Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1213.1
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: 537265
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 9431 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:114 original size:21 final size:20
Alignment explanation
Indices: 75--113 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
65 GTAATGTATC
*
75 AATTTTTAAAAATATATATA
1 AATTTTAAAAAATATATATA
95 AATTTT-AAAAATATATATA
1 AATTTTAAAAAATATATATA
114 TTAAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTTAAAAAATATATATA
Found at i:151 original size:9 final size:9
Alignment explanation
Indices: 137--217 Score: 60
Period size: 9 Copynumber: 9.0 Consensus size: 9
127 TAAATATTAA
137 TAAGTTATG
1 TAAGTTATG
146 TAAGTTATG
1 TAAGTTATG
* *
155 TATTA-TAAATT
1 TA--AGT-TATG
*
166 TAAATTATG
1 TAAGTTATG
175 TAAGTTATG
1 TAAGTTATG
184 -AA-TTATG
1 TAAGTTATG
191 TAAGTTATG
1 TAAGTTATG
* * *
200 CAAATTACG
1 TAAGTTATG
209 TAAGTTATG
1 TAAGTTATG
218 AAATTTGAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
7 5 0.09
8 4 0.07
9 39 0.71
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:189 original size:16 final size:16
Alignment explanation
Indices: 141--219 Score: 83
Period size: 16 Copynumber: 5.0 Consensus size: 16
131 TATTAATAAG
*
141 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGAA
* *
157 TTA--TAAATT-TAAA
1 TTATGTAAGTTATGAA
170 TTATGTAAGTTATGAA
1 TTATGTAAGTTATGAA
186 TTATGTAAGTTATGCAAA
1 TTATGTAAGTTATG--AA
*
204 TTACGTAAGTTATGAA
1 TTATGTAAGTTATGAA
220 ATTTGAACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 5 0.10
16 22 0.42
18 15 0.29
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (16 bp):
TTATGTAAGTTATGAA
Found at i:3054 original size:6 final size:7
Alignment explanation
Indices: 3034--3068 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
3024 CTATAGAAAA
3034 CTAAACC
1 CTAAACC
3041 CTAAACC
1 CTAAACC
3048 C-AAACC
1 CTAAACC
3054 CTAAACC
1 CTAAACC
*
3061 GTAAACC
1 CTAAACC
3068 C
1 C
3069 CAAATCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.43, C:0.43, G:0.03, T:0.11
Consensus pattern (7 bp):
CTAAACC
Found at i:3054 original size:13 final size:13
Alignment explanation
Indices: 3036--3060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3026 ATAGAAAACT
3036 AAACCCTAAACCC
1 AAACCCTAAACCC
3049 AAACCCTAAACC
1 AAACCCTAAACC
3061 GTAAACCCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.44, G:0.00, T:0.08
Consensus pattern (13 bp):
AAACCCTAAACCC
Found at i:3976 original size:73 final size:74
Alignment explanation
Indices: 3826--3979 Score: 204
Period size: 73 Copynumber: 2.1 Consensus size: 74
3816 GTGCTGTATT
* * * *
3826 AAAAACGCCGCTAAATCCCCCGAAAGGTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTTCGG
1 AAAAACGCCGCTAAATCCCCCAAAAGGTAAAAAAACGGCGTCGTTGGGCTTAGGTCTTTTTTCGG
* *
3891 TGCTTTACC
66 CGCATTACC
*
3900 AAAAACGCCGCTAAAT-CCCCAAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGGT-TTTTTTGCG
1 AAAAACGCCGCTAAATCCCCCAAAAGGTAAAAAAACGGCGTCGTTGGGCTTAGGTCTTTTTT-CG
**
3963 GCGCATTGTC
65 GCGCATTACC
3973 AAAAACG
1 AAAAACG
3980 TCGTTAAAGC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
72 6 0.09
73 48 0.69
74 16 0.23
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (74 bp):
AAAAACGCCGCTAAATCCCCCAAAAGGTAAAAAAACGGCGTCGTTGGGCTTAGGTCTTTTTTCGG
CGCATTACC
Found at i:4093 original size:188 final size:188
Alignment explanation
Indices: 3765--4106 Score: 440
Period size: 188 Copynumber: 1.8 Consensus size: 188
3755 AGACAAATAA
* * * *
3765 TTTTTTTGCGGCGCTTTCCCAAAAACACTGCTAAATCCCAGAGCATTAGCGGTGCTGTATTAAAA
1 TTTTTTTGCGGCGCATTCCCAAAAACACTGCTAAAGCCCAGAGCATTAGCAGCGCTGTATTAAAA
* * * * * *
3830 ACGCCGCTAAATCCCCCGAAAGGTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTTCGGTGCT
66 ACGCCACTAAATCCCCCGAAAGATCAGAAAACAGCATCGTTGGGCTTAGGTCTTTTTTCGGCGCT
3895 TTACCAAAAACGCCGCTAAATCCCCAAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGG
131 TTACCAAAAACGCCGCTAAATCCCCAAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGG
** * * * * *
3953 TTTTTTTGCGGCGCATTGTCAAAAAC-GTCGTTAAAGCCCTGAGCATTAGCAGCGCTTTCTTAAA
1 TTTTTTTGCGGCGCATTCCCAAAAACACT-GCTAAAGCCCAGAGCATTAGCAGCGCTGTATTAAA
* * *
4017 AATGCCACTAAAT-CCCCGAAAAGATTAGAAAATAGCATCGTTGGGCTTAGGT-TTTTTTGCGGC
65 AACGCCACTAAATCCCCCG-AAAGATCAGAAAACAGCATCGTTGGGCTTAGGTCTTTTTT-CGGC
4080 GCTTT-CTCAAAAACGCCGCTAAATCCC
128 GCTTTAC-CAAAAACGCCGCTAAATCCC
4107 TGAGCATTAG
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
187 13 0.10
188 117 0.90
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (188 bp):
TTTTTTTGCGGCGCATTCCCAAAAACACTGCTAAAGCCCAGAGCATTAGCAGCGCTGTATTAAAA
ACGCCACTAAATCCCCCGAAAGATCAGAAAACAGCATCGTTGGGCTTAGGTCTTTTTTCGGCGCT
TTACCAAAAACGCCGCTAAATCCCCAAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGG
Found at i:4216 original size:114 final size:115
Alignment explanation
Indices: 3912--4220 Score: 361
Period size: 115 Copynumber: 2.7 Consensus size: 115
3902 AAACGCCGCT
* * * * * * *
3912 AAATCCCC-AAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGGTTTTTTTGCGGCGCATTGTCAAA
1 AAATCCCCGAAAAGATCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
* * * * ** *
3976 AACGTCGTTAAAGCCCTGAGCATTAGCAGCGCTTTCTTAAAAATGCCACT
66 AACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTGAAAAACACCACC
* * *
4026 AAATCCCCGAAAAGATTAGAAAATAGCATCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
1 AAATCCCCGAAAAGATCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
* *
4091 AACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTGAAAAACACCGCC
66 AACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTGAAAAACACCACC
* * * * * *
4141 AAATCCCTG-AATGCTCAGAAAACAGCGTCATTGGGATTAGGTTTTTTTACGGCGCTTTCTCAAA
1 AAATCCCCGAAAAGATCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
* *
4205 ATCGCCACTAAATCCC
66 AACGCCGCTAAATCCC
4221 CGAATGCTCA
Statistics
Matches: 165, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
114 69 0.42
115 96 0.58
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (115 bp):
AAATCCCCGAAAAGATCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
AACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTGAAAAACACCACC
Found at i:4218 original size:73 final size:73
Alignment explanation
Indices: 4117--4296 Score: 252
Period size: 73 Copynumber: 2.5 Consensus size: 73
4107 TGAGCATTAG
* * * *
4117 CGGCGCTTTCTGAAAAACACCGCCAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGATTAGG
1 CGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGACTAGG
4182 TTTTTTTA
66 TTTTTTTA
* * * * * *
4190 CGGCGCTTTCTCAAAATCGCCACTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGG
1 CGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGACTAGG
*
4255 TTTTTTTG
66 TTTTTTTA
*
4263 CGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGA
1 CGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGA
4297 GCATTAGCAG
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 92 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (73 bp):
CGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGACTAGG
TTTTTTTA
Found at i:4287 original size:187 final size:188
Alignment explanation
Indices: 4004--4403 Score: 570
Period size: 187 Copynumber: 2.1 Consensus size: 188
3994 AGCATTAGCA
* * * *
4004 GCGCTTTCTTAAAAAT-GCCACTAAATCCCCGAAAAGATTAGAAAATAGCATCGTTGGGCTTAGG
1 GCGCTTTC-TCAAAATCGCCACTAAATCCCCGAAAAGATCAGAAAACAGCATCGTTGGGCCTAGG
* * * *
4068 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTGAAAA
65 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAA
* *
4133 ACACCGCCAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGATTAGGTTTTTTTACG
130 ACACCGCCAAATCCCCGAATGCTCAGAAAACAGCATCATTGGGATTAGGTTTTTTTACG
* * * *
4192 GCGCTTTCTCAAAATCGCCACTAAATCCCCG-AATGCTCAGAAAACGGCGTCGTTGGGCCTAGGT
1 GCGCTTTCTCAAAATCGCCACTAAATCCCCGAAAAGATCAGAAAACAGCATCGTTGGGCCTAGGT
4256 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAA
66 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAA
* * * ** * *
4321 CACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTTTTTTTGCG
131 CACCGCCAAATCCCCGAATGCTCAGAAAACAGCATCATTGGGATTAGGTTTTTTTACG
* *
4379 GCGCTTTCTCAAAAACGCCGCTAAA
1 GCGCTTTCTCAAAATCGCCACTAAA
4404 GCCCTGAGCA
Statistics
Matches: 188, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
187 165 0.88
188 23 0.12
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (188 bp):
GCGCTTTCTCAAAATCGCCACTAAATCCCCGAAAAGATCAGAAAACAGCATCGTTGGGCCTAGGT
TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAA
CACCGCCAAATCCCCGAATGCTCAGAAAACAGCATCATTGGGATTAGGTTTTTTTACG
Found at i:4317 original size:114 final size:114
Alignment explanation
Indices: 4192--4940 Score: 1204
Period size: 114 Copynumber: 6.6 Consensus size: 114
4182 TTTTTTTACG
* * * * * * * *
4192 GCGCTTTCTCAAAATCGCCACTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGGTT
1 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
4257 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
4306 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
1 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
4371 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
4420 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
1 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
4485 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
4534 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
1 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
4599 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
4648 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
1 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
* *
4713 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCG
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
** * * * *
4762 GCGCTTCCTCAAAAATGCCGTTAAATCCCCGAATGCTTAGAAAATCGTG--TCGTTGGGCTTAGG
1 GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAA-CG-GCATTGTTGGGCTTAGG
* * *
4825 TTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAATG--CTGAGCATTAGCG
