Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 78
Found at i:282165 original size:97 final size:97
Alignment explanation
Indices: 281999--282195 Score: 322
Period size: 97 Copynumber: 2.0 Consensus size: 97
281989 TTGAATGCCA
* *
281999 CAATATTCAATATTGAATCTCCAAAGATGCCCCAACATTTTGATGTTAAATCTCCAAAGATGCCC
1 CAATATTCAATATTGAATATCCAAAGATACCCCAACATTTTGATGTTAAATCTCCAAAGATGCCC
282064 CAACATTTAATGTTGAATCTCCAAAGATACCC
66 CAACATTTAATGTTGAATCTCCAAAGATACCC
* * *
282096 CAATATTCGATATTGAATATCCAAAGATACCCCAACATTTTGATGTTGAATCTCCAAAGATGCCT
1 CAATATTCAATATTGAATATCCAAAGATACCCCAACATTTTGATGTTAAATCTCCAAAGATGCCC
* * *
282161 CAACATTTGATGTTGAATCTCCAAATATGCCC
66 CAACATTTAATGTTGAATCTCCAAAGATACCC
282193 CAA
1 CAA
282196 CATTTTATGT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 92 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (97 bp):
CAATATTCAATATTGAATATCCAAAGATACCCCAACATTTTGATGTTAAATCTCCAAAGATGCCC
CAACATTTAATGTTGAATCTCCAAAGATACCC
Found at i:282209 original size:97 final size:97
Alignment explanation
Indices: 282003--282220 Score: 319
Period size: 97 Copynumber: 2.2 Consensus size: 97
281993 ATGCCACAAT
* *
282003 ATTCAATATTGAATCTCCAAAGATGCCCCAACATTTTGATGTTAAATCTCCAAAGATGCCCCAAC
1 ATTCGATATTGAATCTCCAAAGATACCCCAACATTTTGATGTTAAATCTCCAAAGATGCCCCAAC
*
282068 ATTTAATGTTGAATCTCCAAAGATACCCCAAT
66 ATTTAATGTTGAATCTCCAAAGATACCCCAAC
* * *
282100 ATTCGATATTGAATATCCAAAGATACCCCAACATTTTGATGTTGAATCTCCAAAGATGCCTCAAC
1 ATTCGATATTGAATCTCCAAAGATACCCCAACATTTTGATGTTAAATCTCCAAAGATGCCCCAAC
* * *
282165 ATTTGATGTTGAATCTCCAAATATGCCCCAAC
66 ATTTAATGTTGAATCTCCAAAGATACCCCAAC
** * *
282197 ATTTTATGTTGAATCTTCAAAGAT
1 ATTCGATATTGAATCTCCAAAGAT
282221 GCCCTCTATT
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 107 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.31
Consensus pattern (97 bp):
ATTCGATATTGAATCTCCAAAGATACCCCAACATTTTGATGTTAAATCTCCAAAGATGCCCCAAC
ATTTAATGTTGAATCTCCAAAGATACCCCAAC
Found at i:282631 original size:32 final size:32
Alignment explanation
Indices: 282587--282671 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
282577 ACTCAGGTTA
*
282587 TTGTGTTTGGTCAATGGTTTGAATGTCTCAGG
1 TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
282619 TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
1 TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
* *
282651 TTATTTTTGGTTAATGGTTTG
1 TTGTTTTTGGTCAATGGTTTG
282672 GCCTTCTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.15, C:0.07, G:0.28, T:0.49
Consensus pattern (32 bp):
TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
Found at i:283331 original size:14 final size:13
Alignment explanation
Indices: 283302--283349 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
283292 TTATCGTCCC
* *
283302 TTTTTCTTTACAT
1 TTTTTCTTTGCCT
283315 TTTTTCTTTG-CT
1 TTTTTCTTTGCCT
*
283327 TTTTTTTTTGCTCT
1 TTTTTCTTTGC-CT
283341 TTTTTCTTT
1 TTTTTCTTT
283350 ATTATCCATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.34
13 9 0.31
14 10 0.34
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTGCCT
Found at i:289182 original size:16 final size:17
Alignment explanation
Indices: 289153--289186 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
289143 ACTAAAATCA
289153 AATATTCATATAATAAT
1 AATATTCATATAATAAT
*
289170 AATA-TCATGTAATAAT
1 AATATTCATATAATAAT
289186 A
1 A
289187 GGACTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
AATATTCATATAATAAT
Found at i:290626 original size:12 final size:11
Alignment explanation
Indices: 290580--290632 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
290570 AATATTGTAA
290580 AATAATAATAAT
1 AATAATAAT-AT
290592 AATAATAATAT
1 AATAATAATAT
* *
290603 ACT-ATAGTAT
1 AATAATAATAT
290613 -ATAATAATA-
1 AATAATAATAT
290622 AAT-ATAATAT
1 AATAATAATAT
290632 A
1 A
290633 TATTTTAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 7 0.21
10 14 0.41
11 4 0.12
12 9 0.26
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (11 bp):
AATAATAATAT
Found at i:293507 original size:2 final size:2
Alignment explanation
Indices: 293502--293543 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
293492 AAAAAAAAAC
* * *
293502 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT TT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
293544 TAACTTGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:293623 original size:17 final size:16
Alignment explanation
Indices: 293584--293679 Score: 51
Period size: 17 Copynumber: 5.9 Consensus size: 16
293574 CATATAGATT
293584 ATATATAATAATAAATA
1 ATATA-AATAATAAATA
*
293601 AAATAAATAATAAAATA
1 ATATAAATAAT-AAATA
*
293618 CTATAACATATATGTAAA-A
1 ATATAA-ATA-A--TAAATA
293637 ATA-AAATAA-AAACTA
1 ATATAAATAATAAA-TA
*
293652 ATAT-ACT-ATAAAT-
1 ATATAAATAATAAATA
*
293665 ATATAAATAAAAAAT
1 ATATAAATAATAAAT
293680 TAGAATTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
13 7 0.11
14 4 0.07
15 14 0.23
16 7 0.11
17 16 0.26
18 5 0.08
19 4 0.07
20 3 0.05
21 1 0.02
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (16 bp):
ATATAAATAATAAATA
Found at i:293673 original size:34 final size:34
Alignment explanation
Indices: 293585--293676 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 34
293575 ATATAGATTA
293585 TATATAATA-ATAAATAAAATAAATAATAAAATAC
1 TATA-AATATATAAATAAAATAAATAATAAAATAC
*
293619 TATAACATATATGTAAAAATAAAATAAA-AACTAATATAC
1 TATAA-ATATA--T--AAATAAAATAAATAA-TAAAATAC
293658 TATAAATATATAAATAAAA
1 TATAAATATATAAATAAAA
293677 AATTAGAATT
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
33 1 0.02
34 15 0.30
35 1 0.02
36 1 0.02
37 1 0.02
38 7 0.14
39 24 0.48
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (34 bp):
TATAAATATATAAATAAAATAAATAATAAAATAC
Found at i:295456 original size:106 final size:105
Alignment explanation
Indices: 295263--295466 Score: 329
Period size: 106 Copynumber: 1.9 Consensus size: 105
295253 TGTGTTGCTT
* *
295263 TCGAGGCCATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAACTTGGAAAGTGTTTGTTGACA
1 TCGAGGCCATATCCTTCGCTATGAAGTTGAAATTGACTCTGAAACTTGGAAAGTGTTTGTTGACA
295328 ACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTC
66 ACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTC
* * *
295368 TCGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAA-TTGGGAAGTTGTTTGTTGA
1 TCGAGGCC-ATATCCTTCGCTATGAAGTTGAAATTGACTCTGAAACTTGGAAAG-TGTTTGTTGA
*
295432 CAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACTTG
64 CAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTG
295467 TGCTGTCTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
105 14 0.15
106 77 0.85
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (105 bp):
TCGAGGCCATATCCTTCGCTATGAAGTTGAAATTGACTCTGAAACTTGGAAAGTGTTTGTTGACA
ACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTC
Found at i:295505 original size:65 final size:66
Alignment explanation
Indices: 295381--295539 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 66
295371 AGTCCAATAT
* * * * * *
295381 CCTTCGCTATGAAGTTGAAATTG-GC--TCTGAAATTGGGAAGTTGTTTGTTGACAGCCAGCGGC
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTGAAACTGGGAAATTGTTTGTTGACAACCAGCGGC
295443 C
66 C
*
295444 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAATT-TTTGTTGACAACCAGCGGC
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTGAAACTGGGAAATTGTTTGTTGACAACCAGCGGC
295508 C
66 C
* *
295509 CCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
295540 CGAGTCCAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 20 0.24
64 2 0.02
65 48 0.57
66 14 0.17
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (66 bp):
CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTGAAACTGGGAAATTGTTTGTTGACAACCAGCGGC
C
Found at i:295539 original size:171 final size:164
Alignment explanation
Indices: 295275--295638 Score: 518
Period size: 171 Copynumber: 2.2 Consensus size: 164
295265 GAGGCCATAT
* * *
295275 CCTTCGTTGTGAAGTTGAAATTGAC--TCTGAAACTTGGAAAGTGTTTGTTGACAACCAGCGGCC
1 CCTTCGTTGTGAAGTTGAACTTGGCTGTCTGAAACTGGGAAAGTGTTTGTTGACAACCAGCGGCC
* * *
295338 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTATGAAGTTGAAATT
66 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGATATGAAGTTGAAATC
*
295403 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAGCCAGCGGCC
131 GGCTC-------GGGAAATTGTTTGTTGACAGCCAGCGGCC
* *
295444 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAA-TTTTTGTTGACAACCAGCGGC
1 CCTTCGTTGTGAAGTTGAACTTG-GCTGTCTGAAACTGGGAAAGTGTTTGTTGACAACCAGCGGC
* *
295508 CCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGATGTGAAGTTGAAAT
65 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGATATGAAGTTGAAAT
*
295573 CGGCTCGGGAAATTGTTTGTTGACAGTCAGCGGCC
130 CGGCTCGGGAAATTGTTTGTTGACAGCCAGCGGCC
295608 CCTTCGTTGTGAAGTTGAACTTGAGCTGTCT
1 CCTTCGTTGTGAAGTTGAACTTG-GCTGTCT
295639 CGAGTCCAAT
Statistics
Matches: 179, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
164 57 0.32
169 22 0.12
170 1 0.01
171 86 0.48
172 13 0.07
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (164 bp):
CCTTCGTTGTGAAGTTGAACTTGGCTGTCTGAAACTGGGAAAGTGTTTGTTGACAACCAGCGGCC
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGATATGAAGTTGAAATC
GGCTCGGGAAATTGTTTGTTGACAGCCAGCGGCC
Found at i:295725 original size:98 final size:98
Alignment explanation
Indices: 295480--295736 Score: 390
Period size: 99 Copynumber: 2.6 Consensus size: 98
295470 TGTCTTAAAC
* * *
295480 TGGGAAATT-TTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAG
1 TGGGAAATTGTTTGTTGACAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAG
* *
295544 TCCAATATCCTTCGATGTGAAGTTGAAATCGGC
66 TCCAATATCATTCGATGTGAAGTTGAAATCGGA
* *
295577 TCGGGAAATTGTTTGTTGACAGTCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGAGCTGTCTCGA
1 T-GGGAAATTGTTTGTTGACAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGA
*** *
295642 GTCCAATATCATTTTCTGTGAAGTTGAAATTGGA
65 GTCCAATATCATTCGATGTGAAGTTGAAATCGGA
*
295676 TGGGAAATTGTTTGTTGACAGCCAGCGACCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
1 TGGGAAATTGTTTGTTGACAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
295737 TTAAACTGGG
Statistics
Matches: 144, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
97 1 0.01
98 65 0.45
99 78 0.54
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (98 bp):
TGGGAAATTGTTTGTTGACAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAG
TCCAATATCATTCGATGTGAAGTTGAAATCGGA
Found at i:295789 original size:262 final size:263
Alignment explanation
Indices: 295310--296000 Score: 894
Period size: 262 Copynumber: 2.6 Consensus size: 263
295300 TCTGAAACTT
295310 GGAAAGTGTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGTC
1 GGAAA-TGTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGTC
** * *
295375 CAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAGCCAGC
65 CAATAT-CTTTTCTGTGAAGTTGAAATT-G----G-AATTGGGAAATTGTTTGTTGACAGCCAGC
*
295440 GGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAATTTTTGTTGACAACCAGC
123 GACCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAATTTTTGTTGACAACCAGC
*
295505 GGCCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGATGTGAAGTTGA
188 GGCCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGATGTGAAGTTGA
295570 AATCGGCTC-G
253 AATCGGCTCAG
** * *
295580 GGAAATTGTTTGTTGACAGTCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGAGCTGTCTCGAGTC
1 GGAAA-TGTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGTC
295645 CAATATCATTTTCTGTGAAGTTGAAATTGG-A-TGGGAAATTGTTTGTTGACAGCCAGCGACCCC
65 CAATATC-TTTTCTGTGAAGTTGAAATTGGAATTGGGAAATTGTTTGTTGACAGCCAGCGACCCC
*
295708 TTCGTTGTGAAGTTGAACTTGTGCTGTCTTTAAACTGGGAAA-TTTTGTTGACAACCAGCGGTCC
129 TTCGTTGTGAAGTTGAACTTGTGCTGTC-TTAAACTGGGAAATTTTTGTTGACAACCAGCGGCCC
* * *
295772 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
193 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGATGTGAAGTTGAAATCG
295837 GCTCTAAATTG
258 GCTC---A--G
* * * *
295848 GAGAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 G-GAAATGTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGTC
* * *
295913 C-ATATC-CTTCGTGTGAAGTTGAAATTGGCTCTAAATTGGAGAAA-TGTTTGATGACAACCA-C
65 CAATATCTTTTC-TGTGAAGTTGAAATTGG-----AATTGG-GAAATTGTTTGTTGACAGCCAGC
** *
295974 GGTCCCTTCGTCGTGAAGTTGAACTTG
123 GACCCCTTCGTTGTGAAGTTGAACTTG
296001 CGTTGTCTGG
Statistics
Matches: 374, Mismatches: 29, Indels: 34
