Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_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: 3983240
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 18
Found at i:300899 original size:73 final size:73
Alignment explanation
Indices: 300780--300927 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
300770 ATATGCAGGA
*
300780 ATATTAATTGGAAAAGAAGTCCTATAATTTTCTTAGAATGATCCTTGGTTTAATAGTAGGCTTCC
1 ATATTAATTGGAAAAGAAGTCCTATAATTTTCTTAGAATGATCCTTGGTTCAATAGTAGGCTTCC
300845 ATTATGAC
66 ATTATGAC
*
300853 ATATTAATTGGAAAAGAAGTCCTATAATTTTCTTAGAATGATCCTTGGTTCAATGGTAGGCTTCC
1 ATATTAATTGGAAAAGAAGTCCTATAATTTTCTTAGAATGATCCTTGGTTCAATAGTAGGCTTCC
300918 ATTATGAC
66 ATTATGAC
300926 AT
1 AT
300928 GCAGGTCACC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (73 bp):
ATATTAATTGGAAAAGAAGTCCTATAATTTTCTTAGAATGATCCTTGGTTCAATAGTAGGCTTCC
ATTATGAC
Found at i:304915 original size:3 final size:3
Alignment explanation
Indices: 304885--304947 Score: 94
Period size: 3 Copynumber: 21.7 Consensus size: 3
304875 GAGTTATAAA
* *
304885 TAT TA- TAT TAT AAT TAT AAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
304931 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
304948 CTAATGTTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
2 4 0.07
3 50 0.93
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:306526 original size:15 final size:13
Alignment explanation
Indices: 306500--306534 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
306490 GGCGTGTTTA
306500 TAATTTTGTCTTT
1 TAATTTTGTCTTT
306513 TAATTTATGATCTTT
1 TAATTT-TG-TCTTT
306528 TAATTTT
1 TAATTTT
306535 AGTCCTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 3 0.15
15 11 0.55
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (13 bp):
TAATTTTGTCTTT
Found at i:310836 original size:18 final size:18
Alignment explanation
Indices: 310813--310849 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
310803 TTGGGGAGAC
310813 TGAATTATATAGCTCGAT
1 TGAATTATATAGCTCGAT
310831 TGAATTATATAGCTCGAT
1 TGAATTATATAGCTCGAT
310849 T
1 T
310850 TATCTCGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (18 bp):
TGAATTATATAGCTCGAT
Found at i:313182 original size:9 final size:9
Alignment explanation
Indices: 313170--313245 Score: 138
Period size: 9 Copynumber: 8.7 Consensus size: 9
313160 AAGAAAAGAG
313170 AAAAAATGA
1 AAAAAATGA
313179 AAAAAATGA
1 AAAAAATGA
313188 AAAAAATGA
1 AAAAAATGA
313197 AAAAAATGA
1 AAAAAATGA
313206 AAAAAATG-
1 AAAAAATGA
313214 AAAAAATGA
1 AAAAAATGA
313223 AAAAAATG-
1 AAAAAATGA
313231 AAAAAATGA
1 AAAAAATGA
313240 AAAAAA
1 AAAAAA
313246 AAGAGAAAGA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
8 16 0.25
9 49 0.75
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AAAAAATGA
Found at i:313189 original size:17 final size:18
Alignment explanation
Indices: 313170--313245 Score: 138
Period size: 17 Copynumber: 4.3 Consensus size: 18
313160 AAGAAAAGAG
313170 AAAAAATGAAAAAAATGA
1 AAAAAATGAAAAAAATGA
313188 AAAAAATGAAAAAAATGA
1 AAAAAATGAAAAAAATGA
313206 AAAAAATG-AAAAAATGA
1 AAAAAATGAAAAAAATGA
313223 AAAAAATG-AAAAAATGA
1 AAAAAATGAAAAAAATGA
313240 AAAAAA
1 AAAAAA
313246 AAGAGAAAGA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 32 0.55
18 26 0.45
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAAATGAAAAAAATGA
Found at i:313246 original size:18 final size:18
Alignment explanation
Indices: 313170--313298 Score: 126
Period size: 18 Copynumber: 7.2 Consensus size: 18
313160 AAGAAAAGAG
313170 AAAAAATGAAAAAAATG-A
1 AAAAAATG-AAAAAATGAA
313188 AAAAAATGAAAAAAATG-A
1 AAAAAATG-AAAAAATGAA
313206 AAAAAATGAAAAAATG-A
1 AAAAAATGAAAAAATGAA
313223 AAAAAATGAAAAAATGAA
1 AAAAAATGAAAAAATGAA
* *
313241 AAAAAAAGAGAAAGA-GAA
1 AAAAAATGA-AAAAATGAA
*
313259 AGAAAAAAGAAAAAA-GAA
1 A-AAAAATGAAAAAATGAA
* *
313277 AAGAAAAAGAGAAAAT-AA
1 AA-AAAATGAAAAAATGAA
313295 AAAA
1 AAAA
313299 CAGATCTAAA
Statistics
Matches: 102, Mismatches: 4, Indels: 11
0.87 0.03 0.09
Matches are distributed among these distances:
17 28 0.27
18 62 0.61
19 12 0.12
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAAATGAAAAAATGAA
Found at i:313279 original size:25 final size:26
Alignment explanation
Indices: 313157--313298 Score: 82
Period size: 26 Copynumber: 5.3 Consensus size: 26
313147 ATTTTGCTTG
313157 AAGAAGAAAAGAGAAA-AAATGAA-AAAA
1 AAGAA-AAAAGAGAAAGAAA--AAGAAAA
* *
313184 ATGAAAAAA-ATGAAA-AAAATGAAAAA
1 AAGAAAAAAGA-GAAAGAAAAAG-AAAA
* *
313210 AATGAAAAAA-TGAAA-AAAATGAAAA
1 AA-GAAAAAAGAGAAAGAAAAAGAAAA
*
313235 AATGAAAAAAAAAGAGAAAGAGAAAGAAAA
1 AA-G---AAAAAAGAGAAAGAAAAAGAAAA
*
313265 AAGAAAAAAGA-AAAGAAAAAGAGAA
1 AAGAAAAAAGAGAAAGAAAAAGAAAA
*
313290 AATAAAAAA
1 AAGAAAAAA
313299 CAGATCTAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
24 1 0.01
25 29 0.30
26 34 0.35
27 11 0.11
28 6 0.06
29 5 0.05
30 10 0.10
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (26 bp):
AAGAAAAAAGAGAAAGAAAAAGAAAA
Found at i:313297 original size:31 final size:30
Alignment explanation
Indices: 313230--313290 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
313220 TGAAAAAAAT
*
313230 GAAAAAATG-AAAAAAAAAGAGAAAGAGAAA
1 GAAAAAA-GAAAAAAAAAAGAAAAAGAGAAA
313260 GAAAAAAGAAAAAAGAAAAGAAAAAGAGAAA
1 GAAAAAAGAAAAAA-AAAAGAAAAAGAGAAA
313291 ATAAAAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.04
30 12 0.43
31 15 0.54
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (30 bp):
GAAAAAAGAAAAAAAAAAGAAAAAGAGAAA
Found at i:314541 original size:54 final size:54
Alignment explanation
Indices: 314448--315214 Score: 855
Period size: 54 Copynumber: 14.2 Consensus size: 54
314438 GTGAAGCAAA
** * * * *
314448 AGAAGATTGTTCGAGTT-CTACTTACTGAAGCAAGAGGGAGTGAACTCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
314501 AGCAGATTGTTCGAGTTCATACTCCCTGAAGAAAGAGGGAGCAAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * * *
314555 AGAAGATTGTTCGAGTTCTTACACCCTAAAAAAAGAGGGAGCAAACTCGTAGGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
314609 AGAAGATTGTTCGAGTTCCTACTCCATAAAGAAATAGGGAGAGAACCTGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
** * * * * *
314663 ACCAGATTTGTTCGAGTTCTTACTCCCTAAAAAAAGAGTGAGTGAACCCGTAGGT
1 AGAAGA-TTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * *
314718 AGAAGATTGTTCGAGTTCCTACTCCATAAAGAAAGAGAGAGCAAACCCGTTA-GC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCG-TAGGC
* ** *
314772 AGAAGACTGTTCGAGTTCCTACTCCCTAAAGAAAGAAAGAGCGAACCCCGTAGAC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAA-CCCGTAGGC
* **
314827 AGAAGATTGTTTGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACTTGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * *
314881 A-ACATATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCAAACCCGTAGGT
1 AGA-AGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
314935 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGTGAGCAAACCCGTTGGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
314989 AGAAGACTGTTCAAGTTCCTACTCCCTAAAGAAAGAGAGAGTGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
315043 AGAAGATTGTTCGAGTT-CTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * * * *
315096 AGAAGATTGCTCGAGTTTC-ACTCCCTGAAGCAAGAGGGAGTGAACCCGTAAGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * *
315149 AAAAGATTGTTCGAGTTCTTACTTCCTGAAA-CAAGAGGGAGCGAACCCGTTGGTC
1 AGAAGATTGTTCGAGTTCCTACTCCCT-AAAGAAAGAGGGAGCGAACCCGTAGG-C
315204 -GAAGATTGTTC
1 AGAAGATTGTTC
315215 AAAGAAAATA
Statistics
Matches: 610, Mismatches: 93, Indels: 21
0.84 0.13 0.03
Matches are distributed among these distances:
53 111 0.18
54 404 0.66
55 95 0.16
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (54 bp):
AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
Found at i:314680 original size:163 final size:162
Alignment explanation
Indices: 314448--315214 Score: 884
Period size: 163 Copynumber: 4.7 Consensus size: 162
314438 GTGAAGCAAA
** * * * * *
314448 AGAAGATTGTTCGAGTT-CTACTTACTGAAGCAAGAGGGAGTGAACTCGTAGGCAGCAGATTGTT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGAGAACCCGTAGGCAGAAGATTGTT
* * * *
314512 CGAGTTCATACTCCCTGAAGAAAGAGGGAGCAAACCCGTAGGCAGAAGATTGTTCGAGTTCTTAC
66 CGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTTCCTAC
* * *
314577 ACCCTAAAAAAAGAGGGAGCAAACTCGTAGGT
131 TCCCTAAAGAAAGAGGGAGCAAACCCGTAGGT
* * * **
314609 AGAAGATTGTTCGAGTTCCTACTCCATAAAGAAATAGGGAGAGAACCTGTAGGCACCAGATTTGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGAGAACCCGTAGGCAGAAGA-TTGT
* * * * *
314674 TCGAGTTCTTACTCCCTAAAAAAAGAGTGAGTGAACCCGTAGGTAGAAGATTGTTCGAGTTCCTA
65 TCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTTCCTA
* * *
314739 CTCCATAAAGAAAGAGAGAGCAAACCCGTTA-GC
130 CTCCCTAAAGAAAGAGGGAGCAAACCCG-TAGGT
* ** * *
314772 AGAAGACTGTTCGAGTTCCTACTCCCTAAAGAAAGAAAGAGCGAACCCCGTAGACAGAAGATTGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGAGAA-CCCGTAGGCAGAAGATTGT
* ** *
314837 TTGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACTTGTAGGCA-ACATATTGTTCGAGTTCCT
65 TCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGCAGA-AGATTGTTCGAGTTCCT
314901 ACTCCCTAAAGAAAGAGGGAGCAAACCCGTAGGT
129 ACTCCCTAAAGAAAGAGGGAGCAAACCCGTAGGT
* * * *
314935 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGTGAGCA-AACCCGTTGGTAGAAGACTGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAG-AGAACCCGTAGGCAGAAGATTGT
* * *
314999 TCAAGTTCCTACTCCCTAAAGAAAGAGAGAGTGAACCCGTAGGCAGAAGATTGTTCGAGTT-CTA
65 TCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTTCCTA
* * * *
315063 CTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGT
130 CTCCCTAAAGAAAGAGGGAGCAAACCCGTAGGT
* * * * * * * *
315096 AGAAGATTGCTCGAGTTTC-ACTCCCTGAAGCAAGAGGGAGTGAACCCGTAAGTAAAAGATTGTT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGAGAACCCGTAGGCAGAAGATTGTT
* * * *
315160 CGAGTTCTTACTTCCTGAAA-CAAGAGGGAGCGAACCCGTTGGTC-GAAGATTGTTC
66 CGAGTTCCTACTCCCT-AAAGAAAGAGGGAGCGAACCCGTAGG-CAGAAGATTGTTC
315215 AAAGAAAATA
Statistics
Matches: 513, Mismatches: 82, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
160 78 0.15
161 70 0.14
162 102 0.20
163 250 0.49
164 13 0.03
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (162 bp):
AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGAGAACCCGTAGGCAGAAGATTGTT
CGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTTCCTAC
TCCCTAAAGAAAGAGGGAGCAAACCCGTAGGT
Found at i:314893 original size:217 final size:216
Alignment explanation
