13
117 3 0.01
120 3 0.01
123 3 0.01
124 29 0.13
125 1 0.00
126 1 0.00
127 1 0.00
129 1 0.00
130 102 0.44
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (127 bp):
TGAAGTTGAGCCTTGAATTGAATATCATTCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTT
AGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTTGAATGAAATGGAAGCCCCTTCGCCG
Found at i:145627 original size:240 final size:240
Alignment explanation
Indices: 145320--145858 Score: 844
Period size: 240 Copynumber: 2.2 Consensus size: 240
145310 CCCATTCGTT
* * * * * *
145320 GTGAAGTTGAGCCTTGACTTGAATATCTTTCGTCGTGAAGTTGAAATCCAAGCTTGAGTTAGCAC
1 GTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGTTAGCAC
* *
145385 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTTTGAAGTTGAGCCTTGACTT
66 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGCCCCTTCGTTGTGAAGTTGAGCCTTGACTT
**
145450 GAATATCATCCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTTTGTCCAATATCCTTCGCCG
131 GAATATCATCCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTGAGTCCAATATCCTTCGCCG
* * * *
145515 TGAAGTTGAAATTGGCTTTGAATGAAATTGGAAAGCCCCTTCACC
196 TGAAGTTGAAATTGGCTCTAAATGAAACTGGAAAGCCCCATCACC
* * *
145560 GTGAAGTTGAGCTTTAAATTGGATATCATTCGTCGTGAAGTTAAAATCCAATATAGAGTTAGCAC
1 GTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGTTAGCAC
* *
145625 GATATCCTTCGTCGTGAAGTTGAAATTGTGGATAGCCCCTTTGTTGTGAAGTTGAGCCTTGACTT
66 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGCCCCTTCGTTGTGAAGTTGAGCCTTGACTT
* * * *
145690 GAATTTCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTATTGTTTTGAGTCCAATATCCTTCGCCG
131 GAATATCATCCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTGAGTCCAATATCCTTCGCCG
* *
145755 TGAAGTTGAAATTGGCTCTAAATGAAACTGGGAAGCCCCATCGCC
196 TGAAGTTGAAATTGGCTCTAAATGAAACTGGAAAGCCCCATCACC
*
145800 GTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGT
1 GTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGT
145859 AAATGGTGTC
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
240 270 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (240 bp):
GTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGTTAGCAC
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGCCCCTTCGTTGTGAAGTTGAGCCTTGACTT
GAATATCATCCGTCGTGAAGTTGAAATCCAAGATTGTATTGTTTTGAGTCCAATATCCTTCGCCG
TGAAGTTGAAATTGGCTCTAAATGAAACTGGAAAGCCCCATCACC
Found at i:147085 original size:95 final size:98
Alignment explanation
Indices: 146900--147115 Score: 305
Period size: 95 Copynumber: 2.2 Consensus size: 98
146890 AAAGTAGGCA
* * *
146900 CGTTTAACCAATTGCTCTAGAGGGACAACTCAATATCATTGTATAGATATTATAATCGCCTTTAT
1 CGTTTAACCAATTGCTCTAGAGGGACAACTCAATAGCATTGTATAGATATTATAATCACCTTTAG
* *
146965 AAGGCTAGTTGAATATTATCGATAAAGCCGAGG
66 AAGGCTAGCTGAATATTATCGATAAAGCCAAGG
*
146998 CGTTTAACCAATTGCTCTAGAGGGACAACTC-A-AGC-TT-TATTGTATATTATAATCACCTTTA
1 CGTTTAACCAATTGCTCTAGAGGGACAACTCAATAGCATTGTATAG-ATATTATAATCACCTTTA
* * * *
147059 GCAGGCTAGCTGAATCTTATCTATAAAGTCAAGG
65 GAAGGCTAGCTGAATATTATCGATAAAGCCAAGG
147093 CGTTTAACCAATTGCTCTAGAGG
1 CGTTTAACCAATTGCTCTAGAGG
147116 AAGTTTGTCA
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
94 4 0.04
95 69 0.64
96 2 0.02
97 1 0.01
98 31 0.29
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (98 bp):
CGTTTAACCAATTGCTCTAGAGGGACAACTCAATAGCATTGTATAGATATTATAATCACCTTTAG
AAGGCTAGCTGAATATTATCGATAAAGCCAAGG
Found at i:147986 original size:37 final size:37
Alignment explanation
Indices: 147936--148011 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
147926 TGTTCCTTTC
147936 GAGGAGACATGCTTTTGTTAGTTAATGCGAATATAAA
1 GAGGAGACATGCTTTTGTTAGTTAATGCGAATATAAA
147973 GAGGAGACATGCTTTTGTTAGTTAATGCGAATATAAA
1 GAGGAGACATGCTTTTGTTAGTTAATGCGAATATAAA
148010 GA
1 GA
148012 AATGAAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.32
Consensus pattern (37 bp):
GAGGAGACATGCTTTTGTTAGTTAATGCGAATATAAA
Found at i:149897 original size:10 final size:11
Alignment explanation
Indices: 149849--149901 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 11
149839 GGAAAAACGT
149849 TAATATAAT-AA
1 TAATA-AATAAA
149860 TAAT-AATAAA
1 TAATAAATAAA
149870 -AA-AAATAAA
1 TAATAAATAAA
149879 TAGATAAATAAA
1 TA-ATAAATAAA
149891 T-ATAAATAAA
1 TAATAAATAAA
149901 T
1 T
149902 TTAGTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
9 11 0.30
10 13 0.35
11 5 0.14
12 8 0.22
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:149931 original size:8 final size:8
Alignment explanation
Indices: 149920--149955 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
149910 AAGAATAATA
149920 AAATAAAC
1 AAATAAAC
149928 AAATAAAC
1 AAATAAAC
149936 AAAT--A-
1 AAATAAAC
149941 AAATAAAC
1 AAATAAAC
149949 AAATAAA
1 AAATAAA
149956 AATTTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
5 4 0.16
6 1 0.04
7 1 0.04
8 19 0.76
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATAAAC
Found at i:149934 original size:13 final size:13
Alignment explanation
Indices: 149928--149956 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
149918 TAAAATAAAC
149928 AAATAAACAAATA
1 AAATAAACAAATA
149941 AAATAAACAAATA
1 AAATAAACAAATA
149954 AAA
1 AAA
149957 ATTTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATAAACAAATA
Found at i:149940 original size:21 final size:21
Alignment explanation
Indices: 149916--149955 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
149906 TAAAAAGAAT
149916 AATAAAATAAACAAATAAACA
1 AATAAAATAAACAAATAAACA
149937 AATAAAATAAACAAATAAA
1 AATAAAATAAACAAATAAA
149956 AATTTTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (21 bp):
AATAAAATAAACAAATAAACA
Found at i:149996 original size:14 final size:15
Alignment explanation
Indices: 149965--150004 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
149955 AAATTTTATG
149965 AAATAATAAAGTAAAA
1 AAATAA-AAAGTAAAA
149981 AAATAAAAAG-AAAA
1 AAATAAAAAGTAAAA
149995 AAATATAAAA
1 AAATA-AAAA
150005 TACATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (15 bp):
AAATAAAAAGTAAAA
Found at i:150004 original size:16 final size:15
Alignment explanation
Indices: 149965--150004 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
149955 AAATTTTATG
*
149965 AAATAATAAAGTAAAA
1 AAATAA-AAAGAAAAA
149981 AAATAAAAAGAAAAA
1 AAATAAAAAGAAAAA
149996 AATATAAAA
1 AA-ATAAAA
150005 TACATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (15 bp):
AAATAAAAAGAAAAA
Found at i:150056 original size:3 final size:3
Alignment explanation
Indices: 150050--150102 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
150040 GAGAAAAATA
150050 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
150098 AAT AA
1 AAT AA
150103 ATAAATAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:159261 original size:22 final size:21
Alignment explanation
Indices: 159236--159279 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
159226 ATCTCTTTTC
159236 TTTTCATTTCAAGTTTTCATTT
1 TTTTCATTTCAAGTTTT-ATTT
* *
159258 TTTTTATTTTAAGTTTTATTT
1 TTTTCATTTCAAGTTTTATTT
159279 T
1 T
159280 CAAATATGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTCATTTCAAGTTTTATTT
Found at i:160708 original size:21 final size:21
Alignment explanation
Indices: 160682--160722 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
160672 AGATCGAAGC
160682 ACGAGCACGAAGAATCCACGT
1 ACGAGCACGAAGAATCCACGT
160703 ACGAGCACGAAGAATCCACG
1 ACGAGCACGAAGAATCCACG
160723 CACAAACGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.29, G:0.24, T:0.07
Consensus pattern (21 bp):
ACGAGCACGAAGAATCCACGT
Found at i:165950 original size:15 final size:15
Alignment explanation
Indices: 165930--165958 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
165920 TTTTGAAAAC
165930 TTTATTTCATTTCAA
1 TTTATTTCATTTCAA
165945 TTTATTTCATTTCA
1 TTTATTTCATTTCA
165959 TTTCATTCAA
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:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATTTCATTTCAA
Found at i:165967 original size:4 final size:5
Alignment explanation
Indices: 165933--165965 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
165923 TGAAAACTTT
165933 ATTTC ATTTC AATTT- ATTTC ATTTC ATTTC ATT
1 ATTTC ATTTC -ATTTC ATTTC ATTTC ATTTC ATT
165966 CAATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTC
Found at i:165971 original size:24 final size:25
Alignment explanation
Indices: 165933--165985 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
165923 TGAAAACTTT
165933 ATTTCATTTCAATTTATTTCATTTC
1 ATTTCATTTCAATTTATTTCATTTC
* *
165958 ATTTCA-TTCAATTTATTTTATTTT
1 ATTTCATTTCAATTTATTTCATTTC
165982 ATTT
1 ATTT
165986 TATCAAATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTCATTTCAATTTATTTCATTTC
Found at i:172994 original size:16 final size:16
Alignment explanation
Indices: 172973--173010 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
172963 AATCATAACA
*
172973 TGAACACCAATGATGC
1 TGAACACCAACGATGC
*
172989 TGAACACCAACGATGT
1 TGAACACCAACGATGC
173005 TGAACA
1 TGAACA
173011 TTGGTACACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (16 bp):
TGAACACCAACGATGC
Found at i:178102 original size:27 final size:26
Alignment explanation
Indices: 178046--178106 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
178036 TTCATTTGCT
*
178046 AAAATTAACTAACATTATTAATTCAA
1 AAAATTAACTAACATAATTAATTCAA
178072 AAAATTAA-TAACATAAATATAA-TCATA
1 AAAATTAACTAACAT-AAT-TAATTCA-A
178099 AAAATTAA
1 AAAATTAA
178107 ATTTAAGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 6 0.19
26 13 0.42
27 12 0.39
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAATTAACTAACATAATTAATTCAA
Found at i:181390 original size:5 final size:5
Alignment explanation
Indices: 181373--181407 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
181363 GTCTATATCC
181373 TTTAT TGTTAT TTTAT TTTAT TTTAT TTTAAT TTT
1 TTTAT T-TTAT TTTAT TTTAT TTTAT TTT-AT TTT
181408 TCAATAAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:182574 original size:22 final size:22
Alignment explanation
Indices: 182549--182600 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
182539 TTTGTTTTTA
182549 TTATATCAAACTTAATAATTAC
1 TTATATCAAACTTAATAATTAC
182571 TTATATCAAACTTAATAATTAC
1 TTATATCAAACTTAATAATTAC
182593 TTATATCA
1 TTATATCA
182601 TTATTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (22 bp):
TTATATCAAACTTAATAATTAC
Found at i:182607 original size:11 final size:12
Alignment explanation
Indices: 182549--182609 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 12
182539 TTTGTTTTTA
*
182549 TTATATCA-AAC
1 TTATATCATTAC
*
182560 TTA-ATAATTAC
1 TTATATCATTAC
*
182571 TTATATCA-AAC
1 TTATATCATTAC
*
182582 TTA-ATAATTAC
1 TTATATCATTAC
182593 TTATATCATTA-
1 TTATATCATTAC
182604 TTATAT
1 TTATAT
182610 TAAAAATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 6 0.15
11 24 0.62
12 9 0.23
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (12 bp):
TTATATCATTAC
Found at i:187136 original size:30 final size:30
Alignment explanation
Indices: 187102--187158 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
187092 CAAGAGAGTC
*
187102 ATCTTTGATGAGAGACTTCACATAGGTGGT
1 ATCTTTGATGAGAGACTTAACATAGGTGGT
*
187132 ATCTTTGATGAGATACTTAACATAGGT
1 ATCTTTGATGAGAGACTTAACATAGGT
187159 TCTTCTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (30 bp):
ATCTTTGATGAGAGACTTAACATAGGTGGT
Found at i:187211 original size:9 final size:8
Alignment explanation
Indices: 187197--187244 Score: 51
Period size: 9 Copynumber: 5.4 Consensus size: 8
187187 TTCTTTTTAT
187197 TTTCTTTC
1 TTTCTTTC
187205 ATTTCTTTTCC
1 -TTTC-TTT-C
187216 TTTCTTTTC
1 TTTC-TTTC
187225 TTTCTTTC
1 TTTCTTTC
187233 TTTCTTTTC
1 TTTC-TTTC
187242 TTT
1 TTT