0.86 0.07 0.08
Matches are distributed among these distances:
262 144 0.39
263 14 0.04
265 4 0.01
266 17 0.05
267 5 0.01
268 54 0.14
269 6 0.02
270 83 0.22
272 26 0.07
273 17 0.05
274 4 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (263 bp):
GGAAATGTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGTCC
AATATCTTTTCTGTGAAGTTGAAATTGGAATTGGGAAATTGTTTGTTGACAGCCAGCGACCCCTT
CGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAATTTTTGTTGACAACCAGCGGCCCCTT
CGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGATGTGAAGTTGAAATCGGCT
CAG
Found at i:295801 original size:65 final size:67
Alignment explanation
Indices: 295676--295801 Score: 184
Period size: 65 Copynumber: 1.9 Consensus size: 67
295666 TGAAATTGGA
* * *
295676 TGGGAAATTGTTTGTTGACAGCCAGCGACCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTTAA
1 TGGGAAATTGTTTGTTGACAACCAGCGACCCCTTCGTCGTGAAGTTGAACTTGCGCTGTCTTTAA
295741 AC
66 AC
** *
295743 TGGGAAA-T-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 TGGGAAATTGTTTGTTGACAACCAGCGACCCCTTCGTCGTGAAGTTGAACTTGCGCTGTCT
295802 GGAGTCCAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 45 0.85
66 1 0.02
67 7 0.13
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (67 bp):
TGGGAAATTGTTTGTTGACAACCAGCGACCCCTTCGTCGTGAAGTTGAACTTGCGCTGTCTTTAA
AC
Found at i:296206 original size:99 final size:99
Alignment explanation
Indices: 295746--296198 Score: 571
Period size: 99 Copynumber: 4.5 Consensus size: 99
295736 TTTAAACTGG
*
295746 GAAAT-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
295810 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTGGA
66 ATATCTTTCG-TGTGAAGTTGAAATTGG-----AATTGGA
295850 GAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-
1 GAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
295914 ATATCCTTCGTGTGAAGTTGAAATTGGCTCTAAATTGGA
66 ATATCTTTCGTGTGAAGTTGAAATTGG-----AATTGGA
295953 GAAATGTTTGATGACAACCA-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * **
296017 ATATCTTTCGTTTTGAAATTG-GCTCT-GAATTGGA
66 ATATCTTTCG-TGTGAAGTTGAAAT-TGGAATTGGA
* * * *
296051 GAAATATTTGGTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCA
1 GAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
296116 ATATCATTTTC-TGTGAAGTTGAAATTGG-ATTGGA
66 ATATC--TTTCGTGTGAAGTTGAAATTGGAATTGGA
* * * *
296150 -AAATTGTTTGTTGACAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACTTG
1 GAAA-TGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
296199 TGCTGTCTTT
Statistics
Matches: 320, Mismatches: 19, Indels: 25
0.88 0.05 0.07
Matches are distributed among these distances:
98 28 0.09
99 102 0.32
100 2 0.01
101 4 0.01
102 43 0.13
103 60 0.19
104 24 0.08
105 57 0.18
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (99 bp):
GAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCTTTCGTGTGAAGTTGAAATTGGAATTGGA
Found at i:296296 original size:470 final size:471
Alignment explanation
Indices: 295444--296413 Score: 1581
Period size: 470 Copynumber: 2.1 Consensus size: 471
295434 GCCAGCGGCC
* * *
295444 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAATTTTTGTTGACAACCAGCGGCC
1 CCTTCGTTGTGAAGTTGAAATTG-GC--TCTTAAACTGGGAAATGTTTGATGACAACCAGCGGCC
* *
295509 CCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGATGTGAAGTTGAAATC
63 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGATGTGAAATTGAAATC
** * * ** * *
295574 GGCTCGGGAAATTGTTTGTTGACAGTCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGAGCTGTCT
128 GAATCGGGAAATTATTTGGTGACAACCAACGGCCCCTTCGTCGTGAAGTTGAACTTGAGCTGTCT
*
295639 CGAGTCCAATATCATTTTCTGTGAAGTTGAAATTGGATGGGAAATTGTTTGTTGACAGCCAGCGA
193 CGAGTCCAATATCATTTTCTGTGAAGTTGAAATTGGATGGAAAATTGTTTGTTGACAGCCAGCGA
295704 CCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTTAAACTGGGAAATTTTGTTGACAACCAGCGG
258 CCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTTAAACTGGGAAATTTTGTTGACAACCAGCGG
*
295769 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
323 TCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
295834 TTGGCTCTAAATTGGAGAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
388 TTGGCTCTAAATTGGAGAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
295899 CGTTGTCTGGAGTCCATAT
453 CGTTGTCTGGAGTCCATAT
* *
295918 CCTTCG-TGTGAAGTTGAAATTGGCTC-TAAATTGGAGAAATGTTTGATGACAACCA-CGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTTAAACTGG-GAAATGTTTGATGACAACCAGCGGCCCC
* * * * **
295980 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCTTTCGTTTTGAAATTG-GCTCTG
65 TTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGATGTGAAATTGAAATC-G
* * * *
296044 AATTGGAGAAA-TATTTGGTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
129 AATCGG-GAAATTATTTGGTGACAACCAACGGCCCCTTCGTCGTGAAGTTGAACTTGAGCTGTCT
296108 CGAGTCCAATATCATTTTCTGTGAAGTTGAAATTGGATTGGAAAATTGTTTGTTGACAGCCAGCG
193 CGAGTCCAATATCATTTTCTGTGAAGTTGAAATTGGA-TGGAAAATTGTTTGTTGACAGCCAGCG
* *
296173 GCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTTAAACTGGTAAATTTTGTTGACAACCAGCG
257 ACCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTTAAACTGGGAAATTTTGTTGACAACCAGCG
296238 GTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
322 GTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
296303 ATTGGCTCTAAATTGGAGAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
387 ATTGGCTCTAAATTGGAGAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
296368 GCGTTGTCTGGAGTCCATAT
452 GCGTTGTCTGGAGTCCATAT
296388 CCTTCGTTGTGAAGTTGAAATTGGCT
1 CCTTCGTTGTGAAGTTGAAATTGGCT
296414 ATGGGTAAAA
Statistics
Matches: 462, Mismatches: 29, Indels: 13
0.92 0.06 0.03
Matches are distributed among these distances:
468 2 0.00
469 150 0.32
470 268 0.58
471 19 0.04
472 2 0.00
473 15 0.03
474 6 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (471 bp):
CCTTCGTTGTGAAGTTGAAATTGGCTCTTAAACTGGGAAATGTTTGATGACAACCAGCGGCCCCT
TCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGATGTGAAATTGAAATCGAA
TCGGGAAATTATTTGGTGACAACCAACGGCCCCTTCGTCGTGAAGTTGAACTTGAGCTGTCTCGA
GTCCAATATCATTTTCTGTGAAGTTGAAATTGGATGGAAAATTGTTTGTTGACAGCCAGCGACCC
CTTCGTTGTGAAGTTGAACTTGTGCTGTCTTTAAACTGGGAAATTTTGTTGACAACCAGCGGTCC
CTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
GCTCTAAATTGGAGAAATGTTTGATGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGT
TGTCTGGAGTCCATAT
Found at i:296361 original size:105 final size:103
Alignment explanation
Indices: 296176--296413 Score: 361
Period size: 105 Copynumber: 2.3 Consensus size: 103
296166 GCCAGCGGCC
* * *
296176 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTTAAACTGGTAAATTTTGTTGACAACCAGCGGTC
1 CCTTCGTTGTGAAGTTGAAATTG-GC--TC-TTAAACTGGGAAATTTTGATGACAACCAGCGGTC
296241 CCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
62 CCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCC-ATAT
*
296284 CCTTCGTTGTGAAGTTGAAATTGGCTC-TAAATTGGAGAAATGTTTGATGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTTAAACTGG-GAAAT-TTTGATGACAACCAGCGGTCCC
*
296348 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCATAT
64 TTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCATAT
296388 CCTTCGTTGTGAAGTTGAAATTGGCT
1 CCTTCGTTGTGAAGTTGAAATTGGCT
296414 ATGGGTAAAA
Statistics
Matches: 123, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
103 7 0.06
104 34 0.28
105 58 0.47
107 2 0.02
108 22 0.18
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (103 bp):
CCTTCGTTGTGAAGTTGAAATTGGCTCTTAAACTGGGAAATTTTGATGACAACCAGCGGTCCCTT
CGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCATAT
Found at i:307585 original size:29 final size:28
Alignment explanation
Indices: 307529--307585 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
307519 TAAATTGAAA
*
307529 ATAAAATAAAGAAAAAAACTAACAACAT
1 ATAAAATAAAGAAAAAAACAAACAACAT
* * *
307557 ATAAAATAAGGACAAAAAGCAAACGACAT
1 ATAAAATAAAGA-AAAAAACAAACAACAT
307586 GACCAACATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.67, C:0.12, G:0.09, T:0.12
Consensus pattern (28 bp):
ATAAAATAAAGAAAAAAACAAACAACAT
Found at i:310930 original size:17 final size:19
Alignment explanation
Indices: 310885--310931 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
310875 ATATCACATG
*
310885 TATCCTAAAACCCGGTATA
1 TATCCCAAAACCCGGTATA
* *
310904 AATACCAAAACCC-G-ATA
1 TATCCCAAAACCCGGTATA
310921 TATCCCAAAAC
1 TATCCCAAAAC
310932 TCTCTCAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 12 0.52
18 1 0.04
19 10 0.43
ACGTcount: A:0.45, C:0.30, G:0.06, T:0.19
Consensus pattern (19 bp):
TATCCCAAAACCCGGTATA
Found at i:316242 original size:21 final size:20
Alignment explanation
Indices: 316210--316251 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
316200 TCTGGTTAAC
*
316210 ATTGTGTATGTATGATCTTTT
1 ATTGTGTATGTATCA-CTTTT
316231 ATTGTTGT-TGTATCACTTTT
1 ATTG-TGTATGTATCACTTTT
316251 A
1 A
316252 ATCTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 10 0.53
22 3 0.16
ACGTcount: A:0.19, C:0.07, G:0.17, T:0.57
Consensus pattern (20 bp):
ATTGTGTATGTATCACTTTT
Found at i:324299 original size:2 final size:2
Alignment explanation
Indices: 324292--324367 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
324282 AGATTCTTCC
324292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
324334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
324368 CTTCGCTTTT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:326806 original size:8 final size:8
Alignment explanation
Indices: 326795--326839 Score: 58
Period size: 7 Copynumber: 5.8 Consensus size: 8
326785 AAAAAAAGGA
326795 AAAAAATG
1 AAAAAATG
326803 -AAAAATG
1 AAAAAATG
*
326810 -AAAAATA
1 AAAAAATG
326817 AAAAAATG
1 AAAAAATG
326825 AAAAAAATG
1 -AAAAAATG
326834 AAAAAA
1 AAAAAA
326840 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 13 0.39
8 12 0.36
9 8 0.24
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:326814 original size:1 final size:1
Alignment explanation
Indices: 326810--326861 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
326800 ATGAAAAATG
* ** **
326810 AAAAATAAAAAAATGAAAAAAATGAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
326862 GGGGGGTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.90, C:0.00, G:0.04, T:0.06
Consensus pattern (1 bp):
A
Found at i:326820 original size:31 final size:30
Alignment explanation
Indices: 326784--326861 Score: 102
Period size: 31 Copynumber: 2.6 Consensus size: 30
326774 CTTGAAGATG
* *
326784 AAAAAAAAGGAAAAAAATGAAAAATGAAAAA
1 AAAAAAAAAGAAAAAAATGAAAAA-AAAAAA
* *
326815 TAAAAAAATGAAAAAAATGAAAAAAAAAAA
1 AAAAAAAAAGAAAAAAATGAAAAAAAAAAA
*
326845 AAAAAAAAAAAAAAAAA
1 AAAAAAAAAGAAAAAAA
326862 GGGGGGTTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 19 0.46
31 22 0.54
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (30 bp):
AAAAAAAAAGAAAAAAATGAAAAAAAAAAA
Found at i:328389 original size:53 final size:52
Alignment explanation
Indices: 328187--328902 Score: 1051
Period size: 53 Copynumber: 13.5 Consensus size: 52
328177 GCAACAGAAG
* *
328187 ATTGTTCGAGTTCTACTCCCTGAAGAAAATAGGGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAGAGAGCGGACCCGTAGGAAGATT
* * *
328239 ATTGTTCGAGTTCTACTCCCTGAA-AAAATAGGGTGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAGAGAGCGGACCCGTAGGAAGATT
328290 ATTGTTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAA-AGAGAGCGGA-CCCGTAGGAAGATT
*
328344 ATTGTTCGAGTTCTACTTCCTGAAGAATAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAA-AAGAGAGCGGACCCGTAGGAAGATT
**
328397 ATTGTTCGAGTTCTTTTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAG-AAAAGAGAGCGGACCCGTAGGAAGATT
*
328450 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGGAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAA-AGAGAGCGGACCCGTAGGAAGATT
* *
328503 ATTCTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCAGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAA-AGAGAGCGGACCCGTAGGAAGATT
*
328556 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAAAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAG-AAAAGAGAGCGGACCCGTAGGAAGATT
* *
328610 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGTGGACCCATAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAA-AGAGAGCGGACCCGTAGGAAGATT
328663 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
1 ATTGTTCGAGTTC-TACTCCCTGAAG-AAAAGAGAGCGGACCCGTAGGAAGATT
* *
