Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 49 of 203
Found at i:16001819 original size:27 final size:28
Alignment explanation
Indices: 16001772--16001824 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
16001762 GATATTATTA
*
16001772 AAGTTCATTGATTTATGATCA-GAACCT
1 AAGTTAATTGATTTATGATCATGAACCT
16001799 AAGTTAATTGATTTACT-ATCATGAAC
1 AAGTTAATTGATTTA-TGATCATGAAC
16001825 AATCTGCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (28 bp):
AAGTTAATTGATTTATGATCATGAACCT
Found at i:16001836 original size:130 final size:130
Alignment explanation
Indices: 16001631--16002070 Score: 616
Period size: 130 Copynumber: 3.4 Consensus size: 130
16001621 CAATCAGAGT
* * * *
16001631 TGATATTATTAAGGTTTACTAATTTACGGTCACAACCTAATTTCATTGATTTACTATCATGAACA
1 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
* * * * *
16001696 ATCTTCTCTGAGTTAGCTGATTTACTATCGCTACTCCAAACAACTCGCCAATTTACGATCACAAA
66 ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTCGCCGATTTACGATCACAAA
* * * * *
16001761 TGATATTATTAAAGTTCATTGATTTATGATCAGAACCTAAGTTAATTGATTTACTATCATGAACA
1 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
* * * * *
16001826 ATCTGCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAATAGCTCACCGATTTACGATCACAAT
66 ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTCGCCGATTTACGATCACAAA
16001891 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
1 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
* ** **
16001956 ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTTGTTGATTTACGATCACAGC
66 ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTCGCCGATTTACGATCACAAA
* * *
16002021 TGATATTATTAAGGTTCATTGATTTATGATCACAA---AGGTTCATTGATTTA
1 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTA
16002071 TGATCACAAC
Statistics
Matches: 275, Mismatches: 35, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
127 14 0.05
130 261 0.95
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (130 bp):
TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTCGCCGATTTACGATCACAAA
Found at i:16001979 original size:63 final size:63
Alignment explanation
Indices: 16001779--16001979 Score: 140
Period size: 63 Copynumber: 3.1 Consensus size: 63
16001769 TTAAAGTTCA
* * *
16001779 TTGATTTATGATCAGAACCTAAGTTAATTGATTTACTATCATGAACAATCTGCTCTGAGTTAG
1 TTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTGAGTTAG
* * * * ** * * ** * * *
16001842 TTGATTTACT-ATCTCTATTCCAAATAGCTCACCGATTTACGATCA-CAATTGATATTAT-TAAG
1 TTGATTTA-TGATCAC-A-ACC-TA-AGTTCATTGATTTACTATCATGAA-CAATCTTCTCTGA-
16001904 GTTCA-
59 GTT-AG
* *
16001909 CTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTGAGTTAG
1 TTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTGAGTTAG
16001972 TTGATTTA
1 TTGATTTA
16001980 CTATCTCTAT
Statistics
Matches: 93, Mismatches: 33, Indels: 24
0.62 0.22 0.16
Matches are distributed among these distances:
62 1 0.01
63 41 0.44
64 7 0.08
65 4 0.04
66 7 0.08
67 32 0.34
68 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (63 bp):
TTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTGAGTTAG
Found at i:16002058 original size:24 final size:24
Alignment explanation
Indices: 16002031--16002097 Score: 98
Period size: 24 Copynumber: 2.7 Consensus size: 24
16002021 TGATATTATT
16002031 AAGGTTCATTGATTTATGATCACA
1 AAGGTTCATTGATTTATGATCACA
16002055 AAGGTTCATTGATTTATGATCACA
1 AAGGTTCATTGATTTATGATCACA
*
16002079 ACCTAAGTTCATTGATTTA
1 A---AGGTTCATTGATTTA
16002098 CTATCATGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
24 25 0.64
27 14 0.36
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (24 bp):
AAGGTTCATTGATTTATGATCACA
Found at i:16002098 original size:154 final size:154
Alignment explanation
Indices: 16001901--16002188 Score: 461
Period size: 154 Copynumber: 1.9 Consensus size: 154
16001891 TGATATTATT
16001901 AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAAT-CTTCTCT