Indices: 314451--315199 Score: 925
Period size: 217 Copynumber: 3.5 Consensus size: 216
314441 AAGCAAAAGA
** * * * * *
314451 AGATTGTTCGAGTTC-TACTTACTGAAGCAAGAGGGAGTGAACTCGTAGGCAGCAGATTGTTCGA
1 AGATTGTTCGAGTTCTTACTCCCTAAAGAAAGAGGGAGTGAACCCGTAGGTAGAAGATTGTTCGA
* * * * * *
314515 GTTCATACTCCCTGAAGAAAGAGGGAGCAAACCCG-TAGGCAGAAGATTGTTCGAGTTCTTACAC
66 GTTCCTACTCCCTAAAGAAAGAGAGAGCAAACCCGTTA-GCAGAAGACTGTTCGAGTTCCTACTC
* * * * * * *
314579 CCTAAAAAAAGAGGGAGCAAACTCGTAGGTAGAAGATTGTTCGAGTTCCTACTCCATAAAGAAAT
130 CCTAAAGAAAGAGAGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAG
* *
314644 AGGGAGAGAACCTGTAGGCACC
195 AGGGAGCGAACCTGTAGGCAAC
* *
314666 AGATTTGTTCGAGTTCTTACTCCCTAAAAAAAGAGTGAGTGAACCCGTAGGTAGAAGATTGTTCG
1 AGA-TTGTTCGAGTTCTTACTCCCTAAAGAAAGAGGGAGTGAACCCGTAGGTAGAAGATTGTTCG
*
314731 AGTTCCTACTCCATAAAGAAAGAGAGAGCAAACCCGTTAGCAGAAGACTGTTCGAGTTCCTACTC
65 AGTTCCTACTCCCTAAAGAAAGAGAGAGCAAACCCGTTAGCAGAAGACTGTTCGAGTTCCTACTC
* * *
314796 CCTAAAGAAAGAAAGAGCGAACCCCGTAGACAGAAGATTGTTTGAGTTCCTACTCCCTAAAGAAA
130 CCTAAAGAAAGAGAGAGCGAA-CCCGTAGGCAGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAA
*
314861 GAGGGAGCGAACTTGTAGGCAAC
194 GAGGGAGCGAACCTGTAGGCAAC
* * **
314884 ATATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCAAACCCGTAGGTAGAAGATTGTTCGA
1 AGATTGTTCGAGTTCTTACTCCCTAAAGAAAGAGGGAGTGAACCCGTAGGTAGAAGATTGTTCGA
* * * *
314949 GTTCCTACTCCCTAAAGAAAGAGTGAGCAAACCCGTTGGTAGAAGACTGTTCAAGTTCCTACTCC
66 GTTCCTACTCCCTAAAGAAAGAGAGAGCAAACCCGTTAGCAGAAGACTGTTCGAGTTCCTACTCC
* * *
315014 CTAAAGAAAGAGAGAGTGAACCCGTAGGCAGAAGATTGTTCGAGTT-CTACTCCCTGAAGCAAGA
131 CTAAAGAAAGAGAGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGA
* * *
315078 GGGAGCGAACCCGTAAGTAGA-
196 GGGAGCGAACCTGTAGGCA-AC
* * * * * *
315099 AGATTGCTCGAGTT-TCACTCCCTGAAGCAAGAGGGAGTGAACCCGTAAGTAAAAGATTGTTCGA
1 AGATTGTTCGAGTTCTTACTCCCTAAAGAAAGAGGGAGTGAACCCGTAGGTAGAAGATTGTTCGA
* * * * *
315163 GTTCTTACTTCCTGAAA-CAAGAGGGAGCGAACCCGTT
66 GTTCCTACTCCCT-AAAGAAAGAGAGAGCAAACCCGTT
315200 GGTCGAAGAT
Statistics
Matches: 463, Mismatches: 65, Indels: 13
0.86 0.12 0.02
Matches are distributed among these distances:
214 70 0.15
215 49 0.11
216 37 0.08
217 246 0.53
218 61 0.13
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (216 bp):
AGATTGTTCGAGTTCTTACTCCCTAAAGAAAGAGGGAGTGAACCCGTAGGTAGAAGATTGTTCGA
GTTCCTACTCCCTAAAGAAAGAGAGAGCAAACCCGTTAGCAGAAGACTGTTCGAGTTCCTACTCC
CTAAAGAAAGAGAGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGA
GGGAGCGAACCTGTAGGCAAC
Found at i:315402 original size:3 final size:3
Alignment explanation
Indices: 315396--315448 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
315386 AATAATAATA
* * * *
315396 ATT ATT A-T ATT ATT ATT ATT ATA ATT ATC AGT ATT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
315443 AGTT AT
1 A-TT AT
315449 GTTTATTACA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:326989 original size:17 final size:18
Alignment explanation
Indices: 326955--326991 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
326945 TTATGATTTT
326955 TATATTCGATTCAAAATTA
1 TATATTCGATTC-AAATTA
326974 TATATTCGATTC-AATTA
1 TATATTCGATTCAAATTA
326991 T
1 T
326992 TCGAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATTCGATTCAAATTA
Found at i:327260 original size:24 final size:24
Alignment explanation
Indices: 327198--327253 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
327188 TGAATGCAAA
*
327198 AGAGGTATATATACCCCTTTATAT
1 AGAGGTACATATACCCCTTTATAT
327222 AGAGGTACATATACCCCTTTATAT
1 AGAGGTACATATACCCCTTTATAT
327246 AGAGGTAC
1 AGAGGTAC
327254 TGATACCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (24 bp):
AGAGGTACATATACCCCTTTATAT
Found at i:333045 original size:42 final size:43
Alignment explanation
Indices: 332970--333054 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
332960 TTTCTATGCT
** *
332970 CTAGGTATCGATACCGATCACCCAGGTATCGATACCC-CCTTG
1 CTAGGTATCGATACCGATCAAACAGGTACCGATACCCTCCTTG
*
333012 CTAGGTATCGATACTGATTCAAACA-GTACCGATACCCTCCTTG
1 CTAGGTATCGATACCGA-TCAAACAGGTACCGATACCCTCCTTG
333055 AATGTGTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 27 0.73
43 10 0.27
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (43 bp):
CTAGGTATCGATACCGATCAAACAGGTACCGATACCCTCCTTG
Found at i:335036 original size:15 final size:15
Alignment explanation
Indices: 334999--335040 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
334989 TTGTTAAACA
*
334999 TTTTGGATATTTG-G
1 TTTTGGATGTTTGTG
*
335013 -TTTGAATGTTTGTG
1 TTTTGGATGTTTGTG
335027 TTTTGGATGTTTGT
1 TTTTGGATGTTTGT
335041 TTGATTATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 10 0.43
14 1 0.04
15 12 0.52
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.60
Consensus pattern (15 bp):
TTTTGGATGTTTGTG
Found at i:335338 original size:14 final size:13
Alignment explanation
Indices: 335310--335336 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
335300 GGTAAGGGGG
335310 AGTAATTTTTCAA
1 AGTAATTTTTCAA
335323 AGTAATTTTTCAA
1 AGTAATTTTTCAA
335336 A
1 A
335337 AGACAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
AGTAATTTTTCAA
Found at i:335474 original size:19 final size:19
Alignment explanation
Indices: 335450--335501 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
335440 TTTAAGATTT
335450 TATATTCGATTCAAAATTA
1 TATATTCGATTCAAAATTA
335469 TATATTCGATTCAAAATTA
1 TATATTCGATTCAAAATTA
*
335488 TATATTCAATTCAA
1 TATATTCGATTCAA
335502 TTATTCGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (19 bp):
TATATTCGATTCAAAATTA
Found at i:340434 original size:24 final size:25
Alignment explanation
Indices: 340372--340434 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
340362 TCGGGCTGGG
340372 TATATA-TATATATATTTAAATTAAA
1 TATATATTATAT-TATTTAAATTAAA
*
340397 TATATATT-TTTTATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
340421 T-T-TATTAATATTAT
1 TATATATT-ATATTAT
340435 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 19 0.58
25 8 0.24
26 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATATTATATTATTTAAATTAAA
Found at i:340524 original size:13 final size:13
Alignment explanation
Indices: 340468--340511 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
340458 TTTAATATTT
*
340468 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
340480 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
340493 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
340506 ATCGGG
1 ATCGGG
340512 TAATCGGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.14, C:0.16, G:0.52, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:341936 original size:13 final size:13
Alignment explanation
Indices: 341918--341945 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
341908 TTGGGGTTTG
341918 AAGGTTTAAGAAT
1 AAGGTTTAAGAAT
341931 AAGGTTTAAGAAT
1 AAGGTTTAAGAAT
341944 AA
1 AA
341946 AATTTAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (13 bp):
AAGGTTTAAGAAT
Found at i:350921 original size:23 final size:24
Alignment explanation
Indices: 350877--350923 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
350867 TTTGTAAATT
*
350877 TTAAAAATAAAAATATATTTTTAA
1 TTAAAAATAAAAATATACTTTTAA
* *
350901 TTAAAAATAGATA-ATACTTTTAA
1 TTAAAAATAAAAATATACTTTTAA
350924 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TTAAAAATAAAAATATACTTTTAA
Found at i:351247 original size:19 final size:20
Alignment explanation
Indices: 351223--351273 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
351213 AATGACCAAT
351223 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
351242 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
351262 AAAATCGCAACG
1 AAAATCGCAACG
351274 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:351267 original size:20 final size:20
Alignment explanation
Indices: 351223--351646 Score: 203
Period size: 20 Copynumber: 20.8 Consensus size: 20
351213 AATGACCAAT
* *
351223 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
351242 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
351262 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
351282 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
351302 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
351323 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
351346 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * * *
351366 AGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
351386 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
351406 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
351426 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
351446 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
351469 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
351489 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
351509 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
351529 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
351549 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
351569 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
**
351589 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
351610 AAGAATCGCAACGCGATTCCA-
1 AA-AATCGCAACGCGATT-TAG
*
351631 AGAATCGCAACGCGAT
1 AAAATCGCAACGCGAT
351647 CTTCCAAGAA
Statistics
Matches: 327, Mismatches: 60, Indels: 35
0.77 0.14 0.08
Matches are distributed among these distances:
19 17 0.05
20 247 0.76
21 19 0.06
22 15 0.05
23 29 0.09
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:351472 original size:123 final size:123
Alignment explanation
Indices: 351327--351558 Score: 392
Period size: 123 Copynumber: 1.9 Consensus size: 123
351317 GCTTCCAAGT
* *
351327 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGATAGAATC
* * * * *
351392 GCAATGCGATTTATAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
66 GCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAATCGCAATGCGATTGAGAGAG
*
351450 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGATAGAATC
351515 GCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAATCGCAA
66 GCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAATCGCAA
351559 CGTTAAAAAG
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 101 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (123 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGATAGAATC
GCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAATCGCAATGCGATTGAGAGAG
Found at i:351479 original size:103 final size:103