328717 ATTGTTTGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCTTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAA-AGAGAGCGGACCCGTAGGAAGATT
* * * * *
328770 ATTATTCGAGTTCTACTCCCTGAAGGAAGAGAGAGCAGACCCATAGGAAGATG
1 ATTGTTCGAGTTCTACTCCCTGAA-GAAAAGAGAGCGGACCCGTAGGAAGATT
* **
328823 ATTGTTCGAGTTCTACTCCCTGAAGAAAAGAGAG-AGAGCCCGTAGGAAGAAG
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAGAGAGCGGA-CCCGTAGGAAGATT
*
328875 AATGTTCGAGTTCTACTCCCTGAAGAAA
1 ATTGTTCGAGTTCTACTCCCTGAAGAAA
328903 GAGGAAGTGA
Statistics
Matches: 613, Mismatches: 35, Indels: 32
0.90 0.05 0.05
Matches are distributed among these distances:
51 42 0.07
52 92 0.15
53 341 0.56
54 132 0.22
55 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (52 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAAAGAGAGCGGACCCGTAGGAAGATT
Found at i:328584 original size:160 final size:159
Alignment explanation
Indices: 328187--328902 Score: 1081
Period size: 160 Copynumber: 4.5 Consensus size: 159
328177 GCAACAGAAG
328187 ATTGTTCGAGTTCTACTCCCTGAAGAAAATAG-G-GCGGACCCGTAGGAAGATTATTGTTCGAGT
1 ATTGTTCGAGTTCTACTCCCTGAAG-AAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
*
328250 TCTACTCCCTGAA-AAAATAG-G-GTGGACCCGTAGGAAGATTATTGTTCGAGTTCTTACTCCCT
65 TCTACTCCCTGAAGAAAA-AGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTC-TACTCCCT
*
328312 GAAGAAATAGAGAGC-GAGCCCGTAGGAAGATT
128 GAAGAAATAGAGAGCGGA-CCCATAGGAAGATT
*
328344 ATTGTTCGAGTTCTACTTCCTGAAG-AATAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAT-AGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
**
328408 TCTTTTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
65 TCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
**
328473 AGAAATAGAGAGCGGACCCGGAGGAAGATT
130 AGAAATAGAGAGCGGACCCATAGGAAGATT
* *
328503 ATTCTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCAGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
*
328568 CTTACTCCCTGAAGAAAAAGAAAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
66 C-TACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
*
328633 AGAAATAGAGAGTGGACCCATAGGAAGATT
130 AGAAATAGAGAGCGGACCCATAGGAAGATT
* *
328663 ATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTTGAGT
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
* * *
328728 TCTACTCCCTGAAGAAATAGAGAGCGGACCCTTAGGAAGATTATTATTCGAGTTCTACTCCCTGA
65 TCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGA
* * * *
328793 AGGAAGAGAGAGCAGACCCATAGGAAGATG
130 AGAAATAGAGAGCGGACCCATAGGAAGATT
* ** *
328823 ATTGTTCGAGTTCTACTCCCTGAAGAAA-AGAGAG-AGAGCCCGTAGGAAGAAGAATGTTCGAGT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATTATTGTTCGAGT
328886 TCTACTCCCTGAAGAAA
65 TCTACTCCCTGAAGAAA
328903 GAGGAAGTGA
Statistics
Matches: 516, Mismatches: 32, Indels: 21
0.91 0.06 0.04
Matches are distributed among these distances:
155 3 0.01
156 2 0.00
157 27 0.05
158 87 0.17
159 115 0.22
160 232 0.45
161 50 0.10
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (159 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
CTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTTCTACTCCCTGAA
GAAATAGAGAGCGGACCCATAGGAAGATT
Found at i:328625 original size:107 final size:106
Alignment explanation
Indices: 328187--328902 Score: 1088
Period size: 107 Copynumber: 6.8 Consensus size: 106
328177 GCAACAGAAG
328187 ATTGTTCGAGTTCTACTCCCTGAAGAAAATAG-G-GCGGACCCGTAGGAAGATTATTGTTCGAGT
1 ATTGTTCGAGTTCTACTCCCTGAAG-AAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGT
*
328250 TCTACTCCCTGAA-AAAATAG-G-GTGGACCCGTAGGAAGATT
65 TCTACTCCCTGAAGAAAA-AGAGAGCGGACCCGTAGGAAGATT
328290 ATTGTTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGATTATTGTTCGAG
1 ATTGTTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATTATTGTTCGAG
* *
328354 TTCTACTTCCTGAAGAATAAGAGAGCGGACCCGTAGGAAGATT
64 TTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
** *
328397 ATTGTTCGAGTTCTTTTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
* *
328462 CTACTCCCTGAAGAAATAGAGAGCGGACCCGGAGGAAGATT
66 CTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* *
328503 ATTCTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCAGACCCGTAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
*
328568 CTTACTCCCTGAAGAAAAAGAAAGCGGACCCGTAGGAAGATT
66 C-TACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* *
328610 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGTGGACCCATAGGAAGATTATTGTTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
328675 CTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
66 C-TACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* * *
328717 ATTGTTTGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCTTAGGAAGATTATTATTCGAGTT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
* * * * *
328782 CTACTCCCTGAAGGAAGAGAGAGCAGACCCATAGGAAGATG
66 CTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
* ** *
328823 ATTGTTCGAGTTCTACTCCCTGAAGAAA-AGAGAG-AGAGCCCGTAGGAAGAAGAATGTTCGAGT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATTATTGTTCGAGT
328886 TCTACTCCCTGAAGAAA
65 TCTACTCCCTGAAGAAA
328903 GAGGAAGTGA
Statistics
Matches: 563, Mismatches: 40, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
103 19 0.03
104 17 0.03
105 83 0.15
106 210 0.37
107 234 0.42
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (106 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTCGAGTT
CTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATT
Found at i:333175 original size:20 final size:21
Alignment explanation
Indices: 333118--333210 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
333108 AATCAGATTG
*
333118 CCCA-GGGGTACAAATTCCTCT
1 CCCAGGGGGAACAAATTCC-CT
* *
333139 CCCA-GGGGTACAGATTCCC-
1 CCCAGGGGGAACAAATTCCCT
333158 CCCAGGGGGAACAAATTCCC-
1 CCCAGGGGGAACAAATTCCCT
* * *
333178 CCCAGGGGGTACCGATTTCCCT
1 CCCAGGGGG-AACAAATTCCCT
333200 CCCAGGGGGAA
1 CCCAGGGGGAA
333211 TAGTTCCCCC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 4 0.06
20 23 0.37
21 26 0.42
22 9 0.15
ACGTcount: A:0.23, C:0.34, G:0.27, T:0.16
Consensus pattern (21 bp):
CCCAGGGGGAACAAATTCCCT
Found at i:333218 original size:41 final size:42
Alignment explanation
Indices: 333118--333240 Score: 139
Period size: 41 Copynumber: 3.0 Consensus size: 42
333108 AATCAGATTG
* *
333118 CCCA-GGGGTACAAATTCCTCTCCCA-GGGGTACAGA-TTCCC-
1 CCCAGGGGGAACAAATTCC-C-CCCAGGGGGTACCGATTTCCCT
333158 CCCAGGGGGAACAAATTCCCCCCAGGGGGTACCGATTTCCCT
1 CCCAGGGGGAACAAATTCCCCCCAGGGGGTACCGATTTCCCT
* * * *
333200 CCCAGGGGGAA-TAGTTCCCCCTAGGGGGTACCGATTCCCCT
1 CCCAGGGGGAACAAATTCCCCCCAGGGGGTACCGATTTCCCT
333241 GTCTAACGGT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
39 4 0.05
40 14 0.19
41 44 0.60
42 11 0.15
ACGTcount: A:0.20, C:0.35, G:0.26, T:0.19
Consensus pattern (42 bp):
CCCAGGGGGAACAAATTCCCCCCAGGGGGTACCGATTTCCCT
Found at i:333237 original size:20 final size:20
Alignment explanation
Indices: 333118--333239 Score: 115
Period size: 20 Copynumber: 6.0 Consensus size: 20
333108 AATCAGATTG
*
333118 CCCA-GGGGTACAAATTCCTC
1 CCCAGGGGGTACAGATTCC-C
333138 TCCCA-GGGGTACAGATTCCC
1 -CCCAGGGGGTACAGATTCCC
* *
333158 CCCAGGGGGAACAAATTCCC
1 CCCAGGGGGTACAGATTCCC
*
333178 CCCAGGGGGTACCGATTTCCC
1 CCCAGGGGGTACAGA-TTCCC
* *
333199 TCCCAGGGGGAATAG-TTCCC
1 -CCCAGGGGGTACAGATTCCC
* *
333219 CCTAGGGGGTACCGATTCCC
1 CCCAGGGGGTACAGATTCCC
333239 C
1 C
333240 TGTCTAACGG
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
19 14 0.17
20 37 0.44
21 22 0.26
22 11 0.13
ACGTcount: A:0.20, C:0.35, G:0.26, T:0.18
Consensus pattern (20 bp):
CCCAGGGGGTACAGATTCCC
Found at i:334534 original size:19 final size:20
Alignment explanation
Indices: 334510--334557 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
334500 AACGATTTTC
*
334510 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
334529 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
334549 TTTTGAAAA
1 TTTTGAAAA
334558 AGGATTCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:336005 original size:21 final size:21
Alignment explanation
Indices: 335979--336061 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 21
335969 TCAGATTGCA
335979 CAGGGGGAACAGATTCCCCCC
1 CAGGGGGAACAGATTCCCCCC
* * *
336000 CAGGGGGTACCGATTCCCCTC
1 CAGGGGGAACAGATTCCCCCC
*
336021 CAGGGGGAACAGATCCCCCCC
1 CAGGGGGAACAGATTCCCCCC
* *
336042 CAGGGGGTACCGATTCCCCC
1 CAGGGGGAACAGATTCCCCC
336062 TGTCTAACGG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (21 bp):
CAGGGGGAACAGATTCCCCCC
Found at i:336040 original size:42 final size:42
Alignment explanation
Indices: 335979--336060 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
335969 TCAGATTGCA
*
335979 CAGGGGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCCTC
1 CAGGGGGAACAGATCCCCCCCCAGGGGGTACCGATTCCCCTC
336021 CAGGGGGAACAGATCCCCCCCCAGGGGGTACCGATTCCCC
1 CAGGGGGAACAGATCCCCCCCCAGGGGGTACCGATTCCCC
336061 CTGTCTAACG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.12
Consensus pattern (42 bp):
CAGGGGGAACAGATCCCCCCCCAGGGGGTACCGATTCCCCTC
Found at i:338833 original size:59 final size:59
Alignment explanation
Indices: 338294--338812 Score: 753
Period size: 59 Copynumber: 8.8 Consensus size: 59
338284 CCCATAGGGG
* * * * *
338294 AATTTATACACTTAGTATGAATTCCTTATCATTTTAGTACAC-AAGGTG-TCAATATGGA
1 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAA-GTGCCCTATATGGA
* * * *
338352 GATTCATACACTAAGTATGAATTCCTTATCATGATAGCACACTG-AGTGCCATATATGGA
1 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACAC-GAAGTGCCCTATATGGA
* * *
338411 AATTCATACATTTATTATGAATTCCTTATCATGTTAGCACACGGAGTGCCCTATATGGA
1 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATGGA
* *
338470 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGCGCCCTTTATGGA
1 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATGGA
*
338529 AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACAC-AGAGTGCCCTATATGGA
1 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGA-AGTGCCCTATATGGA
*
338588 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTCTATGGA
1 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATGGA
* * *
338647 AATTCATACACTTAATATGAATTCTTTCTCATGTTAGCACACGAAGTGCCCTATATGGA
1 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATGGA
* *
338706 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACATGGAGTGCCCTATATGGA
1 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATGGA
* *
338765 AATTCATACACCTAGTATGAATTCCTT-TACAT-TTAGCACACAAAGTGC
1 AATTCATACACTTAGTATGAATTCCTTAT-CATGTTAGCACACGAAGTGC
338813 TCTTCTGGTA
Statistics
Matches: 416, Mismatches: 38, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
58 55 0.13
59 360 0.87
60 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (59 bp):
AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATGGA
Found at i:339277 original size:95 final size:94
Alignment explanation
Indices: 339157--339359 Score: 248
Period size: 95 Copynumber: 2.1 Consensus size: 94
339147 TTCCACAATA
* * * *
339157 GTATCGATACTACCCTACTATGGTATCGATACCCCCT-TCCAGTATCGATACCAAAATTTGATTA
1 GTATCGATACTACCATAATATGGTATCGATA-CCCCTATACAGTATCGATACCAAAATTAGATTA
339221 GATGTGGT-CCAGTATCGATACCCTTAACATG
65 GATGT--TACCAGTATCGATACCCTTAACATG
* * ** * *
339252 GTATCGATACTACTATAATATGGTATCGATATCCCTATATGGTTTCGATACCAAAATTAGGTTAG
1 GTATCGATACTACCATAATATGGTATCGATACCCCTATACAGTATCGATACCAAAATTAGATTAG
** *
339317 ATGTTACTGGTATCGATACCCTTACCATG
66 ATGTTACCAGTATCGATACCCTTAACATG
339346 GTATCGATACTACC
1 GTATCGATACTACC
339360 TCATTCAGTA
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 37 0.40
95 54 0.59
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (94 bp):
GTATCGATACTACCATAATATGGTATCGATACCCCTATACAGTATCGATACCAAAATTAGATTAG
ATGTTACCAGTATCGATACCCTTAACATG
Found at i:339289 original size:22 final size:21
Alignment explanation
Indices: 339232--339290 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
339222 ATGTGGTCCA
339232 GTATCGATACCCT-TAACATG
1 GTATCGATACCCTATAACATG
* *
339252 GTATCGATACTACTATAATATG
1 GTATCGATAC-CCTATAACATG
339274 GTATCGATATCCCTATA
1 GTATCGATA-CCCTATA
339291 TGGTTTCGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.30
21 2 0.06
22 20 0.61
23 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (21 bp):
GTATCGATACCCTATAACATG
Found at i:345648 original size:59 final size:59
Alignment explanation
Indices: 345585--346060 Score: 753
Period size: 59 Copynumber: 8.1 Consensus size: 59