187245 TCGTTTTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.22
9 16 0.44
10 11 0.31
11 1 0.03
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTCTTTC
Found at i:187222 original size:4 final size:4
Alignment explanation
Indices: 187197--187244 Score: 51
Period size: 4 Copynumber: 10.8 Consensus size: 4
187187 TTCTTTTTAT
187197 TTTC TTTC ATTTC TTTTCC TTTC TTTTC TTTC TTTC TTTC TTTTC TTT
1 TTTC TTTC -TTTC -TTT-C TTTC -TTTC TTTC TTTC TTTC -TTTC TTT
187245 TCGTTTTTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
4 20 0.51
5 18 0.46
6 1 0.03
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:187245 original size:5 final size:5
Alignment explanation
Indices: 187185--187262 Score: 65
Period size: 5 Copynumber: 15.8 Consensus size: 5
187175 CTTTATCTGA
* * *
187185 TTTTC TTTTTA TTTTC -TTTC ATTTC TTTTC CTTTC TTTTC -TTTC -TTTC
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
*
187233 -TTTC TTTTC TTTTC GTTTTTC CTTTC TTTT
1 TTTTC TTTTC TTTTC --TTTTC TTTTC TTTT
187263 TATCAACTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
4 16 0.26
5 36 0.59
6 4 0.07
7 5 0.08
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:187253 original size:17 final size:18
Alignment explanation
Indices: 187198--187262 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 18
187188 TCTTTTTATT
*
187198 TTCTTTCATTTCTTTTC-
1 TTCTTTCTTTTCTTTTCG
*
187215 --CTTTCTTTTC-TTTCT
1 TTCTTTCTTTTCTTTTCG
187230 TTCTTTCTTTTCTTTTCG
1 TTCTTTCTTTTCTTTTCG
*
187248 TT-TTTCCTTTCTTTT
1 TTCTTTCTTTTCTTTT
187263 TATCAACTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
14 4 0.10
15 9 0.22
17 22 0.54
18 6 0.15
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.74
Consensus pattern (18 bp):
TTCTTTCTTTTCTTTTCG
Found at i:195474 original size:66 final size:67
Alignment explanation
Indices: 195373--195511 Score: 219
Period size: 66 Copynumber: 2.1 Consensus size: 67
195363 GAATATCAAT
*
195373 ATACT-AAAGGGTAAAGTAATAATACCATGTATAGATCACAAATTTTAGTAGTCATTCTCGGTAT
1 ATACTCAAAGGGTAAAGTAATAATACCATGTATAGATCACAAATTTTAGTAGCCATTCTCGGTAT
195437 CA
66 CA
* * *
195439 ATACTCAAA-GGTGAAGTAATAATACCATGTATAGATCATAGATTTTAGTAGCCATTCTCGGTAT
1 ATACTCAAAGGGTAAAGTAATAATACCATGTATAGATCACAAATTTTAGTAGCCATTCTCGGTAT
*
195503 CG
66 CA
195505 ATACTCA
1 ATACTCA
195512 TGGGATTATC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
66 64 0.96
67 3 0.04
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (67 bp):
ATACTCAAAGGGTAAAGTAATAATACCATGTATAGATCACAAATTTTAGTAGCCATTCTCGGTAT
CA
Found at i:200942 original size:27 final size:27
Alignment explanation
Indices: 200904--200961 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
200894 GCAACACTCA
200904 GCAGTGCAAATCTGTTTGTTCCTGTAT
1 GCAGTGCAAATCTGTTTGTTCCTGTAT
*
200931 GCAGTGCAAATCTTTTTGTTCCTGTAT
1 GCAGTGCAAATCTGTTTGTTCCTGTAT
200958 GCAG
1 GCAG
200962 ATTGACCTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (27 bp):
GCAGTGCAAATCTGTTTGTTCCTGTAT
Found at i:204460 original size:15 final size:15
Alignment explanation
Indices: 204448--204478 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
204438 AACTAGAATG
204448 TGTGAAATGAGAAAC
1 TGTGAAATGAGAAAC
204463 TGTGAAATGAGAAAC
1 TGTGAAATGAGAAAC
204478 T
1 T
204479 AAAGAAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.26, T:0.23
Consensus pattern (15 bp):
TGTGAAATGAGAAAC
Found at i:207844 original size:38 final size:37
Alignment explanation
Indices: 207801--207914 Score: 97
Period size: 38 Copynumber: 3.0 Consensus size: 37
207791 AAATAACATG
*
207801 ATTTATTAAGAAATAAGTTACGATCTAAAATGTTAAT
1 ATTTATTAAAAAATAAGTTACGATCTAAAATGTTAAT
* * *
207838 ATTTTATTAATAAAATAAATTACG-TCCAAAAATATT-AT
1 A-TTTATTAA-AAAATAAGTTACGAT-CTAAAATGTTAAT
* * * * *
207876 GATTCATTAATAAATAGGTTGCGATATAAAATGTTAAT
1 -ATTTATTAAAAAATAAGTTACGATCTAAAATGTTAAT
207914 A
1 A
207915 AATTTAAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
37 18 0.31
38 21 0.36
39 20 0.34
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (37 bp):
ATTTATTAAAAAATAAGTTACGATCTAAAATGTTAAT
Found at i:208097 original size:20 final size:19
Alignment explanation
Indices: 208064--208101 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
208054 AAAAAATGAT
208064 AAAATATCAATACTTTTAC
1 AAAATATCAATACTTTTAC
*
208083 AAAAGTATCATTACTTTTA
1 AAAA-TATCAATACTTTTA
208102 ATTTTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATATCAATACTTTTAC
Found at i:209815 original size:17 final size:17
Alignment explanation
Indices: 209795--209828 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
209785 ATTACACGGA
209795 ATATTATATATTATAAT
1 ATATTATATATTATAAT
209812 ATATTATATATTATAAT
1 ATATTATATATTATAAT
209829 GGATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTATATATTATAAT
Found at i:214389 original size:12 final size:13
Alignment explanation
Indices: 214372--214400 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
214362 TATTCTTATT
214372 AAAAAACAAA-AG
1 AAAAAACAAAGAG
214384 AAAAAACAAAGAG
1 AAAAAACAAAGAG
214397 AAAA
1 AAAA
214401 GAGAACACGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAGAG
Found at i:222902 original size:3 final size:3
Alignment explanation
Indices: 222894--222943 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
222884 AGTTTTTAAT
*
222894 TAA TAA TAA TAAA TAA TAAA TAC TAA -AA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
222939 CTAA T
1 -TAA T
222944 TAATTACTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 4 0.10
3 27 0.68
4 9 0.22
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:222957 original size:34 final size:34
Alignment explanation
Indices: 222894--222961 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
222884 AGTTTTTAAT
222894 TAATAATAATAAATAATAAATACTAAAATAATAA
1 TAATAATAATAAATAATAAATACTAAAATAATAA
* * *
222928 TAAT-ATAATAACTAATTAATTACTTAAATAATAA
1 TAATAATAATAAATAA-TAAATACTAAAATAATAA
222962 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (34 bp):
TAATAATAATAAATAATAAATACTAAAATAATAA
Found at i:223843 original size:17 final size:17
Alignment explanation
Indices: 223812--223844 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
223802 TTTTATATTA
223812 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
223829 TTAAA-ATAAATAATAA
1 TTAAATATAAA-AATAA
223845 ACACTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:224835 original size:18 final size:18
Alignment explanation
Indices: 224796--224835 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
224786 GAGAACTATT
*
224796 TAATAAATAAATAATTTT
1 TAATAAATAAATAATTTC
* *
224814 TAATAAATAATTTATTTC
1 TAATAAATAAATAATTTC
224832 TAAT
1 TAAT
224836 TTTCAATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATAAATAAATAATTTC
Found at i:225113 original size:18 final size:17
Alignment explanation
Indices: 225092--225148 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
225082 TTTTCTATTA
225092 TTTATTATAAATCTAAAT
1 TTTATTATAAAT-TAAAT
225110 TTTA--ATAAATTATCAAT
1 TTTATTATAAATTA--AAT
*
225127 TTTATT-TAAATTAATT
1 TTTATTATAAATTAAAT
225143 TTTATT
1 TTTATT
225149 GAAATAACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
15 2 0.06
16 14 0.41
17 7 0.21
18 11 0.32
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATTATAAATTAAAT
Found at i:238910 original size:34 final size:33
Alignment explanation
Indices: 238841--238949 Score: 146
Period size: 34 Copynumber: 3.2 Consensus size: 33
238831 TTTCTCTCAT
*
238841 TGTTCGAACCAACATTGTACTGCTATTTTTTAC
1 TGTTCGAACCAAAATTGTACTGCTATTTTTTAC
* * *
238874 TGTTCGAACCAAAATTGTATTGTTGTTTTTTCAC
1 TGTTCGAACCAAAATTGTACTGCTATTTTTT-AC
* *
238908 TGTTCAAACCAAAATTGTACTACTATTTTTTTAC
1 TGTTCGAACCAAAATTGTACTGCTA-TTTTTTAC
238942 TGTTCGAA
1 TGTTCGAA
238950 TAGTGCACTA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
33 27 0.42
34 31 0.48
35 6 0.09
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (33 bp):
TGTTCGAACCAAAATTGTACTGCTATTTTTTAC
Found at i:239060 original size:14 final size:14
Alignment explanation
Indices: 239041--239067 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
239031 GAATCAAATC
239041 TTTTTTCTGCACTG
1 TTTTTTCTGCACTG
239055 TTTTTTCTGCACT
1 TTTTTTCTGCACT
239068 ACATTGTTCG
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:0.07, C:0.22, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTTTCTGCACTG
Found at i:239068 original size:65 final size:65
Alignment explanation
Indices: 239007--239140 Score: 189
Period size: 65 Copynumber: 2.1 Consensus size: 65
238997 TACACTATTC
* * * *
239007 TGTTCGAACTTTTCTGCACAGTTTGAATCAAATCT-TTTTTCTGCACTGTTTTTTCTGCACTACA
1 TGTTCGAACTTTTCTACACAGTTCGAACCAAATCTATTTTTCTGCACGGTTTTTT-TGCACTACA
239071 T
65 T
* * *
239072 TGTTCGAATTTTTCTACACAGTTCGAACCAAATCTATTTTTTTGCACGGTTTTTTTGCACTGCAT
1 TGTTCGAACTTTTCTACACAGTTCGAACCAAATCTATTTTTCTGCACGGTTTTTTTGCACTACAT
239137 TGTT
1 TGTT
239141 TGAATCTAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 44 0.72
66 17 0.28
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.46
Consensus pattern (65 bp):
TGTTCGAACTTTTCTACACAGTTCGAACCAAATCTATTTTTCTGCACGGTTTTTTTGCACTACAT
Found at i:241408 original size:12 final size:12
Alignment explanation
Indices: 241392--241452 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
241382 AAATTCAAAG
*
241392 AAAAATAAAAAA
1 AAAAATAAAATA
241404 TAAAAAT-AAATA
1 -AAAAATAAAATA
*
241416 AAAAATAAAATT
1 AAAAATAAAATA
*
241428 GAAAATAAAATTGA
1 AAAAATAAAA-T-A
*
241442 AAATATAAAAT
1 AAAAATAAAAT
241453 TTAACAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 6 0.15
12 17 0.44
13 8 0.21
14 8 0.21
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:241438 original size:24 final size:25
Alignment explanation
Indices: 241392--241453 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
241382 AAATTCAAAG
*
241392 AAAAATAAAAAATAAAAATAAA-T-A
1 AAAAAT-AAAATTAAAAATAAATTGA
*
241416 AAAAATAAAATTGAAAATAAAATTGA
1 AAAAATAAAATTAAAAAT-AAATTGA
*
241442 AAATATAAAATT
1 AAAAATAAAATT
241454 TAACAAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 10 0.31
24 9 0.28
25 1 0.03
26 12 0.38
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAAATAAAATTAAAAATAAATTGA
Found at i:241880 original size:25 final size:25
Alignment explanation
Indices: 241846--241895 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
241836 CAAGAAGTCA
241846 AATGTGCTTTTAATAAGTTGATCCT
1 AATGTGCTTTTAATAAGTTGATCCT
241871 AATGTGCTTTTAATAAGTTGATCCT
1 AATGTGCTTTTAATAAGTTGATCCT
241896 TCCTCCTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (25 bp):
AATGTGCTTTTAATAAGTTGATCCT
Found at i:242723 original size:18 final size:19
Alignment explanation
Indices: 242700--242743 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
242690 CCAGTAATCC
*
242700 TATTCC-CTGGTAATCTTA
1 TATTCCACTGGTAATATTA
242718 TATTCCCACTGGTAATATTA
1 TATT-CCACTGGTAATATTA
242738 TATTCC
1 TATTCC
242744 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.43
Consensus pattern (19 bp):
TATTCCACTGGTAATATTA
Found at i:242731 original size:20 final size:20
Alignment explanation
Indices: 242706--242743 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
242696 ATCCTATTCC
*
242706 CTGGTAATCTTATATTCCCA
1 CTGGTAATATTATATTCCCA
242726 CTGGTAATATTATATTCC
1 CTGGTAATATTATATTCC
242744 GTGAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATATTATATTCCCA
Found at i:245380 original size:66 final size:63
Alignment explanation
Indices: 245285--245456 Score: 197
Period size: 66 Copynumber: 2.7 Consensus size: 63
245275 TTTTATCTTT
* * *
245285 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATATT-TTTTATTTTGTT
1 GTATTTTAGTTTAAATAGGTTTTAATATTTTAATTAAGATTTA-GA-ATATTATATTA--TT-TT
245349 TAG