64 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
** * * * *
4874 GCGCTTCCGT--AAAACGTCGCTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
1 GCGCTTCC-TCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGT
4937 TTTT
65 TTTT
4941 GTGGTGCTTT
Statistics
Matches: 606, Mismatches: 24, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
109 1 0.00
110 2 0.00
111 47 0.08
112 21 0.03
113 1 0.00
114 531 0.88
115 2 0.00
116 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (114 bp):
GCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTT
TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
Found at i:4484 original size:301 final size:300
Alignment explanation
Indices: 3765--4517 Score: 988
Period size: 301 Copynumber: 2.5 Consensus size: 300
3755 AGACAAATAA
* * * * * * *
3765 TTTTTTTGCGGCGCTTTCCCAAAAACACTGCTAAATCCCAGAGCATTAGCGGTGCTGTATTAAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCT-TCTCAAAA
* * * * *
3830 ACGCCGCTAAATCCCCCGAAAGGTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTTCGGTGCT
65 ACACCGCTAAAT-CCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGT-TTTTTTCGGCGCT
* * *
3895 TTAC-CAAAAACGCCGCTAAATCCCCAAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGGTTTTTT
128 TT-CTCAAAAACGCCGCTAAATCCCCAAAAGCTAAAAAAACGGCGTCGTTGGGCCTAGGTTTTTT
* * * * * **
3959 TGCGGCGCATTGTCAAAAACGTCGTTAAAGCCCTGAGCATTAGCAGCGCTTTCTTAAAAATGCCA
192 TGCGGCGCATTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAACACCA
* *
4024 CTAAATCCCCGAAAAGATTAGAAAATAGCATCGTTGGGCTTAGG
257 CTAAATCCCCGAAAAGATCAGAAAACAGCATCGTTGGGCTTAGG
*
4068 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTGAAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGC-TTCTCAAAA
* * * * *
4133 ACACCGCCAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGATTAGGTTTTTTTACGGCGCTT
65 ACACCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT-CGGCGCTT
* * * * * *
4198 TCTCAAAATCGCCACTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGGTTTTTTTG
129 TCTCAAAAACGCCGCTAAATCCCCAAAAGCTAAAAAAACGGCGTCGTTGGGCCTAGGTTTTTTTG
* *
4263 CGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAACACCGCT
194 CGGCGCATTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAACACCACT
* * * * *
4328 AAATCCCCG-GATGCTCAGAAAACGGCATTGTTGGGCTTAGG
259 AAATCCCCGAAAAGATCAGAAAACAGCATCGTTGGGCTTAGG
* *
4369 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTT-CTCAAAA
* * *
4434 ACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTTTTTTTGCGGCGCTT
65 ACACCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT-CGGCGCTT
4499 TCTCAAAAACGCCGCTAAA
129 TCTCAAAAACGCCGCTAAA
4518 GCCCTGAGCA
Statistics
Matches: 390, Mismatches: 56, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
300 2 0.01
301 164 0.42
302 157 0.40
303 66 0.17
304 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (300 bp):
TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTCTCAAAAA
CACCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTCGGCGCTTTC
TCAAAAACGCCGCTAAATCCCCAAAAGCTAAAAAAACGGCGTCGTTGGGCCTAGGTTTTTTTGCG
GCGCATTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAACACCACTAA
ATCCCCGAAAAGATCAGAAAACAGCATCGTTGGGCTTAGG
Found at i:8000 original size:17 final size:18
Alignment explanation
Indices: 7961--8001 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
7951 TATAAATTTT
*
7961 AAAAGTAAAAACTAAATA
1 AAAAGTAAAAACTAAAAA
*
7979 TAAAGT-AAAACTAAAAA
1 AAAAGTAAAAACTAAAAA
7996 AAAAGT
1 AAAAGT
8002 GAATTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAAGTAAAAACTAAAAA
Found at i:22949 original size:33 final size:33
Alignment explanation
Indices: 22879--23045 Score: 178
Period size: 33 Copynumber: 5.1 Consensus size: 33
22869 GTAGAAGTCA
*
22879 CACCCTCCCTATCAGCTTCTA-CCCTTCAACAT
1 CACCCTCCCAATCAGCTTCTACCCCTTCAACAT
* * *
22911 CACCCTACCCAAT-AGCTTGTACCCTTTCTACAT
1 CACCCT-CCCAATCAGCTTCTACCCCTTCAACAT
* * *
22944 CACCCTCCCCATCAGCTTCTCCCCCTTCAGCAT
1 CACCCTCCCAATCAGCTTCTACCCCTTCAACAT
* * * *
22977 CACCCTCCCCATCAACTTGTACCCCTTCAACTT
1 CACCCTCCCAATCAGCTTCTACCCCTTCAACAT
* *
23010 CACCCTTCCC-ATCAGCTTCTACTCCTTCAAAAT
1 CACCC-TCCCAATCAGCTTCTACCCCTTCAACAT
23043 CAC
1 CAC
23046 TTTCTCCAGC
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
32 18 0.16
33 89 0.80
34 4 0.04
ACGTcount: A:0.22, C:0.47, G:0.04, T:0.28
Consensus pattern (33 bp):
CACCCTCCCAATCAGCTTCTACCCCTTCAACAT
Found at i:22996 original size:66 final size:65
Alignment explanation
Indices: 22879--23045 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 65
22869 GTAGAAGTCA
* * * * *
22879 CACCCTCCCTATCAGCTTCTACCCTTCAACATCACCCTACCCAATAGCTTGTACCCTTTCTACAT
1 CACCCTCCCCATCAGCTTCTCCCCTTCAACATCACCCTACCCAATAACTTGTACCCCTTCAACAT
* *
22944 CACCCTCCCCATCAGCTTCTCCCCCTTCAGCATCACCCT-CCCCATCAACTTGTACCCCTTCAAC
1 CACCCTCCCCATCAGCTTCT-CCCCTTCAACATCACCCTACCCAAT-AACTTGTACCCCTTCAAC
*
23008 TT
64 AT
* * *
23010 CACCCTTCCCATCAGCTTCTACTCCTTCAAAATCAC
1 CACCCTCCCCATCAGCTTCT-CCCCTTCAACATCAC
23046 TTTCTCCAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
65 24 0.28
66 63 0.72
ACGTcount: A:0.22, C:0.47, G:0.04, T:0.28
Consensus pattern (65 bp):
CACCCTCCCCATCAGCTTCTCCCCTTCAACATCACCCTACCCAATAACTTGTACCCCTTCAACAT
Found at i:23105 original size:42 final size:42
Alignment explanation
Indices: 23034--23115 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
23024 GCTTCTACTC
* * *
23034 CTTCAAAATCACTTTCTCCAGCACTCAATAGTAACATATCAT
1 CTTCAAAATCACTCTCCCCAACACTCAATAGTAACATATCAT
23076 CTTCAAAATCACTCTCCCCAACAAC-CAATAGTAACATATC
1 CTTCAAAATCACTCTCCCCAAC-ACTCAATAGTAACATATC
23116 TCCCTCATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.38, C:0.32, G:0.04, T:0.27
Consensus pattern (42 bp):
CTTCAAAATCACTCTCCCCAACACTCAATAGTAACATATCAT
Found at i:25408 original size:3 final size:3
Alignment explanation
Indices: 25400--25430 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25390 GATATCCCAC
25400 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
25431 TCCTTAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:42506 original size:30 final size:30
Alignment explanation
Indices: 42472--42538 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
42462 TTTACACTTC
42472 ACTTGATCCACGAGGAATAAAATTAAGAAG
1 ACTTGATCCACGAGGAATAAAATTAAGAAG
42502 ACTTGATCCACGAGGAATAAAATTAAGAAG
1 ACTTGATCCACGAGGAATAAAATTAAGAAG
42532 ACTTGAT
1 ACTTGAT
42539 GAATAGTGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.22
Consensus pattern (30 bp):
ACTTGATCCACGAGGAATAAAATTAAGAAG
Found at i:46239 original size:21 final size:19
Alignment explanation
Indices: 46203--46241 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
46193 AGTAAGATTA
46203 AATTTCAAATAAAAAAAGT
1 AATTTCAAATAAAAAAAGT
*
46222 AATTTACATAATATAAAAAG
1 AATTT-CA-AATAAAAAAAG
46242 GGTTATAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (19 bp):
AATTTCAAATAAAAAAAGT
Found at i:50427 original size:21 final size:21
Alignment explanation
Indices: 50388--50429 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50378 TTTTCCTAGG
*
50388 ATGTGAATTGGATGGAATTGA
1 ATGTGAATTGGATGAAATTGA
* *
50409 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATGAAATTGA
50430 GTTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGAATTGGATGAAATTGA
Found at i:66385 original size:18 final size:21
Alignment explanation
Indices: 66362--66400 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
66352 GAACCTTGTT
66362 TTTGGTA-A-AATTTG-GCCA
1 TTTGGTACATAATTTGTGCCA
66380 TTTGGTACATAATTTGTGCCA
1 TTTGGTACATAATTTGTGCCA
66401 AGCCACACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 6 0.33
21 4 0.22
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (21 bp):
TTTGGTACATAATTTGTGCCA
Found at i:73150 original size:43 final size:43
Alignment explanation
Indices: 73097--73272 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
73087 TTATATAAAT
* *
73097 AAACGTCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCTCAC
73140 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCCTTTCCCGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGTTCTTTA---GCG--------GCGCTTTTCTCAC
* * * * *
73194 AAACGCCGCTAAAGAACATGTTTTTTAACGGCGATTCTCTCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCTCAC
** *
73237 AAACGCCGCTAAAGGTCATATTCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT
73273 CCTTTACAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
43 67 0.61
46 3 0.03
51 2 0.02
54 37 0.34
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCTCAC
Found at i:75505 original size:9 final size:9
Alignment explanation
Indices: 75488--75817 Score: 121
Period size: 9 Copynumber: 37.8 Consensus size: 9
75478 TATGTATTAG
*
75488 GTAAATTAT
1 GTAAGTTAT
75497 GTAAGTTAT
1 GTAAGTTAT
*
75506 GT--TTTAT
1 GTAAGTTAT
*
75513 ATAAGTTAT
1 GTAAGTTAT
75522 GTAAGTTAT
1 GTAAGTTAT
75531 GT-A-TTAT
1 GTAAGTTAT
*
75538 GTAAGCTAT
1 GTAAGTTAT
*
75547 GTAACTTAT
1 GTAAGTTAT
* *
75556 TTAAGTTAC
1 GTAAGTTAT
*
75565 GTAAGTTGT
1 GTAAGTTAT
75574 GT-A-TTAT
1 GTAAGTTAT
*
75581 GTTAGTTAT
1 GTAAGTTAT
*
75590 GT-A-CTAT
1 GTAAGTTAT
75597 GTAAGTTAT
1 GTAAGTTAT
*
75606 GTGTA-TTAT
1 GT-AAGTTAT
75615 GT-A-TTAT
1 GTAAGTTAT
*
75622 GTATGTTAT
1 GTAAGTTAT
*
75631 GTATAATATTAAT
1 G--TAA-GTT-AT
*
75644 -TAAGTTGT
1 GTAAGTTAT
75652 GTATTA-TGTAT
1 GTA--AGT-TAT
* *
75663 TTAAGTTGT
1 GTAAGTTAT
75672 GT-A-TTAT
1 GTAAGTTAT
75679 GTAAGTTAT
1 GTAAGTTAT
*
75688 GT-ATTTAAGT
1 GTAAGTT-A-T
*
75698 GTATGTTAT
1 GTAAGTTAT
* *
75707 GTAACTTGT
1 GTAAGTTAT
*
75716 GT-A-TAAT
1 GTAAGTTAT
*
75723 GTTAGTTAT
1 GTAAGTTAT
**
75732 CAAAGTTAT
1 GTAAGTTAT
*
75741 GT-A-CTAT
1 GTAAGTTAT
75748 GTAAGTTAT
1 GTAAGTTAT
*
75757 TTAAGTTAT
1 GTAAGTTAT
*
75766 GTAAGTTGT
1 GTAAGTTAT
75775 GT-A-TTAT
1 GTAAGTTAT
75782 GTAAGTTAT
1 GTAAGTTAT
*
75791 -TATGTTATTAT
1 GTAAG---TTAT
75802 GTAAGTTAT
1 GTAAGTTAT
*
75811 GCAAGTT
1 GTAAGTT
75818 TATATATAAG
Statistics
Matches: 235, Mismatches: 51, Indels: 70
0.66 0.14 0.20
Matches are distributed among these distances:
7 47 0.20
8 21 0.09
9 137 0.58
10 10 0.04
11 13 0.06
12 5 0.02
13 2 0.01