1 AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATACTT-TCT
* * * * * * **
16001965 GAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTTGTTGATTTACGATCACAGCTGATATTAT
65 GAGTTAGTTGATTTACTATCGCTACTCCAAAAAACTCGTCGATTTACAATCACAACTGATACCAT
16002030 TAAGGTTCATTGATTTATGATCACA
130 TAAGGTTCATTGATTTATGATCACA
* *
16002055 AAGGTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATACTTTCTG
1 AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATACTTTCTG
*
16002120 AGTTAGTTGATTTACTATCGCTACTCCAAACAACTCGTCGATTTACAATCACAACTGATACCATT
66 AGTTAGTTGATTTACTATCGCTACTCCAAAAAACTCGTCGATTTACAATCACAACTGATACCATT
16002185 AAGG
131 AAGG
16002189 CTTGCTGATT
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
154 119 0.98
155 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (154 bp):
AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATACTTTCTG
AGTTAGTTGATTTACTATCGCTACTCCAAAAAACTCGTCGATTTACAATCACAACTGATACCATT
AAGGTTCATTGATTTATGATCACA
Found at i:16002198 original size:154 final size:153
Alignment explanation
Indices: 16001901--16002227 Score: 451
Period size: 154 Copynumber: 2.1 Consensus size: 153
16001891 TGATATTATT
* *
16001901 AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTG
1 AAGGTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTG
* * * * * * **
16001966 AGTTAGTTGATTTACTATCTCTATTCCAAAAAACTTGTTGATTTACGATCACAGCTGATATTATT
66 AGTTAGTTGATTTACTATCGCTACTCCAAAAAACTCGTCGATTTACAATCACAACTGATACCATT
**
16002031 AAGGTTCATTGATTTATGATCACA
131 AAGGTTCA-TGATTTACAATCACA
16002055 AAGGTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATACTT-TCT
1 AAGGTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAAT-CTTCTCT
*
16002119 GAGTTAGTTGATTTACTATCGCTACTCCAAACAACTCGTCGATTTACAATCACAACTGATACCAT
65 GAGTTAGTTGATTTACTATCGCTACTCCAAAAAACTCGTCGATTTACAATCACAACTGATACCAT
16002184 TAAGGCTTGC-TGATTTACAATCACA
130 TAAGG-TT-CATGATTTACAATCACA
*
16002209 ACTTAAGTTCATTGATTTA
1 A---AGGTTCATTGATTTA
16002228 CTATCATGAA
Statistics
Matches: 153, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
154 133 0.87
155 5 0.03
156 1 0.01
157 14 0.09
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (153 bp):
AAGGTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTG
AGTTAGTTGATTTACTATCGCTACTCCAAAAAACTCGTCGATTTACAATCACAACTGATACCATT
AAGGTTCATGATTTACAATCACA
Found at i:16002293 original size:284 final size:284
Alignment explanation
Indices: 16001774--16002335 Score: 822
Period size: 284 Copynumber: 2.0 Consensus size: 284
16001764 TATTATTAAA
*
16001774 GTTCATTGATTTATGATCAGAACCTAAGTTAATTGATTTACTATCATGAACAATCTGCTCTGAGT
1 GTTCATTGATTTATGATCACAACCTAAGTTAATTGATTTACTATCATGAACAATCTGCTCTGAGT
* * * * * * **
16001839 TAGTTGATTTACTATCTCTATTCCAAATAGCTCACCGATTTACGATCACAATTGATATTATTAAG
66 TAGTTGATTTACTATCGCTACTCCAAACAACTCACCGATTTACAATCACAACTGATACCATTAAG
**
16001904 GTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTGAGT
131 GTTCACTAATTTACAATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTGAGT
* * * ***
16001969 TAGTTGATTTACTATCTCTATTCCAAAAAACTTGTTGATTTACGATCACAGCTGATATTATTAAG
196 TAGCTGATTTACTATCGCTAGTCCAAAAAACCCATTGATTTACGATCACAGCTGATATTATTAAG
* *
16002034 GTTCATTGATTTATGATCACAAAG
261 GTTCACTGATTTACGATCACAAAG
* *
16002058 GTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATACT-TTCTGAG
1 GTTCATTGATTTATGATCACAACCTAAGTTAATTGATTTACTATCATGAACAAT-CTGCTCTGAG
**
16002122 TTAGTTGATTTACTATCGCTACTCCAAACAACTCGTCGATTTACAATCACAACTGATACCATTAA
65 TTAGTTGATTTACTATCGCTACTCCAAACAACTCACCGATTTACAATCACAACTGATACCATTAA
* * *
16002187 GGCTT-GCTGATTTACAATCACAACTTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTGA
130 GG-TTCACTAATTTACAATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTGA
* * *
16002251 GTTAGCTGATTTACTATGGCTAGTCCAAACAGCCCATTGATTTACGATCACAGCTGATATTATTA
194 GTTAGCTGATTTACTATCGCTAGTCCAAAAAACCCATTGATTTACGATCACAGCTGATATTATTA
*
16002316 AGGTTCGCTGATTTACGATC
259 AGGTTCACTGATTTACGATC