345575 AAGGTACCCA
* * *
345585 ATATGGAGATTCATACACTTAGTATGAATTCGTTATCATGTTAGCACACAAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
* *
345644 ATATGCAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGGAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
* *
345703 ATAAGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGCGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
* *
345762 ATATGG-AATTCATACACTTAGTATGAATTTCTTCTCATGTTAGCACAC-AGAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGA-AGTGCCCT
* *
345820 ATATGGAAATTCATACACTTAGTATGAATTCCTTTTCATGTTAGCATACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
* *
345879 ATATGGAAATTCATACACTTAGTATGAATTCTTTATCATGTTACCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
* *
345938 ATATGGAAATTCATACACTTAGTATAAATTCCTTATCATGTTAGCACACGGAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
* *
345997 ATATGGAAATTCATACACTTAGTATGAATTCCTTGA-CATTTTAGCACACAAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTT-ATCATGTTAGCACACGAAGTGCCCT
346056 -TATGG
1 ATATGG
346061 TAATCACCAT
Statistics
Matches: 385, Mismatches: 28, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
57 1 0.00
58 58 0.15
59 324 0.84
60 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (59 bp):
ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
Found at i:345977 original size:235 final size:236
Alignment explanation
Indices: 345566--346060 Score: 780
Period size: 235 Copynumber: 2.1 Consensus size: 236
345556 TCATATTATT
* * * *
345566 TTAGCACA-AAAGGTACCCAATATGGAGATTCATACACTTAGTATGAATTCGTTATCATGTTAGC
1 TTAGCACACAAA-GTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGC
* *
345630 ACACAAAGTGCCCTATATGCAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGG
65 ACACAAAGTGCCCTATATGCAAATTCATACACTTAGTATGAATTCCTTATCATGTTACCACACGA
*
345695 AGTGCCCTATAAGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGCGCC
130 AGTGCCCTATAAGGAAATTCATACACTTAGTATAAATTCCTTATCATGTTAGCACACGAAGCGCC
* *
345760 CTATATGG-AATTCATACACTTAGTATGAATTTCTTCTCATG
195 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCACATG
* *
345801 TTAGCACACAGAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTTTCATGTTAGCA
1 TTAGCACACAAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCA
* * * *
345866 TACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCTTTATCATGTTACCACACGAA
66 CACAAAGTGCCCTATATGCAAATTCATACACTTAGTATGAATTCCTTATCATGTTACCACACGAA
* * *
345931 GTGCCCTATATGGAAATTCATACACTTAGTATAAATTCCTTATCATGTTAGCACACGGAGTGCCC
131 GTGCCCTATAAGGAAATTCATACACTTAGTATAAATTCCTTATCATGTTAGCACACGAAGCGCCC
* *
345996 TATATGGAAATTCATACACTTAGTATGAATTCCTTGACATT
196 TATATGGAAATTCATACACTTAGTATGAATTCCTTCACATG
346037 TTAGCACACAAAGTGCCCT-TATGG
1 TTAGCACACAAAGTGCCCTATATGG
346061 TAATCACCAT
Statistics
Matches: 237, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
235 188 0.79
236 49 0.21
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (236 bp):
TTAGCACACAAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCA
CACAAAGTGCCCTATATGCAAATTCATACACTTAGTATGAATTCCTTATCATGTTACCACACGAA
GTGCCCTATAAGGAAATTCATACACTTAGTATAAATTCCTTATCATGTTAGCACACGAAGCGCCC
TATATGGAAATTCATACACTTAGTATGAATTCCTTCACATG
Found at i:346495 original size:20 final size:20
Alignment explanation
Indices: 346470--346594 Score: 75
Period size: 20 Copynumber: 6.5 Consensus size: 20
346460 ATGTGGTCCA
346470 GTATCGATACCCTTACCATG
1 GTATCGATACCCTTACCATG
* * *
346490 GTATCGATACTACTATACTATA
1 GTATCGATAC-CCT-TACCATG
* * *
346512 GTACCGATATCCTTA-TATG
1 GTATCGATACCCTTACCATG
*** **
346531 GTATCGATACCAAAATTA-G
1 GTATCGATACCCTTACCATG
*
346550 GT-TCGAT---TTTACC-TG
1 GTATCGATACCCTTACCATG
346565 GTATCGATACCCTTACCATG
1 GTATCGATACCCTTACCATG
346585 GTATCGATAC
1 GTATCGATAC
346595 TACCTCATTT
Statistics
Matches: 78, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
15 4 0.05
16 5 0.06
18 5 0.06
19 21 0.27
20 26 0.33
21 4 0.05
22 13 0.17
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (20 bp):
GTATCGATACCCTTACCATG
Found at i:346509 original size:95 final size:95
Alignment explanation
Indices: 346395--346598 Score: 225
Period size: 95 Copynumber: 2.1 Consensus size: 95
346385 TCCCACATTA
* * * ** * *
346395 GTATCAATACTACCCTACTATGGTATTGATACCCCTT-TCCAGTATCGATACCAAAATTAGATTT
1 GTATCGATACTACCATACTATAGTACCGATA-CCCTTATACAGTATCGATACCAAAATTAGATTC
346459 AATGTGGT-CC-AGTATCGATACCCTTACCATG
65 AAT-T-GTACCTAGTATCGATACCCTTACCATG
* * ** * *
346490 GTATCGATACTACTATACTATAGTACCGATATCCTTATATGGTATCGATACCAAAATTAGGTTCG
1 GTATCGATACTACCATACTATAGTACCGATACCCTTATACAGTATCGATACCAAAATTAGATTCA
* *
346555 ATTTTACCTGGTATCGATACCCTTACCATG
66 ATTGTACCTAGTATCGATACCCTTACCATG
346585 GTATCGATACTACC
1 GTATCGATACTACC
346599 TCATTTGGTA
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
93 1 0.01
94 7 0.08
95 82 0.91
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (95 bp):
GTATCGATACTACCATACTATAGTACCGATACCCTTATACAGTATCGATACCAAAATTAGATTCA
ATTGTACCTAGTATCGATACCCTTACCATG
Found at i:347456 original size:18 final size:18
Alignment explanation
Indices: 347433--347468 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
347423 ATGTAGCCTA
347433 CTTTGACATATCAGACTG
1 CTTTGACATATCAGACTG
*
347451 CTTTGACATTTCAGACTG
1 CTTTGACATATCAGACTG
347469 TTACTCGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (18 bp):
CTTTGACATATCAGACTG
Found at i:350415 original size:35 final size:35
Alignment explanation
Indices: 350350--350416 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
350340 ATATATTTTA
* * * *
350350 AATATTTTAATATTTAATATCTTAATTAAAATAAT
1 AATATATTAATATTAAATATCTAAAATAAAATAAT
350385 AATATATTAATATTAAAT-TCATAAAATAAAAT
1 AATATATTAATATTAAATATC-TAAAATAAAAT
350417 TATTTTGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.07
35 25 0.93
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (35 bp):
AATATATTAATATTAAATATCTAAAATAAAATAAT
Found at i:356546 original size:32 final size:32
Alignment explanation
Indices: 356508--356568 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
356498 GAATGAAATT
*
356508 AACATGAACCAAAAACAACCCTAACCCAAAAC
1 AACATGAACCAAAAACAACCCAAACCCAAAAC
* * *
356540 AACATGAATCGAAAACAATCCAAACCCAA
1 AACATGAACCAAAAACAACCCAAACCCAA
356569 TTTAACCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.56, C:0.31, G:0.05, T:0.08
Consensus pattern (32 bp):
AACATGAACCAAAAACAACCCAAACCCAAAAC
Found at i:356656 original size:15 final size:15
Alignment explanation
Indices: 356614--356660 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
356604 AAACTGAACC
*
356614 AAAAGTAATCCAAACTT
1 AAAAGTAACCCAAA--T
356631 AAAAGTAACCCGAAAT
1 AAAAGTAACCC-AAAT
356647 AAAA-TAACCCAAAT
1 AAAAGTAACCCAAAT
356661 CGAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.14
15 6 0.21
16 5 0.18
17 10 0.36
18 3 0.11
ACGTcount: A:0.57, C:0.19, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAGTAACCCAAAT
Found at i:357642 original size:16 final size:16
Alignment explanation
Indices: 357621--357653 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
357611 AACAGACTCG
*
357621 ATAATCACTCGACCCA
1 ATAATCACTAGACCCA
357637 ATAATCACTAGACCCA
1 ATAATCACTAGACCCA
357653 A
1 A
357654 AAATTGACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.33, G:0.06, T:0.18
Consensus pattern (16 bp):
ATAATCACTAGACCCA
Found at i:362692 original size:109 final size:109
Alignment explanation
Indices: 362501--362718 Score: 436
Period size: 109 Copynumber: 2.0 Consensus size: 109
362491 TATTAAAATA
362501 GACAAAACTGATACTTTAGGTGCTAAATGCTTAGTTTACCCTAATAAATACAACAATTTTCCTCC
1 GACAAAACTGATACTTTAGGTGCTAAATGCTTAGTTTACCCTAATAAATACAACAATTTTCCTCC
362566 TTAGTCGATAGAAGGCTATATAATGAATATTTTTTAAAACTATT
66 TTAGTCGATAGAAGGCTATATAATGAATATTTTTTAAAACTATT
362610 GACAAAACTGATACTTTAGGTGCTAAATGCTTAGTTTACCCTAATAAATACAACAATTTTCCTCC
1 GACAAAACTGATACTTTAGGTGCTAAATGCTTAGTTTACCCTAATAAATACAACAATTTTCCTCC
362675 TTAGTCGATAGAAGGCTATATAATGAATATTTTTTAAAACTATT
66 TTAGTCGATAGAAGGCTATATAATGAATATTTTTTAAAACTATT
362719 TTTTGTTGAT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (109 bp):
GACAAAACTGATACTTTAGGTGCTAAATGCTTAGTTTACCCTAATAAATACAACAATTTTCCTCC
TTAGTCGATAGAAGGCTATATAATGAATATTTTTTAAAACTATT
Found at i:365827 original size:31 final size:31
Alignment explanation
Indices: 365791--365859 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
365781 TTCGAGCTGG
*
365791 ATATTAAGTAGCTCACTTCGGCTCATTAAGA
1 ATATTAAGTAACTCACTTCGGCTCATTAAGA
365822 ATATTAAGTAACTCACTTCGGCTCATTAAGA
1 ATATTAAGTAACTCACTTCGGCTCATTAAGA
365853 AT-TTAAG
1 ATATTAAG
365860 GAGAGTAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 5 0.14
31 32 0.86
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (31 bp):
ATATTAAGTAACTCACTTCGGCTCATTAAGA
Found at i:374206 original size:8 final size:8
Alignment explanation
Indices: 374184--374272 Score: 54
Period size: 8 Copynumber: 10.5 Consensus size: 8
374174 ACAGTAGTTA
374184 ATATTTAT
1 ATATTTAT
*
374192 TTA-TTAT
1 ATATTTAT
374199 ATATTTAT
1 ATATTTAT
374207 ATTAGTATTAT
1 A-TA-T-TTAT
374218 ATTATTTAT
1 A-TATTTAT
* *
374227 ATGTACTCAT
1 A--TATTTAT
*
374237 ATATATAT
1 ATATTTAT
*
374245 ATATATAT
1 ATATTTAT
*
374253 ATATATAT
1 ATATTTAT
*
374261 ATATATAT
1 ATATTTAT
374269 ATAT
1 ATAT
374273 ATATTACTAC
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
7 6 0.09
8 39 0.57
9 7 0.10
10 8 0.12
11 8 0.12
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (8 bp):
ATATTTAT
Found at i:374218 original size:17 final size:15
Alignment explanation
Indices: 374184--374225 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
374174 ACAGTAGTTA
*
374184 ATATTTATTTATTAT
1 ATATTTATTTAGTAT
374199 ATATTTATATTAGTAT
1 ATATTTAT-TTAGTAT
374215 -TATATTATTTA
1 ATAT-TTATTTA
374226 TATGTACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATATTTATTTAGTAT
Found at i:374242 original size:2 final size:2
Alignment explanation
Indices: 374196--374276 Score: 87
Period size: 2 Copynumber: 40.5 Consensus size: 2
374186 ATTTATTTAT
* * *
374196 TA TA TA TT TA TA T- TA GTA T- TA TA T- TA TT TA TA TG TA CTCA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -T-A
374236 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
374277 TACTACTATA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
1 3 0.04
2 59 0.88
3 4 0.06
4 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:374859 original size:107 final size:108
Alignment explanation
Indices: 374556--375121 Score: 749
Period size: 107 Copynumber: 5.3 Consensus size: 108
374546 TTCCTATCAG
* * ** * *
374556 TTTAGGGAGTA-GAACTTGAACAATCTTATGTTTACGGGTTCGCCCCCTCTTTCTTTAGGGAGTA
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCACTCCCTCTTTCTTTAGGGAGTA
* *
374620 GGAACTCGAACAATCTTCTGTCAACGTGTTCGCTTCCTCTTTC
66 GGAACTCAAACAATCTTCTGTCAACGTGTTCGCTCCCTCTTTC
374663 TTTAGGGAGTAGGAACTCGAACAATCTTTCTGTCAACGGGTTCACTCCCTCTTTCTTTAGGGAGT
1 TTTAGGGAGTAGGAACTCGAACAATC-TTCTGTCAACGGGTTCACTCCCTCTTTCTTTAGGGAGT
374728 AGGAACTCAAACAATCTTCT-TCAACGTGTTCGCTCCCTCTTTC
65 AGGAACTCAAACAATCTTCTGTCAACGTGTTCGCTCCCTCTTTC
* * *
374771 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGTGTTCTCTCCCTATTTCTTTAGGGAGTA
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCACTCCCTCTTTCTTTAGGGAGTA
* *
374836 GGAACTCAAACAAT-TTCTGTCAACGTATTCGCTCCCTATTTC
66 GGAACTCAAACAATCTTCTGTCAACGTGTTCGCTCCCTCTTTC
* *
374878 TTTA-GGAGTAGGAACTCAAACAATCTTCTGTCAATGGGTTCACTCCCTCTTTCTTTAGGGAGTA
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCACTCCCTCTTTCTTTAGGGAGTA
*
374942 GG-ACTCGAACAATCTTCTGTCAACAG-GTTCGCTCCCTCTTTC
66 GGAACTCAAACAATCTTCTGTCAAC-GTGTTCGCTCCCTCTTTC
* * * * * *
374984 TTTAGGGAGTAGGAACTCGAACGATCTTCT-ACTTACGGGTTCGCTCCTTCTTTCTCTAGGGAGT
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTC-AACGGGTTCACTCCCTCTTTCTTTAGGGAGT
* * * *
375048 ATAGAACTTAAACATATTCTTCT-T--ACGGGTTCACTCCCTCTTTC
65 A-GGAACTCAAACA-A-TCTTCTGTCAACGTGTTCGCTCCCTCTTTC
*
375092 TCTAGGGAGTATGGAACTCGAAC-ATCTTCT
1 TTTAGGGAGTA-GGAACTCGAACAATCTTCT
375122 TCTGCTTCAC
Statistics
Matches: 412, Mismatches: 34, Indels: 25
0.87 0.07 0.05
Matches are distributed among these distances:
105 10 0.02
106 90 0.22
107 138 0.33
108 96 0.23
109 70 0.17
110 2 0.00
111 6 0.01
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (108 bp):
TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCACTCCCTCTTTCTTTAGGGAGTA