61 TAG
*
245352 GTATTTTAG-TTAAATAGGTTTTAATATTTTAATTATGATTTAGAATATTATATTATTTTTAG
1 GTATTTTAGTTTAAATAGGTTTTAATATTTTAATTAAGATTTAGAATATTATATTATTTTTAG
* * * *
245414 GTATTTTAGTTTAAAT-TGTTTTATGTGTTTTAATTAGGATTTA
1 GTATTTTAGTTTAAATAGGTTTTA-ATATTTTAATTAAGATTTA
245457 AGATGTTTTA
Statistics
Matches: 94, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
62 20 0.21
63 24 0.26
64 5 0.05
65 6 0.06
66 30 0.32
67 9 0.10
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (63 bp):
GTATTTTAGTTTAAATAGGTTTTAATATTTTAATTAAGATTTAGAATATTATATTATTTTTAG
Found at i:251339 original size:386 final size:387
Alignment explanation
Indices: 250630--251399 Score: 1499
Period size: 385 Copynumber: 2.0 Consensus size: 387
250620 CTTCTTAATA
250630 AAAAAAAGGAAAAGGTAGTATAGAGAAGCAGGGTCGATCCACAGGGACTATAGTTTTTGTGATTT
1 AAAAAAAGGAAAAGGTAGTATAGAGAAGCAGGGTCGATCCACAGGGACTATAGTTTTTGTGATTT
250695 AGTAAAACTCTTTCTTGATTTTAGAAGAAGATAGAATTCCAGATGAAGTTGAAAAACATTAAAAT
66 AGTAAAACTCTTTCTTGATTTTAGAAGAAGATAGAATTCCAGATGAAGTTGAAAAACATTAAAAT
250760 AAAATAAAAAATAAAAAAGGAAAATAATATAATAATAAATATTAATAGTAATAAATATAAAAGGG
131 AAAATAAAAAATAAAAAAGGAAAATAATATAATAATAAATATTAATAGTAATAAATATAAAAGGG
250825 AATTTTAAAAGTTATTTTTAAAATAAAAATAAGAATAAAATAAAATAAAAATAATTAAATAAACA
196 AATTTTAAAAGTTATTTTTAAAATAAAAATAAGAATAAAATAAAATAAAAATAATTAAATAAACA
*
250890 AATTAAAGAGATTGAGATAAAGGGAAACTTATTGTGAAAGCAGCCTCAGACTTCAGCTTTGTCTC
261 AATTAAAGAGATTGAGATAAAGGGAAACTTATTGTGAAAGCAGCCTCAAACTTCAGCTTTGTCTC
250955 AGATTCCTCGGATCA-TGAAACAAAA-TTTACTTCAAGATTCACGTCATCTTACAAGAAAAT
326 AGATTCCTCGGATCATTGAAACAAAATTTTACTTCAAGATTCACGTCATCTTACAAGAAAAT
251015 AAAAAAAGGAAAAGGTAGTATAGAGAAGCAGGGTCGATCCACAGGGACTATAGTTTTTGTGATTT
1 AAAAAAAGGAAAAGGTAGTATAGAGAAGCAGGGTCGATCCACAGGGACTATAGTTTTTGTGATTT
251080 AGTAAAACTCTTTCTTGATTTTAGAAGAAGATAGAATTCCAGATGAAGTTGAAAAACATTAAAAT
66 AGTAAAACTCTTTCTTGATTTTAGAAGAAGATAGAATTCCAGATGAAGTTGAAAAACATTAAAAT
251145 AAAATAAAAAATAAAAAAGGAAAATAATATAATAATAAATATTAATAGTAATAAATATAAAAGGG
131 AAAATAAAAAATAAAAAAGGAAAATAATATAATAATAAATATTAATAGTAATAAATATAAAA-GG
*
251210 GATTTTTAAAAGTTATTTTTAAAATAAAAATAAGAATAAAATAAAATAAAAATAATTAAATAAAC
195 GAATTTTAAAAGTTATTTTTAAAATAAAAATAAGAATAAAATAAAATAAAAATAATTAAATAAAC
251275 AAATTAAAGAGATTGAGATAAAGGGAAACTTATTGTGAAAGCAGCCTCAAACTTCAGCTTTGTCT
260 AAATTAAAGAGATTGAGATAAAGGGAAACTTATTGTGAAAGCAGCCTCAAACTTCAGCTTTGTCT
251340 CAGATTCCTCGGATCATTGAAACAAAATTTTACTTCAAGATTCACGTCATCTTACAAGAA
325 CAGATTCCTCGGATCATTGAAACAAAATTTTACTTCAAGATTCACGTCATCTTACAAGAA
251400 CAATTCTTCA
Statistics
Matches: 380, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
385 192 0.51
386 146 0.38
387 10 0.03
388 32 0.08
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (387 bp):
AAAAAAAGGAAAAGGTAGTATAGAGAAGCAGGGTCGATCCACAGGGACTATAGTTTTTGTGATTT
AGTAAAACTCTTTCTTGATTTTAGAAGAAGATAGAATTCCAGATGAAGTTGAAAAACATTAAAAT
AAAATAAAAAATAAAAAAGGAAAATAATATAATAATAAATATTAATAGTAATAAATATAAAAGGG
AATTTTAAAAGTTATTTTTAAAATAAAAATAAGAATAAAATAAAATAAAAATAATTAAATAAACA
AATTAAAGAGATTGAGATAAAGGGAAACTTATTGTGAAAGCAGCCTCAAACTTCAGCTTTGTCTC
AGATTCCTCGGATCATTGAAACAAAATTTTACTTCAAGATTCACGTCATCTTACAAGAAAAT
Found at i:252953 original size:471 final size:472
Alignment explanation
Indices: 252056--253002 Score: 1828
Period size: 471 Copynumber: 2.0 Consensus size: 472
252046 AATATTATCC
252056 TAAACTCGAGTTTAATCCAAATCCGAATTCCAACCAGCTTTGATTCCGAAAATAAAAAATCTGCA
1 TAAACTCGAGTTTAATCCAAATCCGAATTCCAACCAGCTTTGATTCCGAAAATAAAAAATCTGCA
252121 TAATTGTGTCATTTTTGTGCAATTTCTAGAATCTTACGTCCTGTACAAAAAATGAATTAAAATGA
66 TAATTGTGTCATTTTTGTGCAATTTCTAGAATCTTACGTCCTGTACAAAAAATGAATTAAAATGA
252186 ACAAATAAGCCATAAAAATCAATGATTAAAGAGTAATTTAAAAGTAAAATATTAACTAAAATAAG
131 ACAAATAAGCCATAAAAATCAATGATTAAAGAGTAATTTAAAAGTAAAATATTAACTAAAATAAG
252251 AACTTATCAAATTTCTCCGTCACTTATTTAATGCTTTTCCTCAAGCATTCTTCAATTAACATATC
196 AACTTATCAAATTTCTCCGTCACTTATTTAATGCTTTTCCTCAAGCATTCTTCAATTAACATATC
252316 AAAATCATAAGTTTTATCTTAATTTCAACTTATTTCTCAAACTTCCAATCGAACTAAGTCCATGA
261 AAAATCATAAGTTTTATCTTAATTTCAACTTATTTCTCAAACTTCCAATCGAACTAAGTCCATGA
252381 CATTTGCTGAATTCAAGTTACAATCAAGCAAAGGCATAACCAAGAAAATTTAAAGTAAGCAGGGT
326 CATTTGCTGAATTCAAGTTACAATCAAGCAAAGGCATAACCAAGAAAATTTAAAGTAAGCAGGGT
252446 ATCCCAATTAATTGCCAATTTCAATGAAGCATGACTCAATACATCACAAATATTCACACAT-ACC
391 ATCCCAATTAATTGCCAATTTCAATGAAGCATGACTCAATACATCACAAATATTCACACATAACC
*
252510 GCTCAAAGTA-TTGGGT
456 GCTCAAAGTATTTGGGG
252526 TAAACTCGAGTTTAATCCAAATCCGAATTCCAACCAGCTTTGATTCCGAAAATAAAAAATCTGCA
1 TAAACTCGAGTTTAATCCAAATCCGAATTCCAACCAGCTTTGATTCCGAAAATAAAAAATCTGCA
252591 TAATTGTGTCATTTTTGTGCAATTTCTAGAATCTTACGTCCTGTACAAAAAATGAATTAAAATGA
66 TAATTGTGTCATTTTTGTGCAATTTCTAGAATCTTACGTCCTGTACAAAAAATGAATTAAAATGA
*
252656 ACAAATAAGCCA-CAAAATCAATGATTAAAGAGTAATTTAAAAGTAAAATATTAACTAAAATAAG
131 ACAAATAAGCCATAAAAATCAATGATTAAAGAGTAATTTAAAAGTAAAATATTAACTAAAATAAG
*
252720 CACTTATCAAATTTCTCCGTCACTTATTTAATGCTTTTCCTCAAGCATTCTTCAATTAACATATC
196 AACTTATCAAATTTCTCCGTCACTTATTTAATGCTTTTCCTCAAGCATTCTTCAATTAACATATC
252785 AAAATCATAAGTTGTTATCTTTAATTTCAACTTATTTCTCAAACTTCCAATCGAACTAAGTCCAT
261 AAAATCATAAGTT-TTATC-TTAATTTCAACTTATTTCTCAAACTTCCAATCGAACTAAGTCCAT
252850 GACATTTGCTGAATTCAAGTTACAATCAAGCAAAGGCATAACCAAGAAAATTTAAAGTAAGCAGG
324 GACATTTGCTGAATTCAAGTTACAATCAAGCAAAGGCATAACCAAGAAAATTTAAAGTAAGCAGG
252915 GTATCCCAATTAATTGCCAATTTCAATGAAGCATGACTCAATACATCACAAATATTCACACATAA
389 GTATCCCAATTAATTGCCAATTTCAATGAAGCATGACTCAATACATCACAAATATTCACACATAA
252980 CCGCTCAAAGTATTTGGGG
454 CCGCTCAAAGTATTTGGGG
252999 TAAA
1 TAAA
253003 TGAAATCGTT
Statistics
Matches: 470, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
469 128 0.27
470 147 0.31
471 173 0.37
472 13 0.03
473 9 0.02
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (472 bp):
TAAACTCGAGTTTAATCCAAATCCGAATTCCAACCAGCTTTGATTCCGAAAATAAAAAATCTGCA
TAATTGTGTCATTTTTGTGCAATTTCTAGAATCTTACGTCCTGTACAAAAAATGAATTAAAATGA
ACAAATAAGCCATAAAAATCAATGATTAAAGAGTAATTTAAAAGTAAAATATTAACTAAAATAAG
AACTTATCAAATTTCTCCGTCACTTATTTAATGCTTTTCCTCAAGCATTCTTCAATTAACATATC
AAAATCATAAGTTTTATCTTAATTTCAACTTATTTCTCAAACTTCCAATCGAACTAAGTCCATGA
CATTTGCTGAATTCAAGTTACAATCAAGCAAAGGCATAACCAAGAAAATTTAAAGTAAGCAGGGT
ATCCCAATTAATTGCCAATTTCAATGAAGCATGACTCAATACATCACAAATATTCACACATAACC
GCTCAAAGTATTTGGGG
Found at i:254121 original size:5 final size:5
Alignment explanation
Indices: 254113--254178 Score: 55
Period size: 5 Copynumber: 13.2 Consensus size: 5
254103 TAAGCATCTG
** * *
254113 ATAAA ATAAA ATAAA AT-AA ATGGA ATGAA ATGAA AT-AA ATAAA ATGAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT-AAA
*
254162 ATAAA ACAAAA ATAAA A
1 ATAAA A-TAAA ATAAA A
254179 CGAAATGGGT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
4 8 0.15
5 36 0.68
6 9 0.17
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:254152 original size:9 final size:10
Alignment explanation
Indices: 254113--254178 Score: 55
Period size: 11 Copynumber: 6.6 Consensus size: 10
254103 TAAGCATCTG
254113 ATAAAATAAA
1 ATAAAATAAA
254123 ATAAAAT-AA
1 ATAAAATAAA
** *
254132 ATGGAATGAA
1 ATAAAATAAA
*
254142 ATGAAAT-AA
1 ATAAAATAAA
254151 ATAAAATGAAA
1 ATAAAAT-AAA
*
254162 ATAAAACAAAA
1 ATAAAA-TAAA
254173 ATAAAA
1 ATAAAA
254179 CGAAATGGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
9 15 0.32
10 15 0.32
11 17 0.36
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (10 bp):
ATAAAATAAA
Found at i:254157 original size:14 final size:15
Alignment explanation
Indices: 254116--254172 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
254106 GCATCTGATA
254116 AAATAAAATAAAAT-
1 AAATAAAATAAAATG
** *
254130 AAATGGAATGAAATG
1 AAATAAAATAAAATG
254145 AAAT-AAATAAAATG
1 AAATAAAATAAAATG
*
254159 AAAATAAAACAAAA
1 -AAATAAAATAAAA
254173 ATAAAACGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 19 0.56
15 8 0.24
16 7 0.21
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.18
Consensus pattern (15 bp):
AAATAAAATAAAATG
Found at i:254158 original size:19 final size:19
Alignment explanation
Indices: 254113--254167 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
254103 TAAGCATCTG
*
254113 ATAAAATAAAATAAAATAA
1 ATAAAATGAAATAAAATAA
** *
254132 ATGGAATGAAATGAAATAA
1 ATAAAATGAAATAAAATAA
254151 ATAAAATGAAAATAAAA
1 ATAAAATG-AAATAAAA
254168 CAAAAATAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (19 bp):
ATAAAATGAAATAAAATAA
Found at i:255046 original size:22 final size:21
Alignment explanation
Indices: 254994--255053 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
254984 GATTTCTGGG
*
254994 CAAGGGGAATTGATACCCATT
1 CAAGGGGAATCGATACCCATT
*
255015 CAA-GGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
255035 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGATACCC
255054 CTCAAACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.53
21 3 0.09
22 13 0.38
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Found at i:256614 original size:103 final size:103
Alignment explanation
Indices: 256430--256639 Score: 384
Period size: 103 Copynumber: 2.0 Consensus size: 103
256420 GGGTCTACGC
*
256430 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATACTTGAT
1 GGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATACTTGAT
* *
256495 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
256533 GGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATACTTGAT
1 GGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATACTTGAT
*
256598 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
256636 GGTC
1 GGTC
256640 CTTATGAACA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
GGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:256721 original size:23 final size:23
Alignment explanation
Indices: 256658--256726 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
256648 CATTATTATA
* *
256658 TGGCACTACGGTGTAATTATATG
1 TGGCACTACGGTGCAATTATACG
* * * * *
256681 CGGCACTCCAGTGGAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
256704 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
256727 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:260382 original size:23 final size:22
Alignment explanation
Indices: 260338--260382 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
260328 AATCTCATGG
*
260338 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
260360 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
260383 AAAATTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.33, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:261903 original size:103 final size:103
Alignment explanation
Indices: 261683--261895 Score: 408
Period size: 103 Copynumber: 2.1 Consensus size: 103
261673 GGGTCTACGC
261683 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
261748 CCTTGGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
261786 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
261851 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
261889 GGTCCTT
1 GGTCCTT
261896 ATGGACATTA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
Found at i:261945 original size:23 final size:23
Alignment explanation
Indices: 261912--261979 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
261902 ATTATTATAT
* *
261912 GGCACTACGGTGCAATTCTATGC
1 GGCACTCCGGTGCAATTCTACGC
* *
261935 GGTACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
* *
261958 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
261980 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:272350 original size:431 final size:429
Alignment explanation
Indices: 271699--274511 Score: 4232
Period size: 431 Copynumber: 6.6 Consensus size: 429
271689 TAAAAATTAC
* * * *
271699 CCGAAGGGTTTAAGCATCATGGTCGAAAGACTTACTGATAGCCCGAATGAC-T-TAAATTGTGAA