16002336 GCAACTGTCA
Statistics
Matches: 246, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
284 242 0.98
285 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (284 bp):
GTTCATTGATTTATGATCACAACCTAAGTTAATTGATTTACTATCATGAACAATCTGCTCTGAGT
TAGTTGATTTACTATCGCTACTCCAAACAACTCACCGATTTACAATCACAACTGATACCATTAAG
GTTCACTAATTTACAATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTGAGT
TAGCTGATTTACTATCGCTAGTCCAAAAAACCCATTGATTTACGATCACAGCTGATATTATTAAG
GTTCACTGATTTACGATCACAAAG
Found at i:16002301 original size:130 final size:130
Alignment explanation
Indices: 16002055--16002341 Score: 389
Period size: 130 Copynumber: 2.2 Consensus size: 130
16002045 TATGATCACA
** * *
16002055 AAGGTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATACTTTCTG
1 AAGGTTCGCTGATTTACGATCACAACTTAAGTTCATTGATTTACTATCATGAACAATACTTTCTG
* * *
16002120 AGTTAGTTGATTTACTATCGCTACTCCAAACAACTCGTCGATTTACAATCACAACTGATACCATT
66 AGTTAGCTGATTTACTATCGCTACTCCAAACAACCCATCGATTTACAATCACAACTGATACCATT
*
16002185 AAGGCTT-GCTGATTTACAATCACAACTTAAGTTCATTGATTTACTATCATGAACAAT-CTTCTC
1 AAGG-TTCGCTGATTTACGATCACAACTTAAGTTCATTGATTTACTATCATGAACAATACTT-TC
* * * * * * **
16002248 TGAGTTAGCTGATTTACTATGGCTAGTCCAAACAGCCCATTGATTTACGATCACAGCTGATATTA
64 TGAGTTAGCTGATTTACTATCGCTACTCCAAACAACCCATCGATTTACAATCACAACTGATACCA
16002313 TT
129 TT
*
16002315 AAGGTTCGCTGATTTACGATCGCAACT
1 AAGGTTCGCTGATTTACGATCACAACT
16002342 GTCATTTTTA
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
129 5 0.04
130 129 0.95
131 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.35
Consensus pattern (130 bp):
AAGGTTCGCTGATTTACGATCACAACTTAAGTTCATTGATTTACTATCATGAACAATACTTTCTG
AGTTAGCTGATTTACTATCGCTACTCCAAACAACCCATCGATTTACAATCACAACTGATACCATT
Found at i:16004594 original size:19 final size:19
Alignment explanation
Indices: 16004572--16004608 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16004562 TATTATATCA
*
16004572 ATTCACATATAAATTCAAT
1 ATTCACACATAAATTCAAT
*
16004591 ATTCACACATAATTTCAA
1 ATTCACACATAAATTCAA
16004609 ATGTTATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTCACACATAAATTCAAT
Found at i:16005545 original size:5 final size:5
Alignment explanation
Indices: 16005524--16005591 Score: 70
Period size: 5 Copynumber: 13.4 Consensus size: 5
16005514 TTACTTTATT
16005524 TAATA TATATAA TAATA TAATA TAATA TAATA -AATA TAATA TATTATA
1 TAATA TA-AT-A TAATA TAATA TAATA TAATA TAATA TAATA TA--ATA
*
16005572 TTATA TAATA -AA-A TAATA TA
1 TAATA TAATA TAATA TAATA TA
16005592 CATAACATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
3 1 0.02
4 8 0.15
5 34 0.63
6 4 0.07
7 7 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:16005601 original size:14 final size:13
Alignment explanation
Indices: 16005524--16005601 Score: 58
Period size: 13 Copynumber: 6.2 Consensus size: 13
16005514 TTACTTTATT
*
16005524 TAATAT-ATATAA
1 TAATATAATAAAA
16005536 TAATATAAT---A
1 TAATATAATAAAA
16005546 TAATATAATAAATA
1 TAATATAATAAA-A
* *
16005560 TAATAT-ATTATA
1 TAATATAATAAAA
*
16005572 TTATATAATAAAA
1 TAATATAATAAAA
*
16005585 TAATATACATAACA
1 TAATATA-ATAAAA
16005599 TAA
1 TAA
16005602 AAATCTCATA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
10 10 0.19
12 12 0.23
13 15 0.29
14 15 0.29
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATATAATAAAA
Found at i:16007875 original size:14 final size:16
Alignment explanation
Indices: 16007840--16007878 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
16007830 CTTTAATTTA
16007840 TATATATACATACTTT
1 TATATATACATACTTT
**
16007856 TATATATACATGTTTT
1 TATATATACATACTTT
16007872 TATATAT
1 TATATAT
16007879 TTCCATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:16012658 original size:1 final size:1
Alignment explanation
Indices: 16012652--16012715 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
16012642 AGTTCAGATT
* * * * * * * *
16012652 AAAAAAAACAAAAAACAAAAACAAAAACAAAAACAAAAAACAAAAAAAAAAGAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16012716 GAGGAGAGGT
