Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001586.1 Hibiscus syriacus cultivar Beakdansim tig00003165_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: 75243
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:13731 original size:9 final size:9
Alignment explanation
Indices: 13717--13742 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13707 GTTTTGTAAT
13717 AAATAATAA
1 AAATAATAA
13726 AAATAATAA
1 AAATAATAA
13735 AAATAATA
1 AAATAATA
13743 TAATGGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATAATAA
Found at i:16716 original size:23 final size:24
Alignment explanation
Indices: 16690--16735 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
16680 TTTTAATAAC
* *
16690 TTTGTTTTTATGATACA-TTTTTA
1 TTTGTCTTTATGACACAGTTTTTA
16713 TTTGTCTTTATGACACAGTTTTT
1 TTTGTCTTTATGACACAGTTTTT
16736 TCTATCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.61
Consensus pattern (24 bp):
TTTGTCTTTATGACACAGTTTTTA
Found at i:18035 original size:19 final size:20
Alignment explanation
Indices: 18006--18043 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
17996 ATTATAGGTA
18006 CAAATATGACAAAACCGGTC
1 CAAATATGACAAAACCGGTC
18026 CAAA-ATGACAAAACCGGT
1 CAAATATGACAAAACCGGT
18044 AAAACGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (20 bp):
CAAATATGACAAAACCGGTC
Found at i:18431 original size:163 final size:163
Alignment explanation
Indices: 18161--18458 Score: 492
Period size: 163 Copynumber: 1.8 Consensus size: 163
18151 AAAAAAAATA
*
18161 TATCGATCCATAACAATATAACAAGTAAAAATATGATAAAACATGTCTCAAAATTGACAAAACCA
1 TATCGATCCATAACAATATAACAAGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCA
* * *
18226 ATAAAACGATATCGGATATGTTGAAAGAGTCGATACTTTAATATAAGTATCAACACTTTATGAAA
66 ATAAAAAGATACCGGATATGTTGAAAGAGTCGATAATTTAATATAAGTATCAACACTTTATGAAA
18291 TTAAACTAAAAAATGTCGACATTTATGAAAGTG
131 TTAAACTAAAAAATGTCGACATTTATGAAAGTG
*
18324 TATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCA
1 TATCGATCCATAACAATATAACAAGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCA
* *
18389 GA-AAAAAGATACCGGATATG-TGAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGA
66 -ATAAAAAGATACCGGATATGTTG-AAAGAGTCGATAATTTAATATAAGTATCAACACTTTATGA
*
18452 ATTTAAA
129 AATTAAA
18459 AGAGAAGAAG
Statistics
Matches: 125, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
162 2 0.02
163 122 0.98
164 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.27
Consensus pattern (163 bp):
TATCGATCCATAACAATATAACAAGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCA
ATAAAAAGATACCGGATATGTTGAAAGAGTCGATAATTTAATATAAGTATCAACACTTTATGAAA
TTAAACTAAAAAATGTCGACATTTATGAAAGTG
Found at i:18849 original size:183 final size:182
Alignment explanation
Indices: 18322--18978 Score: 951
Period size: 183 Copynumber: 3.6 Consensus size: 182
18312 TTTATGAAAG
*
18322 TGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAAC
1 TGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTC-AAAATGACAAAAC
* * *
18387 CAGAAAAAAGATACCGGATATG-TGAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATG
65 CAGTAAAACGATACCGGATATGTTG-AAAGTGTCGATAATTTAATATAAATATCGACACTTTATG
* * * **
18451 AATTTAAAAGAGAAGAAGTTATAGCACCTAAAAAGTGTCGACACTTTATGAAAA
129 AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAA
* * * *
18505 TGTATCGATCTATAACAATATAACAGCTAAAAATATGATAAAACCGGTCTCAACAATGA-AAAAT
1 TGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAA-AATGACAAAAC
** * * *
18569 TGGTAAAACGATACCGGATATGTTGAAAGTATCGATACTTTAATATAACTATCGACACTTT-TGG
65 CAGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTTAT-G
18633 AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAA
129 AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAA
* *
18687 TGTATCGATCCATAATAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAATTGACAAAAC
1 TGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAA-TGACAAAAC
* *
18752 TAGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTTATGA
65 CAGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTTATGA
* * *
18817 ATTTAAAAGAGAAGAAGTTATTGCGTCTATAAAGTGTCGATACTTTTAAAAAA
130 ATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAA
* *
18870 TGTATCGATCCATAACAATATAACAGGTAAAAATATAATAAAACCGGTCTCAAAATGACAAAACC
1 TGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATGACAAAACC
* * * * * *
18935 GGTAAAGCGCTATCGAATATGTTGAAAGTGTCGATACTTTAATA
66 AGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATA
18979 AGTACACATA
Statistics
Matches: 427, Mismatches: 41, Indels: 13
0.89 0.09 0.03
Matches are distributed among these distances:
181 3 0.01
182 206 0.48
183 217 0.51
184 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (182 bp):
TGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATGACAAAACC
AGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTTATGAA
TTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAA
Found at i:19391 original size:19 final size:19
Alignment explanation
Indices: 19367--19412 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
19357 TATTTAATAT
19367 TTATAGGTAAAAAATGATA
1 TTATAGGTAAAAAATGATA
*
19386 TTATAGGTAGAAAATGATA
1 TTATAGGTAAAAAATGATA
*
19405 TTTTAGGT
1 TTATAGGT
19413 TGTATAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (19 bp):
TTATAGGTAAAAAATGATA
Found at i:19541 original size:5 final size:5
Alignment explanation
Indices: 19531--19555 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19521 TATAACCAGT
19531 ATTTG ATTTG ATTTG ATTTG ATTTG
1 ATTTG ATTTG ATTTG ATTTG ATTTG
19556 CGCAAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
ATTTG
Found at i:20696 original size:22 final size:22
Alignment explanation
Indices: 20645--20700 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
20635 AATGTTTTTG
*
20645 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
20668 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
20690 CTTTTATTATA
1 -TTTTATTATA
20701 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:21417 original size:22 final size:18
Alignment explanation
Indices: 21368--21406 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
21358 GAAAAAATTT
*
21368 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
21386 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
21404 GAA
1 GAA
21407 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:22900 original size:20 final size:19
Alignment explanation
Indices: 22877--22927 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
22867 AAATGCAGGG
22877 TTAATTTTGTATAAGATTTT
1 TTAATTTTGTATAAGA-TTT
*
22897 TTAATTTTGTATATGATTT
1 TTAATTTTGTATAAGATTT
*
22916 ATAATTTTGTAT
1 TTAATTTTGTAT
22928 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:22922 original size:19 final size:20
Alignment explanation
Indices: 22878--22927 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
22868 AATGCAGGGT
*
22878 TAATTTTGTATAAGATTTTT
1 TAATTTTGTATAAGATTTTA
*
22898 TAATTTTGTATATGA-TTTA
1 TAATTTTGTATAAGATTTTA
22917 TAATTTTGTAT
1 TAATTTTGTAT
22928 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (20 bp):
TAATTTTGTATAAGATTTTA
Found at i:23623 original size:199 final size:199
Alignment explanation
Indices: 23270--24532 Score: 2211
Period size: 199 Copynumber: 6.3 Consensus size: 199
23260 GTAAACTTAT
* * * *
23270 GTGTCGATACAATTATAACAAGTGTCGATCCCAAAAATATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
*