1 CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAA
* *
271762 ATTTTGAAAATCACATTCTTCGTTTTCAAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTT
66 ATTTTGAAAATCGCATTCTTCGTTTTC-AAAAATTTCATCTTCTTAAAACATCATTTTTCATTTT
* * * *
271827 CAAATTC-TTGTGAAAACATCATACCTGAAGGTTTTATGGATGGCCCGAAGGACTTATCAACTTG
130 CAAATTCATT-TGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTG
* * *
271891 CTCTAAAGGCTTACAGATTATCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCC
194 CTCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCC
* * *
271956 GAAGGACTTATAAATTGTGAAATTTTAAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTT
259 GAGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTT
* * * *
272021 GAAACGTCA-TTTTCTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAAGTCTTATGGATG
324 AAAACATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTCTTATGGATG
272084 GCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
388 GCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
* * * *
272126 CTCGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAGGGACTTATAAATTATGA
1 C-CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGA
**
272191 AAAATTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTTCATT
65 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCA--TTTTTCATT
* *
272256 TTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTTTTATGGATGGCCCGAAGGACTTATTATCT
128 TTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCT
* * * *
272320 TGCTCTAAAGGCTTACAGATGACTCGAAGGATTTAAACATCATACTCGAAAAACTTACTGATGGC
192 TGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGC
* *
272385 CAGAGGGACTTATAAATTGTGAAAATTTTGAAAATTGCATTCTTCGTTTTCAAAAATTTCATCTT
257 CCGAGGGACTTATAAATTGTG-AAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTT
272450 CTTAAAACATCATTTTTTTTCATTTTCAAATTCATTTGAAAACATCCCTCCCGAAGGTCTTATGG
321 CTTAAAACATCA-TTTTTTTCATTTTCAAATTCATTTGAAAACATCCCTCCCGAAGGTCTTATGG
* *
272515 ATGGCCCGAAGGACTTATCTTCTTGCTCTAAAGACTTACAGATGA
385 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
* * *
272560 CCCGAAGGATTTAAGCATCACGCTCGAAAGACTTACTGATGGCCTGAAGGACTTATACATTGTGA
1 -CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGA
* * *
272625 AATTTTGAAAATCGCATTTTTCGTCTTCAAAAA--T--TC--C----AACATCATTTTTCATTCT
65 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTCATTTT
* * *
272680 CAAAGTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGC
130 CAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGC
272745 TCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCCG
195 TCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCCG
*
272810 AGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTTGTTTTC-AAAATTTCATCTTCTTA
260 AGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTA
* *
272874 AAACATCATTTTTTTTTCATTTTCAAATTCATGTGAAAACAT-CCTACCCGAAGGTTTTATGGAT
325 AAACATCA--TTTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTCTTATGGAT
*
272938 GGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACCGATGA
387 GGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
* * * * *
272981 CCTGAAGGATTTAAACATCATGCTCAAAAGAGTTACTGATGACCCGAGGGACTTATAAATTGTGA
1 CC-GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGA
* * *
273046 AATTTTAAAAATCGCATTCTTCGTTTTCAAAACTTTTATCTTCTTAAAACATCATTTTTCATTTT
65 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTCATTTT
273111 CAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGC
130 CAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGC
* * *
273176 TCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTAATGGCCCG
195 TCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCCG
* * * * * *
273241 AAGGACTTATAAATTGTAAAATTTTGAAAATCTCATTTTTCGTTTTCAAAAATTCCATCTTCTTG
260 AGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTA
* * * * *
273306 AAACGTCA-TTTTCTCATTTTCAAATTAATTTGAAAACAT-CCTACCCGAAAGTCTTATGGATAG
325 AAACATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTCTTATGGATGG
*
273369 CCCGAAGGACTCATCATCTTGCTCTAAAGGCTTACAGATGA
389 CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
* * * *
273410 CTCGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAGGGACTTATAAATTATGA
1 C-CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGA
273475 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTCATTT
65 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCA-TTTTTCATTT
*
273540 TCAAATTCATTTGAAAACATCCCT-CCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTT
129 TCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTT
* * *
273604 GCTCTAAAGGCTTACAGATGACTCGAAGGATTTAAACATCATACTCGAAAGACTTACTGATGGCC
193 GCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCC
* *
273669 AGAGGGACTTATAAATTGTGAAATTTTGAAAATTGCATTCTTCGTTTTCAAAAATTTCATCTTCT
258 CGAGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCT
*
273734 TAAAACATCATTGTTTTCATTTTCAAATTCATTTGAAAACATCCCTCCCGAAGGTCTTATGGATG
323 TAAAACATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCTCCCGAAGGTCTTATGGATG
* *
273799 GCCCGAATGACTTATCATCTTGCTCTAAAGACTTACAGATGA
388 GCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
* * *
273841 CCTGAAGGATTTAAGTATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTATACATTGTGA
1 CC-GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGA
*
273906 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAA--T--TC--C----AACATCATTTTTTCATTC
65 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCA-TTTTTCATTT
* * *
273961 TCAAATTCATGTGAAAATATCCTACCCGAATGTCTTATGGATGGCCCGAAGGACTTATCATCTTG
129 TCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTG
* * * * * * *
274026 CTCTAAAGGCTTACAGATGACCTGAAGGATTTAAA-TTCATGGTCGAAAGATTTACTGATGTCTC
194 CTCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCC
*
274090 GAGGGACTTATAAATTGTGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTTCATCTTCTT
259 GAGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTT
*
274155 AAAACATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCTCCCGAAGGTCTTGTGGATGG
324 AAAACATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCTCCCGAAGGTCTTATGGATGG
274220 CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
389 CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
*
274261 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGA
1 -CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGA
* *
274326 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAATATCATTTTTCATTTT
65 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTCATTTT
* *
274391 CAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATTTTGC
130 CAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGC
* * *
274456 TCTAAAGGCTTATAGATGACCCGAATGATTTAAGCATCATGCTCGAAAGACTTACT
195 TCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACT
274512 GATGTAGTTG
Statistics
Matches: 2166, Mismatches: 174, Indels: 89
0.89 0.07 0.04
Matches are distributed among these distances:
420 311 0.14
421 311 0.14
422 144 0.07
423 1 0.00
424 9 0.00
425 3 0.00
426 1 0.00
427 4 0.00
428 44 0.02
429 326 0.15
430 256 0.12
431 499 0.23
432 80 0.04
434 173 0.08
435 4 0.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (429 bp):
CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAA
ATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTCATTTTC
AAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCT
CTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCCGA
GGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAA
AACATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCTCCCGAAGGTCTTATGGATGGCC
CGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
Found at i:272354 original size:216 final size:215
Alignment explanation
Indices: 271683--274515 Score: 4231
Period size: 215 Copynumber: 13.3 Consensus size: 215
271673 CTCTCTTGTG
* * * * * * * **
271683 AAGGCTTAAAAATTACCCGAAGGGTTTAAGCATCATGGTCGAAAGACTTACTGATAGCCCGAATG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
* *
271748 AC-T-TAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAAATTCCATCTTCTTAAAA
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTC-AAAAATTTCATCTTCTTAAAA
* * *
271811 CATCA-TTTTTCATTTTCAAATTC-TTGTGAAAACATCATACCTGAAGGTTTTATGGATGGCCCG
130 CATCATTTTTTCATTTTCAAATTCATT-TGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCG
*
271874 AAGGACTTATCAACTTGCTCTA
194 AAGGACTTATCATCTTGCTCTA
* * * * *
271896 AAGGCTTACAGATTATCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
* * *
271961 ACTTATAAATTGTGAAATTTTAAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTGAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* * *
272026 GTCATTTTCTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAAGTCTTATGGATGGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
272091 GGACTTATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* *
272111 AAGGCTTACAGATGACTCGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
* **
272176 ACTTATAAATTATGAAAAATTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
272241 ATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTTTTATGGATGGCCCG
131 ATCA-TTTTTTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCG
*
272305 AAGGACTTATTATCTTGCTCTA
194 AAGGACTTATCATCTTGCTCTA
* * * *
272327 AAGGCTTACAGATGACTCGAAGGATTTAAACATCATACTCGAAAAACTTACTGATGGCCAGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
*
272392 ACTTATAAATTGTGAAAATTTTGAAAATTGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAA
66 ACTTATAAATTGTG-AAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAA
272457 CATCATTTTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTCTTATGGATGGCC
130 CATCA--TTTTTTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCC
*
272521 CGAAGGACTTATCTTCTTGCTCTA
192 CGAAGGACTTATCATCTTGCTCTA
* * * * *
272545 AAGACTTACAGATGACCCGAAGGATTTAAGCATCACGCTCGAAAGACTTACTGATGGCCTGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
* * *
272610 ACTTATACATTGTGAAATTTTGAAAATCGCATTTTTCGTCTTCAAAAA--T--TC--C----AAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* * *
272665 ATCA-TTTTTCATTCTCAAAGTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
*
272729 TGACTTATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
*
272749 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
*
272814 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTTGTTTTC-AAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* *
272878 ATCATTTTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
131 ATCA---TTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCC
272943 GAAGGACTTATCATCTTGCTCTA
193 GAAGGACTTATCATCTTGCTCTA
* * * * *
272966 AAGGCTTACCGATGACCTGAAGGATTTAAACATCATGCTCAAAAGAGTTACTGATGACCCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
* * *
273031 ACTTATAAATTGTGAAATTTTAAAAATCGCATTCTTCGTTTTCAAAACTTTTATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
273096 ATCA-TTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
273160 GGACTTATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* * * * *
273180 AAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTAATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
* * * * *
273245 ACTTATAAATTGTAAAATTTTGAAAATCTCATTTTTCGTTTTCAAAAATTCCATCTTCTTGAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* * * * *
273310 GTCATTTTCTCATTTTCAAATTAATTTGAAAACATCCTACCCGAAAGTCTTATGGATAGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
*
273375 GGACTCATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* *
273395 AAGGCTTACAGATGACTCGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
*
273460 ACTTATAAATTATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