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:16012666 original size:7 final size:7
Alignment explanation
Indices: 16012654--16012713 Score: 72
Period size: 7 Copynumber: 8.9 Consensus size: 7
16012644 TTCAGATTAA
16012654 AAAAAAC
1 AAAAAAC
16012661 AAAAAAC
1 AAAAAAC
16012668 -AAAAAC
1 AAAAAAC
16012674 -AAAAAC
1 AAAAAAC
16012680 -AAAAAC
1 AAAAAAC
16012686 AAAAAAC
1 AAAAAAC
*
16012693 AAAAAAA
1 AAAAAAC
*
16012700 AAAGAAAG
1 AAA-AAAC
16012708 AAAAAA
1 AAAAAA
16012714 AAGAGGAGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
6 18 0.37
7 25 0.51
8 6 0.12
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:16012671 original size:6 final size:6
Alignment explanation
Indices: 16012655--16012702 Score: 71
Period size: 6 Copynumber: 7.8 Consensus size: 6
16012645 TCAGATTAAA
16012655 AAAAAC AAAAAAC AAAAAC AAAAAC AAAAAC AAAAAAC AAAAA- AAAAA
1 AAAAAC -AAAAAC AAAAAC AAAAAC AAAAAC -AAAAAC AAAAAC AAAAA
16012703 GAAAGAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.12
6 23 0.57
7 12 0.30
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:16013588 original size:16 final size:17
Alignment explanation
Indices: 16013569--16013604 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
16013559 TGAATGAAAG
16013569 AAAAAATGAAAAA-TAA
1 AAAAAATGAAAAAGTAA
16013585 AAAAAATGAAAAAGTAA
1 AAAAAATGAAAAAGTAA
16013602 AAA
1 AAA
16013605 TGGAGAGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (17 bp):
AAAAAATGAAAAAGTAA
Found at i:16014984 original size:88 final size:88
Alignment explanation
Indices: 16014835--16015521 Score: 1099
Period size: 88 Copynumber: 7.8 Consensus size: 88
16014825 ATGAAGTTGC
* *
16014835 AGATCTTGCCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
1 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
16014900 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
**
16014923 AGATCTTGCCTTTCTGTATTTCCAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
1 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
*
16014988 TGATAGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * * *
16015011 ATATCTTGCCTTTCTGTATTGATAGCGAAGTAGGTCGAAGACACAAACCTTGTCTCTCTCGGTTG
1 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
*
16015076 TGATGGAGTTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
16015099 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTC-AGTT
1 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGA-TT
16015163 GTGATGGAGCTGGTTGAAGACAAA
65 GTGATGGAGCTGGTTGAAGACAAA
* * *
16015187 AGATCTTGCATTTCTGTATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
1 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
16015252 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
**
16015275 AGATCTTGCCTTTCTGTATTTCCAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
1 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
*
16015340 TGATAGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * * *
16015363 ATATCTTGCCTTTCTGTATTGATAGCGAAGTAGGTCGAAGACACAAACCTTGTCTCTCTCGGTTG
1 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
*
16015428 TGATGGAGTTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
16015451 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTATCTC-AGTT
1 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGA-TT
16015515 GTGATGG
65 GTGATGG
16015522 NGAAGCAGGT
Statistics
Matches: 547, Mismatches: 49, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
88 546 1.00
89 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (88 bp):
AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:16015559 original size:310 final size:309
Alignment explanation
Indices: 16015213--16015831 Score: 1085
Period size: 310 Copynumber: 2.0 Consensus size: 309
16015203 TATTGATAGT
16015213 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAGA
1 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAGA
**
16015278 TCTTGCCTTTCTGTATTTCCAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGA
66 TCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGA
* * * * *
16015343 TAGAGCTGGTTGAAGACAAAATATCTTGCCTTTCTGTATTGATAGCGAAGTAGGTCGAAGACACA
131 TAGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAACAGCGAAGCAGGTCGAAGACACA
* * * *
16015408 AACCTTGTCTCTCTCGGTTGTGATGGAGTTGGTTGAAGACAAAAGATCTTGCCTTCCTGTATTGA
196 AACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGTATTAA
16015473 CAGCGAAGCAGGTCGAAGACACAAACCTTGCCTATCTCAGTTGTGATGG
261 CAGCGAAGCAGGTCGAAGACACAAACCTTGCCTATCTCAGTTGTGATGG
16015522 NGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAG
1 -GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAG
*
16015587 ATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTG
65 ATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTG
*
16015652 ATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAACAGCGAAGCAGGTCGAAGACAC
130 ATAGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAACAGCGAAGCAGGTCGAAGACAC
*
16015717 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTA
195 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGTATTA
* *
16015782 ACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGG
260 ACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTATCTCAGTTGTGATGG
16015832 AGCTGGTTGA
Statistics
Matches: 293, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
310 293 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (309 bp):
GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAGA
TCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGA
TAGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAACAGCGAAGCAGGTCGAAGACACA
AACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGTATTAA
CAGCGAAGCAGGTCGAAGACACAAACCTTGCCTATCTCAGTTGTGATGG
Found at i:16015586 original size:398 final size:397
Alignment explanation
Indices: 16015125--16015908 Score: 1318
Period size: 398 Copynumber: 2.0 Consensus size: 397
16015115 TATTGACAGC
*
16015125 GAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGA
1 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGA
* *
16015190 TCTTGCATTTCTGTATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGA
66 TCTTGCATTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGA
* **
16015255 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTTCTGTATTTCCAGCGAAGCAGGTCGAAGACACA
131 TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAACAGCGAAGCAGGTCGAAGACACA
* * *
16015320 AACCTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAAAATATCTTGCCTTTCTGTATTGA
196 AACCTTGCCTCTCTCGATTGTGATAGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAA
* * * *
16015385 TAGCGAAGTAGGTCGAAGACACAAACCTTGTCTCTCTCGGTTGTGATGGAGTTGGTTGAAGACAA
261 CAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAA
** * *
16015450 AAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTATCTCAGTT
326 AAGATCTTGCCTTCCTACATTGACAACGAAGCAGGTCGAAGACACAAACCTTACCTATCTCAGTT
16015515 GTGATGG
391 GTGATGG
16015522 NGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTC-GATTGTGATGGAGCTGGTTGAAGACAAAA
1 -GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAG-TTGTGATGGAGCTGGTTGAAGACAAAA
* *
16015586 GATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGT
64 GATCTTGCATTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGT
16015651 GATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAACAGCGAAGCAGGTCGAAGACA
129 GATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAACAGCGAAGCAGGTCGAAGACA
* *
16015716 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATT
194 CAAACCTTGCCTCTCTCGATTGTGATAGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATT
16015781 AACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGAC
259 AACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGAC
* * * *
16015846 AAAAGATCTTGTCTTCCTACATTGACAACGAAGCAGGTCGAAGATACAAGCCTTACCTCTCTC