Alignment explanation
Indices: 351327--351560 Score: 323
Period size: 103 Copynumber: 2.3 Consensus size: 103
351317 GCTTCCAAGT
* * *
351327 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGA-TT-GATAG--AATCGCAATGCGATTGATAG
1 TCGCAACGCGA-TT-G-AGAAAATCGCAACGCGATTTAGA-AGAAAATCGCAATGCGACTGAGAG
* *
351388 AATCGCAATGCGATTTATAGAATCGCAATGCGATTTATAGAA
62 AATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* * *
351430 TCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTGAGAAAATCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATC
351495 GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
66 GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
*
351533 TCGCAACGCGATTTAGAAAATCGCAACG
1 TCGCAACGCGATTGAGAAAATCGCAACG
351561 TTAAAAAGAA
Statistics
Matches: 115, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
100 14 0.12
101 5 0.04
102 4 0.03
103 92 0.80
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (103 bp):
TCGCAACGCGATTGAGAAAATCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATC
GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
Found at i:351493 original size:83 final size:81
Alignment explanation
Indices: 351348--351558 Score: 320
Period size: 83 Copynumber: 2.6 Consensus size: 81
351338 TTTAGAAGAA
* * * * *
351348 AATCGCAATGCGATTGATAGAATCGCAATGCGA-TT-GATAGAATCGCAATGCGATTTATAGAAT
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGA-AGAATCGCAATGCGACTGAGAGAAT
351411 CGCAATGCGATTTATAG
65 CGCAATGCGATTTATAG
*
351428 AATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAG--AATCGCAATGCGACTGAGAGAA
351493 TCGCAATGCGATTTATAG
64 TCGCAATGCGATTTATAG
351511 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAA-AATCGCAA
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAGAATCGCAA
351559 CGTTAAAAAG
Statistics
Matches: 120, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
80 38 0.32
81 4 0.03
82 2 0.02
83 76 0.63
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (81 bp):
AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAGAATCGCAATGCGACTGAGAGAATC
GCAATGCGATTTATAG
Found at i:351546 original size:40 final size:40
Alignment explanation
Indices: 351327--351558 Score: 293
Period size: 40 Copynumber: 5.7 Consensus size: 40
351317 GCTTCCAAGT
* *
351327 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTTA-TAG--AATCGCAATGCGATTGAGAGAA
* * * *
351370 TCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAA
1 TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* *
351410 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* *
351450 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTA-TAG--AATCGCAATGCGATTGAGAGAA
*
351493 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
1 TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* *
351533 TCGCAACGCGATTTAGAAAATCGCAA
1 TCGCAACGCGATTTATAGAATCGCAA
351559 CGTTAAAAAG
Statistics
Matches: 168, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
40 115 0.68
41 2 0.01
42 4 0.02
43 47 0.28
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (40 bp):
TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
Found at i:351617 original size:22 final size:22
Alignment explanation
Indices: 351591--351668 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
351581 GTCAAAAGAA
351591 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATCTTCCAAG
351613 AATCGCAACGCGA--TTCCAAG
1 AATCGCAACGCGATCTTCCAAG
351633 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATCTTCCAAG
*
351655 AATCGCAATGCGAT
1 AATCGCAACGCGAT
351669 AGTCTACAGT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 20 0.38
22 33 0.62
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.18
Consensus pattern (22 bp):
AATCGCAACGCGATCTTCCAAG
Found at i:351688 original size:21 final size:21
Alignment explanation
Indices: 351663--351733 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
351653 AGAATCGCAA
351663 TGCGATAGTCTACAGTGTCGT
1 TGCGATAGTCTACAGTGTCGT
** * *
351684 TGCGATTTTCCA-ATTCG-CGT
1 TGCGATAGTCTACAGT-GTCGT
* *
351704 TGCGAGAGTGTACAGTGTCGT
1 TGCGATAGTCTACAGTGTCGT
*
351725 TGTGATAGT
1 TGCGATAGT
351734 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 13 0.37
21 22 0.63
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (21 bp):
TGCGATAGTCTACAGTGTCGT
Found at i:351829 original size:6 final size:6
Alignment explanation
Indices: 351818--351856 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
351808 AGACACGTAT
351818 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GAC
351857 ACGTATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.49, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:355983 original size:2 final size:2
Alignment explanation
Indices: 355976--356017 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
355966 AATATTTGTG
355976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
356018 TATTCAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:356392 original size:27 final size:27
Alignment explanation
Indices: 356362--356449 Score: 176
Period size: 27 Copynumber: 3.3 Consensus size: 27
356352 ACGAGCCAAG
356362 TCGAACTCGAGTATTGCTGAGCTCGAC
1 TCGAACTCGAGTATTGCTGAGCTCGAC
356389 TCGAACTCGAGTATTGCTGAGCTCGAC
1 TCGAACTCGAGTATTGCTGAGCTCGAC
356416 TCGAACTCGAGTATTGCTGAGCTCGAC
1 TCGAACTCGAGTATTGCTGAGCTCGAC
356443 TCGAACT
1 TCGAACT
356450 TGAAAACTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (27 bp):
TCGAACTCGAGTATTGCTGAGCTCGAC
Found at i:356639 original size:14 final size:14
Alignment explanation
Indices: 356620--356647 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
356610 AAGTGAAAGA
356620 ATAGTTATATAATT
1 ATAGTTATATAATT
356634 ATAGTTATATAATT
1 ATAGTTATATAATT
356648 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:357209 original size:22 final size:23
Alignment explanation
Indices: 357166--357217 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
357156 ACTATTAAAT
357166 TAAATTATAAAAACGTTAAATTA
1 TAAATTATAAAAACGTTAAATTA
*
357189 TAAATTA-ATAAACG-TATAATTA
1 TAAATTATAAAAACGTTA-AATTA
357211 TAAATTA
1 TAAATTA
357218 GTTAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.07
22 18 0.67
23 7 0.26
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (23 bp):
TAAATTATAAAAACGTTAAATTA
Found at i:361348 original size:28 final size:27
Alignment explanation
Indices: 361309--361366 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
361299 TCAAAAAAAA
* * *
361309 AAAAAACTCAAAAAACTCCTAAATTCT
1 AAAAAACTCAAAAAAATCATAAACTCT
*
361336 AAAAAATTCCAAAAAAATCATAAACTCT
1 AAAAAACT-CAAAAAAATCATAAACTCT
361364 AAA
1 AAA
361367 TCATAATCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (27 bp):
AAAAAACTCAAAAAAATCATAAACTCT
Found at i:362396 original size:21 final size:21
Alignment explanation
Indices: 362372--362443 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
362362 TGTAAGGGTA
362372 GTATCAATACCCCAAAGAATG
1 GTATCAATACCCCAAAGAATG
*
362393 GTATCGATACCCCAAAGAATG
1 GTATCAATACCCCAAAGAATG
* *
362414 GTATCGATACCCCAAATAATG
1 GTATCAATACCCCAAAGAATG
362435 GTATCAATA
1 GTATCAATA
362444 ACAATTTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.22
Consensus pattern (21 bp):
GTATCAATACCCCAAAGAATG
Found at i:363307 original size:21 final size:21
Alignment explanation
Indices: 363281--363374 Score: 100
Period size: 21 Copynumber: 4.4 Consensus size: 21
363271 GTCGAGGGTT
*
363281 TTATGTGGTCCTCCGGGATAA
1 TTATGTGGTCATCCGGGATAA
*
363302 TTATGTGGTCATTCGGGATAA
1 TTATGTGGTCATCCGGGATAA
* * *
363323 ATATGTGGT-ATTGCGGTGAAAA
1 TTATGTGGTCA-TCCGG-GATAA
*
363345 CCTATGTGGTCATCCGGGATAA
1 -TTATGTGGTCATCCGGGATAA
363367 TTATGTGG
1 TTATGTGG
363375 CACTTCAGTG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 38 0.63
22 8 0.13
23 12 0.20
24 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (21 bp):
TTATGTGGTCATCCGGGATAA
Found at i:369493 original size:23 final size:22
Alignment explanation
Indices: 369463--369531 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
369453 TCCTTCGGGA
369463 CAAA-TATATGGCATTTCGGTG
1 CAAACTATATGGCATTTCGGTG
369484 CAAACCTATATGGTCATTT-GG-G
1 CAAA-CTATATGG-CATTTCGGTG
* *
369506 -ATAATTATGTGGCATTTCGGTG
1 CA-AACTATATGGCATTTCGGTG
369528 CAAA
1 CAAA
369532 TTACGAGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
20 5 0.13
21 13 0.33
22 6 0.15
23 10 0.26
24 5 0.13
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (22 bp):
CAAACTATATGGCATTTCGGTG
Found at i:370356 original size:78 final size:76
Alignment explanation
Indices: 370171--370352 Score: 208
Period size: 78 Copynumber: 2.4 Consensus size: 76
370161 GGGGTGTTAC
**
370171 ATTACGATTTAGAGTTTATGATTTTTTTAATAATCGCTAAATTCATTCTAAATAATGAATCATAT
1 ATTACGATTTAGAGTTTATGATTTTTTTGGTAATCGCTAAATTCATTCTAAATAATGAATCATAT
*
370236 GGTTTTTAGGG
66 GATTTTTAGGG
* * * * *
370247 ATTACAACAATTGAGAGTCTAT-AATTTTTTGGTAATC-CTTAAATTCATTCTAGAA-AATTAAT
1 ATT---ACGATTTAGAGTTTATGATTTTTTTGGTAATCGC-TAAATTCATTCTA-AATAATGAAT
*
370309 CTTATGATTTTTAGGG
61 CATATGATTTTTAGGG
*
370325 ATTATGATTTAGAGTTTATGATTTTTTT
1 ATTACGATTTAGAGTTTATGATTTTTTT
370353 TTGGATTTTT
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
75 12 0.14
76 10 0.12
77 1 0.01
78 48 0.56
79 15 0.17
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (76 bp):
ATTACGATTTAGAGTTTATGATTTTTTTGGTAATCGCTAAATTCATTCTAAATAATGAATCATAT
GATTTTTAGGG
Found at i:370378 original size:30 final size:29
Alignment explanation
Indices: 370344--370441 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 29
370334 TAGAGTTTAT
370344 GATTTTTTTTTGGATTTTTAGGAATTTAGG
1 GATTTTTTTTTGGATTTTTA-GAATTTAGG
* *
370374 GATTTTTTTTTATAGATTTTCTAGAATTTA-T
1 GA-TTTTTTTT-TGGATTTT-TAGAATTTAGG
* *
370405 GATTTTTTTTTGAGAATTTTAATAATTT-GG
1 GATTTTTTTTTG-G-ATTTTTAGAATTTAGG
370435 G-TTTTTT
1 GATTTTTT
370442 AGAAAATAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
29 7 0.12
30 18 0.32
31 15 0.27
32 14 0.25
33 2 0.04
ACGTcount: A:0.22, C:0.01, G:0.16, T:0.60
Consensus pattern (29 bp):
GATTTTTTTTTGGATTTTTAGAATTTAGG
Found at i:370382 original size:32 final size:31
Alignment explanation
Indices: 370346--370415 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
370336 GAGTTTATGA
*
370346 TTTTTTTT-TGGATTTT-TAGGAATTTAGGGAT
1 TTTTTTTTATAGATTTTCTA-GAATTTA-GGAT
*
370377 TTTTTTTTATAGATTTTCTAGAATTTATGAT
1 TTTTTTTTATAGATTTTCTAGAATTTAGGAT
370408 TTTTTTTT
1 TTTTTTTT