273525 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTTTTATGGATGGCCCGA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCGA
273589 AGGACTTATCATCTTGCTCTA
195 AGGACTTATCATCTTGCTCTA
* * *
273610 AAGGCTTACAGATGACTCGAAGGATTTAAACATCATACTCGAAAGACTTACTGATGGCCAGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
*
273675 ACTTATAAATTGTGAAATTTTGAAAATTGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
273740 ATCATTGTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTCTTATGGATGGCCCG
131 ATCATT-TTTTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCG
*
273804 AATGACTTATCATCTTGCTCTA
194 AAGGACTTATCATCTTGCTCTA
* * ** * *
273826 AAGACTTACAGATGACCTGAAGGATTTAAGTATCATGCTCGAAAGACTTACTGATGGCCTGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
*
273891 ACTTATACATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAA--T--TC--C----AAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* * * *
273946 ATCATTTTTTCATTCTCAAATTCATGTGAAAATATCCTACCCGAATGTCTTATGGATGGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
274011 GGACTTATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* * * * * *
274031 AAGGCTTACAGATGACCTGAAGGATTTAAA-TTCATGGTCGAAAGATTTACTGATGTCTCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
*
274095 ACTTATAAATTGTGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
274160 ATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTCTTGTGGATGGCCCG
131 ATCA-TTTTTTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCG
274224 AAGGACTTATCATCTTGCTCTA
194 AAGGACTTATCATCTTGCTCTA
* *
274246 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
* * *
274311 ACTTATAAATTATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAT
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
274376 ATCA-TTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
*
274440 GGACTTATCATTTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* * *
274460 AAGGCTTATAGATGACCCGAATGATTTAAGCATCATGCTCGAAAGACTTACTGATG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATG
274516 TAGTTGCTTC
Statistics
Matches: 2391, Mismatches: 187, Indels: 83
0.90 0.07 0.03
Matches are distributed among these distances:
203 7 0.00
204 245 0.10
205 99 0.04
206 10 0.00
207 9 0.00
208 2 0.00
209 1 0.00
210 2 0.00
211 1 0.00
212 2 0.00
213 71 0.03
214 355 0.15
215 725 0.30
216 428 0.18
217 262 0.11
218 172 0.07
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (215 bp):
AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
GGACTTATCATCTTGCTCTA
Found at i:272810 original size:42 final size:41
Alignment explanation
Indices: 272718--272818 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
272708 AGGTCTTATG
* * * * *
272718 GATGGCCCGAATGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTAACATCATGCTCGAAAGACTTACA
* *
272759 GATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTA
1 GATGGCCCGAAGGACTT-AACATCATGCTCGAAAGACTTAC-A
*
272802 -ATGGCCCGAGGGACTTA
1 GATGGCCCGAAGGACTTA
272819 TAAATTGTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
41 15 0.31
42 32 0.67
43 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAACATCATGCTCGAAAGACTTACA
Found at i:273225 original size:42 final size:42
Alignment explanation
Indices: 273149--273249 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
273139 AGGTCTTATG
* * *
273149 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTAC-A
1 GATGGCCCGAAGGACTTAGCATCATGCTCAAAAGACTTACTA
* *
273190 GATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTA
1 GATGGCCCGAAGGACTT-AGCATCATGCTCAAAAGACTTACTA
273233 -ATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
273250 TAAATTGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
41 16 0.31
42 34 0.67
43 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCAAAAGACTTACTA
Found at i:274296 original size:42 final size:41
Alignment explanation
Indices: 274215--274315 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
274205 AGGTCTTGTG
* * * *
274215 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * *
274256 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
274298 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
274316 TAAATTATGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:281595 original size:16 final size:17
Alignment explanation
Indices: 281568--281600 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
281558 ACAAATTTCG
281568 AACCGATTAACCGAATT
1 AACCGATTAACCGAATT
281585 AACCG-TTAACCGAATT
1 AACCGATTAACCGAATT
281601 CTAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (17 bp):
AACCGATTAACCGAATT
Found at i:282424 original size:236 final size:237
Alignment explanation
Indices: 282045--282494 Score: 812
Period size: 236 Copynumber: 1.9 Consensus size: 237
282035 CAAATAATTT
*
282045 ATATATAGAGAACCTGTTAATCTACTTTCTCTGCACCTATAGGAGTTCGTACAAATAATTTTGTC
1 ATATATAGAGAACCTGTTAATCTACTTTCTATGCACCTATAGGAGTTCGTACAAATAATTTTGTC
* *
282110 GTGGAGGTGTTATGTGAATTTCAACATTAAACTTCCTCATGGCTTTTGTTTATGTATTAATGAAT
66 GTGGAGGTGTTATGTGAATTTCAACATTAAACTTCCTCATGGCTTTTGTTTAAGTAATAATGAAT
*
282175 CTCAGAATGCTTTACAGATACAAAAAGGATCACAAGTGTAC-TGAATCTTCTTGGCACTTCATCC
131 CTCAGAATGCTTTACAGATACAAAAAGGATCACAAGTGTACTTGAATCTTCTTGACACTTCATCC
282239 ATCGACCTATTATTTTAAGTTTCGACTCCCTAATGTTTATTC
196 ATCGACCTATTATTTTAAGTTTCGACTCCCTAATGTTTATTC
* *
282281 ATATATAGAGAACCTGTTAATCTACTTTCTATGCATCTATTGGAGTTCGTACAAATAATTTTGTC
1 ATATATAGAGAACCTGTTAATCTACTTTCTATGCACCTATAGGAGTTCGTACAAATAATTTTGTC
*
282346 GTGGAGGTGTTATGTGAATTTCAGCATTAAACTTCCTCATGGCTTTTGTTTAAGTAATAATGAAT
66 GTGGAGGTGTTATGTGAATTTCAACATTAAACTTCCTCATGGCTTTTGTTTAAGTAATAATGAAT
* *
282411 CTCAGAATGCTTTACAGATATAAAAAGGATCGCAAGTGTACTTGAATCTTCTTGACACTTCATCC
131 CTCAGAATGCTTTACAGATACAAAAAGGATCACAAGTGTACTTGAATCTTCTTGACACTTCATCC
282476 ATCGACCTATTATTTTAAG
196 ATCGACCTATTATTTTAAG
282495 AAGCCTGGGA
Statistics
Matches: 204, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
236 163 0.80
237 41 0.20
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (237 bp):
ATATATAGAGAACCTGTTAATCTACTTTCTATGCACCTATAGGAGTTCGTACAAATAATTTTGTC
GTGGAGGTGTTATGTGAATTTCAACATTAAACTTCCTCATGGCTTTTGTTTAAGTAATAATGAAT
CTCAGAATGCTTTACAGATACAAAAAGGATCACAAGTGTACTTGAATCTTCTTGACACTTCATCC
ATCGACCTATTATTTTAAGTTTCGACTCCCTAATGTTTATTC
Found at i:283993 original size:42 final size:42
Alignment explanation
Indices: 283863--283995 Score: 187
Period size: 42 Copynumber: 3.2 Consensus size: 42
283853 CCGAAATCCA
** ** *
283863 GTGTTTGTTTCGTGTAATTCGCATTCCGGAAAATGTTTTTCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCCC
* *
283905 GTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATGTTTTCTC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCCC
283947 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATG-TTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCCC
283988 AGTGTTTG
1 -GTGTTTG
283996 GTTGGAAGAA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 5 0.06
42 76 0.94
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (42 bp):
GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCCC
Found at i:284254 original size:26 final size:24
Alignment explanation
Indices: 284192--284254 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
284182 CATTTTAATC
284192 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
284216 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
284239 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
284255 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:284256 original size:22 final size:23
Alignment explanation
Indices: 284226--284272 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
284216 AAAATATATT
284226 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
284249 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
284271 TA
1 TA
284273 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:284348 original size:21 final size:20
Alignment explanation
Indices: 284315--284360 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
284305 TATATTTATG
284315 TTAATAATATATATAAATTA
1 TTAATAATATATATAAATTA
* * *
284335 TTAATAAATTTATATTATTTA
1 TTAAT-AATATATATAAATTA
284356 TTAAT
1 TTAAT
284361 TTCATAGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATAATATATATAAATTA
Found at i:284460 original size:23 final size:23
Alignment explanation
Indices: 284440--284484 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
284430 AATAATATTT
284440 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
284463 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
284485 ATATTACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:284616 original size:26 final size:27
Alignment explanation
Indices: 284587--284637 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
284577 ATTATAAAAA
*
284587 TAATA-TTTAATAATAAATAA-ATTATT
1 TAATATTTTAAAAAT-AATAATATTATT
284613 TAATATTTTAAAAATAATAATATTA
1 TAATATTTTAAAAATAATAATATTA
284638 AGTTTTATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATATTTTAAAAATAATAATATTATT
Found at i:284808 original size:14 final size:14
Alignment explanation
Indices: 284789--284822 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
284779 AAATATAATT
284789 CATTTTACGGAAAA
1 CATTTTACGGAAAA
*
284803 CATTTTTCGGAAAA
1 CATTTTACGGAAAA
*
284817 CGTTTT
1 CATTTT
284823 CGAGAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (14 bp):
CATTTTACGGAAAA
Found at i:286136 original size:2 final size:2
Alignment explanation
Indices: 286127--286190 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
286117 TATCATTAAC
286127 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
286168 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
286191 GCTTGTTTGA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:287558 original size:15 final size:16
Alignment explanation
Indices: 287537--287581 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
287527 GAGTAGTTAA
287537 AATTATTTTATATTTT
1 AATTATTTTATATTTT
*
287553 AA-TATTTTATATATT
1 AATTATTTTATATTTT
287568 AATTATTTTATATT
1 AATTATTTTATATT
287582 GTAAAAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTATTTTATATTTT
Found at i:291576 original size:143 final size:143
Alignment explanation
Indices: 291349--291959 Score: 777
Period size: 142 Copynumber: 4.3 Consensus size: 143
291339 GAAATATCAT
* * * * *
291349 CTCATAGGCAAAATAATGCACCATGGAAGAAACTTTTCAGTGTC-AATTAATCATCTTGATCAAC
1 CTCATAGGCAAAATAATACACCATGGTAGAAACTTTTCAGTGCCTAATTAATCATCTTCAACAAC
* *
291413 TTTTTAGTGATATATCAACTCATTTCAGAAAATTTTTCATTGGTGATATATCACTTCATATCAGA
66 TTTTCAGTGATATATCAACTCATTTCAGAAAATTTTTCAGTGGTGATATATCACTTCATATCAGA
291478 AAAATGTGCATTC
131 AAAATGTGCATTC
* * * * * * * *
291491 CTTATAGGCAAAATAATGCATCATGGTTA-AAACATTTCAATACCTAATTGATCATCTTCAGCAA
1 CTCATAGGCAAAATAATACACCATGG-TAGAAACTTTTCAGTGCCTAATTAATCATCTTCAACAA
* *
291555 CTTTTCAGTGATATATTAACTCATTTCAGAAAACTTTTT-AGTGGTGATATATCACTTCATATTA
65 CTTTTCAGTGATATATCAACTCATTTCAGAAAA-TTTTTCAGTGGTGATATATCACTTCATATCA
*
291619 G-AAAACGTGCATT-
129 GAAAAATGTGCATTC
* *
291632 CTACATAGGCAAAATAATACACCATGATAGAAACTTTTCAGTG-CTCAATTAATTATCTTCAACA
1 CT-CATAGGCAAAATAATACACCATGGTAGAAACTTTTCAGTGCCT-AATTAATCATCTTCAACA
* * * * *
291696 ACTTTTCAGTGATATATCAATTAATTTCAGAAAACTTTTCAGTGGTGATATATCATTTTATATCA
64 ACTTTTCAGTGATATATCAACTCATTTCAGAAAATTTTTCAGTGGTGATATATCACTTCATATCA
*
291761 -AAAAGTGTGCATTC
129 GAAAAATGTGCATTC
* * * *
291775 CTCGTAGGTAAAATAATACACCATGGCAGAAACTTTTCAGTGCCCAATTAATCATCTTCAACAAC
1 CTCATAGGCAAAATAATACACCATGGTAGAAACTTTTCAGTGCCTAATTAATCATCTTCAACAAC
* * *
291840 TTTTCAGTGATATATCAATTTATTTTAGAAAATTTTTCAGTGGTGATATATCACTTCATATCAGA