324 AAAAGATCTTGCCTTCCTACATTGACAACGAAGCAGGTCGAAGACACAAACCTTACCTATCTC
16015909 GGTTTTAGTG
Statistics
Matches: 360, Mismatches: 25, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
397 1 0.00
398 359 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (397 bp):
GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGA
TCTTGCATTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGA
TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAACAGCGAAGCAGGTCGAAGACACA
AACCTTGCCTCTCTCGATTGTGATAGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAA
CAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAA
AAGATCTTGCCTTCCTACATTGACAACGAAGCAGGTCGAAGACACAAACCTTACCTATCTCAGTT
GTGATGG
Found at i:16015960 original size:486 final size:485
Alignment explanation
Indices: 16015037--16015987 Score: 1490
Period size: 486 Copynumber: 2.0 Consensus size: 485
16015027 TATTGATAGC
* * * *
16015037 GAAGTAGGTCGAAGACACAAACCTTGTCTCTCTCGGTTGTGATGGAGTTGGTTGAAGACAAAAGA
1 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAGA
*
16015102 TCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCAGTTGTGA
66 TCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAGTTGTGA
* * * *
16015167 TGGAGCTGGTTGAAGACAAAAGATCTTGCATTTCTGTATTGATAGTGAAGCAGGTCGAAGACACA
131 TGGAGCTGGTTAAAGACAAAAGATCTTGCATTTCTGTATTAACAGCGAAGCAGGTCGAAGACACA
* **
16015232 AACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTTCTGTATTTC
196 AACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAA
16015297 CAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAA
261 CAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAA
* * ** * * * **
16015362 AATATCTTGCCTTTCTGTATTGATAGCGAAGTAGGTCGAAGACACAAACCTTGTCTCTCTCGGTT
326 AAGATCTTGCCTTCCTACATTGACAACGAAGCAGGTCGAAGACACAAACCTTACCTCTCTCGGTT
** ** * * *
16015427 GTGATGGAGTTGGTTGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGA
391 GTGATGGAGCAGGTCAAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAGA
16015492 CACAAACCTTGCCTATCTCAGTTGTGATGG
456 CACAAACCTTGCCTATCTCAGTTGTGATGG
16015522 NGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAG
1 -GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAG
* *
16015587 ATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTG
65 ATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAGTTGTG
*
16015652 ATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAACAGCGAAGCAGGTCGAAGACAC
130 ATGGAGCTGGTTAAAGACAAAAGATCTTGCATTTCTGTATTAACAGCGAAGCAGGTCGAAGACAC
*
16015717 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTA
195 AAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTA
* *
16015782 ACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACA
260 ACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACA
* * *
16015847 AAAGATCTTGTCTTCCTACATTGACAACGAAGCAGGTCGAAGATACAAGCCTTACCTCTCTCGGT
325 AAAGATCTTGCCTTCCTACATTGACAACGAAGCAGGTCGAAGACACAAACCTTACCTCTCTCGGT
* * ** * *
16015912 T-TTAGTGGAGCAGGTCAAAGATAGCAGCTCTTGCCTTCTTGCATTGACAGCAAAGCAGATCGAA
390 TGTGA-TGGAGCAGGTCAAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAA
16015976 GACACAAACCTT
454 GACACAAACCTT
16015988 ACCTTCCTCG
Statistics
Matches: 421, Mismatches: 43, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
485 2 0.00
486 419 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (485 bp):
GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAGA
TCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAGTTGTGA
TGGAGCTGGTTAAAGACAAAAGATCTTGCATTTCTGTATTAACAGCGAAGCAGGTCGAAGACACA
AACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTTCTGTATTAA
CAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAA
AAGATCTTGCCTTCCTACATTGACAACGAAGCAGGTCGAAGACACAAACCTTACCTCTCTCGGTT
GTGATGGAGCAGGTCAAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAGA
CACAAACCTTGCCTATCTCAGTTGTGATGG
Found at i:16016021 original size:88 final size:88
Alignment explanation