23335 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
23400 TCGACACAAATTAAACATGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
*
23465 AAAC
196 AAAA
*
23469 GTGTCTATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
* *
23534 GGTAAATTAGCAATATAACTGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
23599 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
23664 AAAA
196 AAAA
*
23668 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATGATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
* *
23733 GGTAAATTAGCAATATGACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
23798 TCGACACAAATCAAACAAGTGTCAATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
23863 AAAA
196 AAAA
* *
23867 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAATCATCGAAACCCATAATGATAAAGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
* * *
23932 GGTAAACTAGCAATATAGCCGGTCTAAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
23997 TCCACACAAATCAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
24062 AAAA
196 AAAA
* *
24066 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATATTGATAATATAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
* *
24131 GGTAAATTAGTAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
24196 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
24261 AAAA
196 AAAA
*
24265 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAACCCATAATGATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
* * * *
24330 GGTAAATTAGCAATATAAACGATCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
24395 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
24460 AAAA
196 AAAA
* * *
24464 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATATAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
24529 GGTA
66 GGTA
24533 GCAATGTAAC
Statistics
Matches: 1015, Mismatches: 49, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 1015 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:25851 original size:9 final size:9
Alignment explanation
Indices: 25837--25862 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25827 CAATGATGGA
25837 AGAAGCTCC
1 AGAAGCTCC
25846 AGAAGCTCC
1 AGAAGCTCC
25855 AGAAGCTC
1 AGAAGCTC
25863 AAGTTGGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.31, G:0.23, T:0.12
Consensus pattern (9 bp):
AGAAGCTCC
Found at i:26141 original size:12 final size:12
Alignment explanation
Indices: 26114--26153 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
26104 CAAGCGGTCA
**
26114 ATGAAGATGACA
1 ATGAAGATGATG
26126 ATGAAGATGATG
1 ATGAAGATGATG
*
26138 ATGATGATGATG
1 ATGAAGATGATG
26150 ATGA
1 ATGA
26154 TCCAAACAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.30, T:0.25
Consensus pattern (12 bp):
ATGAAGATGATG
Found at i:27889 original size:200 final size:200
Alignment explanation
Indices: 27540--29290 Score: 2808
Period size: 200 Copynumber: 8.8 Consensus size: 200
27530 TACCTTTTTC
* *
27540 AAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGAAACAAATAAAAAAAGTGTCGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
*
27605 TACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
*
27670 AGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
27735 GGTCT
196 GGTCT
* *
27740 AAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAGTATCGACACAAATAAAAAAAGTATCGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
* *
27805 TACATCTTATCCAGATTGTATTTTAAAAACCAAGTGCACAATAAAGTGTCGATACATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * * *
27870 ACTGTCGATCCCGAAAACATCAAAAAACATAATTATAATGTAATAGGTAAATTTTTAATGTAACT
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
27935 GGTCT
196 GGTCT
** *
27940 AAATATACAAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
* * *
28005 TACATCTTGTCAAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGAT-C--CT-GAA-A
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
*
28065 A----C-AT--------CA---AAAAACATAATTATAATGTAATAGGTATATTATTAATGTAACC
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
28114 GGTCT
196 GGTCT
** * *
28119 AAATATATAGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTTGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
* * *
28184 TACATCTTGTCCATATTGTATTTTAAAAACAAAGTGCACAACAAAGTGTCAATACATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* *
28249 AGTGTCGATCCCGAAAATATCGAGAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
28314 GGTCT
196 GGTCT
*
28319 AAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
*
28384 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATATATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
*
28449 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAATTATTAATGTAACC
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
28514 GGTCT
196 GGTCT
* * * *
28519 AAATATACCGGTTTTTGAGAAAACAGGTATATAAAAAGTATCGACAAAAATAAAAAAAAGTGTTG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
*
28584 ATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* *
28649 AAGTGTCGATCCCGAAAACATCAAAAAACATAATTATAATGTAATAGGTATATTATTAATGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
28714 TGGTCT
195 CGGTCT
*
28720 AAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
28785 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
28850 AAGTGTCGATCCCGAAAACATCTAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
28915 CAGTCT
195 CGGTCT
* *
28921 AAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTATCGACATAAATAAAAAAAAGTGGT-
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGT-GTC
*
28985 GATACATCTTGTCCAGATTGTATTTTAAAAAACCAAGTGCACAACAAAGTGCCGATACATTTAAA
64 GATACATCTTGTCCAGATTGTATTTT-AAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAA
* *
29050 ACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATCTA
128 ACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTA
29115 ACCGGTCT
193 ACCGGTCT
* * *
29123 AAATATACCGGTTTTTGAGAAAACAAGTTTACAAAAAGTATTGACACAAATAAAAAAAGTGTCGA
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
* *
29188 TACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTATAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * *
29253 AGTATCAATCCCGAAAACATCGAAAAATATAATTATAA
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAA
29291 CCAAATGTCT
Statistics
Matches: 1436, Mismatches: 90, Indels: 50
0.91 0.06 0.03
Matches are distributed among these distances:
179 156 0.11
180 1 0.00
182 3 0.00
183 2 0.00
184 2 0.00
188 1 0.00
189 2 0.00
190 2 0.00
191 1 0.00
195 2 0.00
196 2 0.00
197 2 0.00
199 1 0.00
200 654 0.46
201 451 0.31
202 154 0.11
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (200 bp):
AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
GGTCT
Found at i:28093 original size:179 final size:179
Alignment explanation
Indices: 27872--28436 Score: 797
Period size: 179 Copynumber: 3.0 Consensus size: 179
27862 TTAAAACAAC
* * *
27872 TGTCGATCCCGAAAACATCAAAAAACATAATTATAATGTAATAGGTAAATTTTTAATGTAACTGG
1 TGTCGATCCTGAAAACATCAAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGG
27937 TCTAAATATACAAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGT
66 TCTAAATATACAAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGT
*
28002 CGATACATCTTGTCAAGATTGTATTTTAAAAACCAAGTGCACAACAAAG
131 CGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAG
*
28051 TGTCGATCCTGAAAACATCAAAAAACATAATTATAATGTAATAGGTATATTATTAATGTAACCGG
1 TGTCGATCCTGAAAACATCAAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGG
* *
28116 TCTAAATATATAGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGT
66 TCTAAATATACAAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGT
* * *
28181 TGATACATCTTGTCCATATTGTATTTTAAAAACAAAGTGCACAACAAAG
131 CGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAG
* * * *
28230 TGTCAATACATTTAAAACAAGTGTCGATCCCGAAAATATCGAGAAACATAATTATAATGTAATAG
1 TGTCGAT-C-CTGAAAAC-A---TC-A-----AAAA-A-C---ATA-AT---TATAATGTAATAG
* *
28295 GTAAATTATTAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTAT
45 GTAAATTATTAATGTAACCGGTCTAAATATACAAGTTTTTGAGAAAACATGTGTACAAAAAGTAT
28360 CGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAA
110 CGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAA
28425 CAAAG
175 CAAAG
28430 TGTCGAT
1 TGTCGAT
28437 ATATTTAAAA
Statistics
Matches: 342, Mismatches: 23, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
179 175 0.51
180 1 0.00
181 6 0.02
182 1 0.00
185 2 0.01
186 1 0.00
191 4 0.01
192 1 0.00
193 1 0.00
196 2 0.01
197 2 0.01
200 146 0.43
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (179 bp):
TGTCGATCCTGAAAACATCAAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGG
TCTAAATATACAAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGT
CGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAG
Found at i:28360 original size:579 final size:582
Alignment explanation
Indices: 27540--29243 Score: 2763
Period size: 579 Copynumber: 2.9 Consensus size: 582
27530 TACCTTTTTC
* *
27540 AAATATACCA-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGAAACAAATAAAAAAAGTGTCG
1 AAATATA-CAGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCG
27604 ATACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
27669 AAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
27734 CGGTCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAGTATCGACACAAATAAAAAAAG
195 CGGTCTAAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
* * *
27799 TATCGATACATCTTATCCAGATTGTATTTTAAAAACCAAGTGCACAATAAAGTGTCGATACATTT
259 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTT
* * *
27864 AAAACAACTGTCGATCCCGAAAACATCAAAAAACATAATTATAATGTAATAGGTAAATTTTTAAT
324 AAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAAT
* ** * *
27929 GTAACTGGTCTAAATATACAAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAA
389 GTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAATAAA
27994 AAAAGTGTCGATACATCTTGTCAAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGAT-
454 AAAAGTGTCGATACATCTTGTCAAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATA
28058 C-C-T-GAAAACATCAAAAAACATAATTATAATGTAATAGGTATATTATTAATGTAACCGGTCT
519 CACATCGAAAACATCAAAAAACATAATTATAATGTAATAGGTATATTATTAATGTAACCGGTCT
* *
28119 AAATATATAGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTTGA
1 AAATATACAGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
* *
28184 TACATCTTGTCCATATTGTATTTTAAAAACAAAGTGCACAACAAAGTGTCAATACATTTAAAACA
66 TACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* *
28249 AGTGTCGATCCCGAAAATATCGAGAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
131 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
28314 GGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGT
196 GGTCTAAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGT
*
28379 GTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATATATTTA
260 GTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTA
*
28444 AAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAATTATTAATG
325 AAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATG
* * *
28509 TAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTATATAAAAAGTATCGACAAAAATAAAA
390 TAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAAT-AAA
* *
28574 AAAAGTGTTGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATA
454 AAAAGTGTCGATACATCTTGTCAAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCG---
28639 CATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAACATAATTATAATGTAATAGGTATATTA
516 -A--T---AC-A----C-AT--CGAAAACATCAAAAAACATAATTATAATGTAATAGGTATATTA
*
28704 TTAATGTAACTGGTCT
567 TTAATGTAACCGGTCT
*
28720 AAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
1 AAATATACAGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
*
28785 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
28850 AAGTGTCGATCCCGAAAACATCTAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
130 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* *
28915 CAGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTATCGACATAAATAAAAAAAA
195 CGGTCTAAATATACCG-TTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAA
*
28980 GTGGT-GATACATCTTGTCCAGATTGTATTTTAAAAAACCAAGTGCACAACAAAGTGCCGATACA
258 GT-GTCGATACATCTTGTCCAGATTGTATTTT-AAAAACCAAGTGCACAACAAAGTGTCGATACA
*
29044 TTTAAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATT
321 TTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATT
* * *
29109 AATCTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTTTACAAAAAGTATTGACACAAAT
386 AATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAAT
* *
29174 AAAAAAAGTGTCGATACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCG
451 AAAAAAAGTGTCGATACATCTTGTCAAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCG
29239 ATACA
516 ATACA
29244 TTTATAACAA
Statistics
Matches: 1044, Mismatches: 53, Indels: 42
0.92 0.05 0.04
Matches are distributed among these distances:
578 1 0.00
579 423 0.41
580 63 0.06
584 1 0.00
586 1 0.00
590 1 0.00
593 1 0.00
594 2 0.00
596 1 0.00
597 1 0.00
598 1 0.00
599 1 0.00
601 107 0.10
602 189 0.18
603 97 0.09
604 154 0.15
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (582 bp):
AAATATACAGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
TACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
GGTCTAAATATACCGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTG
TCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAA
AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
AACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAATAAAAA
AAGTGTCGATACATCTTGTCAAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACA
CATCGAAAACATCAAAAAACATAATTATAATGTAATAGGTATATTATTAATGTAACCGGTCT
Found at i:28670 original size:201 final size:200
Alignment explanation
Indices: 28048--29290 Score: 2083
Period size: 201 Copynumber: 6.2 Consensus size: 200
28038 GTGCACAACA
* * *
28048 AAGTGTCGATCCTGAAAACATCAAAAAACATAATTATAATGTAATAGGTATATTATTAATGTAAC
1 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
** *
28113 CGGTCTAAATATATAGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAG
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
* * * *
28178 TGTTGATACATCTTGTCCATATTGTATTTTAAAAACAAAGTGCACAACAAAGTGTCAATACATTT
131 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTT
28243 AAAAC
196 AAAAC
* *
28248 AAGTGTCGATCCCGAAAATATCGAGAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
1 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
28313 CGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
*
28378 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATATATTT
131 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTT
28443 AAAAC
196 AAAAC
*
28448 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAATTATTAATGTAAC
1 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* * *
28513 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTATATAAAAAGTATCGACAAAAATAAAAAAAA
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAA
* *
28578 GTGTTGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
130 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
28643 TAAAAC
195 TAAAAC
* *
28649 AAGTGTCGATCCCGAAAACATCAAAAAACATAATTATAATGTAATAGGTATATTATTAATGTAAC
1 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* *
28714 TGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAAA
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAA
28779 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
130 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
28844 TAAAAC
195 TAAAAC
*
28850 AAGTGTCGATCCCGAAAACATCTAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
1 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* * *
28915 CAGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTATCGACATAAATAAAAAAAA
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAA
*
28980 GTGGT-GATACATCTTGTCCAGATTGTATTTTAAAAAACCAAGTGCACAACAAAGTGCCGATACA
130 GT-GTCGATACATCTTGTCCAGATTGTATTTT-AAAAACCAAGTGCACAACAAAGTGTCGATACA
29044 TTTAAAAC
193 TTTAAAAC
* *
29052 AAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATCTAAC
1 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* * *
29117 CGGTCTAAATATACCGGTTTTTGAGAAAACAAGTTTACAAAAAGTATTGACACAAATAAAAAAAG
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
*
29182 TGTCGATACATCTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTT
131 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTT
*
29247 ATAAC
196 AAAAC
* * *
29252 AAGTATCAATCCCGAAAACATCGAAAAATATAATTATAA
1 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAA
29291 CCAAATGTCT
Statistics
Matches: 981, Mismatches: 58, Indels: 8
0.94 0.06 0.01
Matches are distributed among these distances:
200 376 0.38
201 451 0.46
202 154 0.16
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (200 bp):
AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTT
AAAAC
Found at i:32407 original size:83 final size:84
Alignment explanation
Indices: 32247--32492 Score: 368
Period size: 83 Copynumber: 2.9 Consensus size: 84
32237 AAATAGGTCA
32247 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTAC--TATATAAGCGCTACCTAATATGTTATTGTA-TTGATAATATTT
*
32312 CTGGTTAAATGCCTATTTTATT
63 CCGGTTAAATGCCTATTTTATT
** *
32334 ATATAAGTACTACCTATTAC-ATATAAGCGCTACCTAATATGTTACTGTATTGATAATATTTCCG
1 ATATAAGCGCTACCTATTACTATATAAGCGCTACCTAATATGTTATTGTATTGATAATATTTCCG
32398 GTTAAATGCCTATTTTATT
66 GTTAAATGCCTATTTTATT
* *
32417 ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTAC--TATATAAGCGCTACCTAATATGTTATTGT-ATTGATAATATTT
*
32482 CCAGTTAAATG
63 CCGGTTAAATG
32493 ATATAATATA
Statistics
Matches: 145, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
83 50 0.34
84 28 0.19
86 27 0.19
87 40 0.28
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (84 bp):
ATATAAGCGCTACCTATTACTATATAAGCGCTACCTAATATGTTATTGTATTGATAATATTTCCG
GTTAAATGCCTATTTTATT
Found at i:32464 original size:23 final size:23
Alignment explanation
Indices: 32414--32458 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
32404 TGCCTATTTT
*
32414 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
*
32437 ATTATATAAGCGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
32459 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:34279 original size:21 final size:22
Alignment explanation
Indices: 34233--34281 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
34223 CTATGTATTT
* *
34233 TTTTATTAAATTTATGTTTGTG
1 TTTTATTAAATTAATGTTTGCG
34255 -TTTATT-AATTAATGTTTGCG
1 TTTTATTAAATTAATGTTTGCG
34275 TTTTATT
1 TTTTATT
34282 TTTCCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (22 bp):
TTTTATTAAATTAATGTTTGCG
Found at i:35406 original size:22 final size:21
Alignment explanation
Indices: 35355--35408 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
35345 TCAATAAAAA
**
35355 TTATATAAAATATTTTTATTT
1 TTATATAAAATATTAATATTT
*
35376 TTATCTAAAATATTAATATTT
1 TTATATAAAATATTAATATTT
*
35397 TTTTAATAAAAT
1 TTAT-ATAAAAT
35409 TAATAAAGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATAAAATATTAATATTT
Found at i:36033 original size:32 final size:32
Alignment explanation
Indices: 35997--36097 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 32
35987 GTTATCATCA
35997 ATATTTTTTAGTATATTGTATCATTGAATATG
1 ATATTTTTTAGTATATTGTATCATTGAATATG
* * *
36029 ATA--TTTTA--CT-TT-TACCATATGCAATCATCA
1 ATATTTTTTAGTATATTGTATCAT-TG-AAT-AT-G
36059 ATATTTTTTAGTATATTGTATCATTGAATATG
1 ATATTTTTTAGTATATTGTATCATTGAATATG
36091 ATATTTT
1 ATATTTT
36098 ACTTTTACTA
Statistics
Matches: 53, Mismatches: 6, Indels: 20
0.67 0.08 0.25
Matches are distributed among these distances:
26 5 0.09
27 4 0.08
28 4 0.08
29 2 0.04
30 8 0.15
32 15 0.28
33 2 0.04
34 4 0.08
35 4 0.08
36 5 0.09
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (32 bp):
ATATTTTTTAGTATATTGTATCATTGAATATG
Found at i:36042 original size:36 final size:36
Alignment explanation
Indices: 36002--36104 Score: 84
Period size: 36 Copynumber: 3.1 Consensus size: 36
35992 CATCAATATT
36002 TTTTAGTATATTGTATCATTGAATATGATATTTTAC
1 TTTTAGTATATTGTATCATTGAATATGATATTTTAC
** * *
36038 TTTTACCATA-TG---C----AATCATCA-ATATT--
1 TTTTAGTATATTGTATCATTGAAT-ATGATATTTTAC
36064 TTTTAGTATATTGTATCATTGAATATGATATTTTAC
1 TTTTAGTATATTGTATCATTGAATATGATATTTTAC
36100 TTTTA
1 TTTTA
36105 CTATTTTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 24
0.59 0.10 0.30
Matches are distributed among these distances:
26 8 0.17
27 2 0.04
28 7 0.15
29 3 0.06
30 1 0.02
32 1 0.02
33 3 0.06
34 7 0.15
35 2 0.04
36 13 0.28
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (36 bp):
TTTTAGTATATTGTATCATTGAATATGATATTTTAC
Found at i:43705 original size:25 final size:25
Alignment explanation
Indices: 43677--43728 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
43667 ACTCTTAGAA
*
43677 AGTTAAATAGATAAGGATTACTACT
1 AGTTAAATAGATAAGGATAACTACT
43702 AGTTAAATAGATAAGGATAACTACT
1 AGTTAAATAGATAAGGATAACTACT
43727 AG
1 AG
43729 GTAGTTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (25 bp):
AGTTAAATAGATAAGGATAACTACT
Found at i:48054 original size:58 final size:58
Alignment explanation
Indices: 47964--48080 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
47954 CTTGGAAACA
47964 AAATCCTAAACAAGAAAATCTAAGAGTTAAATTATGGAAGTAAAATTTATGATAAAGC
1 AAATCCTAAACAAGAAAATCTAAGAGTTAAATTATGGAAGTAAAATTTATGATAAAGC
48022 AAATCCTAAACAAGAAAATCTAAGAGTTAAATTATGGAAGTAAAATTTATGATAAAGC
1 AAATCCTAAACAAGAAAATCTAAGAGTTAAATTATGGAAGTAAAATTTATGATAAAGC
48080 A
1 A
48081 TAAGTGTAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.26
Consensus pattern (58 bp):
AAATCCTAAACAAGAAAATCTAAGAGTTAAATTATGGAAGTAAAATTTATGATAAAGC
Found at i:49632 original size:2 final size:2
Alignment explanation
Indices: 49625--49665 Score: 64
Period size: 2 Copynumber: 19.5 Consensus size: 2
49615 AGACAAACTT
49625 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GTA GA GTA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G-A GA G-A GA G
49666 TAATGATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 33 0.89
3 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.49, T:0.05
Consensus pattern (2 bp):
GA