66 TTTTCAGTGATATATCAACTCATTTCAGAAAATTTTTCAGTGGTGATATATCACTTCATATCAG-
** * *
291905 AAAAACATGTATTT
130 AAAAATGTGCATTC
* *
291919 CTCATGGGCAAAATAATACACCACGGTAGAAACTTTTCAGT
1 CTCATAGGCAAAATAATACACCATGGTAGAAACTTTTCAGT
291960 TCACAAACTT
Statistics
Matches: 402, Mismatches: 55, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
141 10 0.02
142 267 0.66
143 75 0.19
144 50 0.12
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (143 bp):
CTCATAGGCAAAATAATACACCATGGTAGAAACTTTTCAGTGCCTAATTAATCATCTTCAACAAC
TTTTCAGTGATATATCAACTCATTTCAGAAAATTTTTCAGTGGTGATATATCACTTCATATCAGA
AAAATGTGCATTC
Found at i:291718 original size:32 final size:33
Alignment explanation
Indices: 291662--291739 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
291652 ACCATGATAG
* *
291662 AAACTTTTCAGTGCTCAATTAATT-ATCTTCA-A
1 AAACTTTTCAGTGATCAATCAATTAAT-TTCAGA
*
291694 CAACTTTTCAGTGAT-ATATCAATTAATTTCAGA
1 AAACTTTTCAGTGATCA-ATCAATTAATTTCAGA
291727 AAACTTTTCAGTG
1 AAACTTTTCAGTG
291740 GTGATATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 1 0.03
32 23 0.59
33 15 0.38
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (33 bp):
AAACTTTTCAGTGATCAATCAATTAATTTCAGA
Found at i:292672 original size:35 final size:34
Alignment explanation
Indices: 292624--292712 Score: 97
Period size: 35 Copynumber: 2.6 Consensus size: 34
292614 TGTATTTGCG
* *
292624 TCCTTAACGTAATGTATTAAGTATATTGTTTTTTC
1 TCCTTAATGTAATGT-TTAAGTATATTGTTTTGTC
* * * *
292659 TTCTTAATGTAATGTTCACGGTATGTTGTTTTGTC
1 TCCTTAATGTAATGTTTA-AGTATATTGTTTTGTC
*
292694 TCCATAATGTAATGTTTAA
1 TCCTTAATGTAATGTTTAA
292713 TGGTTTGATT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
34 2 0.05
35 41 0.95
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (34 bp):
TCCTTAATGTAATGTTTAAGTATATTGTTTTGTC
Found at i:296438 original size:176 final size:177
Alignment explanation
Indices: 296137--296502 Score: 594
Period size: 176 Copynumber: 2.1 Consensus size: 177
296127 GAAATTAAAT
* * *
296137 ATTAAATATATTATATATAACATATAGGCTCAGTCCAGACCATTTAAAACTCAATTAATAATTTA
1 ATTAAAAATATTATATATAACATATAGGCTCAGTCCAAACCATTTAAAACCCAATTAATAATTTA
296202 AGATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAA-TTTTTA
66 AGATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTTA
*
296266 TTTTATAATTTTATATTATTTAAATTAATT-GTAAACTGTTTTTTTAA
131 TTTTATAATTATATATTATTTAAATTAATTAG-AAACTGTTTTTTTAA
* *
296313 ATTAAAAATATTATATATAACATATGGGCTCAG-CTCAAACCATTTAAAACCCTATTAATAATTT
1 ATTAAAAATATTATATATAACATATAGGCTCAGTC-CAAACCATTTAAAACCCAATTAATAATTT
* * *
296377 AAGATCTAATAACTTTTAAATCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTT
65 AAGATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTT
*
296442 ATTTTATAATTATATATTATTTAAATTAATTAGAAACTGTTTTTTTGA
130 ATTTTATAATTATATATTATTTAAATTAATTAGAAACTGTTTTTTTAA
296490 ATTAAAAAATATT
1 ATT-AAAAATATT
296503 TAATTTTTAT
Statistics
Matches: 176, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
175 1 0.01
176 113 0.64
177 52 0.30
178 10 0.06
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (177 bp):
ATTAAAAATATTATATATAACATATAGGCTCAGTCCAAACCATTTAAAACCCAATTAATAATTTA
AGATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTTA
TTTTATAATTATATATTATTTAAATTAATTAGAAACTGTTTTTTTAA
Found at i:304218 original size:148 final size:148
Alignment explanation
Indices: 303940--304244 Score: 592
Period size: 148 Copynumber: 2.1 Consensus size: 148
303930 TTTTTTTTAT
303940 ATAAATTTTGGTATGATTTCTGATTCCAAGTAAGCTATTGAGAATTTAGATGTTTAGAAGTACTA
1 ATAAA-TTTGGTATGATTTCTGATTCCAAGTAAGCTATTGAGAATTTAGATGTTTAGAAGTACTA
*
304005 AAGTGAAATAAGTTGGTTTGTAAGAGTATAAATGAGTTTAAAAGCTTTAAAGAAGTGTTAGATGA
65 AAGTGAAATAAGTTGGTTTGTAAGAGTATAAATGAGTTTAAAAGCTTTAAAGAAGTGTTAAATGA
304070 GAAAGTTAGCAAAGTTTGG
130 GAAAGTTAGCAAAGTTTGG
304089 ATAAATTTGGTATGATTTCTGATTCCAAGTAAGCTATTGAGAATTTAGATGTTTAGAAGTACTAA
1 ATAAATTTGGTATGATTTCTGATTCCAAGTAAGCTATTGAGAATTTAGATGTTTAGAAGTACTAA
304154 AGTGAAATAAGTTGGTTTGTAAGAGTATAAATGAGTTTAAAAGCTTTAAAGAAGTGTTAAATGAG
66 AGTGAAATAAGTTGGTTTGTAAGAGTATAAATGAGTTTAAAAGCTTTAAAGAAGTGTTAAATGAG
304219 AAAGTTAGCAAAGTTTGG
131 AAAGTTAGCAAAGTTTGG
304237 ATAAATTT
1 ATAAATTT
304245 TCGGGTTAAA
Statistics
Matches: 155, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
148 150 0.97
149 5 0.03
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (148 bp):
ATAAATTTGGTATGATTTCTGATTCCAAGTAAGCTATTGAGAATTTAGATGTTTAGAAGTACTAA
AGTGAAATAAGTTGGTTTGTAAGAGTATAAATGAGTTTAAAAGCTTTAAAGAAGTGTTAAATGAG
AAAGTTAGCAAAGTTTGG
Found at i:311461 original size:20 final size:20
Alignment explanation
Indices: 311435--311480 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
311425 GGGTACCGAG
311435 ACCATTATGCAAGTATCGAT
1 ACCATTATGCAAGTATCGAT
*
311455 GCCATTATGCAAGTATCGAT
1 ACCATTATGCAAGTATCGAT
311475 ACCATT
1 ACCATT
311481 TTAGAAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (20 bp):
ACCATTATGCAAGTATCGAT
Found at i:312243 original size:25 final size:25
Alignment explanation
Indices: 312215--312269 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
312205 CACTTCGGTG
* *
312215 CATTTTATATGAGTTGTTGTGATAA
1 CATTTTATACGAGCTGTTGTGATAA
*
312240 CATTTTATACGAGCTGTTGTGATAG
1 CATTTTATACGAGCTGTTGTGATAA
312265 CATTT
1 CATTT
312270 GTGCATAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.45
Consensus pattern (25 bp):
CATTTTATACGAGCTGTTGTGATAA
Found at i:313765 original size:24 final size:24
Alignment explanation
Indices: 313732--313778 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
313722 TTTATTAGTT
*
313732 TAATTTAATATATAGAATTATTAA
1 TAATTAAATATATAGAATTATTAA
* *
313756 TAATTAAATATGTAGTATTATTA
1 TAATTAAATATATAGAATTATTA
313779 TATATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
TAATTAAATATATAGAATTATTAA
Found at i:315648 original size:23 final size:22
Alignment explanation
Indices: 315622--315679 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
315612 GGTTCTAAGC
*
315622 GGTCATTCGGGACAACTCTACGT
1 GGTCATTCGGGACAA-TATACGT
* *
315645 GGTCATTCGAGAC-ATATATGT
1 GGTCATTCGGGACAATATACGT
*
315666 GGTCCTTCGGGACA
1 GGTCATTCGGGACA
315680 TTCTATGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 16 0.55
22 1 0.03
23 12 0.41
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (22 bp):
GGTCATTCGGGACAATATACGT
Found at i:315669 original size:21 final size:22
Alignment explanation
Indices: 315643--315689 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
315633 ACAACTCTAC
315643 GTGGTCATTCGAGACA-TATAT
1 GTGGTCATTCGAGACATTATAT
* * *
315664 GTGGTCCTTCGGGACATTCTAT
1 GTGGTCATTCGAGACATTATAT
315686 GTGG
1 GTGG
315690 CACTTCGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (22 bp):
GTGGTCATTCGAGACATTATAT
Found at i:315703 original size:22 final size:23
Alignment explanation
Indices: 315661--315717 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
315651 TCGAGACATA
315661 TATGTGGTC-CTTCGGGACA-TTC
1 TATGTGG-CACTTCGGGACATTTC
315683 TATGTGGCACTTCGGTG-CATTTC
1 TATGTGGCACTTCGG-GACATTTC
*
315706 TACGTGGCACTT
1 TATGTGGCACTT
315718 ATGTATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 1 0.03
22 15 0.48
23 15 0.48
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (23 bp):
TATGTGGCACTTCGGGACATTTC
Found at i:323022 original size:2 final size:2
Alignment explanation
Indices: 323015--323050 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
323005 CTTAGTCGCC
323015 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
323051 GGTTTACTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:324317 original size:17 final size:18
Alignment explanation
Indices: 324296--324338 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
324286 TTAATTTTTT
*
324296 TAATTTAATAATTACTTA
1 TAATTTAATAATTACTCA
*
324314 -AATTTCA-AATTACTCA
1 TAATTTAATAATTACTCA
324330 TAATTTAAT
1 TAATTTAAT
324339 CACTCTAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 4
0.74 0.11 0.15
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTTAATAATTACTCA
Found at i:326564 original size:55 final size:55
Alignment explanation
Indices: 326482--326588 Score: 196
Period size: 55 Copynumber: 1.9 Consensus size: 55
326472 AGAATGTTAA
326482 TTTTTTTGGTTTTATAACTAATTTTAAAATTTTTATTTCCTTTTTTTAAAGCTAT
1 TTTTTTTGGTTTTATAACTAATTTTAAAATTTTTATTTCCTTTTTTTAAAGCTAT
* *
326537 TTTTTTTGTTTTTATAATTAATTTTAAAATTTTTATTTCCTTTTTTTAAAGC
1 TTTTTTTGGTTTTATAACTAATTTTAAAATTTTTATTTCCTTTTTTTAAAGC
326589 CGTTGGACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (55 bp):
TTTTTTTGGTTTTATAACTAATTTTAAAATTTTTATTTCCTTTTTTTAAAGCTAT
Found at i:333118 original size:182 final size:182
Alignment explanation
Indices: 332804--333279 Score: 652
Period size: 182 Copynumber: 2.6 Consensus size: 182
332794 CGATCCAAAT
* * * * * * *
332804 TAAAAAAGTATCGATCCATATCAATATAACATGTAAAAATATCGATAAAACCTGTCA-CGAAAAG
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATAT-GATAAAACCAGT-ATCGAAATG
* * ** *
332868 ATAATACCGATAAA-TCCTTA-CTGGATATATTGAACGTGTCGATACTTTAATATAAGGATCGAC
64 ATAAAACCGGTAAAGAGC-TACCT-GATATATTGAAAGTGTCGATACTTTAATATAAGGATCGAC
332931 ACTTTGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACGTTA
127 ACTTTGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACGTTA
* * *
332987 TAAAAATGTATCGATACACAACGATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCGAAATGAT
* * *
333052 AAAACCGGTAAAGAGCTACCTGATATATTTAAAGTGTCGGTACTTTAATATAAGTATCGACACTT
66 AAAACCGGTAAAGAGCTACCTGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
333117 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATATAGTGTCGATACTTTA
131 TGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACGTTA
* * *
333169 TAAAAATGTATCGATCCGCAACGATATAACAGGTAAAAATATGATAAAACTAGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCGAAATGAT
* * *
333234 AAAACCCGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT
66 AAAACCGGTAAAGAGCTACCTGATATATTGAAAGTGTCGATACTTT
333280 CATAAGTACG
Statistics
Matches: 259, Mismatches: 31, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
181 1 0.00
182 219 0.85
183 39 0.15
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCGAAATGAT
AAAACCGGTAAAGAGCTACCTGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
TGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACGTTA
Found at i:335101 original size:19 final size:22
Alignment explanation
Indices: 335053--335112 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
335043 TTTTTTGTGT
335053 TTTTATATAAAATGATAGTATAA
1 TTTTATATAAAAT-ATAGTATAA
335076 TTATTATATAAAAT-TA-TA-AA
1 TT-TTATATAAAATATAGTATAA
335096 TTTTAT-TATAAATATAG
1 TTTTATATA-AAATATAG
335113 GTTGCATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 6 0.18
21 2 0.06
22 2 0.06
23 2 0.06
24 11 0.33
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTTATATAAAATATAGTATAA
Found at i:335404 original size:15 final size:15
Alignment explanation
Indices: 335384--335416 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
335374 TGGTTGTATT
335384 GGGGGATGAT-GGTGA
1 GGGGGATG-TCGGTGA
335399 GGGGGATGTCGGTGA
1 GGGGGATGTCGGTGA
335414 GGG
1 GGG
335417 AAAATAGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.15, C:0.03, G:0.64, T:0.18
Consensus pattern (15 bp):
GGGGGATGTCGGTGA
Found at i:335523 original size:21 final size:21
Alignment explanation
Indices: 335499--335542 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
335489 AAGACAATTA
*
335499 AGAGTTGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
335520 AGAGTCGAAGATATACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
335541 AG
1 AG
335543 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.32, T:0.20
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:335614 original size:33 final size:33