GGAACTCAAACAATCTTCTGTCAACGTGTTCGCTCCCTCTTTC
Found at i:375124 original size:54 final size:54
Alignment explanation
Indices: 374556--375121 Score: 729
Period size: 54 Copynumber: 10.6 Consensus size: 54
374546 TTCCTATCAG
* * ** *
374556 TTTAGGGAGTA-GAACTTGAACAATCTTATGTTTACGGGTTCGCCCCCTCTTTC
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTC
* *
374609 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGTGTTCGCTTCCTCTTTC
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTC
*
374663 TTTAGGGAGTAGGAACTCGAACAATCTTTCTGTCAACGGGTTCACTCCCTCTTTC
1 TTTAGGGAGTAGGAACTCGAACAATC-TTCTGTCAACGGGTTCGCTCCCTCTTTC
* *
374718 TTTAGGGAGTAGGAACTCAAACAATCTTCT-TCAACGTGTTCGCTCCCTCTTTC
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTC
* * *
374771 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGTGTTCTCTCCCTATTTC
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTC
* ** *
374825 TTTAGGGAGTAGGAACTCAAACAAT-TTCTGTCAACGTATTCGCTCCCTATTTC
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTC
* * *
374878 TTTA-GGAGTAGGAACTCAAACAATCTTCTGTCAATGGGTTCACTCCCTCTTTC
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTC
*
374931 TTTAGGGAGTAGG-ACTCGAACAATCTTCTGTCAACAGGTTCGCTCCCTCTTTC
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTC
* * * *
374984 TTTAGGGAGTAGGAACTCGAACGATCTTCT-ACTTACGGGTTCGCTCCTTCTTTC
1 TTTAGGGAGTAGGAACTCGAACAATCTTCTGTC-AACGGGTTCGCTCCCTCTTTC
* * ** *
375038 TCTAGGGAGTATAGAACTTAAACATATTCTTCT-T--ACGGGTTCACTCCCTCTTTC
1 TTTAGGGAGTA-GGAACTCGAACA-A-TCTTCTGTCAACGGGTTCGCTCCCTCTTTC
*
375092 TCTAGGGAGTATGGAACTCGAAC-ATCTTCT
1 TTTAGGGAGTA-GGAACTCGAACAATCTTCT
375122 TCTGCTTCAC
Statistics
Matches: 459, Mismatches: 44, Indels: 22
0.87 0.08 0.04
Matches are distributed among these distances:
51 6 0.01
52 21 0.05
53 168 0.37
54 199 0.43
55 58 0.13
56 1 0.00
57 6 0.01
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (54 bp):
TTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTC
Found at i:376421 original size:15 final size:15
Alignment explanation
Indices: 376401--376463 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
376391 CTTAAACCTC
*
376401 TTTCTTCTTCTTCTT
1 TTTCTTTTTCTTCTT
376416 TTTCTTTTTCTT-TT
1 TTTCTTTTTCTTCTT
* * *
376430 TTTTTTTTTTTTGTT
1 TTTCTTTTTCTTCTT
* *
376445 TTTTTTTTTTTTCTT
1 TTTCTTTTTCTTCTT
376460 TTTC
1 TTTC
376464 ATCTTCAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
14 12 0.29
15 30 0.71
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.86
Consensus pattern (15 bp):
TTTCTTTTTCTTCTT
Found at i:376424 original size:1 final size:1
Alignment explanation
Indices: 376414--376462 Score: 62
Period size: 1 Copynumber: 49.0 Consensus size: 1
376404 CTTCTTCTTC
* * * *
376414 TTTTTCTTTTTCTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
376463 CATCTTCAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.06, G:0.02, T:0.92
Consensus pattern (1 bp):
T
Found at i:376426 original size:12 final size:11
Alignment explanation
Indices: 376411--376462 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
376401 TTTCTTCTTC
376411 TTCTTTTTCTTT
1 TTCTTTTT-TTT
376423 TTCTTTTTTTT
1 TTCTTTTTTTT
376434 TT-TTTTTTGTT
1 TTCTTTTTT-TT
376445 TT-TTTTTTTT
1 TTCTTTTTTTT
376455 TTCTTTTT
1 TTCTTTTT
376463 CATCTTCAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.26
11 20 0.53
12 8 0.21
ACGTcount: A:0.00, C:0.08, G:0.02, T:0.90
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:376428 original size:6 final size:6
Alignment explanation
Indices: 376399--376463 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
376389 ATCTTAAACC
*
376399 TCTTTCT TCTTCT TCTTTT TCTTTT TCTTTT T-TTTT T-TTTT T-TGTTT
1 TCTTT-T TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCT-TTT
376446 T-TTTT T-TTTT TCTTTT TC
1 TCTTTT TCTTTT TCTTTT TC
376464 ATCTTCAAGA
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
5 20 0.37
6 30 0.56
7 4 0.07
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.85
Consensus pattern (6 bp):
TCTTTT
Found at i:385958 original size:25 final size:25
Alignment explanation
Indices: 385922--385995 Score: 121
Period size: 25 Copynumber: 3.0 Consensus size: 25
385912 ACATTAAAAC
385922 CCTAACCACATGATATCTAGTTCAA
1 CCTAACCACATGATATCTAGTTCAA
* *
385947 CCTAACCGCATGATATCTAATTCAA
1 CCTAACCACATGATATCTAGTTCAA
*
385972 CCTAACCACATGATCTCTAGTTCA
1 CCTAACCACATGATATCTAGTTCA
385996 CATGCATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.28
Consensus pattern (25 bp):
CCTAACCACATGATATCTAGTTCAA
Found at i:386740 original size:19 final size:19
Alignment explanation
Indices: 386698--386746 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
386688 TATTTTTCCT
*
386698 TTTTAGGGTTATATTTAAG
1 TTTTAGGGTTAGATTTAAG
*
386717 ATTTAGGGTT-GATTTAAG
1 TTTTAGGGTTAGATTTAAG
386735 CTTTTA-GGTTAG
1 -TTTTAGGGTTAG
386747 TGTTTGAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (19 bp):
TTTTAGGGTTAGATTTAAG
Found at i:386773 original size:14 final size:13
Alignment explanation
Indices: 386756--386841 Score: 59
Period size: 14 Copynumber: 6.3 Consensus size: 13
386746 GTGTTTGAGG
386756 TTTAAGGTTTATGA
1 TTTAAGGTTTA-GA
386770 TTTAAGGTTTAGA
1 TTTAAGGTTTAGA
*
386783 GTTTAAGGTTCATG-
1 -TTTAAGGTTTA-GA
* *
386797 TTTAGGGTTGAG-
1 TTTAAGGTTTAGA
*
386809 TTTTAGAGTTTGAGA
1 TTTAAG-GTTT-AGA
*
386824 TTTAGGGTTTATGA
1 TTTAAGGTTTA-GA
386838 TTTA
1 TTTA
386842 TGATTGGGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
12 5 0.09
13 15 0.26
14 33 0.57
15 5 0.09
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.48
Consensus pattern (13 bp):
TTTAAGGTTTAGA
Found at i:386778 original size:21 final size:21
Alignment explanation
Indices: 386726--386780 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
386716 GATTTAGGGT
* *
386726 TGATTTAAGCTTTTAGGTTAG
1 TGATTTAAGGTTTAAGGTTAG
*
386747 TG-TTTGAGGTTTAAGGTTTA-
1 TGATTTAAGGTTTAAGG-TTAG
386767 TGATTTAAGGTTTA
1 TGATTTAAGGTTTA
386781 GAGTTTAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.49
Consensus pattern (21 bp):
TGATTTAAGGTTTAAGGTTAG
Found at i:387073 original size:27 final size:27
Alignment explanation
Indices: 387039--387090 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
387029 AGAGACAAAA
*
387039 TTATTAATATATTGATCATAATTAAAT
1 TTATTAATATAATGATCATAATTAAAT
*
387066 TTATTAATCTAATGATCATAATTAA
1 TTATTAATATAATGATCATAATTAA
387091 TAATTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (27 bp):
TTATTAATATAATGATCATAATTAAAT
Found at i:391157 original size:48 final size:48
Alignment explanation
Indices: 391101--391198 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
391091 CATTCTAATT
391101 TCATCCCAAACTATATGTATACACTAATCACATCCCTTGTTGATAAAA
1 TCATCCCAAACTATATGTATACACTAATCACATCCCTTGTTGATAAAA
391149 TCATCCCAAACTATATGTATACACTAATCACATCCCTTGTTGATAAAA
1 TCATCCCAAACTATATGTATACACTAATCACATCCCTTGTTGATAAAA
391197 TC
1 TC
391199 GTTAGGCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (48 bp):
TCATCCCAAACTATATGTATACACTAATCACATCCCTTGTTGATAAAA
Found at i:391378 original size:60 final size:58
Alignment explanation
Indices: 391297--391462 Score: 165
Period size: 58 Copynumber: 2.8 Consensus size: 58
391287 ATAGAATTGG
**
391297 AATATTCAAAAGTTTGGGGACTAATTTAGAAAGAGGGTTATAGTTTAGAGATGAAATTAA
1 AATATTCAAAAGTTTAAGGACTAATTTAGAAAGA--GTTATAGTTTAGAGATGAAATTAA
* * * * * * **
391357 AATGTTCAAAAGTTTAAGGACTAGTTAAGAATA-AGTCATAGTTTAGGGATGATATTGG
1 AATATTCAAAAGTTTAAGGACTAATTTAGAA-AGAGTTATAGTTTAGAGATGAAATTAA
*
391415 AATATTCAAAAGTTTAAGGACCAATTTA-AAATGAAAGTTATAGTTTAG
1 AATATTCAAAAGTTTAAGGACTAATTTAGAAA-G--AGTTATAGTTTAG
391463 GGATATATGA
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
56 1 0.01
57 2 0.02
58 43 0.50
60 39 0.45
61 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (58 bp):
AATATTCAAAAGTTTAAGGACTAATTTAGAAAGAGTTATAGTTTAGAGATGAAATTAA
Found at i:391423 original size:58 final size:58
Alignment explanation
Indices: 391292--391470 Score: 184
Period size: 60 Copynumber: 3.0 Consensus size: 58
391282 TGGGTATAGA
** * * *
391292 ATTGGAATATTCAAAAGTTTGGGGACTAATTTAGAA-AGAGGGTTATAGTTTAGAGATGAA
1 ATTGGAATATTCAAAAGTTTAAGGACTAATTAAGAATA-A--GTTATAGTTTAGGGATGAT
** * * *
391352 ATTAAAATGTTCAAAAGTTTAAGGACTAGTTAAGAATAAGTCATAGTTTAGGGATGAT
1 ATTGGAATATTCAAAAGTTTAAGGACTAATTAAGAATAAGTTATAGTTTAGGGATGAT
*
391410 ATTGGAATATTCAAAAGTTTAAGGACCAATTTAA-AATGAAAGTTATAGTTTAGGGAT-AT
1 ATTGGAATATTCAAAAGTTTAAGGACTAA-TTAAGAAT--AAGTTATAGTTTAGGGATGAT
391469 AT
1 AT
391471 GATACAGTTA
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
58 43 0.43
59 8 0.08
60 47 0.47
61 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (58 bp):
ATTGGAATATTCAAAAGTTTAAGGACTAATTAAGAATAAGTTATAGTTTAGGGATGAT
Found at i:394256 original size:25 final size:25
Alignment explanation
Indices: 394208--394256 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
394198 AGTTGGACAA
* *
394208 CAAGAATGACGTGTTAGTTCGATAG
1 CAAGAATCACGTGTTAGGTCGATAG
*
394233 CAAGAATCACGTGTTAGGTGGATA
1 CAAGAATCACGTGTTAGGTCGATA
394257 CTGCGACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (25 bp):
CAAGAATCACGTGTTAGGTCGATAG
Found at i:399455 original size:57 final size:58
Alignment explanation
Indices: 399322--399497 Score: 167
Period size: 57 Copynumber: 2.9 Consensus size: 58
399312 ATGAATTAAA
* * * * *
399322 TTGAACATTGAATGCATTTCATGCATCAATGCACTTACCATGCACGATGCACTGAGGATTT
1 TTGAACATCGAATGCATTTGATGCATCGATGCAC-T-CAATGCACGATGCACT-AGGATAT
*
399383 TATGAAAACATCGAATGCATTTGATGCATCGATGCAC-CAATGCATCGATGCACT-GGCTAT
1 T-TG--AACATCGAATGCATTTGATGCATCGATGCACTCAATGCA-CGATGCACTAGGATAT
* * *
399443 TTGAACATCGAATGTAGTTGATGCATCGATGCACTCTTAGTGCACCGATGCACTA
1 TTGAACATCGAATGCATTTGATGCATCGATGCACTC--AATGCA-CGATGCACTA
399498 AGGGTCCAAC
Statistics
Matches: 97, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
57 29 0.30
58 1 0.01
59 2 0.02
60 19 0.20
61 7 0.07
62 11 0.11
64 28 0.29
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (58 bp):
TTGAACATCGAATGCATTTGATGCATCGATGCACTCAATGCACGATGCACTAGGATAT
Found at i:407724 original size:64 final size:64
Alignment explanation
Indices: 407646--407805 Score: 207
Period size: 64 Copynumber: 2.5 Consensus size: 64
407636 AATTAAATTG
* *
407646 AACATCGAATGCATTTCATGCATCGATGCACTA-CCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACTAGCCATGCACCGATGCACTCAGGATATTT-TG-
407709 A
64 A
* * * * *
407710 AACATCGAATGCATTTGATACATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACTAGCCATGCACCGATGCACTCAGGATATTTTGA
* *
407774 AACATCGAATGCACTTGATGCATCGTTGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACT
407806 CTTAGTGCAC
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 59 0.71
65 21 0.25
66 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACTAGCCATGCACCGATGCACTCAGGATATTTTGA
Found at i:409551 original size:14 final size:14
Alignment explanation
Indices: 409532--409561 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
409522 GTTGACCGAC
*
409532 CGTTGACTGTTGAT
1 CGTTGACCGTTGAT
409546 CGTTGACCGTTGAT
1 CGTTGACCGTTGAT
409560 CG
1 CG
409562 GGTGGTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.30, T:0.37
Consensus pattern (14 bp):
CGTTGACCGTTGAT
Found at i:409618 original size:29 final size:29
Alignment explanation
Indices: 409562--409618 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
409552 CCGTTGATCG
* *
409562 GGTGGTATTTTGGTAATTATTTTAAAAAT
1 GGTGGTATTCTGGTAATTATCTTAAAAAT
*
409591 GGTGGTATTCTGGTAATTATCTTGAAAA
1 GGTGGTATTCTGGTAATTATCTTAAAAA
409619 GGGTTCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.44
Consensus pattern (29 bp):
GGTGGTATTCTGGTAATTATCTTAAAAAT
Found at i:409635 original size:29 final size:29
Alignment explanation
Indices: 409561--409640 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
409551 ACCGTTGATC
* *
409561 GGGTGGTATTTTGGTAATTATTTTAAAAA
1 GGGTGCTATTTTGGTAATTATCTTAAAAA
* * * *
409590 TGGTGGTATTCTGGTAATTATCTTGAAAA
1 GGGTGCTATTTTGGTAATTATCTTAAAAA
* *
409619 GGGTTCTATTTTCGTAA-TATCT
1 GGGTGCTATTTTGGTAATTATCT
409641 ATTGATCTCC
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (29 bp):
GGGTGCTATTTTGGTAATTATCTTAAAAA
Found at i:410359 original size:24 final size:24
Alignment explanation
Indices: 410325--410375 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
410315 TTTTTGACAA
* *
410325 GATTTTGATATGATACTTGACCTG
1 GATTTTGATATGATACATGACATG