Found at i:52386 original size:95 final size:95
Alignment explanation
Indices: 52257--52445 Score: 342
Period size: 95 Copynumber: 2.0 Consensus size: 95
52247 ACCAAAAGAT
* * *
52257 CAAAAGTCCTCGAGTGAAACATTCCAACCGCTATTTATAGCCCACTCAAAGATGTTAAAGTAACG
1 CAAAAGTCCTCAAATGAAACATTCCAACCCCTATTTATAGCCCACTCAAAGATGTTAAAGTAACG
52322 GTTATAGAAGGGCGTGACTAAACATGTAAC
66 GTTATAGAAGGGCGTGACTAAACATGTAAC
*
52352 CAAAAGTTCTCAAATGAAACATTCCAACCCCTATTTATAGCCCACTCAAAGATGTTAAAGTAACG
1 CAAAAGTCCTCAAATGAAACATTCCAACCCCTATTTATAGCCCACTCAAAGATGTTAAAGTAACG
52417 GTTATAGAAGGGCGTGACTAAACATGTAA
66 GTTATAGAAGGGCGTGACTAAACATGTAA
52446 TAAGTTATTA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (95 bp):
CAAAAGTCCTCAAATGAAACATTCCAACCCCTATTTATAGCCCACTCAAAGATGTTAAAGTAACG
GTTATAGAAGGGCGTGACTAAACATGTAAC
Found at i:55294 original size:6 final size:6
Alignment explanation
Indices: 55283--55316 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
55273 GTATTTTATC
55283 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
55317 AGTTAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:58676 original size:7 final size:7
Alignment explanation
Indices: 58664--58701 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
58654 ATCTTACTAC
58664 ATAAATT
1 ATAAATT
58671 ATAAATT
1 ATAAATT
58678 CAT-AATT
1 -ATAAATT
58685 -TAAATT
1 ATAAATT
58691 ATAAATT
1 ATAAATT
58698 ATAA
1 ATAA
58702 TAAAAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 1 0.04
6 4 0.14
7 21 0.75
8 2 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (7 bp):
ATAAATT
Found at i:58690 original size:20 final size:19
Alignment explanation
Indices: 58665--58702 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
58655 TCTTACTACA
58665 TAAATTATAAATTCATAATT
1 TAAATTATAAATT-ATAATT
58685 TAAATTATAAATTATAAT
1 TAAATTATAAATTATAAT
58703 AAAAACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATTATAAATTATAATT
Found at i:60473 original size:68 final size:68
Alignment explanation
Indices: 60364--61518 Score: 1791
Period size: 68 Copynumber: 17.0 Consensus size: 68
60354 CAAGATTAAT
60364 GGCCTAACTGTGCATTTGACAGAAATA-TGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAACTGTGCATTTGACAGAAA-AGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCT
60428 TTGA
65 TTGA
*
60432 GGCCTAACTGTGCATTTGACAGAAAATTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
60497 TGA
66 TGA
* * * *
60500 GGCCTAACTGTGCATTTGATAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGTCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
60565 TGA
66 TGA
* * * * * * *
60568 GGCCTAAATATGAATTTGATAGAAATGCGTCAATCATGCCTGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
60633 TGA
66 TGA
* * *
60636 AG-CTAACTGTGCATTTGATAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
60700 TGA
66 TGA
* * * *
60703 GGCCTAACTGTTCATTTGACAGAAAGGTGTCAATCATACCAGTTAGATGAAAGGCTAAGTGTCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
60768 TGA
66 TGA
* *
60771 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAGTCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
60836 TGA
66 TGA
* *
60839 GGCCTAATTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
60904 TGA
66 TGA
* * *
60907 GACCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGTCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
60972 TGA
66 TGA
* *
60975 GGCCTAACTGTGCATTTGATAGAAATA-TGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAACTGTGCATTTGACAGAAA-AGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCT
61039 TTGA
65 TTGA
* *
61043 GGCCTAACTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAATGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
61108 TGA
66 TGA
** * *
61111 GGAATAACTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAATGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
61176 TGA
66 TGA
** *
61179 GGAATAACTATGCATTTGACA-AAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAACTGTGCATTTGACAGAAAAG-TGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCT
61243 TTGA
65 TTGA
61247 GGCCTAACTGTGCATTTGACAG-AAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAACTGTGCATTTGACAGAAAAG-TGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCT
61311 TTGA
65 TTGA
* * * * *
61315 GGCTTAACTATGCATTTGACAGAAATGTGTCAATCATGACAGTTAGATGAAAGGCTAAGTGCCTA
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
61380 TAA
66 TGA
*
61383 GGCCTAACTGTGCATTTGACAG-AAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAACTGTGCATTTGACAGAAAAG-TGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCT
61447 TTGA
65 TTGA
* * * *
61451 GGCATAACTGTTCATTTGACAGAAAGGTGTCAATCATTCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
61516 TGA
66 TGA
61519 TAGAAAGGTG
Statistics
Matches: 1009, Mismatches: 69, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
67 68 0.07
68 935 0.93
69 6 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:60935 original size:204 final size:204
Alignment explanation
Indices: 60364--62088 Score: 2641
Period size: 204 Copynumber: 8.6 Consensus size: 204
60354 CAAGATTAAT
*
60364 GGCCTAACTGTGCATTTGACAGAAATATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
**
60429 TGAGGCCTAACTGTGCATTTGACAGAAAATTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
* *
60494 CTTTGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAG
131 CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
*
60559 TGTCTTTGA
196 TGCCTTTGA
* * * * * *
60568 GGCCTAAATATGAATTTGATAGAAATG-CGTCAATCATGCCTGTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAACTGTGCATTTGACAGAAA-GATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCT
* *
60632 TTGAAG-CTAACTGTGCATTTGATAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTG
65 TTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTG
* *
60696 CCTTTGAGGCCTAACTGTTCATTTGACAGAAAGGTGTCAATCATACCAGTTAGATGAAAGGCTAA
130 CCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAA
*
60761 GTGTCTTTGA
195 GTGCCTTTGA
* *
60771 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAGTCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
60836 TGAGGCCTAATTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
*
60901 CTTTGAGACCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
131 CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
*
60966 TGTCTTTGA
196 TGCCTTTGA
* * *
60975 GGCCTAACTGTGCATTTGATAGAAATATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* *
61040 TGAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAATGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
** * *
61105 CTTTGAGGAATAACTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAATGCTAAG
131 CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
61170 TGCCTTTGA
196 TGCCTTTGA
** * *
61179 GGAATAACTATGCATTTGACAAAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
61244 TGAGGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
* * * *
61309 CTTTGAGGCTTAACTATGCATTTGACAGAAATGTGTCAATCATGACAGTTAGATGAAAGGCTAAG
131 CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
* *
61374 TGCCTATAA
196 TGCCTTTGA
*
61383 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * *
61448 TGAGGCATAACTGTTCATTTGACAGAAAGGTGTCAATCATTCCAGTTAGATGAAAGGCTAA--G-
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
*
61510 ---T---GCCT---T-TG-A--T---AGAAAGGTGTCAATCATGCCAGTTAGATTAAAGGCTAAG
131 CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