370416 GAGAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 19 0.54
32 14 0.40
33 2 0.06
ACGTcount: A:0.20, C:0.01, G:0.14, T:0.64
Consensus pattern (31 bp):
TTTTTTTTATAGATTTTCTAGAATTTAGGAT
Found at i:371678 original size:21 final size:22
Alignment explanation
Indices: 371649--371701 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
371639 ATTCTGACTA
371649 TCGCATTGCGATTTTCC-AAAT
1 TCGCATTGCGATTTTCCTAAAT
*
371670 TCGCGTTGCGATTTTCCTAAA-
1 TCGCATTGCGATTTTCCTAAAT
*
371691 TCGCAATGCGA
1 TCGCATTGCGA
371702 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (22 bp):
TCGCATTGCGATTTTCCTAAAT
Found at i:371712 original size:20 final size:20
Alignment explanation
Indices: 371687--371736 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
371677 GCGATTTTCC
371687 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
371707 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
371727 TAAATCGCAA
1 TAAATCGCAA
371737 CGCAAATCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:371837 original size:20 final size:20
Alignment explanation
Indices: 371730--371836 Score: 171
Period size: 20 Copynumber: 5.3 Consensus size: 20
371720 GAATACGTAA
*
371730 ATCGCAACGCA-AATCTGACT
1 ATCGCAACG-AGATTCTGACT
371750 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
371770 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
371790 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
* *
371810 ATCGCAATGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
371830 ATCGCAA
1 ATCGCAA
371837 TACTGAATTT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
19 1 0.01
20 82 0.99
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:375176 original size:20 final size:20
Alignment explanation
Indices: 375151--375244 Score: 145
Period size: 20 Copynumber: 4.7 Consensus size: 20
375141 GACATTCATT
375151 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
*
375171 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* *
375191 TGACTATCGCAGCGCGGAAT
1 TGACTATCGCAACGCGGAAA
375211 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
375231 TGACTATCGCAACG
1 TGACTATCGCAACG
375245 AGAGAATCGC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 64 0.96
21 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:375304 original size:34 final size:33
Alignment explanation
Indices: 375227--375311 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
375217 TCGCAACGCG
** *
375227 GAAATGACTATCGCAACGAGAGAATCGCAATGA
1 GAAATGAAAATCGCAACGACAGAATCGCAATGA
375260 GAAATGAAAATCGCAACGACAGAATCGCAATGA
1 GAAATGAAAATCGCAACGACAGAATCGCAATGA
375293 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
375312 CGAATTTAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 31 0.65
34 17 0.35
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGACAGAATCGCAATGA
Found at i:375389 original size:33 final size:33
Alignment explanation
Indices: 375326--375410 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
375316 TTTAGTTTCG
* *
375326 CGTTGCGATTTTCATTTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGAGATTCTCT
375360 CGTTGCGATTTTCATTTCGCATTGAGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGAGATTCTCT
**
375393 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
375411 CACGTTGCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 33 0.70
34 14 0.30
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGAGATTCTCT
Found at i:375546 original size:14 final size:14
Alignment explanation
Indices: 375527--375563 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
375517 CATCAATTAA
375527 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
375541 ACAAATCATCTTTT
1 ACAAATCAACATTT
375555 ACAAATCAA
1 ACAAATCAA
375564 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:377234 original size:12 final size:12
Alignment explanation
Indices: 377219--377253 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
377209 AAATAAACAA
377219 ACATGATATTAG
1 ACATGATATTAG
377231 ACATGATATTAG
1 ACATGATATTAG
377243 ACATGATATTA
1 ACATGATATTA
377254 AACAGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (12 bp):
ACATGATATTAG
Found at i:377571 original size:20 final size:20
Alignment explanation
Indices: 377548--377656 Score: 146
Period size: 20 Copynumber: 5.5 Consensus size: 20
377538 GAAACTTAAA
377548 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
377568 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
377588 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* ** *
377608 ATCGCAATGCGAATTTGATT
1 ATCGCAACGCGAAAATGACT
* * **
377628 ATCGCAATGTGAATTTGACT
1 ATCGCAACGCGAAAATGACT
377648 ATCGCAACG
1 ATCGCAACG
377657 AGAGAATCGC
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:377759 original size:34 final size:34
Alignment explanation
Indices: 377721--377814 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 34
377711 CAAATTCGTA
* * * * *
377721 TTGCGATAGTCATTTTTGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTTCGCATTGCGATTCTCTCG
**
377755 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTTCGCATTGCGATTCTCTCG
377788 TTGCGATAGTCATTTTCGCATTGCGAT
1 TTGCGATAGTCATTTTCGCATTGCGAT
377815 AGTAAACTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 26 0.52
34 24 0.48
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.46
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCATTGCGATTCTCTCG
Found at i:380180 original size:22 final size:22
Alignment explanation
Indices: 380119--380184 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
380109 TGACCGTGAA
* **
380119 TGATTTCGCCGGAGATGAAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
380141 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
380163 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
380185 GGATGTCACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:380403 original size:20 final size:20
Alignment explanation
Indices: 380380--380552 Score: 301
Period size: 20 Copynumber: 8.7 Consensus size: 20
380370 CGATAGTCAG
*
380380 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
380400 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
380420 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
** *
380440 ATTTACATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
380460 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
380480 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
380500 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
380520 ATTCGCATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
380540 ATTCGCATTGCGA
1 ATTCGCATTGCGA
380553 ATTAAGAAAG
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 145 1.00
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:380573 original size:21 final size:21
Alignment explanation
Indices: 380549--380594 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
380539 TATTCGCATT
*
380549 GCGAATTAAGAAAGTCGCAAC
1 GCGAATTAAGAAAATCGCAAC
* *
380570 GCGAATTTAGAAAATCGCAAT
1 GCGAATTAAGAAAATCGCAAC
380591 GCGA
1 GCGA
380595 TAGTTAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAAGAAAATCGCAAC
Found at i:381113 original size:43 final size:42
Alignment explanation
Indices: 381048--381131 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 42
381038 ATATCACCAC
* *
381048 TTGATTAGAGGATTTAATTTTTTTTTAATTGAATTAAAGAGAT
1 TTGATTAGAAGATTTAAATTTTTTTTAATTGAATT-AAGAGAT
381091 TTGATTAGAAGATTTAAATTTTTTTTAATTGAATTAAGAGA
1 TTGATTAGAAGATTTAAATTTTTTTTAATTGAATTAAGAGA
381132 ATATTTAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 6 0.15
43 33 0.85
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (42 bp):
TTGATTAGAAGATTTAAATTTTTTTTAATTGAATTAAGAGAT
Found at i:383574 original size:12 final size:12
Alignment explanation
Indices: 383559--383584 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
383549 TTAAAATTTT
383559 ATAAAAGAATAA
1 ATAAAAGAATAA
383571 ATAAAAGAATAA
1 ATAAAAGAATAA
383583 AT
1 AT
383585 TATTAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (12 bp):
ATAAAAGAATAA
Found at i:390655 original size:23 final size:22
Alignment explanation
Indices: 390629--390673 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
390619 GTGTGAAACT
*
390629 AAATAATTCATATAAAATAGAAA
1 AAATAATTAATATAAAA-AGAAA
* *
390652 AAATACTTAATATATAAAGAAA
1 AAATAATTAATATAAAAAGAAA
390674 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (22 bp):
AAATAATTAATATAAAAAGAAA
Found at i:394091 original size:7 final size:7
Alignment explanation
Indices: 394079--394123 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
394069 AAGGAAAAGA
394079 AGGGAAG
1 AGGGAAG
394086 AGGGAAG
1 AGGGAAG
394093 AGGGAAG
1 AGGGAAG
394100 AGGGAAG
1 AGGGAAG
394107 AGGGAAG
1 AGGGAAG
394114 AGGGAAG
1 AGGGAAG
394121 AGG
1 AGG
394124 ACGACAAAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (7 bp):
AGGGAAG
Found at i:394190 original size:6 final size:6
Alignment explanation
Indices: 394179--394215 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
394169 CTCATTATCT
394179 CTTCCA CTTCCA CTTCCA CTTCCA CTTCCA CTTCCA C
1 CTTCCA CTTCCA CTTCCA CTTCCA CTTCCA CTTCCA C
394216 ACTCTCGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.32
Consensus pattern (6 bp):
CTTCCA
Found at i:408972 original size:13 final size:13
Alignment explanation
Indices: 408954--408993 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
408944 TTTAAAAATA
408954 TTATTATTATTAT
1 TTATTATTATTAT
*
408967 TTATTATTAATAT
1 TTATTATTATTAT
*
408980 TT-TTTTTATTAT
1 TTATTATTATTAT
408992 TT
1 TT
408994 TTTTATGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:413883 original size:64 final size:64
Alignment explanation
Indices: 413781--414139 Score: 601
Period size: 64 Copynumber: 5.6 Consensus size: 64
413771 TGCAGCTTTT
* * *
413781 AGAGTCAATTTTAACTTCACAACGAAGGATATTGGACTCAACAAACAACGTTCCAGTTTTATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
413845 AGAGTCAATTTCAACTTCACAACGAAGGATATTTGACTCAACAAACGACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * *
413909 AGAGTTAATTTCAACTTCACATCGAAGGATATTGGACTCAACAAACAATTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * *
413973 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTTAACAAACAACTTTCCAGTTTCATTT
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
*
414037 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAATTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
*