*
410349 GATTTTTATATGATACATGACATG
1 GATTTTGATATGATACATGACATG
410373 GAT
1 GAT
410376 GATCTGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (24 bp):
GATTTTGATATGATACATGACATG
Found at i:411297 original size:87 final size:87
Alignment explanation
Indices: 411135--411316 Score: 282
Period size: 87 Copynumber: 2.1 Consensus size: 87
411125 GCTGGTAAGT
* *
411135 CCTTACGGACCTAAGGATACCCTTGGTAGGCCCATAGGCCCCAAGGAATATCTTAGGTTGGTTCC
1 CCTTACGGACCTAAGGATACCCTTGGTAGGCCCATAGGCCCCAAGGAATATCTTAGGTTAGCTCC
411200 CTTTGCTGTGTGCTTAGGGTAA
66 CTTTGCTGTGTGCTTAGGGTAA
*
411222 CCTTGCGGACCTAA-GATACCCTTGGCTAGGCCCATAGGCCCCAAGGAATATCCTTAGGTTAGCT
1 CCTTACGGACCTAAGGATACCCTTGG-TAGGCCCATAGGCCCCAAGGAATAT-CTTAGGTTAGCT
*
411286 CCCTTT-TTGTGTGCTTAGGGT-A
64 CCCTTTGCTGTGTGCTTAGGGTAA
411308 -CTTACGGAC
1 CCTTACGGAC
411317 TCAGTTCTGG
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
85 8 0.09
86 12 0.14
87 52 0.59
88 16 0.18
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (87 bp):
CCTTACGGACCTAAGGATACCCTTGGTAGGCCCATAGGCCCCAAGGAATATCTTAGGTTAGCTCC
CTTTGCTGTGTGCTTAGGGTAA
Found at i:412260 original size:79 final size:79
Alignment explanation
Indices: 412129--412274 Score: 251
Period size: 79 Copynumber: 1.8 Consensus size: 79
412119 CATACTACTA
*
412129 AAACTAATTTATAAGCAACAAAATATATTTAATATACATGCCAACTAGATAGGTTAAAAGCAGTA
1 AAACTAATTTAAAAGCAACAAAATATATTTAATATACATGCCAACTAGATAGGTTAAAAGCAGTA
412194 AATGTCGTATTGAT
66 AATGTCGTATTGAT
412208 AAACTAATTTACCAAAGCAACAAAATATATTT-A-ATACATGCCAACTAGATAGGTTAAAAGCAG
1 AAACTAATTTA--AAAGCAACAAAATATATTTAATATACATGCCAACTAGATAGGTTAAAAGCAG
412271 TAAA
64 TAAA
412275 AGGCGTACTG
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
79 45 0.70
80 1 0.02
81 18 0.28
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (79 bp):
AAACTAATTTAAAAGCAACAAAATATATTTAATATACATGCCAACTAGATAGGTTAAAAGCAGTA
AATGTCGTATTGAT
Found at i:412450 original size:2 final size:2
Alignment explanation
Indices: 412438--412468 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
412428 ATAATTATTT
*
412438 TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
412469 TTTACAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:415870 original size:44 final size:44
Alignment explanation
Indices: 415798--415917 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 44
415788 TTGAGAATTA
* *
415798 GCGGCATTTCTAGTGC-AAAAATGCCGCTAAATGCATGGTATATT
1 GCGGCATTTCTAGT-CTACAAACGCCGCTAAATGCATGGTATATT
* * **
415842 GCGGCGTTTGTA-TACTACAAACGCCGCTAAATGTTTGGTATATT
1 GCGGCATTTCTAGT-CTACAAACGCCGCTAAATGCATGGTATATT
* *
415886 GCGGCATTTCTAGTTTGCAAACGCCGCTAAAT
1 GCGGCATTTCTAGTCTACAAACGCCGCTAAAT
415918 AACATAGGAT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.03
44 60 0.95
45 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (44 bp):
GCGGCATTTCTAGTCTACAAACGCCGCTAAATGCATGGTATATT
Found at i:422031 original size:52 final size:52
Alignment explanation
Indices: 421963--422118 Score: 294
Period size: 52 Copynumber: 3.0 Consensus size: 52
421953 TAACAGCAAA
*
421963 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAATCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
*
422015 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCAAC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
422067 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
422119 TATTGTTCAG
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 101 1.00
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.33
Consensus pattern (52 bp):
ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
Found at i:423252 original size:42 final size:41
Alignment explanation
Indices: 423175--423309 Score: 132
Period size: 42 Copynumber: 3.3 Consensus size: 41
423165 TTTATACAAA
* * *
423175 AAACGCCGCTAATTTACCACTCTATTGCGGCGTTTTTGGTAT
1 AAACGCCGCTAAATTA-CACTATATTGCGGCGTTTTTGATAT
* *
423217 AAACGCCGCTAAATTAACACTATATTGCGGCGTTTTAGCTA-
1 AAACGCCGCTAAATT-ACACTATATTGCGGCGTTTTTGATAT
* * * *
423258 AAACACCGCTACATGT-CTACTATATTACGGCG-TTTTAATAT
1 AAACGCCGCTAAAT-TAC-ACTATATTGCGGCGTTTTTGATAT
423299 AAACGCCGCTA
1 AAACGCCGCTA
423310 TTTAACCTTC
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
40 6 0.08
41 35 0.45
42 36 0.46
43 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (41 bp):
AAACGCCGCTAAATTACACTATATTGCGGCGTTTTTGATAT
Found at i:423308 original size:41 final size:40
Alignment explanation
Indices: 423157--423309 Score: 118
Period size: 42 Copynumber: 3.7 Consensus size: 40
423147 ACATGTGTTT
* *
423157 TTACGGCGTTTATACA-AAAAACGCCGCTAATTTACCACTCTA
1 TTACGGCGTTT-TACATATAAACGCCGCTAA-TTA-CACTATA
* ***
423199 TTGCGGCGTTTTTGGTATAAACGCCGCTAAATTAACACTATA
1 TTACGGCGTTTTACATATAAACGCCGCT-AATT-ACACTATA
* *
423241 TTGCGGCGTTTTAGC-TA-AAACACCGCTACATGT-CTACTATA
1 TTACGGCGTTTTA-CATATAAACGCCGCTA-AT-TAC-ACTATA
423282 TTACGGCGTTTTA-ATATAAACGCCGCTA
1 TTACGGCGTTTTACATATAAACGCCGCTA
423310 TTTAACCTTC
Statistics
Matches: 91, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
40 4 0.04
41 40 0.44
42 44 0.48
43 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (40 bp):
TTACGGCGTTTTACATATAAACGCCGCTAATTACACTATA
Found at i:425026 original size:11 final size:10
Alignment explanation
Indices: 425005--425054 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
424995 TATATATTTA
425005 TATTATTTTT
1 TATTATTTTT
425015 TATTA-TTTT
1 TATTATTTTT
**
425024 T-TTATTCCT
1 TATTATTTTT
*
425033 TATTATTATAT
1 TATTATT-TTT
425044 TATTATTTTT
1 TATTATTTTT
425054 T
1 T
425055 TAAAAAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
8 3 0.09
9 8 0.25
10 13 0.41
11 8 0.25
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTATTTTT
Found at i:425046 original size:18 final size:18
Alignment explanation
Indices: 425002--425047 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
424992 CTTTATATAT
**
425002 TTATATTATTTTTTATTA
1 TTATATTATTCCTTATTA
* *
425020 TTTTTTTATTCCTTATTA
1 TTATATTATTCCTTATTA
425038 TTATATTATT
1 TTATATTATT
425048 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATATTATTCCTTATTA
Found at i:425568 original size:13 final size:13
Alignment explanation
Indices: 425550--425580 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
425540 TTGACCGTAA
425550 CCGACTCCCGAGC
1 CCGACTCCCGAGC
425563 CCGACTCCCGAGC
1 CCGACTCCCGAGC
425576 CCGAC
1 CCGAC
425581 ATATTTCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.55, G:0.23, T:0.06
Consensus pattern (13 bp):
CCGACTCCCGAGC
Found at i:429441 original size:179 final size:181
Alignment explanation
Indices: 429035--429552 Score: 840
Period size: 179 Copynumber: 2.9 Consensus size: 181
429025 AAATTAAATC
429035 TAAAGCT-AGCTA-TCCACTAAGGCAA--GGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
429096 ATATATTATGTTCAAACTATGACACTGCTCGGACAC-TGGCAATTCGGGTTTGCTCCACTGCTTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGTGTTTGCTCCACTGCTTT
* * *
429160 TTCAGGCCAAAGACTTTGTGATGAGATGAACCCTACAGTGATTTGTCCCTC
131 GTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTA
*
429211 TAAAGATGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
429276 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGG-AATTCGTGTTTGCTCCACTGCTTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGTGTTTGCTCCACTGCTTT
*
429340 GTCA-GCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTA
131 GTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTA
429390 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * * *
429455 ATAGATTACATTCAAA-TCATGACATTGCTC-GACACTTGGCAATTCGTGTTTGCTCCACCGTTT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGTGTTTGCTCCACTGCTT
*
429518 TGTCAGGTCAAAGACTTTGTGATGAGATG-ACCCTT
130 TGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTT
429553 AGTAAACTGA
Statistics
Matches: 319, Mismatches: 15, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
176 6 0.02
177 5 0.02
178 23 0.07
179 164 0.51
180 118 0.37
181 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (181 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGTGTTTGCTCCACTGCTTT
GTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTA
Found at i:430952 original size:37 final size:38
Alignment explanation
Indices: 430891--430963 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
430881 CCTTGAAATT
* *
430891 AATTTTTTCTCTCATGAGATAGTTTCCCTCGAAACAGA
1 AATTTTGTCTCTCATGAGACAGTTTCCCTCGAAACAGA
* * *
430929 AATTTTGTCTC-CTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCTCATGAGACAGTTTCCCTCGAAACA
430964 TAAACATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 20 0.67
38 10 0.33
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (38 bp):
AATTTTGTCTCTCATGAGACAGTTTCCCTCGAAACAGA
Found at i:431083 original size:104 final size:100
Alignment explanation
Indices: 430868--431179 Score: 443
Period size: 104 Copynumber: 3.1 Consensus size: 100
430858 ACAGTTTCTC
* *
430868 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCATGAGATAGTTTCCCTCGAAACAGAAATT
1 TTGAAAACATTTCCCTTGAAA-TGATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACA-AAATT
430933 TTGTCTCCTTGAGACAGTTTCTCTTGAAACATAAACA
64 TTGTCTCCTTGAGACAGTTTCTCTTGAAACATAAACA
430970 TTGAAAACATTTCCCTT-AAATGATTTTTTTCTCTCTCTTGAGATAGTTTCCCTCGAAACAAAAA
1 TTGAAAACATTTCCCTTGAAATGA--TTTTT-TCTCTCTTGAGATAGTTTCCCTCGAAAC-AAAA
431034 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
62 TTTTGTCT-CCTTGAGACAGTTTCTCTTGAAACATAAACA
* * * * *
431074 TTGAAAACATTTCCCTTGAAATGAATTTATCTCGCTTGAGATAG-TTCCCTTGAAAC-GAATTTT
1 TTGAAAACATTTCCCTTGAAATGATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTT
** *
431137 GTCTCCTTGAGACAGTTTCTCTCCAAACAT-AACT
66 GTCTCCTTGAGACAGTTTCTCTTGAAACATAAACA
431171 TTGAAAACA
1 TTGAAAACA
431180 ATTTAACGAA
Statistics
Matches: 194, Mismatches: 10, Indels: 17
0.88 0.05 0.08
Matches are distributed among these distances:
97 12 0.06
98 24 0.12
99 10 0.05
100 2 0.01
101 14 0.07
102 36 0.19
103 41 0.21
104 49 0.25
105 6 0.03
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (100 bp):
TTGAAAACATTTCCCTTGAAATGATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTT
GTCTCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:431127 original size:34 final size:34
Alignment explanation
Indices: 431084--431153 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
431074 TTGAAAACAT
* *
431084 TTCCCTTGAAATGAA-TTTATCTCGCTTGAGATAG
1 TTCCCTTGAAACGAATTTTATCTC-CTTGAGACAG
*
431118 TTCCCTTGAAACGAATTTTGTCTCCTTGAGACAG
1 TTCCCTTGAAACGAATTTTATCTCCTTGAGACAG
431152 TT
1 TT
431154 TCTCTCCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 25 0.78
35 7 0.22
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (34 bp):
TTCCCTTGAAACGAATTTTATCTCCTTGAGACAG
Found at i:431528 original size:102 final size:105
Alignment explanation
Indices: 431345--431954 Score: 770
Period size: 102 Copynumber: 6.0 Consensus size: 105
431335 ATATCGTGAC
* * * * *
431345 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAACTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGCTTGTCAAC-AACAACTTCC
431409 CAATTT-AGAGCCAATTTCAACTTCACAACGAA-GAT-TTGG
64 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
431448 ACTCCA-ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
431512 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
431552 ACTTCAGA-AACGCAAG-TCAACTTCACGATGAAGGGACCGCTGCTTGTCAACAACAA-TTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
431614 ATCTCAGAGCC-ATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
431653 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGA-CGCTGCTTGTC-ACAACAAC-TCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
431715 ATCTCA-AGCCAATTT-AACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
431753 A-TCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT----
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
431811 -TTTCAGAGTCAATTTCAACTT--C-A-GAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * ** * * * *
431846 ACTCGAGACAACACAAGTTCAACTTCAAAATGAAGGGACGGCTGGTTG-CAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
** * * *
431910 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
431951 ACTC
1 ACTC
431955 GGAATAATGC
Statistics
Matches: 454, Mismatches: 26, Indels: 52
0.85 0.05 0.10
Matches are distributed among these distances:
93 17 0.04
94 41 0.09
95 7 0.02
96 10 0.02
97 5 0.01
99 34 0.07
100 42 0.09
101 96 0.21