61559 TGCCTTTGA
196 TGCCTTTGA
*
61568 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * *
61633 TGAGGACTAACTATGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGT
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
*
61698 CTTTGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
131 CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
61763 TGCCTTTGA
196 TGCCTTTGA
* *
61772 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGTCAT
1 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * * *
61837 TGAGGCCTAATTGTGCATTGGACAGAAAGGTGGCAATCATGCCAGCTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
* * * * * *
61902 CTATGAGGCCTAAGTGTGCATTTGACATAAAGGTGTCAATCATGTCAGATAGATAAAAGGCTAAG
131 CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
61967 TGCCTTTGA
196 TGCCTTTGA
* * * *
61976 GGCCTAACTGTGCATTTGACAAAAAGGTGTCAATCATGCCAGTTAGATTAAAGGCTAAGTGAC--
1 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * *
62039 TGAGGCCTAACTGTGCATTTGATAGAAAGATGTCAATTATGCCAGTTAGA
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGA
62089 CGAACGGTTA
Statistics
Matches: 1389, Mismatches: 110, Indels: 46
0.90 0.07 0.03
Matches are distributed among these distances:
185 162 0.12
187 1 0.00
188 1 0.00
190 1 0.00
191 3 0.00
192 1 0.00
194 4 0.00
195 3 0.00
197 1 0.00
198 3 0.00
199 1 0.00
201 1 0.00
202 45 0.03
203 186 0.13
204 976 0.70
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (204 bp):
GGCCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGC
CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAG
TGCCTTTGA
Found at i:61542 original size:49 final size:49
Alignment explanation
Indices: 61465--61567 Score: 179
Period size: 49 Copynumber: 2.1 Consensus size: 49
61455 TAACTGTTCA
*
61465 TTTGACAGAAAGGTGTCAATCATTCCAGTTAGATGAAAGGCTAAGTGCC
1 TTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCC
* *
61514 TTTGATAGAAAGGTGTCAATCATGCCAGTTAGATTAAAGGCTAAGTGCC
1 TTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCC
61563 TTTGA
1 TTTGA
61568 GGCCTAACTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (49 bp):
TTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCC
Found at i:61546 original size:117 final size:117
Alignment explanation
Indices: 61392--61635 Score: 416
Period size: 117 Copynumber: 2.1 Consensus size: 117
61382 AGGCCTAACT
*
61392 GTGCATTTGACAGAAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTTTGAGGCATA
1 GTGCCTTTGACAGAAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTTTGAGGCATA
* *
61457 ACTGTTCATTTGACAGAAAGGTGTCAATCATTCCAGTTAGATGAAAGGCTAA
66 ACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAA
* * * * *
61509 GTGCCTTTGATAGAAAGGTGTCAATCATGCCAGTTAGATTAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCCTTTGACAGAAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTTTGAGGCATA
61574 ACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAA
66 ACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAA
61626 GTGCCTTTGA
1 GTGCCTTTGA
61636 GGACTAACTA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 119 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (117 bp):
GTGCCTTTGACAGAAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTTTGAGGCATA
ACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAA
Found at i:61623 original size:68 final size:68
Alignment explanation
Indices: 61509--62088 Score: 912
Period size: 68 Copynumber: 8.6 Consensus size: 68
61499 GAAAGGCTAA
* * *
61509 GTGCCTTTGATAGAAAGGTGTCAATCATGCCAGTTAGATTAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
61574 ACT
66 ACT
*
61577 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGACTA
1 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
61642 ACT
66 ACT
* *
61645 ATGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGTCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
61710 ACT
66 ACT
*
61713 GTGCATTTGATAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
61778 ACT
66 ACT
* * *
61781 GTGCATTTGACAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGTCATTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
*
61846 ATT
66 ACT
* * * *
61849 GTGCATTGGACAGAAAGGTGGCAATCATGCCAGCTAGATGAAAGGCTAAGTGCCTATGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
*
61914 AGT
66 ACT
* * * *
61917 GTGCATTTGACATAAAGGTGTCAATCATGTCAGATAGATAAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
61982 ACT
66 ACT
* * *
61985 GTGCATTTGACAAAAAGGTGTCAATCATGCCAGTTAGATTAAAGGCTAAGTGAC--TGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
62048 ACT
66 ACT
* * *
62051 GTGCATTTGATAGAAAGATGTCAATTATGCCAGTTAGA
1 GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGA
62089 CGAACGGTTA
Statistics
Matches: 472, Mismatches: 40, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
66 46 0.10
68 426 0.90
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (68 bp):
GTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
ACT
Found at i:61654 original size:185 final size:185
Alignment explanation
Indices: 61329--61703 Score: 626
Period size: 185 Copynumber: 2.0 Consensus size: 185
61319 TAACTATGCA
*
61329 TTTGACAGAAATGTGTCAATCATGACAGTTAGATGAAAGGCTAAGTGCCTATAAGGCCTAACTGT
1 TTTGACAGAAAGGTGTCAATCATGACAGTTAGATGAAAGGCTAAGTGCCTATAAGGCCTAACTGT
61394 GCATTTGACAGAAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTTTGAGGCATAAC
66 GCATTTGACAGAAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTTTGAGGCATAAC
* * *
61459 TGTTCATTTGACAGAAAGGTGTCAATCATTCCAGTTAGATGAAAGGCTAAGTGCC
131 TATGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCC
* * * * *
61514 TTTGATAGAAAGGTGTCAATCATGCCAGTTAGATTAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
1 TTTGACAGAAAGGTGTCAATCATGACAGTTAGATGAAAGGCTAAGTGCCTATAAGGCCTAACTGT
* *
61579 GCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGG-ACTAA
66 GCATTTGACAGAAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTTTGAGGCA-TAA
*
61643 CTATGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGTC
130 CTATGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCC
61699 TTTGA
1 TTTGA
61704 GGCCTAACTG
Statistics
Matches: 177, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
184 1 0.01
185 176 0.99
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (185 bp):
TTTGACAGAAAGGTGTCAATCATGACAGTTAGATGAAAGGCTAAGTGCCTATAAGGCCTAACTGT
GCATTTGACAGAAAGATGTCAATCATGCCACTTAGATGAAAGGCTAAGTGCCTTTGAGGCATAAC
TATGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCC
Found at i:62177 original size:81 final size:81
Alignment explanation
Indices: 62042--62263 Score: 268
Period size: 81 Copynumber: 2.7 Consensus size: 81
62032 AAGTGACTGA
* ** * * *
62042 GGCCTAACTGTGCATTTGATAGAAAGATGTCAATTATGCCAGTTAGACGAACGGTTATATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
62107 TGAGTAA-AAGATTAAT
66 TGAGTAAGAA-ATTAAT
* *
62123 GGCCTAGCTGTGTATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
62188 TGAGTAAGAAATTAAT
66 TGAGTAAGAAATTAAT
* * * * * * * *
62204 AGCCTAGCTTTGCAATTGGCA-AGAAGGTGTCAATCATGCAAGTTAGGTGAAAGGCTAAAT
1 GGCCTAGCTGTGCATTTGGCAGA-AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAT
62264 CTCTTTAGGT
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 119 0.98
82 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAGAAATTAAT
Found at i:64812 original size:42 final size:42
Alignment explanation
Indices: 64740--65060 Score: 254