414101 AGAGTCAATTTCAACTTCATAACGAAGGATATTGGACTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTC
414140 GAAACAATGC
Statistics
Matches: 275, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 275 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.30
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
Found at i:414310 original size:121 final size:120
Alignment explanation
Indices: 414162--414676 Score: 676
Period size: 121 Copynumber: 4.3 Consensus size: 120
414152 CTTACATAAG
* * *
414162 CTTGGATTTCAACTTCACGACGAAGGATATCCCATTCAAAGCTCAACTTCACTACGAATGAGCCA
1 CTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
* *
414227 TCTACGATTTCAACTTCACGACGAAGGATATCGTTCCCACAAAAAGCAATGCAAC
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAAAAGCAATGCAAC
* * * * *
414282 ATTTGGATTTCAACTTCAAGATGAAGGATATCTAATTCAAAGCTCAACTTCACAATGAAGGAGCC
1 -CTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
** * * ** *
414347 ATATACGATTTCAACTTCACGATGAAGGATATCATGCCCACAAGTAGCAATACAACC
65 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAAAAGCAATGCAA-C
* * *
414404 CTTGTATTTCAACTTCACGACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAAAGAGCCA
1 CTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
* *
414469 TCCATGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAA-CAATGCAATC
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAA-AAAGCAATGCAA-C
* *
414525 CTTGGATTTCAACTTCACGACGAAGGATATCTAATTCAAAGCTCAACTTCACAACGAAGGAACCA
1 CTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
* * * * *
414590 TCCACGATTTCAACTTCACGACGAAGGATATCGTACCCATAACCAA-CTTACT-CAAG
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAA-AAAGC--AATGCAAC
*
414646 ATTGGATTTCAACTTCACGACGAAGGATATC
1 CTTGGATTTCAACTTCACGACGAAGGATATC
414677 GTGCCCACAA
Statistics
Matches: 346, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
121 339 0.98
122 5 0.01
123 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (120 bp):
CTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAAAAGCAATGCAAC
Found at i:414773 original size:180 final size:179
Alignment explanation
Indices: 414474--414842 Score: 537
Period size: 180 Copynumber: 2.1 Consensus size: 179
414464 AGCCATCCAT
* *
414474 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAATCCTTGGATTTCAACT
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATACAATCATTGGATTTCAACT
* * * *
414539 TCACGACGAAGGATATCTAATTCAAAGCTCAACTTCACAACGAAGGAACCATCCACGATTTCAAC
66 TCACAACGAAGAATATCCAATTAAAAGCTCAACTTCACAACGAAGGAACCATCCACGATTTCAAC
* *
414604 TTCACGACGAAGGATATCGTACCCATAACCAAC-T-TA-CTCAAGATTG
131 TTCACGACGAAGAATATCGTACCCACAACCAACATCTATCTCAAGATTG
414650 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATACAACTCTAGATTGGATTTC
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATACAA-TC---ATTGGATTTC
* * *
414715 AACTTCACAATGAAGAATATCCATTTAAAAGCTCAACTTCACAACGAAGGAGCCATCCACGATTT
62 AACTTCACAACGAAGAATATCCAATTAAAAGCTCAACTTCACAACGAAGGAACCATCCACGATTT
* * * * *
414780 CAATTTCATGACGAAGAATATCGTGCCCACAAGCAACATCTATCTCTAGATTG
127 CAACTTCACGACGAAGAATATCGTACCCACAACCAACATCTATCTCAAGATTG
414833 GATTTCAACT
1 GATTTCAACT
414843 CAAAGCCAAT
Statistics
Matches: 170, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
176 48 0.28
177 2 0.01
180 98 0.58
181 1 0.01
182 2 0.01
183 19 0.11
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (179 bp):
GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATACAATCATTGGATTTCAACT
TCACAACGAAGAATATCCAATTAAAAGCTCAACTTCACAACGAAGGAACCATCCACGATTTCAAC
TTCACGACGAAGAATATCGTACCCACAACCAACATCTATCTCAAGATTG
Found at i:414961 original size:60 final size:63
Alignment explanation
Indices: 414832--414961 Score: 178
Period size: 60 Copynumber: 2.1 Consensus size: 63
414822 TCTCTAGATT
* * *
414832 GGAT-TTCAACTCAAAGCCAATTTGGTGAAACTCACTCAAGATTGGATTTCAACTTCACGACGAA
1 GGATATTCAACTCAAAACCAATTTGGTGAAAC-CAAT-AAGATTGGATTTCAAATTCACGACGAA
*
414896 TGATATTCAACTCAAAACCAATTTGGTGAAA-CAAT-AG-TTGGATTTCAAATTCACGACGAA
1 GGATATTCAACTCAAAACCAATTTGGTGAAACCAATAAGATTGGATTTCAAATTCACGACGAA
414956 GGATAT
1 GGATAT
414962 CGTGCCCAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
60 27 0.45
61 2 0.03
63 3 0.05
64 3 0.05
65 25 0.42
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (63 bp):
GGATATTCAACTCAAAACCAATTTGGTGAAACCAATAAGATTGGATTTCAAATTCACGACGAA
Found at i:417110 original size:27 final size:29
Alignment explanation
Indices: 417057--417115 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
417047 TATATAACAT
*
417057 TTTTTTTCTTGTTTGATATATTTA-TTTA
1 TTTTTTTCTTGTTTGATATATTAATTTTA
*
417085 TTTTTTTCTT-TTT-ATTTAATTAATTTTA
1 TTTTTTTCTTGTTTGATAT-ATTAATTTTA
417113 TTT
1 TTT
417116 GATATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 7 0.26
28 17 0.63
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (29 bp):
TTTTTTTCTTGTTTGATATATTAATTTTA
Found at i:419175 original size:24 final size:25
Alignment explanation
Indices: 419125--419176 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
419115 AATTCCTTTT
* *
419125 TTTATTTACATTTCATTATTTAGTA
1 TTTATTTACATTTAATTATTTAATA
* *
419150 TTTATTTATA-TTAATTCTTTAATA
1 TTTATTTACATTTAATTATTTAATA
419174 TTT
1 TTT
419177 TCCTTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTATTTACATTTAATTATTTAATA
Found at i:419352 original size:17 final size:18
Alignment explanation
Indices: 419307--419353 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
419297 TTAATTTATT
419307 TATTTCA-TTTTATATAG
1 TATTTCATTTTTATATAG
*
419324 TATTT-ATATTTATATA-
1 TATTTCATTTTTATATAG
419340 TATTTCATTTTTAT
1 TATTTCATTTTTAT
419354 TTCTTATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (18 bp):
TATTTCATTTTTATATAG
Found at i:419425 original size:25 final size:25
Alignment explanation
Indices: 419397--419444 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
419387 TTTTCTTGCT
419397 TTTATT-TATTTTATGTATATTTTAC
1 TTTATTATATTTTAT-TATATTTTAC
*
419422 TTTATTATTTTTTATTATATTTT
1 TTTATTATATTTTATTATATTTT
419445 GTTTTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTATTATATTTTATTATATTTTAC
Found at i:419461 original size:41 final size:38
Alignment explanation
Indices: 419416--419517 Score: 104
Period size: 41 Copynumber: 2.7 Consensus size: 38
419406 TTTATGTATA
* *
419416 TTTTACTTTATTATTT-TTTATTATATTTTGTTTTGTTTGTT
1 TTTTACTTTATT-TTTATGTA-TATATTTT-TATTGTTT-TT
*
419457 TTTTACCTTATTTTTATGTATATATTTTTATTGTTTTT
1 TTTTACTTTATTTTTATGTATATATTTTTATTGTTTTT
*
419495 TTTTAC-TTA-CTTTAT-TATATATT
1 TTTTACTTTATTTTTATGTATATATT
419518 ATATTATATA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
35 8 0.14
36 5 0.09
37 3 0.05
38 8 0.14
39 7 0.12
40 11 0.20
41 14 0.25
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (38 bp):
TTTTACTTTATTTTTATGTATATATTTTTATTGTTTTT
Found at i:419496 original size:37 final size:37
Alignment explanation
Indices: 419422--419517 Score: 112
Period size: 38 Copynumber: 2.6 Consensus size: 37
419412 TATATTTTAC
419422 TTTA-TTATTTTTTATTATAT-TTTGTTTTGTTTGTTT
1 TTTACTTA-TTTTTATTATATATTTGTTTTGTTTGTTT
419458 TTTACCTTATTTTTATGTATATATTT-TTATTGTTT-TTT
1 TTTA-CTTATTTTTAT-TATATATTTGTT-TTGTTTGTTT
*
419496 TTTACTTA-CTTTATTATATATT
1 TTTACTTATTTTTATTATATATT
419518 ATATTATATA
Statistics
Matches: 54, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
35 8 0.15
36 9 0.17
37 11 0.20
38 17 0.31
39 9 0.17
ACGTcount: A:0.19, C:0.04, G:0.05, T:0.72
Consensus pattern (37 bp):
TTTACTTATTTTTATTATATATTTGTTTTGTTTGTTT
Found at i:419521 original size:40 final size:41
Alignment explanation
Indices: 419416--419522 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 41
419406 TTTATGTATA
* * *
419416 TTTTACTTTATTATTT-TTTATTATATTTTGTTTTGTTTGTT
1 TTTTACCTTATT-TTTATATATTATATTTTGTATTGTTTGTT
*
419457 TTTTACCTTATTTTTATGTA-TATATTTT-TATTGTTT-TT
1 TTTTACCTTATTTTTATATATTATATTTTGTATTGTTTGTT
419495 TTTTA-CTTACTTTATTATATATTATATT
1 TTTTACCTTA-TTT-TTATATATTATATT
419523 ATATATATAC
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
37 4 0.07
38 10 0.17
39 13 0.22
40 17 0.29
41 14 0.24
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.71
Consensus pattern (41 bp):
TTTTACCTTATTTTTATATATTATATTTTGTATTGTTTGTT
Found at i:419625 original size:31 final size:31
Alignment explanation
Indices: 419588--419651 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
419578 TTGTGTCTAC
419588 CAGTTCTTTTATTTCTTTCCTTTTTTCGGTG
1 CAGTTCTTTTATTTCTTTCCTTTTTTCGGTG
*
419619 CAGTTCTTTTCTTTCTTTCCTTTTTTCGGTG
1 CAGTTCTTTTATTTCTTTCCTTTTTTCGGTG
419650 CA
1 CA
419652 TTAATAATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.06, C:0.22, G:0.12, T:0.59
Consensus pattern (31 bp):
CAGTTCTTTTATTTCTTTCCTTTTTTCGGTG
Found at i:419723 original size:23 final size:23
Alignment explanation
Indices: 419696--419739 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
419686 TCTTTATTAT
419696 TTTTATTA-TAGTTATTATATAAA
1 TTTTATTATTA-TTATTATATAAA
419719 TTTTATTATTATTATTATATA
1 TTTTATTATTATTATTATATA
419740 TTCTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTATTATTATTATTATATAAA
Found at i:419919 original size:9 final size:9
Alignment explanation
Indices: 419907--419987 Score: 64
Period size: 9 Copynumber: 9.4 Consensus size: 9
419897 ACCTTTTTTC
*
419907 TTTTCTTTA
1 TTTTATTTA
*
419916 TTTTCTTTA
1 TTTTATTTA
419925 TTTTA-TT-
1 TTTTATTTA
* *
419932 TTCTATTTC
1 TTTTATTTA
*
419941 TTTTGCTTTA
1 TTTT-ATTTA
419951 TTTTATTTA
1 TTTTATTTA
419960 --TT-TTTA
1 TTTTATTTA
419966 TTTTATTTA
1 TTTTATTTA
*
419975 TTTTATTCA
1 TTTTATTTA
419984 TTTT
1 TTTT
419988 CACTTTTTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
6 4 0.07
7 6 0.10
8 6 0.10
9 36 0.61
10 7 0.12
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (9 bp):
TTTTATTTA
Found at i:419919 original size:15 final size:15
Alignment explanation
Indices: 419901--419978 Score: 56
Period size: 15 Copynumber: 5.3 Consensus size: 15
419891 CTTTTTACCT
*
419901 TTTTTCTTTTCTTTA
1 TTTTTCTTTTATTTA
419916 -TTTTC-TTTATTT-
1 TTTTTCTTTTATTTA
*
419928 TATTTTCTATTTCTTT-
1 T-TTTTCT-TTTATTTA
* *
419944 TGCTTTATTTTATTTA
1 T-TTTTCTTTTATTTA
*
419960 TTTTTATTTTATTTA
1 TTTTTCTTTTATTTA
419975 TTTT
1 TTTT
419979 ATTCATTTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
13 6 0.12
14 10 0.20
15 23 0.45
16 12 0.24
ACGTcount: A:0.13, C:0.08, G:0.01, T:0.78
Consensus pattern (15 bp):
TTTTTCTTTTATTTA
Found at i:419942 original size:20 final size:19
Alignment explanation