102 100 0.22
103 68 0.15
104 18 0.04
105 16 0.04
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:433554 original size:27 final size:24
Alignment explanation
Indices: 433482--433555 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
433472 ATTACTTTAC
* * *
433482 TATTTTTTTCTTATCTTACTTAT-T
1 TATTTTTTTTTTACCTT-GTTATCT
*
433506 TATTTTTTTTTTTCCTTG-TATCT
1 TATTTTTTTTTTACCTTGTTATCT
433529 TATTTGTTTTCTTTACCTTGTTTATCT
1 TATTT-TTTT-TTTACCTTG-TTATCT
433556 AATACATTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
22 3 0.08
23 6 0.15
24 18 0.45
25 8 0.20
27 5 0.12
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.70
Consensus pattern (24 bp):
TATTTTTTTTTTACCTTGTTATCT
Found at i:440943 original size:104 final size:104
Alignment explanation
Indices: 440814--441022 Score: 359
Period size: 104 Copynumber: 2.0 Consensus size: 104
440804 ATGCCCAAGA
440814 CTGCAGCAACAGGAGACATCCGCCGATAGCATT-TC-TATAGTCAATGGCTCGACACATCTCCCT
1 CTGCAGCAACAGGAGACATCCGCCGATA--ATTCTCTTATAGTCAATGGCTCGACACATCTCCCT
440877 ATACAAGAAAGCCAAAACTGGTGAGCCCCGACTGAGTGATC
64 ATACAAGAAAGCCAAAACTGGTGAGCCCCGACTGAGTGATC
* * *
440918 CTGCAGCAGCAGGAGACATCCGCCGATATTTCTCTTGTAGTCAATGGCTCGACACATCTCCCTAT
1 CTGCAGCAACAGGAGACATCCGCCGATAATTCTCTTATAGTCAATGGCTCGACACATCTCCCTAT
440983 ACAAGAAAGCCAAAACTGGTGAGCCCCGACTGAGTGATC
66 ACAAGAAAGCCAAAACTGGTGAGCCCCGACTGAGTGATC
441022 C
1 C
441023 AACCAGATGA
Statistics
Matches: 100, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
102 2 0.02
103 2 0.02
104 96 0.96
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (104 bp):
CTGCAGCAACAGGAGACATCCGCCGATAATTCTCTTATAGTCAATGGCTCGACACATCTCCCTAT
ACAAGAAAGCCAAAACTGGTGAGCCCCGACTGAGTGATC
Found at i:441752 original size:9 final size:9
Alignment explanation
Indices: 441738--441771 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
441728 TAAGTAAAAT
441738 ATTAAATAA
1 ATTAAATAA
441747 ATTAAAT-A
1 ATTAAATAA
*
441755 CTTAAATAA
1 ATTAAATAA
441764 ATTAAATA
1 ATTAAATA
441772 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:441770 original size:17 final size:17
Alignment explanation
Indices: 441734--441772 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
441724 TATATAAGTA
441734 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
441750 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
441767 AAATAC
1 AAATAC
441773 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:441832 original size:20 final size:19
Alignment explanation
Indices: 441807--441854 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
441797 ATACTTAAAC
* *
441807 AGAGAATATAAGAGTATTTG
1 AGAGAAT-TAAGAGAAATTG
441827 AGAGAAGTTAAGAGAAATTG
1 AGAGAA-TTAAGAGAAATTG
441847 AGAGAATT
1 AGAGAATT
441855 TGGTGTGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.88
21 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (19 bp):
AGAGAATTAAGAGAAATTG
Found at i:443898 original size:3 final size:3
Alignment explanation
Indices: 443890--443916 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
443880 AACATTTTAA
443890 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
443917 GTTAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:444335 original size:89 final size:89
Alignment explanation
Indices: 444235--444452 Score: 384
Period size: 89 Copynumber: 2.4 Consensus size: 89
444225 GAAGGATATA
444235 AAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGG
1 AAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGG
* *
444300 TCTTATGGATGGCCCGAAGGACTT
66 TCTTATGGATGACACGAAGGACTT
444324 AAAATCAAGAAACCCCCGAAGGCTTAGTTTC-TATAATCTCATTTGAAAACATCCTGCACTGAAG
1 AAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTA-AATCTCATTTGAAAACATCCTGCACTGAAG
444388 GTCTTATGGATGACACGAAGGACTT
65 GTCTTATGGATGACACGAAGGACTT
*
444413 ACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCT
1 A-AAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCT
444453 TTTGTTTTGA
Statistics
Matches: 123, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
88 2 0.02
89 85 0.69
90 35 0.28
91 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (89 bp):
AAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGG
TCTTATGGATGACACGAAGGACTT
Found at i:444539 original size:39 final size:39
Alignment explanation
Indices: 444445--444872 Score: 546
Period size: 39 Copynumber: 11.2 Consensus size: 39
444435 GCTTAGTTTC
* * * *
444445 TAAAATCTTTTGTTTTGAGAGAAACTATTTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * * *
444484 -CAAATCTTGTATTTCGAGGGAAACTATCTCAAGCGAAA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
444522 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* *
444561 TAAAATCTTCTATTTCGAGGGAAACTATCTCAAGAGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
444600 CAAAATCTTTTGTTTCGAGGGAAACTATCTCAAGTGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
*
444639 TAAAATCTTCTGTTTCAAGGGAAACTATCTC-A--GAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* *
444675 TAAAATTTTCTGTTTCGAGAGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
444714 TAAAATCTTTTGTTTCAAGGGAAACTACCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * * *
444753 TAAAATATTCTGTTTCAAGTGAAAATATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
444792 TAAAATCTTCTGTTTCAAGGGAAGCTACCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
444831 TAAAA--TT-TGTTTCAAGGAAAACTACCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
444867 TAAAAT
1 TAAAAT
444873 TCGTTTCAAG
Statistics
Matches: 344, Mismatches: 40, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
36 64 0.19
37 3 0.01
38 32 0.09
39 245 0.71
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (39 bp):
TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
Found at i:444735 original size:153 final size:153
Alignment explanation
Indices: 444446--444872 Score: 540
Period size: 153 Copynumber: 2.8 Consensus size: 153
444436 CTTAGTTTCT
* * * * * *
444446 AAAATCTTTTGTTTTGAGAGAAACTATTTCAAGCGAGA-CAAATCTTGTATTTCGAGGGAAACTA
1 AAAATCTTTTGTTTCGAGAGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTA
*
444510 TCTCAAGCGAAATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTCTATT
66 TCTCAA-CGAGATAAAAT-TTCTGTTTCGA-GGAAACTATCTCAAGCGAGATAAAATCTTCTATT
* *
444575 TCGAGGGAAACTATCTCAAGAGAGAC
128 TCAAGGGAAACTACCTCAAGAGAGAC
* *
444601 AAAATCTTTTGTTTCGAGGGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTCAAGGGAAACTA
1 AAAATCTTTTGTTTCGAGAGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTA
* *
444666 TCTC-A-GAGATAAAATTTTCTGTTTCGAGAGAAACTATCTCAAGCGAGATAAAATCTTTTGTTT
66 TCTCAACGAGATAAAA-TTTCTGTTTCGAG-GAAACTATCTCAAGCGAGATAAAATCTTCTATTT
* *
444729 CAAGGGAAACTACCTCAAGCGAGAT
129 CAAGGGAAACTACCTCAAGAGAGAC
* * * * * *
444754 AAAATATTCTGTTTCAAGTGAAAATATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAGCTA
1 AAAATCTTTTGTTTCGAGAGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTA
* * *
444819 CCTCAAGCGAGATAAAA-TT-TGTTTCAAGGAAAACTACCTCAAGCGAGATAAAAT
66 TCTCAA-CGAGATAAAATTTCTGTTTCGAGG-AAACTATCTCAAGCGAGATAAAAT
444873 TCGTTTCAAG
Statistics
Matches: 240, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
152 2 0.01
153 164 0.68
154 4 0.02
155 35 0.15
156 35 0.15
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (153 bp):
AAAATCTTTTGTTTCGAGAGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTA
TCTCAACGAGATAAAATTTCTGTTTCGAGGAAACTATCTCAAGCGAGATAAAATCTTCTATTTCA
AGGGAAACTACCTCAAGAGAGAC
Found at i:445015 original size:68 final size:65
Alignment explanation
Indices: 444870--445068 Score: 185
Period size: 68 Copynumber: 3.1 Consensus size: 65
444860 AGCGAGATAA
** * *
444870 AATTCGTTTCAAGGG-AATGA-CTCAAAGATGG-TATTGTTTC-AAGGAAACAATATCAAAGAAA
1 AATTCGTTTCAAGGGAAACAATCTCAAAGATGGTTATTGTTTCAAAGGAAACAA-ACCAAAG-AT
*
444931 AT
64 TT
* * * *
444933 AATT-TTTTCAAGGGAAACGATCTCAAAGATGTTTGTT-TTGTTTCAAAGGAAATAGACTCAAAG
1 AATTCGTTTCAAGGGAAACAATCTCAAAGATG---GTTATTGTTTCAAAGGAAACAAAC-CAAAG
444996 ATTT
62 ATTT
* * * *
445000 AATTCGTTTCGAGGGAAACAATTTCAAATATGGTTATTGTTTCAAGGGAAACAAACCAAAGATTT
1 AATTCGTTTCAAGGGAAACAATCTCAAAGATGGTTATTGTTTCAAAGGAAACAAACCAAAGATTT
445065 AATT
1 AATT
445069 TCTTTTTTTC
Statistics
Matches: 111, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
62 9 0.08
63 8 0.07
64 10 0.09
65 16 0.14
66 17 0.15
67 15 0.14
68 36 0.32
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (65 bp):
AATTCGTTTCAAGGGAAACAATCTCAAAGATGGTTATTGTTTCAAAGGAAACAAACCAAAGATTT
Found at i:445027 original size:33 final size:31
Alignment explanation
Indices: 444902--445068 Score: 95
Period size: 33 Copynumber: 5.1 Consensus size: 31
444892 CAAAGATGGT
**
444902 ATTGTTTCAA-GGAAACAATATCAAAGAAAATA
1 ATTGTTTCAAGGGAAACAA-ATCAAAG-ATTTA
* ** *
444934 ATTTTTTCAAGGGAAACGATCTCAAAGATGTTTGT
1 ATTGTTTCAAGGGAAAC-AAATCAAAGA--TTT-A
* * * *
444969 TTTGTTTCAAAGGAAATAGACTCAAAGATTTA
1 ATTGTTTCAAGGGAAACA-AATCAAAGATTTA
* * *
445001 ATTCGTTTCGAGGGAAACAATTTCAAATATGGTT-
1 ATT-GTTTCAAGGGAAACAA-ATCAAAGAT--TTA
*
445035 ATTGTTTCAAGGGAAACAAACCAAAGATTTA
1 ATTGTTTCAAGGGAAACAAATCAAAGATTTA
445066 ATT
1 ATT
445069 TCTTTTTTTC
Statistics
Matches: 102, Mismatches: 22, Indels: 23
0.69 0.15 0.16
Matches are distributed among these distances:
30 2 0.02
31 3 0.03
32 19 0.19
33 49 0.48
34 6 0.06
35 23 0.23
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (31 bp):
ATTGTTTCAAGGGAAACAAATCAAAGATTTA
Found at i:445091 original size:14 final size:13
Alignment explanation
Indices: 445067--445101 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
445057 AAAGATTTAA
445067 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
445080 TTTCTCTTTTTTCT
1 TTTCT-TTTTTTCT
445094 TTTCTTTT
1 TTTCTTTT
445102 GCTATGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:445726 original size:7 final size:7
Alignment explanation
Indices: 445714--445843 Score: 67
Period size: 7 Copynumber: 18.7 Consensus size: 7
445704 TATGTGATAG
445714 GGTTTAT
1 GGTTTAT
445721 GGTTTA-
1 GGTTTAT
*
445727 GGTTTAG
1 GGTTTAT
445734 GGTTT-T
1 GGTTTAT
*
445740 GATTTA-
1 GGTTTAT
445746 GGATTTA-
1 GG-TTTAT
*
445753 GGATTTAA
1 GG-TTTAT
445761 GGTTTAT
1 GGTTTAT
*
445768 GGGTTTAG
1 -GGTTTAT
445776 GGTTTAT
1 GGTTTAT
445783 AGG-TTA-
1 -GGTTTAT
*
445789 GGATTCAT
1 GG-TTTAT
*
445797 GGTTTAG
1 GGTTTAT
445804 GGTTTAT
1 GGTTTAT
*
445811 AGTTTA-
1 GGTTTAT
* *
445817 GAGCTTAG
1 G-GTTTAT
445825 GGTTTAT
1 GGTTTAT
*
445832 GATTTAT
1 GGTTTAT
445839 GGTTT
1 GGTTT
445844 TTATGCACAA
Statistics
Matches: 95, Mismatches: 17, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 2 0.02
6 11 0.12
7 69 0.73
8 13 0.14
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (7 bp):
GGTTTAT
Found at i:445728 original size:14 final size:14
Alignment explanation
Indices: 445714--445843 Score: 97
Period size: 14 Copynumber: 9.4 Consensus size: 14
445704 TATGTGATAG
*
445714 GGTTTATGGTTTA-
1 GGTTTAGGGTTTAT
445727 GGTTTAGGGTTT-T
1 GGTTTAGGGTTTAT
* *
445740 GATTTAGGATTTA-
1 GGTTTAGGGTTTAT
*
445753 GGATTTAAGGTTTAT
1 GG-TTTAGGGTTTAT
445768 GGGTTTAGGGTTTAT
1 -GGTTTAGGGTTTAT
* *
445783 AGG-TTAGGATTCAT
1 -GGTTTAGGGTTTAT
445797 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAT
* * * *
445811 AGTTTAGAGCTTAG
1 GGTTTAGGGTTTAT
* *
445825 GGTTTATGATTTAT
1 GGTTTAGGGTTTAT
445839 GGTTT
1 GGTTT
445844 TTATGCACAA
Statistics
Matches: 89, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
13 24 0.27
14 50 0.56
15 13 0.15
16 2 0.02
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (14 bp):
GGTTTAGGGTTTAT
Found at i:448477 original size:23 final size:23
Alignment explanation
Indices: 448442--448529 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
448432 GAGTTTGAGT
* * ***
448442 TCGAGCTTGAATCGAGCTCAAAA
1 TCGAGTTTCAATCGAGCTCAGTC
448465 TCGAGTTTCAATCGAG-TCGAGTC
1 TCGAGTTTCAATCGAGCTC-AGTC
*
448488 TCGAGTTTCAATCGAGCTTGAGTC
1 TCGAGTTTCAATCGAGC-TCAGTC
448512 TCGAGTTTCAATCGAGCT
1 TCGAGTTTCAATCGAGCT
448530 TTTGATTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.04
23 32 0.57
24 21 0.38
25 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (23 bp):
TCGAGTTTCAATCGAGCTCAGTC
Found at i:448515 original size:24 final size:24
Alignment explanation
Indices: 448465--448530 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
448455 GAGCTCAAAA
*
448465 TCGAGTTTCAATCGAG-TCGAGTC
1 TCGAGTTTCAATCGAGCTTGAGTC
448488 TCGAGTTTCAATCGAGCTTGAGTC