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:75507 original size:25 final size:25
Alignment explanation
Indices: 75477--75634 Score: 121
Period size: 25 Copynumber: 6.3 Consensus size: 25
75467 TGATATATAT
* *
75477 TTATGTATTAGGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
75502 TTATGTTTTATATAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
75527 TTATGTATTATGTAAGCTATGTAAC
1 TTATGTATTATGTAAGTTATGTAAG
* * *
75552 TTATTTAAGTTACGTAAGTTGTGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
75577 TTATGTTAGTTATGT-A-CTATGTAAG
1 TTATG-TA-TTATGTAAGTTATGTAAG
*
75602 TTATGTGTATTATGT-A-TTATGTATG
1 TTA--TGTATTATGTAAGTTATGTAAG
75627 TTATGTAT
1 TTATGTAT
75635 AATATTAATT
Statistics
Matches: 108, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
23 9 0.08
24 2 0.02
25 78 0.72
26 5 0.05
27 14 0.13
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.49
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:75537 original size:16 final size:16
Alignment explanation
Indices: 75492--75811 Score: 131
Period size: 16 Copynumber: 18.9 Consensus size: 16
75482 TATTAGGTAA
75492 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* *
75508 TTTATATAAGTTATGT
1 ATTATGTAAGTTATGT
75524 AAGTTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
* * *
75540 AAGCTATGTAACTTATTT
1 -A-TTATGTAAGTTATGT
* *
75558 AAGTTACGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
*
75576 ATTATGTTAGTTATGT
1 ATTATGTAAGTTATGT
*
75592 ACTATGTAAGTTATGTGT
1 ATTATGTAAGTTA--TGT
75610 ATTATGT-A-TTATGT
1 ATTATGTAAGTTATGT
*
75624 ATGTTATGT-A--TA-AT
1 A--TTATGTAAGTTATGT
*
75638 ATTAAT-TAAGTTGTGT
1 ATT-ATGTAAGTTATGT
*
75654 ATTATGTATTTAAGTTGTGT
1 ATTATG----TAAGTTATGT
75674 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
75690 ATTTAAGTGTATGTTATGT
1 A-TT-A-TGTAAGTTATGT
* *
75709 AACTTGTGT-A-TAATGTT
1 -A-TTATGTAAGTTATG-T
**
75726 AGTTATCAAAGTTATGT
1 A-TTATGTAAGTTATGT
* *
75743 ACTATGTAAGTTATTT
1 ATTATGTAAGTTATGT
*
75759 AAGTTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
75777 ATTATGTAAGTTATTATGTT
1 ATTATGTAAG---TTATG-T
75797 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
75812 CAAGTTTATA
Statistics
Matches: 234, Mismatches: 39, Indels: 61
0.70 0.12 0.18
Matches are distributed among these distances:
12 3 0.01
13 3 0.01
14 6 0.03
15 5 0.02
16 103 0.44
17 17 0.07
18 52 0.22
19 15 0.06
20 30 0.13
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.49
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:75668 original size:20 final size:20
Alignment explanation
Indices: 75643--75681 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
75633 ATAATATTAA
75643 TTAAGTTGTGTATTATGTAT
1 TTAAGTTGTGTATTATGTAT
75663 TTAAGTTGTGTATTATGTA
1 TTAAGTTGTGTATTATGTA
75682 AGTTATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (20 bp):
TTAAGTTGTGTATTATGTAT
Found at i:75676 original size:13 final size:13
Alignment explanation
Indices: 75655--75703 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
75645 AAGTTGTGTA
75655 TTATGTATTTAAG
1 TTATGTATTTAAG
*
75668 TTGTGTATTATGTAAG
1 TTATGTA-T-T-TAAG
75684 TTATGTATTTAAG
1 TTATGTATTTAAG
75697 TGTATGT
1 T-TATGT
75704 TATGTAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 11 0.37
14 7 0.23
15 2 0.07
16 10 0.33
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (13 bp):
TTATGTATTTAAG
Found at i:75718 original size:28 final size:29
Alignment explanation
Indices: 75655--75719 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
75645 AAGTTGTGTA
* *
75655 TTATGTATTTAAGTTGTGTATTATGTAAG
1 TTATGTATTTAAGTTGTATATTATGTAAC
*
75684 TTATGTATTTAAG-TGTATGTTATGTAAC
1 TTATGTATTTAAGTTGTATATTATGTAAC
*
75712 TTGTGTAT
1 TTATGTAT
75720 AATGTTAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.26, C:0.02, G:0.20, T:0.52
Consensus pattern (29 bp):
TTATGTATTTAAGTTGTATATTATGTAAC
Found at i:75743 original size:25 final size:25
Alignment explanation
Indices: 75721--75768 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
75711 CTTGTGTATA
*
75721 ATGTTAGTTATCAAAGTTATGTACT
1 ATGTAAGTTATCAAAGTTATGTACT
**
75746 ATGTAAGTTATTTAAGTTATGTA
1 ATGTAAGTTATCAAAGTTATGTA
75769 AGTTGTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (25 bp):
ATGTAAGTTATCAAAGTTATGTACT
Found at i:75764 original size:34 final size:34
Alignment explanation
Indices: 75726--75791 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
75716 GTATAATGTT
75726 AGTTATCAAAGTTATGTACTATGTAAGTTATTTA
1 AGTTATCAAAGTTATGTACTATGTAAGTTATTTA
** * *
75760 AGTTATGTAAGTTGTGTATTATGTAAGTTATT
1 AGTTATCAAAGTTATGTACTATGTAAGTTATT
75792 ATGTTATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (34 bp):
AGTTATCAAAGTTATGTACTATGTAAGTTATTTA
Found at i:75828 original size:12 final size:12
Alignment explanation
Indices: 75813--75841 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
75803 TAAGTTATGC
75813 AAGTTTATATAT
1 AAGTTTATATAT
75825 AAGTTTATATAT
1 AAGTTTATATAT
75837 AAGTT
1 AAGTT
75842 ATGTAAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
AAGTTTATATAT
Found at i:76117 original size:18 final size:18
Alignment explanation
Indices: 76094--76171 Score: 86
Period size: 18 Copynumber: 4.2 Consensus size: 18
76084 ATATATAAAT
76094 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
76112 TTTAAGTAATGTAAATTATAAA
1 TTTAAGTAATGT-AA-TAT--A
*
76134 TTTTAGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
* *
76151 TTTAAATAATGTAACATA
1 TTTAAGTAATGTAATATA
76169 TTT
1 TTT
76172 TAGTCAGTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
17 8 0.16
18 22 0.43
19 5 0.10
20 5 0.10
21 2 0.04
22 9 0.18
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:76153 original size:39 final size:41
Alignment explanation
Indices: 76087--76164 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 41
76077 TAAATATATA
*
76087 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAAT
1 TATAAATTTTAAGTAATGTAATATATTTAAATAATGTAAAT
76128 TATAAATTTT-AGTAA-GTAATATATTTAAATAATGTAA
1 TATAAATTTTAAGTAATGTAATATATTTAAATAATGTAA
76165 CATATTTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 21 0.58
40 5 0.14
41 10 0.28
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (41 bp):
TATAAATTTTAAGTAATGTAATATATTTAAATAATGTAAAT
Found at i:76181 original size:35 final size:38
Alignment explanation
Indices: 76091--76182 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
76081 TATATATATA
* *
76091 AATTTTAAGTAATGTAATATATTTAAGTAATGTAAATTAT
1 AATTTT-AGTAA-GTAATATATTTAAATAATGTAAATCAT
76131 AAATTTTAGTAAGTAATATATTTAAATAATGT-AA-CAT
1 -AATTTTAGTAAGTAATATATTTAAATAATGTAAATCAT
*
76168 -ATTTTAGTCAGTAAT
1 AATTTTAGTAAGTAAT
76183 GTAAGTAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 14 0.29
37 2 0.04
38 2 0.04
39 19 0.40
40 5 0.10
41 6 0.12
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (38 bp):
AATTTTAGTAAGTAATATATTTAAATAATGTAAATCAT
Found at i:76228 original size:47 final size:47
Alignment explanation
Indices: 76177--76347 Score: 212
Period size: 47 Copynumber: 3.8 Consensus size: 47
76167 TATTTTAGTC
*
76177 AGTAATGTAAGTAATGTAATATATACTTAAAAATATATATTTCGGTA
1 AGTAATGTAAGTAATGTAATATATACTTAAGAATATATATTTCGGTA
*
76224 AGTAAAGTAAGTAATGTAATATATACTTAAGAATATATA-TT---TA
1 AGTAATGTAAGTAATGTAATATATACTTAAGAATATATATTTCGGTA
* * * * *
76267 AGTAATGTAAGTAAAGTAA-ACT-GAGTTATGTA-ATATATTTCGGTA
1 AGTAATGTAAGTAATGTAATA-TATACTTAAGAATATATATTTCGGTA
*
76312 AGTAATGTAAGTAATGTAATATATGCTTAAGAATAT
1 AGTAATGTAAGTAATGTAATATATACTTAAGAATAT
76348 TGCGTTTTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
41 5 0.05
42 9 0.09
43 20 0.20
45 21 0.21
46 8 0.08
47 39 0.38
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (47 bp):
AGTAATGTAAGTAATGTAATATATACTTAAGAATATATATTTCGGTA
Found at i:77038 original size:19 final size:19
Alignment explanation
Indices: 77014--77081 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
77004 TTAGTAAAGT
77014 ATATATTCCAGCAACTGGA
1 ATATATTCCAGCAACTGGA
77033 ATATATTCCAGCAA---G-
1 ATATATTCCAGCAACTGGA
77048 -TATATTCCAGCAACTGGA
1 ATATATTCCAGCAACTGGA
*
77066 ATATATTCCAACAACT
1 ATATATTCCAGCAACT
77082 ATATATTCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
14 13 0.30
16 1 0.02
17 1 0.02
19 28 0.65
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (19 bp):
ATATATTCCAGCAACTGGA
Found at i:77053 original size:14 final size:14
Alignment explanation
Indices: 77034--77060 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77024 GCAACTGGAA
77034 TATATTCCAGCAAG
1 TATATTCCAGCAAG
77048 TATATTCCAGCAA
1 TATATTCCAGCAA
77061 CTGGAATATA
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:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (14 bp):
TATATTCCAGCAAG
Found at i:77055 original size:33 final size:33
Alignment explanation
Indices: 77015--77085 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
77005 TAGTAAAGTA
* *
77015 TATATTCCAGCAACTGGAATATATTCCAGCAAG
1 TATATTCCAGCAACTGGAATATATTCCAACAAC
77048 TATATTCCAGCAACTGGAATATATTCCAACAAC
1 TATATTCCAGCAACTGGAATATATTCCAACAAC
77081 TATAT
1 TATAT
77086 ATTCCAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (33 bp):
TATATTCCAGCAACTGGAATATATTCCAACAAC
Found at i:77092 original size:16 final size:16
Alignment explanation
Indices: 77013--77091 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 16
77003 TTTAGTAAAG
77013 TATATATTCCAGCAAC
1 TATATATTCCAGCAAC
77029 TGGAATATATTCCAGCAA-
1 T---ATATATTCCAGCAAC
*
77047 -GTATATTCCAGCAAC
1 TATATATTCCAGCAAC
*
77062 TGGAATATATTCCAACAAC
1 T---ATATATTCCAGCAAC
77081 TATATATTCCA
1 TATATATTCCA
77092 AAGTTATAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
14 13 0.25
16 11 0.21
19 28 0.54
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (16 bp):
TATATATTCCAGCAAC
Found at i:78985 original size:21 final size:21
Alignment explanation
Indices: 78959--79049 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
78949 CCCTAAATCT
78959 CCCTTAACCCTTAAAGCATAA
1 CCCTTAACCCTTAAAGCATAA
*
78980 CCCTTAACCCCTAAAGCATAA
1 CCCTTAACCCTTAAAGCATAA
*
79001 CCCATAAACCC-T-AA--AT--
1 CCC-TTAACCCTTAAAGCATAA
*