Indices: 419912--419978 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
419902 TTTTCTTTTC
419912 TTTATTTTCTTTATTTTAT
1 TTTATTTTCTTTATTTTAT
*
419931 TTTCTATTTCTTT-TGCTTTAT
1 TTTAT-TTTCTTTAT--TTTAT
*
419952 TTTATTTATTTTTATTTTA-
1 TTTATTT-TCTTTATTTTAT
419971 TTTATTTT
1 TTTATTTT
419979 ATTCATTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
18 1 0.03
19 12 0.30
20 13 0.32
21 13 0.32
22 1 0.03
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (19 bp):
TTTATTTTCTTTATTTTAT
Found at i:419953 original size:35 final size:35
Alignment explanation
Indices: 419903--419969 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
419893 TTTTACCTTT
*
419903 TTTCTTTTCTTTATTTTCTTTA-TTTTATTTTCTA
1 TTTCTTTTCTTTATTTTATTTATTTTTATTTTCTA
419937 TTTCTTTTGCTTTATTTTATTTATTTTTATTTT
1 TTTCTTTT-CTTTATTTTATTTATTTTTATTTT
419970 ATTTATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 8 0.27
35 13 0.43
36 9 0.30
ACGTcount: A:0.12, C:0.09, G:0.01, T:0.78
Consensus pattern (35 bp):
TTTCTTTTCTTTATTTTATTTATTTTTATTTTCTA
Found at i:419957 original size:5 final size:5
Alignment explanation
Indices: 419912--419981 Score: 56
Period size: 5 Copynumber: 14.2 Consensus size: 5
419902 TTTTCTTTTC
* * * **
419912 TTTAT TTT-C TTTAT TTTAT TTTCT ATTTCT TTTGC TTTAT TTTA- TTTATT
1 TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTTA-T
419962 TTTAT TTTA- TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT T
419982 CATTTTCACT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
4 11 0.21
5 33 0.62
6 9 0.17
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:427812 original size:61 final size:61
Alignment explanation
Indices: 427725--427840 Score: 223
Period size: 61 Copynumber: 1.9 Consensus size: 61
427715 TTATCAATGT
427725 TGAGGAAGATATCGTGGCAAGCGTGACCACAGAGGCCCCATACATCGAAGTAGATCAATAC
1 TGAGGAAGATATCGTGGCAAGCGTGACCACAGAGGCCCCATACATCGAAGTAGATCAATAC
*
427786 TGAGGAAGATATCGTGGCAAGCGTGACCACGGAGGCCCCATACATCGAAGTAGAT
1 TGAGGAAGATATCGTGGCAAGCGTGACCACAGAGGCCCCATACATCGAAGTAGAT
427841 GAGGAAGCGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.16
Consensus pattern (61 bp):
TGAGGAAGATATCGTGGCAAGCGTGACCACAGAGGCCCCATACATCGAAGTAGATCAATAC
Found at i:429299 original size:15 final size:15
Alignment explanation
Indices: 429274--429444 Score: 152
Period size: 15 Copynumber: 11.0 Consensus size: 15
429264 TAATAAGGTT
429274 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
429288 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
429303 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
429318 A-TT-TTATAAAATA
1 ATTTATTTTAAAATA
*
429331 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
429346 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
429361 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
429380 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
429398 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
* *
429412 ATTTATTAGTATGAATTA
1 ATTTATT--T-TAAAATA
429430 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
429445 TGAATTTATT
Statistics
Matches: 131, Mismatches: 12, Indels: 27
0.77 0.07 0.16
Matches are distributed among these distances:
13 11 0.08
14 23 0.18
15 63 0.48
16 5 0.04
17 3 0.02
18 13 0.10
19 1 0.01
20 2 0.02
21 4 0.03
22 6 0.05
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:429333 original size:43 final size:43
Alignment explanation
Indices: 429276--429444 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
429266 ATAAGGTTAT
429276 TTATT-TAAAATAATTTATTTTAAAATAATTTATTATAAAATAA
1 TTATTATAAAATAATTTATTTTAAAATAATTTATT-TAAAATAA
*
429319 TT-TTATAAAATAATTTATTATAAAATAATTTACTTTAAAATAAA
1 TTATTATAAAATAATTTATTTTAAAATAATTTA-TTTAAAAT-AA
429363 TTATTATAAAATATGGATTGATTTATTTTAAAATAATTTATTTAAAATAA
1 TTATTAT-AAA-AT--A---ATTTATTTTAAAATAATTTATTTAAAATAA
*
429413 TTTATTAGTATGAATTAATTTATTTTAAAATA
1 -TTATTA-TA--AAATAATTTATTTTAAAATA
429445 TGAATTTATT
Statistics
Matches: 108, Mismatches: 3, Indels: 26
0.79 0.02 0.19
Matches are distributed among these distances:
42 2 0.02
43 34 0.31
44 6 0.06
45 4 0.04
46 3 0.03
47 17 0.16
49 1 0.01
50 3 0.03
51 15 0.14
52 21 0.19
53 2 0.02
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (43 bp):
TTATTATAAAATAATTTATTTTAAAATAATTTATTTAAAATAA
Found at i:429356 original size:58 final size:54
Alignment explanation
Indices: 429256--429419 Score: 174
Period size: 58 Copynumber: 3.0 Consensus size: 54
429246 AAAAAAATTT
*
429256 AAATAATTTAATAAGGTTATTTATTTAAAATAATTTATTTTAAAATAATTTATTATA
1 AAATAATTTAATAA--TAATTTATTTAAAATAATTTA-TTTAAAATAATTTATTATA
* *
429313 AAATAATTTTATAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATA
1 AAATAA-TTTA-ATAATAATTTATT-TAAAATAATTTA-TTTAAAATAATTTATTATA
** *
429371 AAAT-A-TGGAT--TGATTTATTTTAAAATAATTTATTTAAAATAATTTATTA
1 AAATAATTTAATAATAATTTA-TTTAAAATAATTTATTTAAAATAATTTATTA
429420 GTATGAATTA
Statistics
Matches: 94, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
51 16 0.17
52 18 0.19
53 2 0.02
54 1 0.01
55 1 0.01
57 15 0.16
58 38 0.40
59 3 0.03
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.48
Consensus pattern (54 bp):
AAATAATTTAATAATAATTTATTTAAAATAATTTATTTAAAATAATTTATTATA
Found at i:429437 original size:22 final size:22
Alignment explanation
Indices: 429421--429463 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
429411 AATTTATTAG
429421 TATGAATTAATTTATTTTAAAA
1 TATGAATTAATTTATTTTAAAA
*
429443 TATGAATTTATTTATTTTAAA
1 TATGAATTAATTTATTTTAAA
429464 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
TATGAATTAATTTATTTTAAAA
Found at i:429442 original size:69 final size:67
Alignment explanation
Indices: 429324--429473 Score: 198
Period size: 69 Copynumber: 2.2 Consensus size: 67
429314 AATAATTTTA
*
429324 TAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAAATATGGATTGATTTAT
1 TAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAAATATGAATTGATTTAT
429389 TT
66 TT
* * * *
429391 TAAAATAATTTATT-TAAAATAATTTA-TTAGTATGAATTAATTTATTTTAAAATATGAATTTAT
1 TAAAATAATTTATTATAAAATAATTTACTT--TA--AAATAAATTATTATAAAATATGAATTGAT
429454 TTATTT
62 TTATTT
429460 T-AAATAATTTATTA
1 TAAAATAATTTATTA
429474 GTATGAATTG
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
65 2 0.03
66 12 0.16
67 16 0.22
68 12 0.16
69 31 0.42
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (67 bp):
TAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAAATATGAATTGATTTAT
TT
Found at i:429500 original size:22 final size:22
Alignment explanation
Indices: 429475--429517 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
429465 AATTTATTAG
429475 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
429497 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
429518 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:429558 original size:21 final size:21
Alignment explanation
Indices: 429529--429572 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
429519 AATTTATTAG
*
429529 TATGTATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
429550 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
429571 TA
1 TA
429573 ATTTATTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (21 bp):
TATGGATTGATTTATTTTAAA
Found at i:429625 original size:30 final size:31
Alignment explanation
Indices: 429601--429684 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
429591 TATTTTAAAA
429601 TATGGATTGATTTATTTAAATA-TTTATTAG
1 TATGGATTGATTTATTTAAATATTTTATTAG
* *
429631 TATGGATTGATTTATTTAAATAATTTATTTG
1 TATGGATTGATTTATTTAAATATTTTATTAG
429662 TATGGATTGATTTATTTAAATAT
1 TATGGATTGATTTATTTAAATAT
429685 GGGTTGATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 22 0.43
31 29 0.57
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (31 bp):
TATGGATTGATTTATTTAAATATTTTATTAG
Found at i:429805 original size:29 final size:29
Alignment explanation
Indices: 429758--429831 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 29
429748 TTTATTTTAA
429758 AATGGATTGATTTATTTTAAATAATTTATTAG
1 AATGGATTGA--T-TTTTAAATAATTTATTAG
*
429790 AATGGATTGATTTTTAAATAATTTATTTG
1 AATGGATTGATTTTTAAATAATTTATTAG
*
429819 TATGGATTGATTT
1 AATGGATTGATTT
429832 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 29 0.73
30 1 0.03
32 10 0.25
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (29 bp):
AATGGATTGATTTTTAAATAATTTATTAG
Found at i:429912 original size:22 final size:23
Alignment explanation
Indices: 429896--430003 Score: 89
Period size: 22 Copynumber: 4.6 Consensus size: 23
429886 AATTTATTAG
*
429896 TATGTATTGATTTATTT-TAAAA
1 TATGGATTGATTTATTTATAAAA
*
429918 TATGGATTGATTTATTTAAATATTTATTAG
1 TATGGATTGATTTATTT--ATA---A--AA
*
429948 TATGAATTGATTTA-TT-TAAAA
1 TATGGATTGATTTATTTATAAAA
*
429969 TATGAATTGATTTATTT-TAAAA
1 TATGGATTGATTTATTTATAAAA
429991 TATGGATTGATTT
1 TATGGATTGATTT
430004 TTAAATAATT
Statistics
Matches: 72, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
21 15 0.21
22 35 0.49
23 1 0.01
25 2 0.03
26 2 0.03
28 1 0.01
29 2 0.03
30 14 0.19
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (23 bp):
TATGGATTGATTTATTTATAAAA
Found at i:429974 original size:21 final size:22
Alignment explanation
Indices: 429948--430003 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
429938 TATTTATTAG
429948 TATGAATTGATTTA-TTTAAAA
1 TATGAATTGATTTATTTTAAAA
429969 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
429991 TATGGATTGATTT
1 TATGAATTGATTT
430004 TTAAATAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 14 0.42
22 19 0.58
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:430054 original size:31 final size:31
Alignment explanation
Indices: 430002--430074 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 31
429992 ATGGATTGAT
*
430002 TTTTAAATAATTTATTAGTATATATTGATTTA
1 TTTTAAAT-ATTTATTAGTATAGATTGATTTA
*
430034 TTTTAAATATTTATTTGTATAGATTGATTTA
1 TTTTAAATATTTATTAGTATAGATTGATTTA
430065 TTTTAAATAT
1 TTTTAAATAT
430075 GGATTGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 31 0.79
32 8 0.21
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (31 bp):
TTTTAAATATTTATTAGTATAGATTGATTTA
Found at i:430065 original size:18 final size:17
Alignment explanation
Indices: 429939--430067 Score: 65
Period size: 18 Copynumber: 7.5 Consensus size: 17
429929 TTATTTAAAT
*
429939 ATTTATTAGTATGAATTG
1 ATTTATTTGTAT-AATTG
*
429957 ATTTATTTAAAATATGAATTG
1 ATTTATTT---GTAT-AATTG
*
429978 ATTTATTT-TAAAATATGG
1 ATTTATTTGTATAAT-T-G
* * *
429996 ATTGATTT-T-TAAATA