1 TCGAGTTTCAATCGAGCTTGAGTC
448512 TCGAGTTTCAATCGAGCTT
1 TCGAGTTTCAATCGAGCTT
448531 TTGATTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
23 16 0.39
24 25 0.61
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (24 bp):
TCGAGTTTCAATCGAGCTTGAGTC
Found at i:448644 original size:29 final size:31
Alignment explanation
Indices: 448555--448629 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
448545 TTTCGAGCCT
448555 TTTCGAGTTCGAGTCAAGTTTCAATATTTTC
1 TTTCGAGTTCGAGTCAAGTTTCAATATTTTC
448586 TTTCGAGTTCGAGTCAAGTTTCAATATTTTC
1 TTTCGAGTTCGAGTCAAGTTTCAATATTTTC
448617 -TT-GAGTTCGAGTC
1 TTTCGAGTTCGAGTC
448630 GAGCTTGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 11 0.25
30 2 0.05
31 31 0.70
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (31 bp):
TTTCGAGTTCGAGTCAAGTTTCAATATTTTC
Found at i:452715 original size:3 final size:3
Alignment explanation
Indices: 452707--452767 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
452697 CATCTGAGCG
*
452707 TAT TAT TAT TAT TAT TA- TAT TAC TAT TAT TAT ATAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
452751 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
452768 CAAGACCCAG
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:469413 original size:23 final size:23
Alignment explanation
Indices: 469382--469450 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
469372 CACCATAGCT
* *
469382 CGTATAAATGCATCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
*
469405 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
*
469428 CGTAGAAATACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
469451 TATAAGGTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:470998 original size:24 final size:20
Alignment explanation
Indices: 470941--471003 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
470931 TTTCCCTTGA
*
470941 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
470961 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
470984 ATGTGCATCGATGCACTCCT
1 A-GTGCATCGATGCA-TCCT
471004 TATGGATCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 1 0.03
23 4 0.11
24 14 0.40
25 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:471004 original size:24 final size:22
Alignment explanation
Indices: 470941--471005 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
470931 TTTCCCTTGA
*
470941 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATCCTTAAC
*
470961 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CCTTAAC
470984 ATGTGCATCGATGCACTCCTTA
1 A-GTGCATCGATGCA-TCCTTA
471006 TGGATCGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.46
25 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATCCTTAAC
Found at i:473656 original size:23 final size:23
Alignment explanation
Indices: 473611--473673 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
473601 CAATTTCTAT
* **
473611 AAATGCACCGAAGTGTCATGTAG
1 AAATGCACCGAAGTGCCGCGTAG
*
473634 AATTGCACC-ATAGTGCCGCGTAG
1 AAATGCACCGA-AGTGCCGCGTAG
473657 AAATGCACCGAAGTGCC
1 AAATGCACCGAAGTGCC
473674 ATATAAGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCGCGTAG
Found at i:474062 original size:2 final size:2
Alignment explanation
Indices: 474057--474096 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
474047 TATATTATCC
474057 TA TA TA TA TA TA TA TA TA -A TA TA TA TA -A TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
474096 T
1 T
474097 TCACAGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:481825 original size:2 final size:2
Alignment explanation
Indices: 481818--481876 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
481808 TATAATCATG
481818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
481859 AT AT AT A- AT A- AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
481877 GTTTGTGAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
1 4 0.08
2 49 0.92
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:482010 original size:26 final size:28
Alignment explanation
Indices: 481973--482026 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
481963 TTTTTATATA
481973 TATATATATATAG-TTTGAAAACATTTT
1 TATATATATATAGTTTTGAAAACATTTT
*
482000 TATAT-TATATAGTTTTTAAAACATTTT
1 TATATATATATAGTTTTGAAAACATTTT
482027 GAAAACTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (28 bp):
TATATATATATAGTTTTGAAAACATTTT
Found at i:482037 original size:34 final size:34
Alignment explanation
Indices: 481999--482288 Score: 247
Period size: 34 Copynumber: 8.4 Consensus size: 34
481989 GAAAACATTT
*
481999 TTATATTATATAGTTTTTAAAACA-TTTTGAAAA
1 TTATATTATATAGTTTTAAAAACATTTTTGAAAA
* *
482032 CTTATATAATATAGTTTTTTAAAACATTTTTGAAAAA
1 -TTATATTATATAG-TTTTAAAAACATTTTTG-AAAA
* *
482069 TTTATAATATATAGTTTTAAAAATATTTTTGAAAA
1 -TTATATTATATAGTTTTAAAAACATTTTTGAAAA
* * *
482104 ATATATAACATAGTTTTAAAAACATTTTTGGAAAA
1 TTATATTATATAGTTTTAAAAACATTTTT-GAAAA
*
482139 TTACATAATATATAGTTTTAAAAACATTTTTTGAAAA
1 TT--ATATTATATAGTTTTAAAAACA-TTTTTGAAAA
*
482176 CTTATA-TA-ATA-TTTTTAAAACA-TTTTGAAAA
1 -TTATATTATATAGTTTTAAAAACATTTTTGAAAA
*
482207 TTATATAATATATAGTTTTGAAAAC-TTTTT--AAA
1 TTATAT--TATATAGTTTTAAAAACATTTTTGAAAA
* * * *
482240 -TATAATATATAGTTTAAAAAATGTATTTTTGAAGTA
1 TTATATTATATAGTTTTAAAAA--CATTTTTGAA-AA
482276 TATATATTATATA
1 T-TATATTATATA
482289 ATTTATATTA
Statistics
Matches: 211, Mismatches: 23, Indels: 40
0.77 0.08 0.15
Matches are distributed among these distances:
30 19 0.09
31 9 0.04
32 4 0.02
33 20 0.09
34 42 0.20
35 37 0.18
36 24 0.11
37 39 0.18
38 17 0.08
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (34 bp):
TTATATTATATAGTTTTAAAAACATTTTTGAAAA
Found at i:482073 original size:71 final size:70
Alignment explanation
Indices: 482000--482236 Score: 308
Period size: 71 Copynumber: 3.4 Consensus size: 70
481990 AAAACATTTT
* *
482000 TATATTATATAGTTTTTAAAACA-TTTTGAAAACTTATATAATATAGTTTTTTAAAACATTTTTG
1 TATAATATATAGTTTTAAAAACATTTTTGAAAACTTATATAA-ATAG-TTTTTAAAACATTTTTG
482064 AAAAATT-
64 -AAAATTA
* * *
482071 TATAATATATAGTTTTAAAAATATTTTTGAAAA-ATATATAACATAGTTTTAAAAACATTTTTGG
1 TATAATATATAGTTTTAAAAACATTTTTGAAAACTTATATAA-ATAGTTTTTAAAACATTTTT-G
482135 AAAATTA
64 AAAATTA
*
482142 CATAATATATAGTTTTAAAAACATTTTTTGAAAACTTATAT-AATA-TTTTTAAAACA-TTTTGA
1 TATAATATATAGTTTTAAAAACA-TTTTTGAAAACTTATATAAATAGTTTTTAAAACATTTTTGA
482204 AAATTA
65 AAATTA
*
482210 TATAATATATAGTTTTGAAAAC-TTTTT
1 TATAATATATAGTTTTAAAAACATTTTT
482237 AAATATAATA
Statistics
Matches: 149, Mismatches: 12, Indels: 15
0.85 0.07 0.09
Matches are distributed among these distances:
66 5 0.03
68 28 0.19
69 4 0.03
70 31 0.21
71 56 0.38
72 20 0.13
73 5 0.03
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (70 bp):
TATAATATATAGTTTTAAAAACATTTTTGAAAACTTATATAAATAGTTTTTAAAACATTTTTGAA
AATTA
Found at i:482231 original size:35 final size:36
Alignment explanation
Indices: 482000--482260 Score: 261
Period size: 35 Copynumber: 7.6 Consensus size: 36
481990 AAAACATTTT
* *
482000 TATATTATATAGTTTTTAAAACA-TTTTGAAAACTTA
1 TATAATATATAGTTTTAAAAACATTTTTGAAAA-TTA
*
482036 TAT-A-ATATAGTTTTTTAAAACATTTTTGAAAAATT-
1 TATAATATATAG-TTTTAAAAACATTTTTG-AAAATTA
* *
482071 TATAATATATAGTTTTAAAAATATTTTTGAAAAATA
1 TATAATATATAGTTTTAAAAACATTTTTGAAAATTA
*
482107 TAT-A-ACATAGTTTTAAAAACATTTTTGGAAAATTA
1 TATAATATATAGTTTTAAAAACATTTTT-GAAAATTA
*
482142 CATAATATATAGTTTTAAAAACATTTTTTGAAAACTTA
1 TATAATATATAGTTTTAAAAACA-TTTTTGAAAA-TTA
482180 TAT-A-ATAT--TTTT-AAAACA-TTTTGAAAATTA
1 TATAATATATAGTTTTAAAAACATTTTTGAAAATTA
*
482210 TATAATATATAGTTTTGAAAAC-TTTTT---AA--A
1 TATAATATATAGTTTTAAAAACATTTTTGAAAATTA
*
482240 TATAATATATAGTTTAAAAAA
1 TATAATATATAGTTTTAAAAA
482261 TGTATTTTTG
Statistics
Matches: 196, Mismatches: 12, Indels: 40
0.79 0.05 0.16
Matches are distributed among these distances:
30 26 0.13
31 10 0.05
32 6 0.03
33 6 0.03
34 34 0.17
35 38 0.19
36 34 0.17
37 32 0.16
38 10 0.05
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
TATAATATATAGTTTTAAAAACATTTTTGAAAATTA
Found at i:482308 original size:25 final size:25
Alignment explanation
Indices: 482280--482330 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
482270 GAAGTATATA
482280 TATTATATAATTTATATTATATTAT
1 TATTATATAATTTATATTATATTAT
* * * *
482305 TATTATTTATTTTATTTTATTTTAT
1 TATTATATAATTTATATTATATTAT
482330 T
1 T
482331 TATTTTTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
TATTATATAATTTATATTATATTAT
Found at i:482314 original size:10 final size:9
Alignment explanation
Indices: 482289--482336 Score: 60
Period size: 10 Copynumber: 5.0 Consensus size: 9
482279 ATATTATATA
*
482289 ATTTATATT
1 ATTTATTTT
482298 ATATTATTATT
1 AT-TTATT-TT
482309 ATTTATTTT
1 ATTTATTTT
482318 ATTTTATTTT
1 A-TTTATTTT
482328 ATTTATTTT
1 ATTTATTTT
482337 TATGTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
9 13 0.37
10 18 0.51
11 4 0.11
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTTATTTT
Found at i:482332 original size:14 final size:14
Alignment explanation
Indices: 482290--482336 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
482280 TATTATATAA
*
482290 TTTATATTATATTAT
1 TTTATTTTAT-TTAT
482305 TATTA-TTTATTTTAT
1 T-TTATTTTA-TTTAT
482320 TTTATTTTATTTAT
1 TTTATTTTATTTAT
482334 TTT
1 TTT
482337 TATGTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 11 0.39
15 13 0.46
16 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:483593 original size:15 final size:15
Alignment explanation
Indices: 483575--483606 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
483565 ATATTCCATC
*
483575 TTTTTATTGTTTTTA
1 TTTTTATTATTTTTA
483590 TTTTTATTATTTTTA
1 TTTTTATTATTTTTA
483605 TT
1 TT
483607 CCCTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTTATTATTTTTA
Found at i:486107 original size:262 final size:261
Alignment explanation
Indices: 485643--486416 Score: 1052
Period size: 262 Copynumber: 3.0 Consensus size: 261
485633 CGCACTCTGG
* **
485643 CAATCAACATGACGTAGGTCAGTCGGAAGGCTATTACGCTACTCCTA-C--TGTTTGTTT-TTTT
1 CAATCAACATGACGTAGGTCAGTCGGAAGGCTATTACGCTACTCC-ACCAGAGACTGTTTGTTTT
* * * *
485704 T-CTTTTGTAGGTTGATGAGGGTTTTATATTACATTTATTTATCGTTATTTATTCTTTTTTTTCG
65 TCCTTTTGTAGGTTGATGAGTGTTTTATATTACATATATTTATCGTTATTTACTCTTATTTTTCG
* * ** * *
485768 ATTGAATATTACTAATTTATCTTTATTTTAAGTTTATTTTAGACATGAATTTTGTTGGATTAATC
130 ATTGAATATTACTGATTTATCTTTATTTTAAGTTTATTTTGGACATGAGCTTTATTGGATTAATT
* * *
485833 AG-TCCGAAAAGTAATATATTTCGAT-AGTCCAGTCAATATCTTAAATATTTAATTTA-AATTTA
195 AGCT-CAAAAAGTAATAGATTTCGATGA-TCCAGTCAATATCTTGAATATTTAA-TTAGAATTTA
485895 CCTAGA
257 -CTAGA
* * * *
485901 -AATCAACCTGACATAGGTCATTCGGAAGGCTATTACGCTACTCCACCAGAGACAGTTTGTTTTT
1 CAATCAACATGACGTAGGTCAGTCGGAAGGCTATTACGCTACTCCACCAGAGACTGTTTGTTTTT
* * *
485965 CCTTTTGTAGGCTGATGAGTGTTTTATATTATATATATTTATTGTTATTTACTCATTATTTTTCG
66 CCTTTTGTAGGTTGATGAGTGTTTTATATTACATATATTTATCGTTATTTACTC-TTATTTTTCG
*
486030 ATTGAATATTACTGATTTATCTTTATTTTAAGTTTATTTTGGACATGAGCTTTATTAGATTAATT
130 ATTGAATATTACTGATTTATCTTTATTTTAAGTTTATTTTGGACATGAGCTTTATTGGATTAATT
** * *
486095 AGCTCAAAAAGTAGCAGATTTCGATGATCCAGTCAATATCTTGAATATTTAATTAGAATTTATTT
195 AGCTCAAAAAGTAATAGATTTCGATGATCCAGTCAATATCTTGAATATTTAATTAGAATTTACTA
486160 GA
260 GA
* *
486162 CAATCAACATGACGTAGGTCAGTCGGAAGGCTATTACGCTACTCTACTAGAGACTGTTTGTTTTT
1 CAATCAACATGACGTAGGTCAGTCGGAAGGCTATTACGCTACTCCACCAGAGACTGTTTGTTTTT
* *
486227 CTTTTTGTAGGTTGATGAGTGTTTTATATTGCATATATTTATCGTTATTTACTCCTTATTTTTCG
66 CCTTTTGTAGGTTGATGAGTGTTTTATATTACATATATTTATCGTTATTTACT-CTTATTTTTCG
*
486292 ATT-AGATATTACTGATTTATCTTTATTTTGAG-TTATTTTGGACATGAGCTTTATTGGATTAAT
130 ATTGA-ATATTACTGATTTATCTTTATTTTAAGTTTATTTTGGACATGAGCTTTATTGGATTAAT
* * *
486355 TAGC-CTAAAAAGT-ATAGATTTCAATGATCCAGTTAATAACTTGAATATTTAATTAGAATTTA
194 TAGCTC-AAAAAGTAATAGATTTCGATGATCCAGTCAATATCTTGAATATTTAATTAGAATTTA
486417 TCTGGCATAA
Statistics
Matches: 457, Mismatches: 46, Indels: 24
0.87 0.09 0.05
Matches are distributed among these distances:
256 1 0.00
257 42 0.09
259 5 0.01
260 50 0.11
261 95 0.21
262 261 0.57
263 3 0.01
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.44
Consensus pattern (261 bp):
CAATCAACATGACGTAGGTCAGTCGGAAGGCTATTACGCTACTCCACCAGAGACTGTTTGTTTTT
CCTTTTGTAGGTTGATGAGTGTTTTATATTACATATATTTATCGTTATTTACTCTTATTTTTCGA
TTGAATATTACTGATTTATCTTTATTTTAAGTTTATTTTGGACATGAGCTTTATTGGATTAATTA
GCTCAAAAAGTAATAGATTTCGATGATCCAGTCAATATCTTGAATATTTAATTAGAATTTACTAG
A
Done.