79017 CCCTTTAACCCATAAAGCATAA
1 CCC-TTAACCCTTAAAGCATAA
*
79039 CCCCTAACCCT
1 CCCTTAACCCT
79050 AAACCACAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
16 9 0.16
17 1 0.02
18 4 0.07
20 4 0.07
21 30 0.53
22 9 0.16
ACGTcount: A:0.37, C:0.38, G:0.03, T:0.21
Consensus pattern (21 bp):
CCCTTAACCCTTAAAGCATAA
Found at i:79297 original size:12 final size:14
Alignment explanation
Indices: 79266--79292 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
79256 GAAACGGATG
79266 AAATTTGGTATAAT
1 AAATTTGGTATAAT
79280 AAATTTGGTATAA
1 AAATTTGGTATAA
79293 AATTTTTTAT
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:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
AAATTTGGTATAAT
Found at i:79339 original size:33 final size:35
Alignment explanation
Indices: 79274--79357 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 35
79264 TGAAATTTGG
* *
79274 TATAATAAATTTGGTATAAAATTTTTTATTTTATT
1 TATAATAAATTTGGTATAAAAATGTTTATTTTATT
*
79309 TATAA-AAA-TTGGTATAAAAAATGTTT-TTTTATCC
1 TATAATAAATTTGGTAT-AAAAATGTTTATTTTAT-T
*
79343 AATAAT-AATTTGGTA
1 TATAATAAATTTGGTA
79358 AAGAACGACA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
33 13 0.32
34 17 0.41
35 11 0.27
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.49
Consensus pattern (35 bp):
TATAATAAATTTGGTATAAAAATGTTTATTTTATT
Found at i:79356 original size:35 final size:34
Alignment explanation
Indices: 79275--79357 Score: 80
Period size: 33 Copynumber: 2.4 Consensus size: 34
79265 GAAATTTGGT
* * **
79275 ATAATAAATTTGGTATAAAATTTTTTATTTTATTT
1 ATAAT-AATTTGGTATAAAAATGTTTATTTTATCA
*
79310 ATAA-AAATTGGTATAAAAAATGTTT-TTTTATCCA
1 ATAATAATTTGGTAT-AAAAATGTTTATTTTAT-CA
79344 ATAATAATTTGGTA
1 ATAATAATTTGGTA
79358 AAGAACGACA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
33 15 0.38
34 12 0.31
35 12 0.31
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.48
Consensus pattern (34 bp):
ATAATAATTTGGTATAAAAATGTTTATTTTATCA
Found at i:80670 original size:114 final size:112
Alignment explanation
Indices: 80471--81368 Score: 511
Period size: 111 Copynumber: 8.0 Consensus size: 112
80461 TTTAAATCCT
* * * *
80471 TGAGCATTAGAGGCGCTTTCCTAAAAACGCCGCTAAATCCCCACAAATCAT-AGAAAACGGCGCC
1 TGAGCATTAGCGGCGC-TT-CTAAAAACGCCACT-AATCCCCAGAAATC-TCAGAAAACGGCGTC
* * *
80535 GTTGGGCTTA-GTTTTTCTTGCGGCGCTACCCCAAAAATGCCGCTAAATCCC
62 GTTGGGCTTAGGTTTTT-TTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* ** * *
80586 TGAGCAGTAGCGGCGCTTCTAGAGAAACGCCACTAGATCTTC-GAAATCTCAAAAAACGACGTCG
1 TGAGCATTAGCGGCGCTTCTA-A-AAACGCCACTA-ATCCCCAGAAATCTCAGAAAACGGCGTCG
* * * *
80650 TTGGGCTTAGGTTATTTTGCGGCGTTTCGCCAAAAACGCCGCTAAAGCCA
63 TTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* * * * *
80700 TGAGCATTAGCGGCGCTCCCTTAAAAACG-TAGCTAAATCCCCAAAAAGCTCAGAAAA-GGTGTC
1 TGAGCATTAGCGGCGCT-TC-TAAAAACGCCA-CT-AATCCCCAGAAATCTCAGAAAACGGCGTC
*** *
80763 GTTGGGCTTAGGTTTTTTTGCGGCGCTTCTTAAAAAACGCCGCTAAAGCCT
62 GTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* * * * *
80814 TGAGCATTAGCGGCACTT-TAATAAATACGCCATTAAACCCCTG-AATGCTTAGAAAACGGCGTC
1 TGAGCATTAGCGGCGCTTCT-A-AAA-ACGCCACTAATCCCCAGAAAT-CTCAGAAAACGGCGTC
* * * *
80877 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAATCCC
62 GTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* * * * * *
80928 TGAGCATTAGCGGCGCTTTATTAAAAACGTCGCTAAATCCCCTA-AAGT-TCGGTAAACGGCGTC
1 TGAGCATTAGCGGCGC-TT-CTAAAAACGCCACT-AATCCCC-AGAAATCTCAGAAAACGGCGTC
* *** **
80991 GTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCCGCT-AA-TTC
62 GTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* ** * * * * *
81039 TTA-TTTTCAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTA-AAGT-TCGGTAAACGGCGT
1 TGAGCATT-AGCGGCGC-TT-CTAAAAACGCCACT-AATCCCC-AGAAATCTCAGAAAACGGCGT
* *** **
81101 CGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCCGCT-AA-TTC
61 CGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* ** * * * * *
81150 TTA-TTTTCAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTA-AAGT-TCGGTAAACGGCGT
1 TGAGCATT-AGCGGCGC-TT-CTAAAAACGCCACT-AATCCCC-AGAAATCTCAGAAAACGGCGT
* *** **
81212 CGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCCGCT-AA-TTC
61 CGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* ** * * * * *
81261 TTA-TTTTCAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTA-AAGT-TCGGTAAACGGCGT
1 TGAGCATT-AGCGGCGC-TT-CTAAAAACGCCACT-AATCCCC-AGAAATCTCAGAAAACGGCGT
* ***
81323 CGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAA
61 CGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAA
81369 TTCTTATTTT
Statistics
Matches: 692, Mismatches: 67, Indels: 51
0.85 0.08 0.06
Matches are distributed among these distances:
110 2 0.00
111 323 0.47
112 6 0.01
113 50 0.07
114 247 0.36
115 58 0.08
116 5 0.01
117 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (112 bp):
TGAGCATTAGCGGCGCTTCTAAAAACGCCACTAATCCCCAGAAATCTCAGAAAACGGCGTCGTTG
GGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
Found at i:81408 original size:111 final size:111
Alignment explanation
Indices: 80867--81386 Score: 925
Period size: 111 Copynumber: 4.7 Consensus size: 111
80857 AATGCTTAGA
** * * *
80867 AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAATCCCTGAG
1 AAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCCGCT-AAT-TCTTA-
** *
80932 CATT-AGCGGCGCTTTATTAAAAACGTCGCTAAATCCCCTAAAGTTCGGT
62 TTTTCAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
80981 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
81046 CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
66 CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
81092 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
81157 CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
66 CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
81203 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
81268 CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
66 CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
81314 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
81379 CAGCGGCG
66 CAGCGGCG
81387 TTTTCTGGGA
Statistics
Matches: 397, Mismatches: 8, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
110 2 0.01
111 342 0.86
112 3 0.01
113 28 0.07
114 22 0.06
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (111 bp):
AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
Found at i:82530 original size:22 final size:22
Alignment explanation
Indices: 82502--82596 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 22
82492 TGAACTGCTG
82502 ATCAGTAGGCATCAAAGCGCTGA
1 ATCAGTAGGCATCAAAGCG-TGA
* * *
82525 GT-AGTAGGCACCAAAGTGTGA
1 ATCAGTAGGCATCAAAGCGTGA
* *
82546 ATCAGTAGGCATCGAAGTGTTGA
1 ATCAGTAGGCATCAAAGCG-TGA
* * * *
82569 AT-AATAGGCATCGAAGTGAGA
1 ATCAGTAGGCATCAAAGCGTGA
82590 ATCAGTA
1 ATCAGTA
82597 AGAACCGAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.13
22 46 0.77
23 6 0.10
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (22 bp):
ATCAGTAGGCATCAAAGCGTGA
Found at i:82577 original size:44 final size:44
Alignment explanation
Indices: 82502--82596 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
82492 TGAACTGCTG
* * *
82502 ATCAGTAGGCATCAAAGCGCTGAGTAGTAGGCACCAAAGTGTGA
1 ATCAGTAGGCATCAAAGCGCTGAATAATAGGCACCAAAGTGAGA
* * * * *
82546 ATCAGTAGGCATCGAAGTGTTGAATAATAGGCATCGAAGTGAGA
1 ATCAGTAGGCATCAAAGCGCTGAATAATAGGCACCAAAGTGAGA
82590 ATCAGTA
1 ATCAGTA
82597 AGAACCGAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (44 bp):
ATCAGTAGGCATCAAAGCGCTGAATAATAGGCACCAAAGTGAGA
Found at i:89256 original size:50 final size:50
Alignment explanation
Indices: 89134--89382 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
89124 GATAATAACA
* * ** * *
89134 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
89185 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
89235 TGCCAATGCCATGTCCCAGACATGGCCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
89285 TGCCCATGCCATGTCCCAGACATGGTCTTACTGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
89340 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
89383 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:89311 original size:100 final size:104
Alignment explanation
Indices: 89133--89382 Score: 350
Period size: 100 Copynumber: 2.4 Consensus size: 104
89123 TGATAATAAC
* **
89133 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
*
89198 TCCCAGACATGGTCTTA-TAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACT-GGGGACCTCTCAATCTTAAGG
* *
89235 -TGCCAATGCCATGTCCCAGACATGGCCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
89298 TCCCAGACATGGTCTTACTGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACTGGGGACCTCTCA--ATCTTAAGG
*
89340 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
89383 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACTGGGGACCTCTCAATCTTAAGG
Found at i:89498 original size:13 final size:13
Alignment explanation
Indices: 89477--89508 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
89467 GCTTGGATCA
*
89477 TCATCAAATAAAT
1 TCATAAAATAAAT
89490 TCATAAAATAAAT
1 TCATAAAATAAAT
89503 TCATAA
1 TCATAA
89509 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:92015 original size:77 final size:77
Alignment explanation
Indices: 91924--92100 Score: 234
Period size: 77 Copynumber: 2.3 Consensus size: 77
91914 GATGAACTAT
*
91924 TATCATGGCCCGAAGCCAAATT-ATCCAATATGCATGG-CCTGAAGTCAAATCAATAATATACAC
1 TATCATGGCCCGAAGCC-AATTCATCCAATATGCATGGTCC-GAAGCCAAATCAATAATATACAC
* *
91987 ACCCGAAGTGTTGA
64 ACCCGAAGTGCTAA
* ** *
92001 TATCATGGCCCGAAGCCAATTCATCCGATATGCATGGTCCGAAGCCAAATCGGTAATATACGCAC
1 TATCATGGCCCGAAGCCAATTCATCCAATATGCATGGTCCGAAGCCAAATCAATAATATACACAC
92066 CCGAAGTGCTAA
66 CCGAAGTGCTAA
*
92078 TATCATGGCTCGATA-CCAATTCA
1 TATCATGGCCCGA-AGCCAATTCA
92101 ACGTATCACT
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
76 4 0.04
77 82 0.92
78 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (77 bp):
TATCATGGCCCGAAGCCAATTCATCCAATATGCATGGTCCGAAGCCAAATCAATAATATACACAC
CCGAAGTGCTAA
Found at i:92557 original size:6 final size:7