Alignment explanation
Indices: 335577--335642 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
335567 AAATAGATGG
*
335577 AGTGGTAAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTAAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
335610 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTAAAAGAAGTAGAGGTGTTAAGGGGTGA
335643 TCTTAAGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (33 bp):
AGTGGTAAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:335836 original size:16 final size:17
Alignment explanation
Indices: 335801--335839 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
335791 TATGTAGAGC
*
335801 AAAAATATGATGAACTGA
1 AAAAATATGAAGAAC-GA
335819 AAAAATATGAAGAA-GA
1 AAAAATATGAAGAACGA
335835 AAAAA
1 AAAAA
335840 GGGAGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
18 13 0.65
ACGTcount: A:0.67, C:0.03, G:0.15, T:0.15
Consensus pattern (17 bp):
AAAAATATGAAGAACGA
Found at i:336916 original size:17 final size:16
Alignment explanation
Indices: 336875--336918 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
336865 ATGTAAATTA
336875 TAATGCATAATTTTTT
1 TAATGCATAATTTTTT
*
336891 TGGAT-CATAACTTTTTT
1 T-AATGCATAA-TTTTTT
336908 TAATGCATAAT
1 TAATGCATAAT
336919 AAAATATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (16 bp):
TAATGCATAATTTTTT
Found at i:337455 original size:19 final size:19
Alignment explanation
Indices: 337427--337473 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
337417 ATGTAGGGTT
*
337427 ATTTTTTATAAGATTTATA
1 ATTTTGTATAAGATTTATA
337446 ATTTTGTATAAGATTTATA
1 ATTTTGTATAAGATTTATA
337465 ATTTTGTAT
1 ATTTTGTAT
337474 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (19 bp):
ATTTTGTATAAGATTTATA
Found at i:338083 original size:200 final size:201
Alignment explanation
Indices: 337760--338855 Score: 1681
Period size: 200 Copynumber: 5.6 Consensus size: 201
337750 ACATATGCGT
* * *
337760 CCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
* *
337825 GAATAGGTCTACAACATGTATCGACACATTTTTAATTTTGCGTCGATACTTTTGGTCCAGAATGG
66 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
*
337890 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAACGTGTCGATCCCAAAAACAT
131 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACAT
*
337955 AAAAAC
196 CAAAAC
*
337961 CCATAATTATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
* *
338026 G-ATAGGTCAACAACATGTATCGATACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
66 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
* * *
338090 ATTCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGCCGACCCCAAAAACAT
131 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACAT
338155 CAAAAC
196 CAAAAC
*
338161 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAT-AATATACCAGTTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
*
338225 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATATTTTTGGTCCAGAATGG
66 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
* *
338290 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGAT-C----CCAAAAA---T--AT--C-GAAAC-T
131 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACAT
338341 ------
196 CAAAAC
338341 -CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
*
338405 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTT-TGTCGAAACTTTTGGTCCAGAATGG
66 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
338469 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACAT
131 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACAT
*
338534 CGAAAC
196 CAAAAC
338540 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
* * *
338605 GAATAAGTCTACAACATGTAGCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGA
66 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
* * * *
338670 ATGCCAAAAAGGGTGCAAC-CATAAAGTGTCGATACATTTAT-AAAATGTATCGATCCTAGAAAC
131 ATGCCAAAAAGGGTG-AACGCATAAAGTGTCGATACATTT-TCAAAAAGTGTCGATCCCAAAAAC
** *
338733 AT-ATGCAT
194 ATCA-AAAC
*
338741 CCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
*
338806 GAAT-GAGTCTACAACATGTAGCGACACTTTTTTAATTTTGTGTCGATACT
66 GAATAG-GTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACT
338856 AATTCAAATA
Statistics
Matches: 825, Mismatches: 42, Indels: 56
0.89 0.05 0.06
Matches are distributed among these distances:
179 99 0.12
180 59 0.07
184 6 0.01
186 1 0.00
187 5 0.01
188 1 0.00
189 2 0.00
190 1 0.00
191 1 0.00
192 4 0.00
193 1 0.00
195 6 0.01
199 21 0.03
200 361 0.44
201 253 0.31
202 4 0.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (201 bp):
CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGA
GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACAT
CAAAAC
Found at i:338459 original size:179 final size:180
Alignment explanation
Indices: 338133--338855 Score: 887
Period size: 201 Copynumber: 3.8 Consensus size: 180
338123 ACATTTTCAA
* * *
338133 AAAGTGCCGACCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
* *
338198 CCGGTAT-AATATACCAGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATT
66 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTAGCGACACTTTTTTAATT
*
338262 TTGTGTCGATATTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
131 TTGTGTCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
* *
338312 AAAGTGTCGATCCCAAAAATATCGAAACTCATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
*
338377 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATT
66 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTAGCGACACTTTTTTAATT
*
338442 TT-TGTCGAAACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
131 TTGTGTCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
338491 AAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
1 AAA--GT-G------------------TCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
*
338556 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAAGTCTACAACA
45 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACA
*
338621 TGTAGCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGC
110 TGTAGCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTG-
338686 AAC-CAT
174 AACGCAT
** *
338692 AAAGTGTCGATACATTTATAAAATGTATCGATCCTAGAAACATATGCATCCATAAGTATAATGTA
1 AAAGTGTCGAT-C----CCAAAA---A-C-AT-C--G--A-A-A--C--CCATAATTATAATGTA
338757 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAAT-GAGTCTACAAC
45 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAG-GTCTACAAC
338821 ATGTAGCGACACTTTTTTAATTTTGTGTCGATACT
109 ATGTAGCGACACTTTTTTAATTTTGTGTCGATACT
338856 AATTCAAATA
Statistics
Matches: 480, Mismatches: 18, Indels: 70
0.85 0.03 0.12
Matches are distributed among these distances:
179 115 0.24
180 63 0.13
181 3 0.01
182 1 0.00
185 4 0.01
188 1 0.00
189 1 0.00
190 2 0.00
191 1 0.00
193 1 0.00
195 1 0.00
196 1 0.00
197 1 0.00
198 1 0.00
199 3 0.01
200 122 0.25
201 156 0.32
202 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (180 bp):
AAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTAGCGACACTTTTTTAATT
TTGTGTCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
Found at i:338789 original size:201 final size:201
Alignment explanation
Indices: 338312--338855 Score: 889
Period size: 201 Copynumber: 2.7 Consensus size: 201
338302 GTGAACGCAT
* * *
338312 AAAGTGTCGATCCCAAAAATATCGAAACTCATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
* *
338377 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATT
66 CCGGTATAAATATACCGGTTTTATGAGAGAATAAGTCTACAACATGTAGCGACACTTTTTTAATT
* *
338442 TT-TGTCGAAACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACAT
131 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACAT
338506 TTTCAA
196 TTTCAA
*
338512 AAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
338577 CCGGTATAAATATACCGGTTTTATGAGAGAATAAGTCTACAACATGTAGCGACACTTTTTTAATT
66 CCGGTATAAATATACCGGTTTTATGAGAGAATAAGTCTACAACATGTAGCGACACTTTTTTAATT
338642 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAAC-CATAAAGTGTCGATACA
131 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTG-AACGCATAAAGTGTCGATACA
338706 TTTAT-AA
195 TTT-TCAA
* * * * * * *
338713 AATGTATCGATCCTAGAAACATATG-CATCCATAAGTATAATGTAATAGGTAAATTTACAATGTA
1 AAAGTATCGATCCCAAAAACAT-CGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTA
*
338777 ACCGGTATAAATATACCGGTTTTATGAGAGAATGAGTCTACAACATGTAGCGACACTTTTTTAAT
65 ACCGGTATAAATATACCGGTTTTATGAGAGAATAAGTCTACAACATGTAGCGACACTTTTTTAAT
338842 TTTGTGTCGATACT
130 TTTGTGTCGATACT
338856 AATTCAAATA
Statistics
Matches: 325, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
200 128 0.39
201 192 0.59
202 5 0.02
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (201 bp):
AAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
CCGGTATAAATATACCGGTTTTATGAGAGAATAAGTCTACAACATGTAGCGACACTTTTTTAATT
TTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACAT
TTTCAA
Found at i:340347 original size:18 final size:18
Alignment explanation
Indices: 340306--340341 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
340296 ACCAAGCGGT
*
340306 CAATAAAGATGACGATGA
1 CAATGAAGATGACGATGA
*
340324 CAATGAAGATTACGATGA
1 CAATGAAGATGACGATGA
340342 TGATGATGAT
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:0.47, C:0.11, G:0.22, T:0.19
Consensus pattern (18 bp):
CAATGAAGATGACGATGA
Found at i:341857 original size:51 final size:53
Alignment explanation
Indices: 341802--341911 Score: 140
Period size: 51 Copynumber: 2.1 Consensus size: 53
341792 AGAATGGATG
*
341802 CCAAAAAGGG-TGAAC-CTACAAAGTGTCGATACATTT-TTATAGAGTGTCGAT-
1 CCAAAAAGGGTTGAACGC-ACAAAGTGTCGATACATTTATTA-AAAGTGTCGATC
* *
341853 CC-AAAAGGGTTGCACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATC
1 CCAAAAAGGGTTGAACGCACAAAGTGTCGATACATTTATTAAAAGTGTCGATC
341905 CCAAAAA
1 CCAAAAA
341912 CATCGAAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
50 7 0.14
51 34 0.67
52 6 0.12
53 4 0.08
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (53 bp):
CCAAAAAGGGTTGAACGCACAAAGTGTCGATACATTTATTAAAAGTGTCGATC
Found at i:345147 original size:200 final size:197
Alignment explanation
Indices: 344747--345451 Score: 766
Period size: 200 Copynumber: 3.5 Consensus size: 197
344737 ACCTAAATAT
* * *
344747 GTGTCGATACATTT-TATACAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* * *
344810 TAGGTAAATTAACAATGTAACCGATATAAATATACCGG-TTAATTAGAAAATAGGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTC-ACATAAT
* * * *
344874 GTATCGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGGATGAAT-GCACAAACGAGGTGC
128 GTATCGACACTTGT-TAATTTGTGTCAATACTT-TTGTCCAGAATGAATACCA-AAAAG-GGTGC
344938 -ACGCATAAA
189 AAC-CATAAA
* *
344947 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAATATCGAAACCGATAATTATAATGTATTA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
345012 GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGATAAAATAGGTCAGCATCAA-A
66 GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCA-CAT-AATG
*
345076 TATCGACACTTGCTAAATTTGTGTCAATACTTTTGGTCCAGAATGAATACCAAAAAGGGTGCAAC
129 TATCGACACTTG-TTAATTTGTGTCAATACTTTT-GTCCAGAATGAATACCAAAAAGGGTGCAAC
345141 CATAAA
192 CATAAA
* ** * *
345147 GTGTCGATACATTTATAAAAAGTATCGATCCCGGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
345212 GGTAAATTTTCAATATAACC-AGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAAATAATG
66 GGTAAATTTACAATGTAACCGA-TATAAATATACCGGTTTTATGAGAAAATAGGTC-ACATAATG
* * * **
345276 TATCGACTCGTTGTTAGTTTGTGTCAATACTTTTTTCCAGAATGAAATATGAGTGCCCAACCA-G
129 TATCGACAC-TTGTTAATTTGTGTCAATACTTTTGTCCAGAATG--A-AT-A----CCAAAAAGG
*
345340 GTGCAAGCATAAA
185 GTGCAACCATAAA
* ** * *