Period size: 42 Copynumber: 7.9 Consensus size: 42
64730 GAAAAATTAT
* * *
64740 GACGTTTATTAC-AAAATGCCACTAAGGTGCATGGCTTTCGC
1 GACGTTTATTACAAAAACGCCACTAAGGTGCATGACTATCGC
* *
64781 GCCGTTTATTACAAAAACGCCACTAAGGTGCATGACTATCAC
1 GACGTTTATTACAAAAACGCCACTAAGGTGCATGACTATCGC
* ****
64823 GACGTTT-TTCACAAAAATGATGTTAAGGTGCATGACTATCGC
1 GACGTTTATT-ACAAAAACGCCACTAAGGTGCATGACTATCGC
* *
64865 GACATTTATTACAAAAACACCACTAAGGTGCATGACTATCGC
1 GACGTTTATTACAAAAACGCCACTAAGGTGCATGACTATCGC
* * * * *
64907 GACGTTTATTA-AAAAAAGGC-C----G-CCATGACTATTGT
1 GACGTTTATTACAAAAACGCCACTAAGGTGCATGACTATCGC
* * * ** *
64942 GACATTTA-T-CAAAAATGCCGCTAAGGAACATGACTATTGC
1 GACGTTTATTACAAAAACGCCACTAAGGTGCATGACTATCGC
* * * * *
64982 GGCGTTTAGTACAAAAATGCCACTAAGGTGCATGAATATTGC
1 GACGTTTATTACAAAAACGCCACTAAGGTGCATGACTATCGC
* * * *
65024 GGCG-TTAATA-AAAAACGCCACTAGGGTGTATGACTAT
1 GACGTTTATTACAAAAACGCCACTAAGGTGCATGACTAT
65061 TGCTTCTAAG
Statistics
Matches: 226, Mismatches: 42, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
34 8 0.04
35 18 0.08
36 1 0.00
39 1 0.00
40 41 0.18
41 25 0.11
42 130 0.58
43 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (42 bp):
GACGTTTATTACAAAAACGCCACTAAGGTGCATGACTATCGC
Found at i:64978 original size:75 final size:77
Alignment explanation
Indices: 64853--64998 Score: 179
Period size: 75 Copynumber: 1.9 Consensus size: 77
64843 TGTTAAGGTG
** *
64853 CATGACTATCGCGACATTTATTACAAAAACACCACTAAGGTGCATGACTATCGCGACGTTTATTA
1 CATGACTATCGCGACATTTATTACAAAAACACCACTAAGGAACATGACTATCGCGACGTTTAGTA
64918 AAAAAAGGCCGC
66 AAAAAAGGCCGC
* * ** * * *
64930 CATGACTATTGTGACATTTA-T-CAAAAATGCCGCTAAGGAACATGACTATTGCGGCGTTTAGTA
1 CATGACTATCGCGACATTTATTACAAAAACACCACTAAGGAACATGACTATCGCGACGTTTAGTA
*
64993 CAAAAA
66 AAAAAA
64999 TGCCACTAAG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
75 39 0.67
76 1 0.02
77 18 0.31
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (77 bp):
CATGACTATCGCGACATTTATTACAAAAACACCACTAAGGAACATGACTATCGCGACGTTTAGTA
AAAAAAGGCCGC
Found at i:65062 original size:40 final size:42
Alignment explanation
Indices: 64930--65063 Score: 132
Period size: 40 Copynumber: 3.3 Consensus size: 42
64920 AAAAGGCCGC
* * * * * **
64930 CATGACTATTGTGACATTT-AT-CAAAAATGCCGCTAAGGAA
1 CATGACTATTGCGGCGTTTAATACAAAAACGCCACTAAGGTG
* *
64970 CATGACTATTGCGGCGTTTAGTACAAAAATGCCACTAAGGTG
1 CATGACTATTGCGGCGTTTAATACAAAAACGCCACTAAGGTG
* *
65012 CATGAATATTGCGGCG-TTAATA-AAAAACGCCACTAGGGTG
1 CATGACTATTGCGGCGTTTAATACAAAAACGCCACTAAGGTG
*
65052 TATGACTATTGC
1 CATGACTATTGC
65064 TTCTAAGGTG
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 42 0.53
41 6 0.08
42 31 0.39
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (42 bp):
CATGACTATTGCGGCGTTTAATACAAAAACGCCACTAAGGTG
Found at i:67986 original size:21 final size:21
Alignment explanation
Indices: 67949--68008 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
67939 TTTCTATGTA
67949 ATTTTTGTTTATTCATTT-A-TT
1 ATTTTT-TTT-TTCATTTGATTT
67970 ATCTTATTTTTTTCATTTGATTT
1 AT-TT-TTTTTTTCATTTGATTT
*
67993 ATTTTTTTTTTTATTT
1 ATTTTTTTTTTCATTT
68009 TCATTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 20 0.59
22 8 0.24
23 6 0.18
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (21 bp):
ATTTTTTTTTTCATTTGATTT
Found at i:70780 original size:95 final size:95
Alignment explanation
Indices: 70615--70870 Score: 318
Period size: 95 Copynumber: 2.7 Consensus size: 95
70605 ATTATAATAT
* *
70615 ATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
1 ATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
* * *
70680 GATTCAGCTAACCTGATAAAAGTGATTATA
66 AATTCAGCTAACCTAATAAAAGCGATTATA
* * *
70710 ATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCTCTGGCTTTAT-GAGTA
1 ATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGA-TA
* *
70774 AAATTCAGCTAGCCTAATAAAGGCGATTATA
65 AAATTCAGCTAACCTAATAAAAGCGATTATA
* * * * *
70805 ATAT-CTATACAATGATATTAAGCTATCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTATGG
1 ATATACAATA-AA-G--CTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
70869 AT
62 AT
70871 TCAGCTAGCC
Statistics
Matches: 137, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
94 6 0.04
95 88 0.64
96 1 0.01
98 40 0.29
99 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (95 bp):
ATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
AATTCAGCTAACCTAATAAAAGCGATTATA
Found at i:72354 original size:29 final size:29
Alignment explanation
Indices: 72254--72355 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
72244 TCTTGAGACA
* *
72254 GTTTTCCTTGAAATAAAATCTTTGAATAT
1 GTTTTCCTTGAAACAAAATCTTTGAATCT
*
72283 GTTTTCCTTGAATCAAAATCTTTGAATCT
1 GTTTTCCTTGAAACAAAATCTTTGAATCT
72312 GTTTTCCTTGAAACAAAATCTTTGAATCT
1 GTTTTCCTTGAAACAAAATCTTTGAATCT
72341 GTTTTCCTTGAAACA
1 GTTTTCCTTGAAACA
72356 GATTTCGTCT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (29 bp):
GTTTTCCTTGAAACAAAATCTTTGAATCT
Found at i:72439 original size:34 final size:36
Alignment explanation
Indices: 72341--72672 Score: 279
Period size: 37 Copynumber: 9.3 Consensus size: 36
72331 CTTTGAATCT
* * * *
72341 GTTTTCCTTGAAACAGATTTCGTCTCCCTTGAAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTG-AGACA
** * * *
72378 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTTAGACA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
* ** *
72415 ATTTATCTTGAAACAAA-TTT-TCTCTCTGGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
72449 GTTTCCCTTGAATCAAATTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
* *
72486 GTTTCCCTTGAAACAAA------ATCT-TTGA-ATA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
72514 TGTTTTCCTTTAAACAAATTTCGTCTCTCTCGAGACA
1 -GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* ** * *
72551 ATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
* *
72588 GTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
72624 GTTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
*
72661 GTTTCACTTGAA
1 GTTTCCCTTGAA
72673 GCACAAATCT
Statistics
Matches: 232, Mismatches: 48, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
28 2 0.01
29 19 0.08
30 3 0.01
34 25 0.11
35 6 0.03
36 51 0.22
37 114 0.49
38 12 0.05
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:72607 original size:173 final size:176
Alignment explanation
Indices: 72312--72705 Score: 582
Period size: 175 Copynumber: 2.2 Consensus size: 176
72302 CTTTGAATCT
* * * *
72312 GTTTTCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAGATTTCGTCTCCCTTGAAGAC
1 GTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTCGAAGAC
* *
72377 AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTTAGACAATTTATCTTGAAACAAA-TTT-TCTCT
66 AATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAATTTATCTTGAAACAAATTTTATCTCT
* * *
72440 CTGGAGACAGTTTCCCTTGAATCAAATTTTTGTCTCTCTTGAGACA
131 CTGGAGACAGTTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACA
* *
72486 GTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTTAAACAAATTTCGTCTCTCTCG-AGAC
1 GTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTCGAAGAC
* *
72550 AATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCT
66 AATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAATTTATCTTGAAACAAATTTTATCTCT
*
72615 CTTGAGACAGTTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACA
131 CTGGAGACAGTTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACA
* *