Alignment explanation
Indices: 92540--92566 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
92530 TGGATGTTAA
92540 AAAAAAT
1 AAAAAAT
92547 AAAAAAT
1 AAAAAAT
92554 AAAAAAT
1 AAAAAAT
92561 AAAAAA
1 AAAAAA
92567 ATACAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:92678 original size:13 final size:14
Alignment explanation
Indices: 92643--92681 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
92633 GAAGATATTT
92643 ATATATTATATATAA
1 ATATATTAT-TATAA
*
92658 ATAAATTATTAT-A
1 ATATATTATTATAA
92671 ATATATTATTA
1 ATATATTATTA
92682 GTAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATTATTATAA
Found at i:92729 original size:21 final size:21
Alignment explanation
Indices: 92703--92743 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
92693 AAATAAAAGA
*
92703 AAAAGAATAAAGAAAAGAAAC
1 AAAAGAACAAAGAAAAGAAAC
92724 AAAAGAACAAAGAAAAGAAA
1 AAAAGAACAAAGAAAAGAAA
92744 ACAGAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAGAACAAAGAAAAGAAAC
Found at i:107080 original size:50 final size:50
Alignment explanation
Indices: 106958--107206 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
106948 GATAATAACA
* * * ** * *
106958 TGCCAAAGACATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
107009 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
107059 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
107109 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
107164 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
107207 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:107134 original size:100 final size:104
Alignment explanation
Indices: 106957--107206 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
106947 TGATAATAAC
* **
106957 ATGCCAAAGACATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
107022 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
107059 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
107122 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
107164 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
107207 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:107322 original size:13 final size:13
Alignment explanation
Indices: 107301--107331 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
107291 GCTTGGATCA
*
107301 TCATCAAATAAAT
1 TCATAAAATAAAT
107314 TCATAAAATAAAT
1 TCATAAAATAAAT
107327 TCATA
1 TCATA
107332 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:107579 original size:30 final size:30
Alignment explanation
Indices: 107544--107601 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
107534 CCTTGACTCT
*
107544 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
107574 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
107602 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:114679 original size:50 final size:50
Alignment explanation
Indices: 114555--114803 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
114545 GATAATAACA
* * ** * *
114555 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
114606 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
114656 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
114706 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
114761 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
114804 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:114733 original size:100 final size:104
Alignment explanation
Indices: 114554--114803 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
114544 TGATAATAAC
**
114554 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
114619 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
114656 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
114719 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
114761 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
114804 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:114919 original size:13 final size:13
Alignment explanation
Indices: 114898--114928 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
114888 GCTTGGATCA
*
114898 TCATCAAATAAAT
1 TCATAAAATAAAT
114911 TCATAAAATAAAT
1 TCATAAAATAAAT
114924 TCATA
1 TCATA
114929 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:115176 original size:30 final size:30
Alignment explanation
Indices: 115141--115198 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
115131 CCTTGACTCT
*
115141 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
115171 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
115199 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:144220 original size:18 final size:18
Alignment explanation
Indices: 144197--144289 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
144187 CCCAACTACT
*
144197 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
144215 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
144233 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
144251 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
144269 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
144287 GTA
1 GTA
144290 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:144249 original size:36 final size:36
Alignment explanation
Indices: 144197--144289 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
144187 CCCAACTACT
*
144197 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
144233 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
144269 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
144290 AACGGTCGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:155689 original size:3 final size:3
Alignment explanation
Indices: 155681--155708 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
155671 GAACTCATTT
155681 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
155709 CAAGTTAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:159108 original size:31 final size:31
Alignment explanation
Indices: 159070--159131 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
159060 ATGCTCACTG
*
159070 AACTATTTGAAAGCTTTCATTTAAGTCATTA
1 AACTATTTGAAAGCTTTCATTTAAATCATTA
* *
159101 AACTATTTGAAAGTTTTTATTTAAATCATTA
1 AACTATTTGAAAGCTTTCATTTAAATCATTA
159132 GGATGTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (31 bp):
AACTATTTGAAAGCTTTCATTTAAATCATTA
Found at i:166731 original size:22 final size:21
Alignment explanation
Indices: 166679--166734 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
166669 AATTTAGTTT
*
166679 AATAATTATTAAATTAAATTTG
1 AATAATTTTTAAATT-AATTTG
* *
166701 AGTATTTTTTAAATTAATTTG
1 AATAATTTTTAAATTAATTTG
*
166722 AATAAATTTTAAA
1 AATAATTTTTAAA
166735 CATTAATATG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
AATAATTTTTAAATTAATTTG
Found at i:168146 original size:14 final size:15
Alignment explanation
Indices: 168118--168150 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
168108 AAAATTAAAA
168118 AAAAAAGTTATGATT
1 AAAAAAGTTATGATT
*
168133 AAAAAATTTA-GATT
1 AAAAAAGTTATGATT
168147 AAAA
1 AAAA
168151 GTGATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (15 bp):
AAAAAAGTTATGATT
Found at i:175612 original size:26 final size:26
Alignment explanation
Indices: 175583--175632 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
175573 TTATCTCAAC
175583 TTACTCTACTATATAAAATTATTATT
1 TTACTCTACTATATAAAATTATTATT
** *
175609 TTACTCTTGTATATATAATTATTA
1 TTACTCTACTATATAAAATTATTA
175633 AAAGAGTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (26 bp):
TTACTCTACTATATAAAATTATTATT
Found at i:183770 original size:15 final size:16
Alignment explanation
Indices: 183750--183780 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
183740 TTTTCAACCC
183750 CTGGT-AGATATCGAT
1 CTGGTAAGATATCGAT
183765 CTGGTAAGATATCGAT
1 CTGGTAAGATATCGAT
183781 ATTCCTGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
CTGGTAAGATATCGAT
Found at i:184378 original size:47 final size:47
Alignment explanation
Indices: 184309--184401 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
184299 TGCTTCCACC
184309 ACAATTTCTAAAATGTCAATTCAACCTCCCTATCGATGAGTTCAAGG
1 ACAATTTCTAAAATGTCAATTCAACCTCCCTATCGATGAGTTCAAGG
184356 ACAATTTCTAAAATGTCAATTCAACCTCCCTATCGATGAGTTCAAG
1 ACAATTTCTAAAATGTCAATTCAACCTCCCTATCGATGAGTTCAAG
184402 TTGATCCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (47 bp):
ACAATTTCTAAAATGTCAATTCAACCTCCCTATCGATGAGTTCAAGG
Found at i:197835 original size:10 final size:10
Alignment explanation
Indices: 197805--197838 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
197795 CATTCAGTTT
197805 CATACATATA
1 CATACATATA
* *
197815 TATATATATA
1 CATACATATA
197825 CATACATATA
1 CATACATATA
197835 CATA
1 CATA
197839 GAATTGATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (10 bp):
CATACATATA
Found at i:198731 original size:10 final size:11
Alignment explanation
Indices: 198707--198731 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
198697 ATTGACTATC
198707 TTTTCAAACAT
1 TTTTCAAACAT
198718 TTTTCAAACAT
1 TTTTCAAACAT
198729 TTT
1 TTT
198732 GGGGGTACAA
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTCAAACAT
Found at i:206925 original size:18 final size:18
Alignment explanation
Indices: 206896--206939 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
206886 GATGACCAAG
206896 AAACCA-AAGTTCTCTAA
1 AAACCACAAGTTCTCTAA
206913 AAACCACAAGTTCTCTAA
1 AAACCACAAGTTCTCTAA
206931 AAACCACAA
1 AAACCACAA
206940 CACAACCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.50, C:0.27, G:0.05, T:0.18
Consensus pattern (18 bp):
AAACCACAAGTTCTCTAA
Found at i:206978 original size:22 final size:23
Alignment explanation
Indices: 206952--206994 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
206942 CAACCTTTTT
*
206952 CAAAAAAGAAAA-GAAGAAAGAA
1 CAAAAAAGAAAACAAAGAAAGAA
206974 CAAAAAAGAAAACAAAGAAAG
1 CAAAAAAGAAAACAAAGAAAG
206995 GGGAAGACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (23 bp):
CAAAAAAGAAAACAAAGAAAGAA
Found at i:218704 original size:29 final size:29
Alignment explanation
Indices: 218662--218719 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