345353 GTGTCGATACATTTA--AAATTGTATCGATCTAAAAAACATCGTAACCGATAATAATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
345416 AGGTAAATTTGA-AAAGTTACCGGTATAAATATACCG
65 AGGTAAATTT-ACAATGTAACCGATATAAATATACCG
345452 ATTTACTTCA
Statistics
Matches: 432, Mismatches: 49, Indels: 43
0.82 0.09 0.08
Matches are distributed among these distances:
199 12 0.03
200 239 0.55
201 73 0.17
202 7 0.02
203 1 0.00
204 3 0.01
205 64 0.15
206 28 0.06
207 5 0.01
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCACATAATGTA
TCGACACTTGTTAATTTGTGTCAATACTTTTGTCCAGAATGAATACCAAAAAGGGTGCAACCATA
AA
Found at i:345630 original size:23 final size:23
Alignment explanation
Indices: 345557--345621 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
345547 TGCCTATTTT
345557 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
345580 ATTATATAAGTGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
345603 ATTATATAAGCGCTACCTA
1 ATTATATAAGCGCTACCTA
345622 ATATGTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:349391 original size:13 final size:13
Alignment explanation
Indices: 349373--349401 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
349363 ACCACAATTT
349373 ATGGACAGCATCC
1 ATGGACAGCATCC
349386 ATGGACAGCATCC
1 ATGGACAGCATCC
349399 ATG
1 ATG
349402 AAGGGTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.17
Consensus pattern (13 bp):
ATGGACAGCATCC
Found at i:351464 original size:10 final size:11
Alignment explanation
Indices: 351430--351461 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
351420 ATAATCATAT
*
351430 TATTTAAAAAA
1 TATTTAGAAAA
351441 TATTTAGAAAA
1 TATTTAGAAAA
351452 TATTTAGAAA
1 TATTTAGAAA
351462 TATCAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (11 bp):
TATTTAGAAAA
Found at i:353089 original size:3 final size:3
Alignment explanation
Indices: 353081--353151 Score: 108
Period size: 3 Copynumber: 23.7 Consensus size: 3
353071 GGCCCGTTTG
* *
353081 TAA TAA TAA -AA TAA TAA TAA AAA TAA TAA TAA TAA TAA TAA TCA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
353128 TAA TAA TAA TAAA TAA TAA TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TA
353152 GTAAATGGAG
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 57 0.92
4 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:353504 original size:17 final size:17
Alignment explanation
Indices: 353482--353537 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
353472 TTGAACAAGC
353482 TCTTCTTATTATGAACT
1 TCTTCTTATTATGAACT
*
353499 TCTTCTTCTTCAGATGAA-T
1 TCTTCTTATT---ATGAACT
*
353518 TCTTCTCATTATGAACT
1 TCTTCTTATTATGAACT
353535 TCT
1 TCT
353538 CTGGAAAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 5 0.16
17 13 0.41
19 9 0.28
20 5 0.16
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (17 bp):
TCTTCTTATTATGAACT
Found at i:353703 original size:116 final size:116
Alignment explanation
Indices: 353465--354259 Score: 979
Period size: 116 Copynumber: 7.0 Consensus size: 116
353455 TAGAATTATG
* ** *
353465 CAAAAAGTTGAACAAGCTCTTCTTATTATGAA---CTTCTTC-TTCTTCAGATGA--A-TTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
* * *
353523 TCATTATGAACT-T-CTCTGGAAAAGCTT-CTCCAT-AAAGTGATGGATTTGAG
66 TCATTATGAACTCTAC-CTGGAAAAG-TTAATCCATCAAA-TGATGGATTTAAA
*
353573 CAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
* * *
353638 TCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAA
66 TCATTATGAACTCTACCTGGAAAAGTTAATCCATCAAATGATGGATTTAAA
* * * * * *
353689 CAAAAGGTTGAACAAATTATTCTTATAATGAACTTCTTATTCCTTCTTCAGAT---GAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
* * * *
353751 TCATTATGAACT-TTCTCTGGAAAAGTTGATCCATCAAATGATGGATTTCAG
66 TCATTATGAACTCTAC-CTGGAAAAGTTAATCCATCAAATGATGGATTTAAA
*
353802 CAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
* * *
353867 TCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAA
66 TCATTATGAACTCTACCTGGAAAAGTTAATCCATCAAATGATGGATTTAAA
*
353918 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTT-TTC--AT-ATGAGTTCTT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT-CTTTCTTCAGATGACGAGTTCTT
* * * * *
353979 CTCATTATGAACT-TTCTCTGGAAAAGTTGATTCATCAAATGATGGATTTGAG
65 CTCATTATGAACTCTAC-CTGGAAAAGTTAATCCATCAAATGATGGATTTAAA
* *
354031 CAAAAGATTGAACAACTTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
* * *
354096 TCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAA
66 TCATTATGAACTCTACCTGGAAAAGTTAATCCATCAAATGATGGATTTAAA
* * *
354147 CAAAAGGTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA-A--ATGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
* * * **
354209 TCATTATGAACTCGAACTGGAAAAGTTGATCCATTGAATGATGGATTTAAA
66 TCATTATGAACTCTACCTGGAAAAGTTAATCCATCAAATGATGGATTTAAA
354260 TCTTTGCTAA
Statistics
Matches: 591, Mismatches: 73, Indels: 41
0.84 0.10 0.06
Matches are distributed among these distances:
108 27 0.05
111 7 0.01
112 20 0.03
113 241 0.41
114 3 0.01
115 23 0.04
116 258 0.44
117 12 0.02
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (116 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
TCATTATGAACTCTACCTGGAAAAGTTAATCCATCAAATGATGGATTTAAA
Found at i:353808 original size:229 final size:229
Alignment explanation
Indices: 353465--354256 Score: 1292
Period size: 229 Copynumber: 3.5 Consensus size: 229
353455 TAGAATTATG
* ** * *
353465 CAAAAAGTTGAACAAGCTCTTCTTATTATGAA---CTTCTT-CTTCTTCAGATGAATTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
353526 TTATGAAC-TTCTCTGGAAAAGCTT-CTCCAT-AAAGTGATGGATTTGAGCAAAAGATTGAACAA
66 TTATGAACTTTCTCTGGAAAAG-TTGATCCATCAAA-TGATGGATTTGAGCAAAAGATTGAACAA
353588 ATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTA
129 ATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTA
353653 CCTGGCAATGTTAATCCATCAAATGATGAATTTAAA
194 CCTGGCAATGTTAATCCATCAAATGATGAATTTAAA
* * * *
353689 CAAAAGGTTGAACAAATTATTCTTATAATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
353754 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGGATTTCAGCAAAAGATTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAAT
353819 TCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
131 TCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
353884 TGGCAATGTTAATCCATCAAATGATGAATTTAAA
196 TGGCAATGTTAATCCATCAAATGATGAATTTAAA
* * *
353918 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTTTTCATATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
353983 TTATGAACTTTCTCTGGAAAAGTTGATTCATCAAATGATGGATTTGAGCAAAAGATTGAACAACT
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAAT
354048 TCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
131 TCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
354113 TGGCAATGTTAATCCATCAAATGATGAATTTAAA
196 TGGCAATGTTAATCCATCAAATGATGAATTTAAA
* * *
354147 CAAAAGGTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** **
354212 TTATGAACTCGAACTGGAAAAGTTGATCCATTGAATGATGGATTT
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGGATTT
354257 AAATCTTTGC
Statistics
Matches: 532, Mismatches: 29, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
224 27 0.05
227 5 0.01
228 32 0.06
229 465 0.87
230 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (229 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
TGGCAATGTTAATCCATCAAATGATGAATTTAAA
Found at i:355449 original size:83 final size:83
Alignment explanation
Indices: 354982--355445 Score: 777
Period size: 83 Copynumber: 5.6 Consensus size: 83
354972 GGTTCCTACT
* * *
354982 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATT-ACTCTTCTAAA
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCATATTCA-TCTTCCAAT
355046 TTCAATGATTGGTTCTGCC
65 TTCAATGATTGGTTCTGCC
* * * *
355065 AAACCAGGTCAGATAACTCAAAGAACACTTCCAAAAGATGCTATGAGCATATTCATCTTCTAATT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCATATTCATCTTCCAATT
*
355130 TCAATGATTGATTCTGCC
66 TCAATGATTGGTTCTGCC
* *
355148 AAACCAGATCAGATAACTCAAAGGACACTTCCAGAAGATATTATGAGCATATTCATCTTCCAATT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCATATTCATCTTCCAATT
355213 TCAATGATTGGTTCTGCC
66 TCAATGATTGGTTCTGCC
* *
355231 AAACCAGATCAGATAACGCAAAGGACACTTCCAGAAGATACTATGAGCATATTCATCTTCCAATT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCATATTCATCTTCCAATT
355296 TCAATGATTGGTTCTGCC
66 TCAATGATTGGTTCTGCC
* *
355314 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAATT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCATATTCATCTTCCAATT
*
355379 TCAATGATTGATTCTGCC
66 TCAATGATTGGTTCTGCC
355397 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCA
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCA
355446 CATTGCATTT
Statistics
Matches: 361, Mismatches: 19, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
83 360 1.00
84 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (83 bp):
AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCATATTCATCTTCCAATT
TCAATGATTGGTTCTGCC
Found at i:356615 original size:16 final size:15
Alignment explanation
Indices: 356596--356640 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
356586 TGACCCCCCT
356596 TTTTCTTTTTTCTTTC
1 TTTTCTTTTTT-TTTC
356612 TTTTC-TTTTTTTTC
1 TTTTCTTTTTTTTTC
356626 TTTTCTCTTTTTTTT
1 TTTTCT-TTTTTTTT
356641 ATTATTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.33
15 5 0.19
16 13 0.48
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTTTTTTTTC
Found at i:356625 original size:14 final size:14
Alignment explanation
Indices: 356596--356639 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 14
356586 TGACCCCCCT
356596 TTTTCTTTTTTCTTTC
1 TTTTC-TTTTT-TTTC
356612 TTTTCTTTTTTTTC
1 TTTTCTTTTTTTTC
356626 TTTTCTCTTTTTTT
1 TTTTCT-TTTTTTT
356640 TATTATTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.37
15 12 0.44
16 5 0.19
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTTTTTC
Found at i:363977 original size:15 final size:15
Alignment explanation
Indices: 363954--363985 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
363944 TGAAATGAAT
363954 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
363969 AATGCATGTATGCAA
1 AATGAATGTATGCAA
363984 AA
1 AA
363986 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:367234 original size:10 final size:11
Alignment explanation
Indices: 367207--367231 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
367197 ATTATTTAAA
367207 AAAATATTTAG
1 AAAATATTTAG
367218 AAAATATTTAG
1 AAAATATTTAG
367229 AAA
1 AAA
367232 TATCAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAATATTTAG
Found at i:368862 original size:3 final size:3
Alignment explanation
Indices: 368854--368921 Score: 93
Period size: 3 Copynumber: 22.7 Consensus size: 3
368844 GGCCCGTTTG
* * *
368854 TAA TAA TAA -AA TAA TAA TAA AAA TGA TAA TAA TAA TAA TCA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
368901 TAA TAA TAAA TAA TAA TAA TA
1 TAA TAA T-AA TAA TAA TAA TA
368922 GTAAATGGAG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:369370 original size:20 final size:21
Alignment explanation
Indices: 369330--369374 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
369320 ATTACAACTC
*
369330 TAAATTTTAAGTATCAAATAT
1 TAAATTTTAACTATCAAATAT
*
369351 TAAATTTTGACTAT-AAATAT
1 TAAATTTTAACTATCAAATAT
369371 TAAA
1 TAAA
369375 CGATAAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
TAAATTTTAACTATCAAATAT
Found at i:376557 original size:18 final size:18
Alignment explanation
Indices: 376534--376578 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
376524 TAGTTTGCTT
376534 AATGAACTAACATTATTC
1 AATGAACTAACATTATTC
*
376552 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
376570 AATGAACTA
1 AATGAACTA
376579 GATATATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Done.