72661 GTTTCACTTGAAGCACAAATCTTTGAA-AT-TGTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA-AAATCTTTGAATATGT-TTTC-CTTGAAACA
72706 CAAAAACACC
Statistics
Matches: 198, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
173 55 0.28
174 58 0.29
175 66 0.33
176 19 0.10
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (176 bp):
GTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTCGAAGAC
AATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAATTTATCTTGAAACAAATTTTATCTCT
CTGGAGACAGTTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACA
Found at i:72644 original size:73 final size:72
Alignment explanation
Indices: 72517--72672 Score: 213
Period size: 73 Copynumber: 2.1 Consensus size: 72
72507 TTGAATATGT
* * ** * *
72517 TTTCCTTTAAACAAATTTCGTCTCTCTCGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTT
1 TTTCCTTGAAACAAATTTCATCTCTCTCGAGACAATTTCCATTGAAACAAAGTTTTGTCTCTCTT
72582 GAGACAG
66 GAGACAG
* * *
72589 TTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCATTGAAACAAAGTTTTGTCTCTCT
1 TTTC-CTTGAAACAAATTTCATCTCTCTCGAGACAATTTCCATTGAAACAAAGTTTTGTCTCTCT
72654 TGAGACAG
65 TGAGACAG
72662 TTTCACTTGAA
1 TTTC-CTTGAA
72673 GCACAAATCT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
72 4 0.05
73 69 0.95
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (72 bp):
TTTCCTTGAAACAAATTTCATCTCTCTCGAGACAATTTCCATTGAAACAAAGTTTTGTCTCTCTT
GAGACAG
Found at i:72847 original size:36 final size:36
Alignment explanation
Indices: 72788--72872 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
72778 TTGAATATAT
*
72788 TTTC-TTTGAAACAAATTTCGTCTCCCTTGAGACTG
1 TTTCTTTTGAAACAAATTTCGTCTCCCTTGAGACAG
* * * *
72823 TTTCTTTTGGAACAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTTTTGAAACAAATTTCGTCTCCCTTGAGACAG
*
72859 TTTCTCTTGAAACA
1 TTTCTTTTGAAACA
72873 CCAACCTTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 4 0.10
36 38 0.90
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.42
Consensus pattern (36 bp):
TTTCTTTTGAAACAAATTTCGTCTCCCTTGAGACAG
Found at i:72990 original size:37 final size:36
Alignment explanation
Indices: 72919--73012 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 36
72909 GCCTCCCTAT
* * *
72919 AAATAGTTTCTCTTGAA-AC-ATAAAAAATCCTTTG-
1 AAAT-GTTTCGCTTGAACACAAAAAAAAAACCTTTGA
72953 AAATCGTTTCGCTTGAAACACAAAAAAAAAACCTTTGA
1 AAAT-GTTTCGCTTG-AACACAAAAAAAAAACCTTTGA
*
72991 AAATGTTTCTCTTGAACACAAA
1 AAATGTTTCGCTTGAACACAAA
73013 GGCCTTCGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
34 13 0.25
35 2 0.04
36 10 0.20
37 22 0.43
38 4 0.08
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (36 bp):
AAATGTTTCGCTTGAACACAAAAAAAAAACCTTTGA
Found at i:73223 original size:11 final size:11
Alignment explanation
Indices: 73207--73232 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
73197 CAGCTCGATG
73207 ACACCTCAATC
1 ACACCTCAATC
73218 ACACCTCAATC
1 ACACCTCAATC
73229 ACAC
1 ACAC
73233 TACTGTCCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (11 bp):
ACACCTCAATC
Found at i:74029 original size:21 final size:21
Alignment explanation
Indices: 74003--74277 Score: 260
Period size: 21 Copynumber: 13.2 Consensus size: 21
73993 GTTTCCAGAT
* *
74003 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
74024 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* * *
74045 TCACAATGCAAACTTTGACTA
1 TCGCAATGCGAACTTGGACTA
* * *
74066 TCGCAATACGAAATTCGACTA
1 TCGCAATGCGAACTTGGACTA
74087 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
74108 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
* *
74129 TCGCAATGCAAACTTGGGCTA
1 TCGCAATGCGAACTTGGACTA
74150 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
74171 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
74191 TCGCAATGCGATAGTCGG-CTA
1 TCGCAATGCGA-ACTTGGACTA
* *
74212 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
74232 TCGCAATGCGATA-GTCGAC-A
1 TCGCAATGCGA-ACTTGGACTA
*
74252 TCGTAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
74273 TCGCA
1 TCGCA
74278 TTGTGATTTA
Statistics
Matches: 206, Mismatches: 36, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.01
20 45 0.22
21 157 0.76
22 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:74195 original size:20 final size:20
Alignment explanation
Indices: 74170--74242 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
74160 AACTTGGACT
74170 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
***
74190 ATCGCAATGCG-ATAGTCGGCT
1 ATCGCAATGCGAATA-T-GTAA
74211 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
74231 ATCGCAATGCGA
1 ATCGCAATGCGA
74243 TAGTCGACAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 25 0.57
21 13 0.30
22 3 0.07
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:74318 original size:21 final size:21
Alignment explanation
Indices: 74292--74395 Score: 122
Period size: 21 Copynumber: 5.0 Consensus size: 21
74282 GATTTACATA
*
74292 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAC
* *
74313 TTCGCATTGTGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAC
*
74333 TATCGCATTGCGATAGTCCAAG
1 T-TCGCATTGCGATAGTCCAAC
* *
74355 TTCGCATTGCGATAAT-CGAC
1 TTCGCATTGCGATAGTCCAAC
74375 TATCGCATTGCGATAGTCCAA
1 T-TCGCATTGCGATAGTCCAA
74396 AATCGCAACG
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
20 6 0.09
21 57 0.84
22 5 0.07
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAC
Found at i:74402 original size:42 final size:42
Alignment explanation
Indices: 74293--74395 Score: 188
Period size: 42 Copynumber: 2.5 Consensus size: 42
74283 ATTTACATAT
* *
74293 TCGCATTGCGATAGTCCAAGTTCGCATTGTGATAGTCGACTA
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAATCGACTA
74335 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAATCGACTA
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAATCGACTA
74377 TCGCATTGCGATAGTCCAA
1 TCGCATTGCGATAGTCCAA
74396 AATCGCAACG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (42 bp):
TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAATCGACTA
Found at i:74496 original size:6 final size:6
Alignment explanation
Indices: 74485--74511 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
74475 GATACGTATT
74485 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
74512 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:75213 original size:20 final size:20
Alignment explanation
Indices: 75188--75225 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
75178 ACTATCGGAT
75188 TTGGAATAAATCGCAACGAA
1 TTGGAATAAATCGCAACGAA
75208 TTGGAATAAATCGCAACG
1 TTGGAATAAATCGCAACG
75226 CGAACTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (20 bp):
TTGGAATAAATCGCAACGAA
Found at i:75216 original size:57 final size:56
Alignment explanation
Indices: 75131--75241 Score: 188
Period size: 57 Copynumber: 2.0 Consensus size: 56
75121 TCGTTGCGAT
*
75131 TTTGGAATATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGGA
1 TTTGGAATATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTAGACTATCGGA
75187 TTTGGAATAAATCGCAACGAA-TTGGAATAAATCGCAACGCGAACTTAGACTATCG
1 TTTGGAAT--ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTAGACTATCG
75242 CA
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
56 8 0.15
57 33 0.63
58 11 0.21
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (56 bp):
TTTGGAATATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTAGACTATCGGA
Done.