218652 TATGTCATAT
218662 TCCAACAATATGTTACATCTATTAAATGA
1 TCCAACAATATGTTACATCTATTAAATGA
*
218691 TCCAACAATATGTTACCTCTATTAAATGA
1 TCCAACAATATGTTACATCTATTAAATGA
218720 CTGCTTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (29 bp):
TCCAACAATATGTTACATCTATTAAATGA
Found at i:223348 original size:17 final size:17
Alignment explanation
Indices: 223318--223350 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
223308 CTTTGACCTC
223318 AAAGTCAATATAAAAAA
1 AAAGTCAATATAAAAAA
223335 AAAGT-AATACTAAAAA
1 AAAGTCAATA-TAAAAA
223351 TATGTAGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAGTCAATATAAAAAA
Found at i:229159 original size:21 final size:21
Alignment explanation
Indices: 229133--229172 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
229123 ATCGGGAAGC
*
229133 TAACATAAGAGTAGATGGAGA
1 TAACATAAGAGGAGATGGAGA
229154 TAACATAAGAGGAGATGGA
1 TAACATAAGAGGAGATGGA
229173 CAGCTGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.30, T:0.17
Consensus pattern (21 bp):
TAACATAAGAGGAGATGGAGA
Found at i:229463 original size:27 final size:27
Alignment explanation
Indices: 229425--229539 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
229415 TAAGTTGTAT
*
229425 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
229452 AATTACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
229479 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
229506 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
229533 AATTACC
1 AATTACC
229540 ATTTTGCCCC
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:229531 original size:54 final size:53
Alignment explanation
Indices: 229428--229535 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 53
229418 GTTGTATAAT
229428 TATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAA
1 TATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTA-AAA
* * *
229482 TATCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAA
1 TATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAAAA
229535 T
1 T
229536 TACCATTTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 4 0.08
54 47 0.92
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (53 bp):
TATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAAAA
Found at i:230235 original size:27 final size:26
Alignment explanation
Indices: 230191--230242 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
230181 CTCGCTGCAA
*
230191 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
230218 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
230243 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:230310 original size:26 final size:27
Alignment explanation
Indices: 230281--230340 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
230271 CCACATATAT
*
230281 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
230307 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
230334 ATATCTG
1 ATATCTG
230341 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:236503 original size:13 final size:13
Alignment explanation
Indices: 236485--236512 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
236475 GGAAGCAAGT
236485 AGGTGCGCTTTAA
1 AGGTGCGCTTTAA
236498 AGGTGCGCTTTAA
1 AGGTGCGCTTTAA
236511 AG
1 AG
236513 TTTAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (13 bp):
AGGTGCGCTTTAA
Found at i:237008 original size:27 final size:27
Alignment explanation
Indices: 236970--237029 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
236960 TAAGTTGTAT
* *
236970 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGATAG
236997 AATTACCGAAATACCCCTGTAAGATAG
1 AATTACCGAAATACCCCTGTAAGATAG
237024 AATTAC
1 AATTAC
237030 GTTAATTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAAGATAG
Found at i:237624 original size:27 final size:26
Alignment explanation
Indices: 237580--237631 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
237570 CTCGCTGCAA
*
237580 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
237607 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
237632 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:237699 original size:26 final size:27
Alignment explanation
Indices: 237670--237729 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
237660 CCACATATAT
*
237670 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
237696 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
237723 ATATCTG
1 ATATCTG
237730 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:240046 original size:20 final size:20
Alignment explanation
Indices: 240029--240069 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
240019 ATTGAATTGA
* *
240029 TTTTATAATTTTATAATTAT
1 TTTTAAAATTTTAAAATTAT
240049 TTTTAAAATTTTAAAATTAT
1 TTTTAAAATTTTAAAATTAT
240069 T
1 T
240070 AATAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAAATTTTAAAATTAT
Found at i:253114 original size:15 final size:17
Alignment explanation
Indices: 253091--253124 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
253081 CCTTTTTGAA
253091 TTTATTAAAAT-ATTAT
1 TTTATTAAAATAATTAT
253107 TTTA-TAAAATAATTAT
1 TTTATTAAAATAATTAT
253123 TT
1 TT
253125 CCATACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATTAAAATAATTAT
Found at i:253563 original size:28 final size:29
Alignment explanation
Indices: 253518--253572 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
253508 CAAAAAGTAT
*
253518 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
253546 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
253573 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:253971 original size:29 final size:30
Alignment explanation
Indices: 253907--253977 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
253897 TAAGGGTTGT
*
253907 GGTTTAAAGTTTAGGGATTAGTGGGTAAAG
1 GGTTTAAAGGTTAGGGATTAGTGGGTAAAG
* * * *
253937 GG-TTAAGGGTTATGGATTA-TGGGTTACG
1 GGTTTAAAGGTTAGGGATTAGTGGGTAAAG
*
253965 GGTTTAATGGTTA
1 GGTTTAAAGGTTA
253978 AAGGGATACG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 9 0.26
29 23 0.68
30 2 0.06
ACGTcount: A:0.25, C:0.01, G:0.37, T:0.37
Consensus pattern (30 bp):
GGTTTAAAGGTTAGGGATTAGTGGGTAAAG
Found at i:254000 original size:22 final size:22
Alignment explanation
Indices: 253900--254006 Score: 80
Period size: 22 Copynumber: 4.9 Consensus size: 22
253890 ATGGGTTTAA
*
253900 GGGTT-GTGGTTTAAA-GTTTA-
1 GGGTTAGTGG-TTAAAGGGTTAC
* *
253920 GGGATTAGTGGGTAAAGGGTTAA
1 GGG-TTAGTGGTTAAAGGGTTAC
*
253943 GGGTTA-TGGATT-ATGGGTTAC
1 GGGTTAGTGG-TTAAAGGGTTAC
* *
253964 GGGTTTAATGGTTAAAGGGATAC
1 GGG-TTAGTGGTTAAAGGGTTAC
*
253987 GGGTTAGTGGTTAAGGGGTT
1 GGGTTAGTGGTTAAAGGGTT
254007 TAATTAATGG
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.04
21 19 0.28
22 31 0.45
23 16 0.23
ACGTcount: A:0.23, C:0.02, G:0.40, T:0.35
Consensus pattern (22 bp):
GGGTTAGTGGTTAAAGGGTTAC
Found at i:254148 original size:15 final size:16
Alignment explanation
Indices: 254128--254167 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
254118 TTAGTGGTTA
254128 TTCATGGTTTA-AGGT
1 TTCATGGTTTAGAGGT
*
254143 TTCATGGTTTAGGGGT
1 TTCATGGTTTAGAGGT
254159 TT-ATGGTTT
1 TTCATGGTTT
254168 GGGGTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.15, C:0.05, G:0.30, T:0.50
Consensus pattern (16 bp):
TTCATGGTTTAGAGGT
Found at i:254485 original size:26 final size:27
Alignment explanation
Indices: 254419--254486 Score: 113
Period size: 26 Copynumber: 2.6 Consensus size: 27
254409 TCAAAATTTA
254419 AAGATTTCAAA-TTTAGAATAATTTTC
1 AAGATTTCAAATTTTAGAATAATTTTC
254445 AAGATTTCAAATTTTA-AATAATTTTC
1 AAGATTTCAAATTTTAGAATAATTTTC
*
254471 AATATTTCAAATTTTA
1 AAGATTTCAAATTTTA
254487 TCTAATTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (27 bp):
AAGATTTCAAATTTTAGAATAATTTTC
Found at i:254630 original size:18 final size:17
Alignment explanation
Indices: 254599--254633 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
254589 TAGTTGATTG
*
254599 TTTTTTAATTTATATTA
1 TTTTTAAATTTATATTA
254616 TTTTTAAATTATATATTA
1 TTTTTAAATT-TATATTA
254634 AATAAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTATATTA
Found at i:255162 original size:13 final size:13
Alignment explanation
Indices: 255144--255177 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
255134 TCTTAAGTGT
255144 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
*
255157 TTTTCCCTTAAAA
1 TTTTCCCCTAAAA
255170 TTTTCCCC
1 TTTTCCCC
255178 CTAACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:257226 original size:14 final size:13
Alignment explanation
Indices: 257189--257222 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
257179 CCTTAAGTGT
257189 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
*
257202 CTTTCCCCTAAAA
1 TTTTCCCCTAAAA
257215 TTTTCCCC
1 TTTTCCCC
257223 CTAACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:259026 original size:9 final size:10
Alignment explanation
Indices: 259003--259067 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
258993 TTACTTAATT
259003 TTTTTTATAA
1 TTTTTTATAA
*
259013 TTTTTTGTAA
1 TTTTTTATAA
*
259023 TTTTTTAAAA
1 TTTTTTATAA
*
259033 TTATTCTTATGA
1 TT-TT-TTATAA
*
259045 TTTTTAAT-A
1 TTTTTTATAA
*
259054 -TTTTTATAC
1 TTTTTTATAA
259063 TTTTT
1 TTTTT
259068 AATAGCATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
8 6 0.14
9 1 0.02
10 26 0.60
11 4 0.09
12 6 0.14
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:259097 original size:19 final size:19
Alignment explanation
Indices: 259045--259105 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
259035 ATTCTTATGA
259045 TTTTTAATA-TTTTTATAC
1 TTTTTAATACTTTTTATAC
*
259063 TTTTTAATAGC-ATTTATA-
1 TTTTTAATA-CTTTTTATAC
*
259081 TTGTTTAATACTTTTTATGC
1 TT-TTTAATACTTTTTATAC
259101 TTTTT
1 TTTTT
259106 TTTTACATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
18 12 0.34
19 21 0.60
20 2 0.06
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTTAATACTTTTTATAC
Found at i:260866 original size:59 final size:58
Alignment explanation
Indices: 260788--260915 Score: 222
Period size: 59 Copynumber: 2.2 Consensus size: 58