1 ATTTATTTGTATAATTG
*
430011 ATTTATTAGTATATATTG
1 ATTTATTTGTATA-ATTG
430029 ATTTATTT-TA-AA-T-
1 ATTTATTTGTATAATTG
430042 ATTTATTTGTATAGATTG
1 ATTTATTTGTATA-ATTG
430060 ATTTATTT
1 ATTTATTT
430068 TAAATATGGA
Statistics
Matches: 86, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
13 8 0.09
14 3 0.03
15 8 0.09
16 7 0.08
17 10 0.12
18 33 0.38
21 17 0.20
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (17 bp):
ATTTATTTGTATAATTG
Found at i:430081 original size:124 final size:128
Alignment explanation
Indices: 429819--430087 Score: 327
Period size: 124 Copynumber: 2.1 Consensus size: 128
429809 AATTTATTTG
***
429819 TATGGATTGATTTATTTTAAAATATGAATGATTTATTATTGTATTGTATGGATTGATTATTTTAA
1 TATGGATTGATTTA-TTTAAAATATGAATGATTTATTATTGTAAAATATGGATTGATTATTTTAA
* ** * * *
429884 ATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTATTTAAATATTTATTAG
65 ATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTGATAGATTGAAATATTTATAAA
*
429948 TATGAATTGATTTATTTAAAATATGAATTGATTTA-T-TT-TAAAATATGGATTGA-T-TTTTAA
1 TATGGATTGATTTATTTAAAATATGAA-TGATTTATTATTGTAAAATATGGATTGATTATTTTAA
** **
430008 ATAATTTATTAGTATATATTGATTTATTTT-AAATATTTATTTGTATAGATTGATTTATTT-TAA
65 ATAATTTATTAGTATATATTGATTTATTTTAAAATATGGA-TTG-ATAGATTGAAATATTTATAA
430071 A
128 A
430072 TATGGATTGATTTATT
1 TATGGATTGATTTATT
430088 ATTATAGTTG
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
123 7 0.06
124 55 0.45
125 12 0.10
126 12 0.10
127 2 0.02
128 14 0.11
129 20 0.16
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (128 bp):
TATGGATTGATTTATTTAAAATATGAATGATTTATTATTGTAAAATATGGATTGATTATTTTAAA
TAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTGATAGATTGAAATATTTATAAA
Found at i:430101 original size:150 final size:151
Alignment explanation
Indices: 429550--430238 Score: 661
Period size: 150 Copynumber: 4.5 Consensus size: 151
429540 TTATTTTAAA
*
429550 TATGGATTGATTTATTTTAAATAATTTA-T--TATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAAT-ATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
* * *
429612 TTATTTAAATATTTATTAGTATGGATTGATTTATTTAAATAATTTATTTGTATGGATTGATTTA-
65 TTA-TT-AATATATATTAGTATGAATTGATTTATTTTAA-AA-TTA--TG-A---ATTGATTTAT
* * *
429676 TTT-AAATATGGGTTGATTATTAT-TGTAGTTG
120 TTTAAAATATGGATTGATTTTTATATTTA-TTG
*
429707 TATGAATTGATTTATTTT-AATAATTTATTAGTAT-GTATTGATTTATTTT-AAA-ATGGATTGA
1 TATGGATTGATTTATTTTAAAT-ATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGA
* * * *
429768 TTTATTTTAAATAATTTATTAGAATGGATTGA-TT-TTTAAATAATTTATTTGTATGGATTGATT
64 TTTA--TT-AAT-ATATATTAGTATGAATTGATTTATTTTAA-AA-TTA--TG-A---ATTGATT
* *
429831 TATTTTAAAATAT-GAATGATTTATTAT-TGTATTG
117 TATTTTAAAATATGGATTGATTT-TTATATTTATTG
429865 TATGGATTGA-TTATTTTAAATAATTTATTAGTAT-GTATTGATTTATTTTAAAATATGGATTGA
1 TATGGATTGATTTATTTTAAAT-ATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGA
*
429928 TTTATTTAAATATTTATTAGTATGAATTGATTTA-TTTAAAA-TATGAATTGATTTATTTTAAAA
64 TTTA-TT-AATATATATTAGTATGAATTGATTTATTTTAAAATTATGAATTGATTTATTTTAAAA
429991 TATGGATTGATTTTTAAATAATTTATTAG
127 TATGGATTGATTTTT--AT-ATTTATT-G
** *
430020 TATATATTGATTTATTTTAAATATTTATTTGTATAGATTGATTTATTTT-AAATATGGATTGATT
1 TATGGATTGATTTATTTTAAATATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATT
* *
430084 TATT-AT-TATAGTT-GTATGGATTGATTTATTTTAAAATTTATTATATTGATTTATTTTAAAAT
66 TATTAATATATA-TTAGTATGAATTGATTTATTTTAAAA-TTATGA-ATTGATTTATTTTAAAAT
430146 ATGGATTGA--TTTATATTGTAGTTG
128 ATGGATTGATTTTTATATT-TA-TTG
*
430170 TATGGATTGATTTATTTTAAATAATTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATT
1 TATGGATTGATTTATTTTAAATATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATT
430235 TATT
66 TATT
430239 TTAAATATTT
Statistics
Matches: 481, Mismatches: 21, Indels: 66
0.85 0.04 0.12
Matches are distributed among these distances:
149 3 0.01
150 89 0.19
151 40 0.08
152 5 0.01
153 7 0.01
154 51 0.11
155 33 0.07
156 23 0.05
157 69 0.14
158 84 0.17
159 64 0.13
160 13 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (151 bp):
TATGGATTGATTTATTTTAAATATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATT
TATTAATATATATTAGTATGAATTGATTTATTTTAAAATTATGAATTGATTTATTTTAAAATATG
GATTGATTTTTATATTTATTG
Found at i:430129 original size:103 final size:99
Alignment explanation
Indices: 429894--430143 Score: 271
Period size: 103 Copynumber: 2.5 Consensus size: 99
429884 ATAATTTATT
* **
429894 AGTATGTATTGATTTATTTTAAAA--TA-TGGATTGATTTA-TTTAAATATTTATTAGTATGAAT
1 AGTATGGATTGATTTATTTTAAAATTTATTATATTGATTTATTTTAAATATTTATTAGTATGAAT
429955 TGATTTATTTAAAATATGAATTGATTTATTTTAA
66 TGATTTATTTAAAATATGAATTGATTTATTTTAA
* * *
429989 AATATGGATTGA-TT-TTTAAATAATTTATTAGTATATATTGATTTATTTTAAATATTTATTTGT
1 AGTATGGATTGATTTATTTTAA-AA--T-TTA-T-TATATTGATTTATTTTAAATATTTATTAGT
* *
430052 AT-AGATTGATTTATTTTAAATATGGATTGATTTATTATTATA
60 ATGA-ATTGATTTATTTAAAATATGAATTGATTTATT-TTA-A
*
430094 GTTGTATGGATTGATTTATTTTAAAATTTATTATATTGATTTATTTTAAA
1 --AGTATGGATTGATTTATTTTAAAATTTATTATATTGATTTATTTTAAA
430144 ATATGGATTG
Statistics
Matches: 127, Mismatches: 11, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
93 5 0.04
94 4 0.03
95 10 0.08
99 2 0.02
102 11 0.09
103 67 0.53
104 4 0.03
105 4 0.03
106 1 0.01
107 10 0.08
108 4 0.03
109 5 0.04
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (99 bp):
AGTATGGATTGATTTATTTTAAAATTTATTATATTGATTTATTTTAAATATTTATTAGTATGAAT
TGATTTATTTAAAATATGAATTGATTTATTTTAA
Found at i:430179 original size:25 final size:25
Alignment explanation
Indices: 430072--430184 Score: 99
Period size: 25 Copynumber: 4.6 Consensus size: 25
430062 TTATTTTAAA
430072 TATGGATTGATTTATTATTATAGTTG
1 TATGGATTGATTTA-TATTATAGTTG
* * *
430098 TATGGATTGATTTATTTTAAAATT-
1 TATGGATTGATTTATATTATAGTTG
** ***
430122 TATTATATTGATTTAT-TT-TA-AAA
1 TA-TGGATTGATTTATATTATAGTTG
*
430145 TATGGATTGATTTATATTGTAGTTG
1 TATGGATTGATTTATATTATAGTTG
430170 TATGGATTGATTTAT
1 TATGGATTGATTTAT
430185 TTTAAATAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
22 11 0.16
23 5 0.07
24 6 0.09
25 33 0.48
26 14 0.20
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (25 bp):
TATGGATTGATTTATATTATAGTTG
Found at i:430303 original size:30 final size:31
Alignment explanation
Indices: 430267--430324 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
430257 AGTTGTATGG
* * *
430267 ATTATTT-AATTTTAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
430297 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
430325 CTTTTAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:433630 original size:10 final size:10
Alignment explanation
Indices: 433590--433633 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
433580 AGGAAAAAAC
433590 AAAACA-AAA
1 AAAACATAAA
*
433599 AAAACATTAA
1 AAAACATAAA
433609 AAAACATTAAA
1 AAAACA-TAAA
*
433620 AAAACACAAA
1 AAAACATAAA
433630 AAAA
1 AAAA
433634 AGGAAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 6 0.20
10 15 0.50
11 9 0.30
ACGTcount: A:0.80, C:0.11, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAACATAAA
Found at i:435033 original size:110 final size:110
Alignment explanation
Indices: 434840--435038 Score: 337
Period size: 110 Copynumber: 1.8 Consensus size: 110
434830 ATTTTAGATC
*
434840 CAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACGACGAAG
*
434905 GGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
66 GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* *
434950 CAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCAC-AGCGAA
1 CAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACGA-CGAA
*
435014 GGGGCGGCTGACTGTCAACAAACAA
65 GGGGCGACTGACTGTCAACAAACAA
435039 TTTCCCAGTT
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
109 1 0.01
110 82 0.99
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (110 bp):
CAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACGACGAAG
GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
Found at i:437024 original size:17 final size:18
Alignment explanation
Indices: 436990--437029 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
436980 TATTAATATG
*
436990 TATTTTGTTAATTATTTT
1 TATTTGGTTAATTATTTT
437008 TATTTGGTTAATT-TTTT
1 TATTTGGTTAATTATTTT
437025 TATTT
1 TATTT
437030 AAGTATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (18 bp):
TATTTGGTTAATTATTTT
Found at i:437212 original size:21 final size:23
Alignment explanation
Indices: 437188--437240 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 23
437178 TCTACATGTT
437188 TTTTCAACCTTCTT-TT-CAACC
1 TTTTCAACCTTCTTATTCCAACC
* *
437209 TTTTCAA--TTTTTATTCCAACT
1 TTTTCAACCTTCTTATTCCAACC
437230 TTTTCAACCTT
1 TTTTCAACCTT
437241 TTCCTTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.15
20 2 0.08
21 18 0.69
23 2 0.08
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTCAACCTTCTTATTCCAACC
Found at i:441595 original size:94 final size:94
Alignment explanation
Indices: 441440--441693 Score: 307
Period size: 94 Copynumber: 2.6 Consensus size: 94
441430 TAATATTATG
* * *
441440 TATACAATAAAGCTTGAATTGT-CCCTCTAGAGTAATTGGTTAAACACCCT-AGCTTTATGGATA
1 TATACAATAAAGCTTG-A-GGTACCCTCTAGAGCAATTGGTTAAACGCCCTGA-CTTTATGGATA
* *
441503 AGATTCAGCTAGCCTGATAAAGGTGATTATAA
63 AGAGTCAGCTAGCCTGATAAAGGTAATTATAA
*
441535 TATACAATAAAGCTTGAGGTACCCTCTAGAGCAATTGGTTAAACGCCCTGACTTTATGGATAATA
1 TATACAATAAAGCTTGAGGTACCCTCTAGAGCAATTGGTTAAACGCCCTGACTTTATGGATAAGA
441600 GTCAGCTAGCCTGATAAAGGTAATTATAA
66 GTCAGCTAGCCTGATAAAGGTAATTATAA
** * * * *
441629 TA-ACTATATAATGATATTGAGCTAACCCTCTAGAGCAGTTGGTTAAACGCCCCGGCTTTATGGA
1 TATAC-A-ATAA--AGCTTGAGGT-ACCCTCTAGAGCAATTGGTTAAACGCCCTGACTTTATGGA
441693 T
61 T
441694 CTAGCTAGCC
Statistics
Matches: 140, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
93 4 0.03
94 70 0.50
95 21 0.15
97 7 0.05
98 38 0.27
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (94 bp):
TATACAATAAAGCTTGAGGTACCCTCTAGAGCAATTGGTTAAACGCCCTGACTTTATGGATAAGA
GTCAGCTAGCCTGATAAAGGTAATTATAA
Found at i:443899 original size:84 final size:84
Alignment explanation
Indices: 442760--443888 Score: 1447
Period size: 84 Copynumber: 13.5 Consensus size: 84
442750 CCATTTTTTT
* * * * *
442760 ATTTGTAGCATAGCTCAAGGCGAGAATGGTTATCTGCCAACAAAAGACCTTCAAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
*
442825 CTCAGCTAAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * *
442844 ATTTGCAGTATAAG-TCAAGGTAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
1 ATTTGCAGCAT-AGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTAC
*
442908 ACTCCGCTCAAAGGCACATC
65 ACTCAGCTCAAAGGCACATC
** * * ** * ** *
442928 ATTTATAACATAACTCAAGGCTTGAAGGGTTATCTATCAA-TAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
442992 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * ** *
443011 ATTTGCAGCATAACTCAAGGTAAGAAGGACTATCTACCAACCGAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
*
443076 CTCAGCTTAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * *
443095 ATTTACAGCATAGCTCAAGGCAAGAAAGGTTATCTGCTAACCAAAA-ACCTTCGAGTTCGATTAC
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAA-CAAAAGACCTTCGAGTTCGATTAC
*
443159 ACTCAGCTCAAAGGCACCTC
65 ACTCAGCTCAAAGGCACATC
* * * * *
443179 ATTTGCAACATAGCTCAAGCCAAGAAGGGCTATTTGCCAACCAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
*
443244 CTCGGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * *
443263 ATTTGCAGCATAACTCAAGGCAAGAAGAGTTATCTG---TC-AAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
*
443324 CTCAGCTCAAAGGAACATC
66 CTCAGCTCAAAGGCACATC
* * * * * * *
443343 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGATCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
443407 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * *
443426 ATTTACAGTATAGCTCAAGGCAAGAAGGGCTATATG-C--C-AAAGTCATTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* *
443487 CTCAGCTCAAAAGCACATT
66 CTCAGCTCAAAGGCACATC
* * * *
443506 ATTTGCAGTATAGCTCAAGGAAAAAAGGGCTATATGCCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
443571 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* **
443590 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTGTA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
* *
443655 CTCAGCTCAGAGACACATC
66 CTCAGCTCAAAGGCACATC
*
443674 ATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
443739 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* *
443758 ATTTGTAGCATAGCTCAAGG-AGAGAAGGGATATCTGCCAACAAAAGACCTTCGAGTTCGATTAC
1 ATTTGCAGCATAGCTCAAGGCA-AGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTAC
*
443822 ACTCAGTTCAAAGGCACATC
65 ACTCAGCTCAAAGGCACATC
* *
443842 AAATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAA
1 --ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAA
443889 TTGTCGAGTT
Statistics
Matches: 915, Mismatches: 114, Indels: 30
0.86 0.11 0.03
Matches are distributed among these distances:
80 143 0.16
81 2 0.00
82 1 0.00
83 149 0.16
84 575 0.63
85 5 0.01
86 39 0.04
87 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (84 bp):
ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCACATC
Found at i:445688 original size:2 final size:2
Alignment explanation
Indices: 445681--445752 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
445671 TTATACTTAT
445681 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
445723 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
445753 GCGTATTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:445853 original size:23 final size:23
Alignment explanation
Indices: 445826--445869 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
445816 TTTTATTATT
445826 TTATTTCTCTATATCTATTTTAC
1 TTATTTCTCTATATCTATTTTAC
* * *
445849 TTATTTGTCTATTTTTATTTT
1 TTATTTCTCTATATCTATTTT
445870 CTTCTTACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATTTCTCTATATCTATTTTAC
Found at i:445922 original size:28 final size:29
Alignment explanation
Indices: 445885--445939 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
445875 TACTTTTTTT
445885 TTTATTTATTTATTATGTA-TATATTTTAC
1 TTTATTTATTTATTAT-TATTATATTTTAC
*
445914 TTTA-TTATTTTTTATTATTATATTTT
1 TTTATTTATTTATTATTATTATATTTT
445940 GTTTGCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 2 0.08
28 18 0.75
29 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (29 bp):
TTTATTTATTTATTATTATTATATTTTAC
Found at i:445926 original size:15 final size:14
Alignment explanation
Indices: 445893--445939 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 14
445883 TTTTTATTTA
445893 TTTATTATGTATATAT
1 TTTATTAT-TATAT-T
445909 TTTACTTTATTAT-TT
1 TTTA--TTATTATATT
445924 TTTATTATTATATT
1 TTTATTATTATATT
445938 TT
1 TT
445940 GTTTGCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 7 0.25
14 4 0.14
15 5 0.18
16 5 0.18
17 3 0.11
18 4 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTATTATTATATT
Found at i:446169 original size:3 final size:3
Alignment explanation
Indices: 446163--446219 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
446153 TTGTCATTCT
446163 TTA TTA TTA TTA -TA GTTA TTA -TA TATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
*
446208 TAA TTA TATA TT
1 TTA TTA T-TA TT
446220 CTATATATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 4 0.09
3 35 0.74
4 8 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:446336 original size:11 final size:11
Alignment explanation
Indices: 446316--446354 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
446306 CTTATGTATT
446316 TTTTTCTTTTTC
1 TTTTT-TTTTTC
446328 TTTTTTTTTTC
1 TTTTTTTTTTC
*
446339 TTTTTTAATTTC
1 TTTTTT-TTTTC
446351 TTTT
1 TTTT
446355 GCTTTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 12 0.48
12 13 0.52
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:446354 original size:17 final size:16
Alignment explanation
Indices: 446313--446382 Score: 56
Period size: 17 Copynumber: 4.3 Consensus size: 16
446303 TATCTTATGT
*
446313 ATTTTTTTCTTTTTCTT
1 ATTTTTTTCTTTTT-TA
*
446330 TTTTTTTTCTTTTTTA
1 ATTTTTTTCTTTTTTA
446346 ATTTCTTTTGCTTTATTT-
1 ATTT-TTTT-CTTT-TTTA
*
446364 ATTTTTAT-TTTTTT-
1 ATTTTTTTCTTTTTTA
446378 ATTTT
1 ATTTT
446383 AATTATTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
14 8 0.17
15 3 0.07
16 4 0.09
17 20 0.43
18 8 0.17
19 3 0.07
ACGTcount: A:0.10, C:0.07, G:0.01, T:0.81
Consensus pattern (16 bp):
ATTTTTTTCTTTTTTA
Found at i:446354 original size:18 final size:17
Alignment explanation
Indices: 446314--446374 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
446304 ATCTTATGTA
446314 TTTTTTTCTTTTTCT-TT
1 TTTTTTTCTTTTT-TATT
446331 TTTTTTTCTTTTTTAATT
1 TTTTTTTCTTTTTT-ATT
* *
446349 TCTTTTGCTTTATTTATT
1 TTTTTTTCTTT-TTTATT
446367 TTTATTTT
1 TTT-TTTT
446375 TTTATTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 1 0.03
17 13 0.36
18 16 0.44
19 6 0.17
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTTTTCTTTTTTATT
Found at i:446414 original size:23 final size:23
Alignment explanation
Indices: 446362--446421 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
446352 TTTGCTTTAT
* *
446362 TTATTTTTATTTTTTTATTTTAA
1 TTATTTTTACTTTTTTATTCTAA
* *
446385 TTATTTTCACTTTTTTCTTCTAA
1 TTATTTTTACTTTTTTATTCTAA
446408 -TATTTTTATCTTTT
1 TTATTTTTA-CTTTT
446422 AAGAGTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (23 bp):
TTATTTTTACTTTTTTATTCTAA
Found at i:450732 original size:14 final size:16
Alignment explanation
Indices: 450703--450735 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
450693 TAATATATTA
450703 AATAATATTATATTTT
1 AATAATATTATATTTT
*
450719 AATAATTTTAT-TTTT
1 AATAATATTATATTTT
450734 AA
1 AA
450736 GTTAAAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATAATATTATATTTT
Found at i:451880 original size:16 final size:16
Alignment explanation
Indices: 451859--451899 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
451849 TCGTTTAATG
451859 CTCCAGCTTACAATAC
1 CTCCAGCTTACAATAC
* *
451875 CTCCAGCTTACATTAG
1 CTCCAGCTTACAATAC
451891 CTCCAGCTT
1 CTCCAGCTT
451900 GAAAATTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (16 bp):
CTCCAGCTTACAATAC
Found at i:458208 original size:19 final size:18
Alignment explanation
Indices: 458184--458236 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
458174 AGAATCATTT
458184 AAATAATATCAATTAAATA
1 AAATAATAT-AATTAAATA
* *
458203 AAATAATTTTAATATGAATA
1 AAATAA-TATAAT-TAAATA
*
458223 AATTAATATAATTA
1 AAATAATATAATTA
458237 TCAATATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 12 0.44
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AAATAATATAATTAAATA
Found at i:458233 original size:25 final size:25
Alignment explanation
Indices: 458187--458235 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
458177 ATCATTTAAA
458187 TAATATCAATTAAATAAAATAATTT
1 TAATATCAATTAAATAAAATAATTT
* *
458212 TAATATGAA-TAAATTAATATAATT
1 TAATATCAATTAAA-TAAAATAATT
458236 ATCAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
TAATATCAATTAAATAAAATAATTT
Found at i:461372 original size:44 final size:44
Alignment explanation
Indices: 461263--461519 Score: 366
Period size: 44 Copynumber: 6.0 Consensus size: 44
461253 TATTTAATCA
* * *
461263 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACTA-TAATTTC
* * * * *
461308 CTAAGCTCGTAAGTTTATTTTACCAATATACTTACCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTTC
461352 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTTC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTTC
*
461396 ATAAGCTC----G--TA-TTTACCAATATGCTTACTATAATTTC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTTC
461433 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTTC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTTC
*
461477 ATAAGATCGTAAGCTTATTTTACCAATATACTTACTATAATTT
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
461520 GCATTACTGA
Statistics
Matches: 193, Mismatches: 12, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
37 33 0.17
38 2 0.01
40 1 0.01
41 1 0.01
43 2 0.01
44 119 0.62
45 35 0.18
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (44 bp):
ATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTTC
Found at i:461423 original size:81 final size:81
Alignment explanation
Indices: 461326--461487 Score: 279
Period size: 81 Copynumber: 2.0 Consensus size: 81
461316 GTAAGTTTAT
*
461326 TTTACCAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATA
1 TTTACCAATATACTTACCATAATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATA
*
461391 ATTTCATAAGCTCGTA
66 ATTTCATAAGATCGTA
* * *
461407 TTTACCAATATGCTTACTATAATTTCATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATA
1 TTTACCAATATACTTACCATAATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATA
461472 ATTTCATAAGATCGTA
66 ATTTCATAAGATCGTA
461488 AGCTTATTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (81 bp):
TTTACCAATATACTTACCATAATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATA
ATTTCATAAGATCGTA
Done.