260778 ATTAATTTAT
*
260788 TTAAATAT-TATTTAATTAAAATAATTTTTTTAAAGTGAAATTATATTTATCTTAATC
1 TTAAATATATATTTAATTAAAATAATTTTTTTAAAGTGAAATAATATTTATCTTAATC
*
260845 TTAAATATATGATTTAATTAAAATAATTTTTTTAAAGTGAAATAATATTTATCTTAATG
1 TTAAATATAT-ATTTAATTAAAATAATTTTTTTAAAGTGAAATAATATTTATCTTAATC
260904 TTAAATATATAT
1 TTAAATATATAT
260916 CATATCATAA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
57 8 0.12
58 3 0.04
59 56 0.84
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
TTAAATATATATTTAATTAAAATAATTTTTTTAAAGTGAAATAATATTTATCTTAATC
Found at i:260979 original size:33 final size:33
Alignment explanation
Indices: 260942--261007 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
260932 AAACTTACAA
*
260942 AACTTACAAAACTTACATAATATATAAATATAT
1 AACTTACAAAACTTACATAATAAATAAATATAT
* *
260975 AACTTACATAACTTACGTAATAAATAAATATAT
1 AACTTACAAAACTTACATAATAAATAAATATAT
261008 TTGATATCAT
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:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (33 bp):
AACTTACAAAACTTACATAATAAATAAATATAT
Found at i:260987 original size:9 final size:9
Alignment explanation
Indices: 260921--261513 Score: 126
Period size: 9 Copynumber: 67.1 Consensus size: 9
260911 TATATCATAT
260921 CATAACTTA
1 CATAACTTA
*
260930 CAAAACTTA
1 CATAACTTA
*
260939 CAAAACTTA
1 CATAACTTA
*
260948 CAAAACTTA
1 CATAACTTA
260957 CATAA--TA
1 CATAACTTA
* *
260964 TATAA-ATA
1 CATAACTTA
*
260972 TATAACTTA
1 CATAACTTA
260981 CATAACTTA
1 CATAACTTA
*
260990 CGTAA--TA
1 CATAACTTA
* *
260997 AATAAATATA
1 CATAACT-TA
** *
261007 TTTGA--TA
1 CATAACTTA
*
261014 TCATAATTTA
1 -CATAACTTA
261024 CATAACTTA
1 CATAACTTA
**
261033 CATTCCTTA
1 CATAACTTA
*
261042 CATAAATT-
1 CATAACTTA
* * *
261050 TATATCATA
1 CATAACTTA
261059 TCATAACTTA
1 -CATAACTTA
*
261069 CAAAACTTA
1 CATAACTTA
*
261078 CAAAACTTA
1 CATAACTTA
*
261087 CAAAACTTA
1 CATAACTTA
261096 CATAA--TA
1 CATAACTTA
* *
261103 TATAA-ATA
1 CATAACTTA
*
261111 TATAACTTA
1 CATAACTTA
261120 CATAACTTA
1 CATAACTTA
*
261129 CGTAA--TA
1 CATAACTTA
* *
261136 AATAAATATA
1 CATAACT-TA
** *
261146 TTTGA--TA
1 CATAACTTA
*
261153 TCATAATTTA
1 -CATAACTTA
261163 CATAACTTA
1 CATAACTTA
**
261172 CATTCCTTA
1 CATAACTTA
*
261181 CATAAATT-
1 CATAACTTA
* * *
261189 TATATCATA
1 CATAACTTA
*
261198 TCATAACTCA
1 -CATAACTTA
261208 CATAACTTA
1 CATAACTTA
* *
261217 TAAAACTTA
1 CATAACTTA
261226 CATAA--TA
1 CATAACTTA
* *
261233 TATAA-ATA
1 CATAACTTA
* *
261241 TATAGCTTA
1 CATAACTTA
261250 CATAACTTA
1 CATAACTTA
*
261259 CGTAA--TA
1 CATAACTTA
* *
261266 AATAA-ATA
1 CATAACTTA
* ** *
261274 AATTTCATA
1 CATAACTTA
*
261283 TCATAATTTA
1 -CATAACTTA
261293 CATAACTTA
1 CATAACTTA
**
261302 CATTCCTTA
1 CATAACTTA
*
261311 CATAAATT-
1 CATAACTTA
* * *
261319 TATATCATA
1 CATAACTTA
261328 TCATAACTTA
1 -CATAACTTA
*
261338 CAAAACTTA
1 CATAACTTA
*
261347 CAAAACTTA
1 CATAACTTA
261356 CATAA--TA
1 CATAACTTA
*
261363 CATAA-ATA
1 CATAACTTA
*
261371 TATAACTTA
1 CATAACTTA
261380 CATAACTTA
1 CATAACTTA
*
261389 CGTAATAA-ATA
1 C---ATAACTTA
* *
261400 AATATATTTCAA
1 CATA-ACTT--A
*
261412 TCATAATTTA
1 -CATAACTTA
261422 CATAACTTA
1 CATAACTTA
* *
261431 CACACCTTA
1 CATAACTTA
*
261440 CATAAGTT-
1 CATAACTTA
* * *
261448 TATATTCATA
1 CATA-ACTTA
*
261458 TTATAACTTA
1 -CATAACTTA
261468 CATAACTTA
1 CATAACTTA
*
261477 CAAAACTTA
1 CATAACTTA
* *
261486 CAAAAGTTA
1 CATAACTTA
*
261495 CAAAACTTA
1 CATAACTTA
*
261504 CTTAACTTA
1 CATAACTTA
261513 C
1 C
261514 GTAATACATA
Statistics
Matches: 429, Mismatches: 115, Indels: 80
0.69 0.18 0.13
Matches are distributed among these distances:
7 44 0.10
8 53 0.12
9 276 0.64
10 38 0.09
11 6 0.01
12 9 0.02
13 3 0.01
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:261155 original size:139 final size:138
Alignment explanation
Indices: 260905--261496 Score: 912
Period size: 130 Copynumber: 4.4 Consensus size: 138
260895 ATCTTAATGT
*
260905 TAAATATATATCATATCATAACTTACAAAACTTACAAAACTTACAAAACTTACATAATATATAAA
1 TAAATTTATATCATATCATAACTTAC-AAACTTACAAAACTTACAAAACTTACATAATATATAAA
*
260970 TATATAACTTACATAACTTACGTAATAAATAAATATATTTGATATCATAATTTACATAACTTACA
65 TATATAACTTACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACA
261035 TTCCTTACA
130 TTCCTTACA
261044 TAAATTTATATCATATCATAACTTACAAAACTTACAAAACTTACAAAACTTACATAATATATAAA
1 TAAATTTATATCATATCATAACTTAC-AAACTTACAAAACTTACAAAACTTACATAATATATAAA
*
261109 TATATAACTTACATAACTTACGTAATAAATAAATATATTTGATATCATAATTTACATAACTTACA
65 TATATAACTTACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACA
261174 TTCCTTACA
130 TTCCTTACA
* *
261183 TAAATTTATATCATATCATAAC-T-----C--ACATAACTTATAAAACTTACATAATATATAAAT
1 TAAATTTATATCATATCATAACTTACAAACTTACAAAACTTACAAAACTTACATAATATATAAAT
* *
261240 ATATAGCTTACATAACTTACGTAATAAATAAATAAATTTCATATCATAATTTACATAACTTACAT
66 ATATAACTTACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACAT
261305 TCCTTACA
131 TCCTTACA
*
261313 TAAATTTATATCATATC---A--T---AACTTACAAAACTTACAAAACTTACATAATACATAAAT
1 TAAATTTATATCATATCATAACTTACAAACTTACAAAACTTACAAAACTTACATAATATATAAAT
*
261370 ATATAACTTACATAACTTACGTAATAAATAAATATATTTCA-ATCATAATTTACATAACTTACAC
66 ATATAACTTACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACAT
*
261434 ACCTTACA
131 TCCTTACA
* * *
261442 TAAGTTTATATTCATATTATAACTTACATAACTTACAAAACTTACAAAAGTTACA
1 TAAATTTATA-TCATATCATAACTTACA-AACTTACAAAACTTACAAAACTTACA
261497 AAACTTACTT
Statistics
Matches: 423, Mismatches: 16, Indels: 28
0.91 0.03 0.06
Matches are distributed among these distances:
126 1 0.00
127 1 0.00
128 1 0.00
129 38 0.09
130 193 0.46
132 1 0.00
133 1 0.00
135 1 0.00
138 1 0.00
139 185 0.44
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (138 bp):
TAAATTTATATCATATCATAACTTACAAACTTACAAAACTTACAAAACTTACATAATATATAAAT
ATATAACTTACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACAT
TCCTTACA
Found at i:265520 original size:86 final size:86
Alignment explanation
Indices: 265375--265544 Score: 295
Period size: 86 Copynumber: 2.0 Consensus size: 86
265365 GATTTTACAA
*
265375 TTTTTTAATTATATGTAATATTATAATTTTAATCTTTGTCATGTTATATAATTTAACTATTTTAT
1 TTTTTTAATTATATGTAATATTATAATTTTAATCTTGGTCATGTTATATAATTTAACTATTTTAT
*
265440 ATGTACTATTATTGTTGTAGT
66 ATATACTATTATTGTTGTAGT
* *
265461 TTTTTTAATTATATGTAATATTATAATTTTAATCTTGGTCGTGTTATATAATTTGACTATTTTAT
1 TTTTTTAATTATATGTAATATTATAATTTTAATCTTGGTCATGTTATATAATTTAACTATTTTAT
*
265526 ATATACTATTTTTGTTGTA
66 ATATACTATTATTGTTGTA
265545 ATTTGTTACT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.57
Consensus pattern (86 bp):
TTTTTTAATTATATGTAATATTATAATTTTAATCTTGGTCATGTTATATAATTTAACTATTTTAT
ATATACTATTATTGTTGTAGT
Found at i:266732 original size:13 final size:14
Alignment explanation
Indices: 266716--266744 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
266706 TTCTAAATAT
266716 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
266729 TTATAATTGTTTAA
1 TTATAATTGTTTAA
266743 TT
1 TT
266745 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:267187 original size:21 final size:21
Alignment explanation
Indices: 267162--267234 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
267152 TAAAGCGGAA
*
267162 GCAGCAGAGAGGGAGGCAGCG
1 GCAGCAGCGAGGGAGGCAGCG
*
267183 GCAGCAGCGAGAGAGGCAGCG
1 GCAGCAGCGAGGGAGGCAGCG
* * *
267204 ACAGTAGCGAGGGAGGCAGAG
1 GCAGCAGCGAGGGAGGCAGCG
267225 GCAGCAGCGA
1 GCAGCAGCGA
267235 TGGCAGCAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.30, C:0.21, G:0.48, T:0.01
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGCG
Found at i:268316 original size:17 final size:18
Alignment explanation
Indices: 268294--268327 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
268284 TTGTTTATAA
268294 TTTAAA-AAATTAATTAC
1 TTTAAATAAATTAATTAC
*
268311 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
268328 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAAATAAATTAATTAC
Found at i:276667 original size:53 final size:53
Alignment explanation
Indices: 276586--276736 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
276576 CTTACACGGT
* *
276586 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
276641 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
276694 TCACATTGCACCGATGCCATAGCCCAGCTACGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
276737 GCACACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:278654 original size:16 final size:16
Alignment explanation
Indices: 278617--278676 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
278607 AAATAATGTG
* *
278617 AAAAAAA-TAAATTTA
1 AAAAAAATTAAAATAA
*
278632 AACAAAATTAAAATAA
1 AAAAAAATTAAAATAA
* *
278648 AAGAAAATTAAGATAA
1 AAAAAAATTAAAATAA
278664 AAAATAAATTAAA
1 AAAA-AAATTAAA
278677 TAATATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
15 6 0.17
16 23 0.64
17 7 0.19
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAAAAATTAAAATAA
Found at i:278714 original size:165 final size:161
Alignment explanation
Indices: 278507--278826 Score: 570
Period size: 165 Copynumber: 2.0 Consensus size: 161
278497 AAGACCAATG
278507 AATTAAATAATATATATAACAATTTAAAAAAATTATAAAGAAAATTAAAATAAATAAAATGTAAA
1 AATTAAATAATATATATAACAATTTAAAAAAATTATAAAGAAAATTAAAATAAATAAAATGTAAA
*
278572 ACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATAATGTGAAAAAAATAAATTTAAACAA
66 ACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATAATGTG-AAAAAAGAAATTTAAACAA
278637 AATTAAAAT-AAAAGAAAATTAAGATAAAAAATA
130 AATTAAAATAAAAAG-AAATTAA-ATAAAAAATA
278670 AATTAAATAATATATATAACAATTTTAAAAAAAATTATAAAGAAAATTAAAATAAATAAAATGTA
1 AATTAAATAATATATATAACAA-TTT-AAAAAAATTATAAAGAAAATTAAAATAAATAAAATGTA
*
278735 AAACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATAATGTGAAAAAAGAAATTTAAAGA
64 AAACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATAATGTGAAAAAAGAAATTTAAACA
278800 AAATTAAAATAAAAAGAAATTAAATAA
129 AAATTAAAATAAAAAGAAATTAAATAA
278827 TATATATAAC
Statistics
Matches: 152, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
163 26 0.17
164 36 0.24
165 90 0.59
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (161 bp):
AATTAAATAATATATATAACAATTTAAAAAAATTATAAAGAAAATTAAAATAAATAAAATGTAAA
ACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATAATGTGAAAAAAGAAATTTAAACAAA
ATTAAAATAAAAAGAAATTAAATAAAAAATA
Found at i:278880 original size:145 final size:148
Alignment explanation
Indices: 278647--278941 Score: 542
Period size: 145 Copynumber: 2.0 Consensus size: 148
278637 AATTAAAATA
* *
278647 AAAGAAAATTAAGATAAAAAATAAATTAAATAATATATATAACAATTTTAAAAAAAATTATAAAG
1 AAAGAAAATTAAAATAAAAAAGAAATTAAATAATATATATAACAATTTTAAAAAAAATTATAAAG
278712 AAAATTAAAATAAATAAAATGTAAAACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATA
66 AAAATTAAAATAAATAAAATGTAAAACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATA
278777 ATGTGAAAAAAGAAATTT
131 ATGTGAAAAAAGAAATTT
*
278795 AAAGAAAATTAAAAT-AAAAAGAAATTAAATAATATATATAACAA-TTT-AAAAAATTTATAAAG
1 AAAGAAAATTAAAATAAAAAAGAAATTAAATAATATATATAACAATTTTAAAAAAAATTATAAAG
278857 AAAATTAAAATAAATAAAATGTAAAACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATA
66 AAAATTAAAATAAATAAAATGTAAAACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATA
278922 ATGTGAAAAAAGAAATTT
131 ATGTGAAAAAAGAAATTT
278940 AA
1 AA
278942 TATCAACAAT
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
145 99 0.69
146 3 0.02
147 28 0.19
148 14 0.10
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (148 bp):
AAAGAAAATTAAAATAAAAAAGAAATTAAATAATATATATAACAATTTTAAAAAAAATTATAAAG
AAAATTAAAATAAATAAAATGTAAAACAAATTTTAAAATGATGATAAATGAATTTAAAATAAATA
ATGTGAAAAAAGAAATTT
Found at i:278914 original size:49 final size:49
Alignment explanation
Indices: 278668--278922 Score: 186
Period size: 49 Copynumber: 5.2 Consensus size: 49
278658 AGATAAAAAA
* * * * * *
278668 TAAATTAAATAATATATATAAC-AATTTTAAAAAAAATTATAAA-GAAAAT
1 TAAAATAAATAAAATGTAAAACAAATTTT-AAAATAATGATAAATG-AAAT
* *
278717 TAAAATAAATAAAATGTAAAACAAATTTTAAAATGATGATAAATGAATT
1 TAAAATAAATAAAATGTAAAACAAATTTTAAAATAATGATAAATGAAAT
* * * * * *
278766 TAAAATAAAT--AATGTGAAAAAAGAAATTTAAAGAAAATTA-AAATAAAAA
1 TAAAATAAATAAAATGT-AAAACA-AATTTTAAA-ATAATGATAAATGAAAT
* * * * * *
278815 GAAATTAAATAATATATATAAC-AA-TTTAAAA-AATTTATAAA-GAAAAT
1 TAAAATAAATAAAATGTAAAACAAATTTTAAAATAA-TGATAAATG-AAAT
* *
278862 TAAAATAAATAAAATGTAAAACAAATTTTAAAATGATGATAAATGAATT
1 TAAAATAAATAAAATGTAAAACAAATTTTAAAATAATGATAAATGAAAT
278911 TAAAATAAATAA
1 TAAAATAAATAA
278923 TGTGAAAAAA
Statistics
Matches: 160, Mismatches: 32, Indels: 28
0.73 0.15 0.13
Matches are distributed among these distances:
45 2 0.01
46 4 0.03
47 34 0.21
48 9 0.06
49 92 0.57
50 16 0.10
51 3 0.02
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (49 bp):
TAAAATAAATAAAATGTAAAACAAATTTTAAAATAATGATAAATGAAAT
Found at i:279071 original size:26 final size:26
Alignment explanation
Indices: 279042--279145 Score: 109
Period size: 26 Copynumber: 3.9 Consensus size: 26
279032 TATATGAGGG
279042 AAAAAAATTTAAAATAAATAATATGT
1 AAAAAAATTTAAAATAAATAATATGT
* * *
279068 AAAATAATTTAAGATAAATAATATAT
1 AAAAAAATTTAAAATAAATAATATGT
** * *
279094 AAATGAGTTTAAAATAAATATTATGT
1 AAAAAAATTTAAAATAAATAATATGT
* *
279120 AAAAAGAAATGTAAAATAAGTAATAT
1 -AAAA-AAATTTAAAATAAATAATAT
279146 ACAAAACATC
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 43 0.70
27 3 0.05
28 15 0.25
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (26 bp):
AAAAAAATTTAAAATAAATAATATGT
Found at i:279208 original size:26 final size:26
Alignment explanation
Indices: 279179--279243 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
279169 GGTATATAAA
*
279179 AAATAGATAATACAT-ATAAAAATTT
1 AAATAGATAATACATGAAAAAAATTT
* * *
279204 GAAATTGGTAATATATGAAAAAAATTT
1 -AAATAGATAATACATGAAAAAAATTT
*
279231 AAAGTAAATAATA
1 AAA-TAGATAATA
279244 AAACTATTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATAGATAATACATGAAAAAAATTT
Found at i:279242 original size:27 final size:26
Alignment explanation
Indices: 279212--279376 Score: 83
Period size: 26 Copynumber: 6.5 Consensus size: 26
279202 TTGAAATTGG
279212 TAATATATGAAAAAAATTTAAAGT--A
1 TAATATAT-AAAAAAATTTAAAGTAAA
** * *
279237 -AATA-ATAAAACTATTTAAAATGAA
1 TAATATATAAAAAAATTTAAAGTAAA
* *
279261 TAATACATAAAACAAGTTTAAAGTAAA
1 TAATATATAAAA-AAATTTAAAGTAAA
* ** *
279288 TAATGTATAAAGCAATTTAAAGTATA
1 TAATATATAAAAAAATTTAAAGTAAA
* * *
279314 TAGTATATGAAATAATTT-AAG-ATAA
1 TAATATATAAAAAAATTTAAAGTA-AA
* * * **
279339 T-ATATCTAAAACAATTTAAAATAGTT
1 TAATATATAAAAAAATTTAAAGTA-AA
279365 TAATATATAAAA
1 TAATATATAAAA
279377 TTTAAAATAA
Statistics
Matches: 102, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
22 12 0.12
23 2 0.02
24 18 0.18
25 11 0.11
26 32 0.31
27 27 0.26
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (26 bp):
TAATATATAAAAAAATTTAAAGTAAA
Found at i:282758 original size:20 final size:18
Alignment explanation
Indices: 282708--282763 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
282698 TATCATAAAA
*
282708 ATAAAAAGTATTAAAAATG
1 ATAAAAATTA-TAAAAATG
*
282727 ATATAAACTTATAAAAATTG
1 ATA-AAAATTATAAAAA-TG
282747 TATAAAAATTATAAAAA
1 -ATAAAAATTATAAAAA
282764 ATTGAATTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 9 0.29
20 19 0.61
21 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (18 bp):
ATAAAAATTATAAAAATG
Found at i:286877 original size:27 final size:27
Alignment explanation
Indices: 286847--286938 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
286837 TGGGTCAGAA
286847 TGAGAACAATGCTGCTCAGAGCAACAC
1 TGAGAACAATGCTGCTCAGAGCAACAC
**** *
286874 TGAGAACAATGAAAATGC-GGGTCAGA-A-
1 TGAGAACAATGCTGCT-CAGAG-CA-ACAC
*
286901 TGAGAGCAATGCTGCTCAGAGCAACAC
1 TGAGAACAATGCTGCTCAGAGCAACAC
286928 TGAGAACAATG
1 TGAGAACAATG
286939 AGAATGCGGG
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 37 0.79
28 4 0.09
29 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (27 bp):
TGAGAACAATGCTGCTCAGAGCAACAC
Found at i:287033 original size:159 final size:160
Alignment explanation
Indices: 286770--287140 Score: 478
Period size: 159 Copynumber: 2.3 Consensus size: 160
286760 TGAAAACAAT
* *
286770 AACAATGAAAATGCGGGTCAGGACGGGAAGAATGCCACTCAGAGTAACACTGACAACAATGAAAA
1 AACAATGAGAATGCGGGTCAGAAC--GAAGAATGCCACTCAGAGTAACACTGACAACAATGAAAA
* *
286835 TGTGGGTCAGAATGAGAACAATGCTGCTCAGAGCAACACTGAGAACAATGAAAATGCGGGTCAGA
64 TGTGGGTCAGAACGAGAACAATGCCGCTCAGAGCAACACTGAGAACAATGAAAATGCGGGTCAGA
* * * *
286900 ATGAGAGCAATGCTGCTCAGAGCAACACTGAG
129 ACGAGAACAATGCTGCTCAGAGCAACACCGAC
** * * *
286932 AACAATGAGAATGCGGGTCAGAACGAA-AATGCTGCTCCA-AGTAACGCTGAGAACAATGAGAAT
1 AACAATGAGAATGCGGGTCAGAACGAAGAATGCCACT-CAGAGTAACACTGACAACAATGAAAAT
* *
286995 GTGGGTCAGAACGAGAACAATGCCGCTCCA-AGTAACACTGAGAACAATGAGAATGCGGGTCAGA
65 GTGGGTCAGAACGAGAACAATGCCGCT-CAGAGCAACACTGAGAACAATGAAAATGCGGGTCAGA
* *
287059 ACGAGAACAATGCTGCTCCGAGTAACACCGAC
129 ACGAGAACAATGCTGCTCAGAGCAACACCGAC
* * * *
287091 AACAATGAGAATGCAGGTCAGAACGAGAACAATGCGACTCAGAGCAACAC
1 AACAATGAGAATGCGGGTCAGAAC--GAAGAATGCCACTCAGAGTAACAC
287141 CGACGAAAAC
Statistics
Matches: 181, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
159 134 0.74
160 7 0.04
161 5 0.03
162 35 0.19
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.14
Consensus pattern (160 bp):
AACAATGAGAATGCGGGTCAGAACGAAGAATGCCACTCAGAGTAACACTGACAACAATGAAAATG
TGGGTCAGAACGAGAACAATGCCGCTCAGAGCAACACTGAGAACAATGAAAATGCGGGTCAGAAC
GAGAACAATGCTGCTCAGAGCAACACCGAC
Found at i:287064 original size:27 final size:27
Alignment explanation
Indices: 286980--287124 Score: 91
Period size: 27 Copynumber: 5.4 Consensus size: 27
286970 AAGTAACGCT
*
286980 GAGAACAATGAGAATGTGGGTCAGAAC
1 GAGAACAATGAGAATGCGGGTCAGAAC
* * * **
287007 GAGAACAATGCCG-CTCCAAGT-A-ACAC
1 GAGAACAATG-AGAATGCGGGTCAGA-AC
287033 TGAGAACAATGAGAATGCGGGTCAGAAC
1 -GAGAACAATGAGAATGCGGGTCAGAAC
* * * * * * *
287061 GAGAACAATGCTG-CTCCGAGTAACACC
1 GAGAACAATG-AGAATGCGGGTCAGAAC
* *
287088 GACAACAATGAGAATGCAGGTCAGAAC
1 GAGAACAATGAGAATGCGGGTCAGAAC
287115 GAGAACAATG
1 GAGAACAATG
287125 CGACTCAGAG
Statistics
Matches: 82, Mismatches: 28, Indels: 16
0.65 0.22 0.13
Matches are distributed among these distances:
25 1 0.01
26 5 0.06
27 70 0.85
28 5 0.06
29 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (27 bp):
GAGAACAATGAGAATGCGGGTCAGAAC
Found at i:287144 original size:54 final size:54
Alignment explanation
Indices: 286770--287140 Score: 466
Period size: 54 Copynumber: 6.9 Consensus size: 54
286760 TGAAAACAAT
* * * * ** *
286770 AACAATGAAAATGCGGGTCAGGACGGGAAGAATGCCACTCAGAGTAACACTGAC
1 AACAATGAGAATGCGGGTCAGAACGAGAACAATGCTGCTCAGAGTAACACTGAG
* * * *
286824 AACAATGAAAATGTGGGTCAGAATGAGAACAATGCTGCTCAGAGCAACACTGAG
1 AACAATGAGAATGCGGGTCAGAACGAGAACAATGCTGCTCAGAGTAACACTGAG
* * * *
286878 AACAATGAAAATGCGGGTCAGAATGAGAGCAATGCTGCTCAGAGCAACACTGAG
1 AACAATGAGAATGCGGGTCAGAACGAGAACAATGCTGCTCAGAGTAACACTGAG
*
286932 AACAATGAGAATGCGGGTCAGAAC--GAA-AATGCTGCTCCA-AGTAACGCTGAG
1 AACAATGAGAATGCGGGTCAGAACGAGAACAATGCTGCT-CAGAGTAACACTGAG
* *
286983 AACAATGAGAATGTGGGTCAGAACGAGAACAATGCCGCTCCA-AGTAACACTGAG
1 AACAATGAGAATGCGGGTCAGAACGAGAACAATGCTGCT-CAGAGTAACACTGAG
* * *
287037 AACAATGAGAATGCGGGTCAGAACGAGAACAATGCTGCTCCGAGTAACACCGAC
1 AACAATGAGAATGCGGGTCAGAACGAGAACAATGCTGCTCAGAGTAACACTGAG
* *
287091 AACAATGAGAATGCAGGTCAGAACGAGAACAATGC-GACTCAGAGCAACAC
1 AACAATGAGAATGCGGGTCAGAACGAGAACAATGCTG-CTCAGAGTAACAC
287141 CGACGAAAAC
Statistics
Matches: 284, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
51 42 0.15
52 4 0.01
53 5 0.02
54 233 0.82
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.14
Consensus pattern (54 bp):
AACAATGAGAATGCGGGTCAGAACGAGAACAATGCTGCTCAGAGTAACACTGAG
Found at i:287308 original size:51 final size:51
Alignment explanation
Indices: 287226--287324 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
287216 CAGCAACAAC
287226 AACAACAACGAAAATGCAAGTCAAAACGAGAACAATGC-TGCTCAGAGCAGT
1 AACAACAACGAAAATGCAAGTCAAAACGAGAACAATGCAT-CTCAGAGCAGT
* ** *
287277 AACAACAATGAAAATGCAAGTCAGGATGAGAACAATGCATCTCAGAGC
1 AACAACAACGAAAATGCAAGTCAAAACGAGAACAATGCATCTCAGAGC
287325 TTCACCGACA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (51 bp):
AACAACAACGAAAATGCAAGTCAAAACGAGAACAATGCATCTCAGAGCAGT
Done.