Indices: 16015523--16016010 Score: 696
Period size: 88 Copynumber: 5.5 Consensus size: 88
16015513 TTGTGATGGN
* *
16015523 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAGA
1 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGA
16015588 TCTTGCCTTTCTGTATTGACAGC
66 TCTTGCCTTTCTGTATTGACAGC
16015611 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGA
1 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGA
*
16015676 TCTTGCCTTTCTGTATTAACAGC
66 TCTTGCCTTTCTGTATTGACAGC
16015699 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGA
1 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGA
*
16015764 TCTTGCCTTTCTGTATTAACAGC
66 TCTTGCCTTTCTGTATTGACAGC
*
16015787 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGA
1 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGA
* * ** *
16015852 TCTTGTCTTCCTACATTGACAAC
66 TCTTGCCTTTCTGTATTGACAGC
* * * * * * * **
16015875 GAAGCAGGTCGAAGATACAAGCCTTACCTCTCTCGGTT-TTAGTGGAGCAGGTCAAAGATAGCAG
1 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGA-TGGAGCTGGTTAAAGACAAAAG
* *
16015939 CTCTTGCC-TTCTTGCATTGACAGC
65 ATCTTGCCTTTC-TGTATTGACAGC
* * *
16015963 AAAGCAGATCGAAGACACAAACCTTACCT-TCCTCGGTTGT-AGTGGAGC
1 GAAGCAGGTCGAAGACACAAACCTTGCCTCT-CTCGGTTGTGA-TGGAGC
16016011 AGATCGAAGA
Statistics
Matches: 367, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
87 5 0.01
88 361 0.98
89 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (88 bp):
GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGA
TCTTGCCTTTCTGTATTGACAGC
Found at i:16018067 original size:14 final size:16
Alignment explanation
Indices: 16018032--16018070 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
16018022 CTTTAATTTA
16018032 TATATATACATACTTT
1 TATATATACATACTTT
**
16018048 TATATATACATGTTTT
1 TATATATACATACTTT
16018064 TATATAT
1 TATATAT
16018071 TTCCATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:16020869 original size:27 final size:28
Alignment explanation
Indices: 16020817--16020890 Score: 125
Period size: 27 Copynumber: 2.7 Consensus size: 28
16020807 AATAATAAAA
16020817 ATTTACCAAAATAT-TATAACTTTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTTT
16020845 ATTTACCAAAATATATAAAC-TTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTTT
16020872 ATTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
16020891 AAAACAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
27 26 0.58
28 17 0.38
29 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTTACCAAAATATATAAACTTTTTTTT
Found at i:16020984 original size:27 final size:27
Alignment explanation
Indices: 16020954--16021020 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
16020944 CGCCAATGGT
16020954 ATTGGCGGCACCAAAGGTACCAAAACC
1 ATTGGCGGCACCAAAGGTACCAAAACC
* * *
16020981 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTACCAAAACC
16021008 ATTGGCGGCACCA
1 ATTGGCGGCACCA
16021021 GTTGGTGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTACCAAAACC
Found at i:16021071 original size:4 final size:4
Alignment explanation
Indices: 16021062--16021171 Score: 68
Period size: 4 Copynumber: 26.2 Consensus size: 4
16021052 CAGAAGGAGG
* *
16021062 GAAA GAAA GAAA GGAGAG GAAA GAAA GAAAA GGAAA G-GA GAAGA GAAA
1 GAAA GAAA GAAA -GA-AA GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA
16021110 -AAA GGAAA GAAA G-AA G-AA GAAAA GGAGAA GAGAA GAAA -AAA GAAA
1 GAAA -GAAA GAAA GAAA GAAA G-AAA -GA-AA GA-AA GAAA GAAA GAAA
*
16021155 GAAA GAAG GAAA GAAA G
1 GAAA GAAA GAAA GAAA G
16021172 GGAAAGGAGA
Statistics
Matches: 87, Mismatches: 6, Indels: 26
0.73 0.05 0.22
Matches are distributed among these distances:
3 14 0.16
4 41 0.47
5 27 0.31
6 5 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:16021085 original size:14 final size:14
Alignment explanation
Indices: 16021066--16021218 Score: 72
Period size: 12 Copynumber: 10.9 Consensus size: 14
16021056 AGGAGGGAAA
* *
16021066 GAAAGAAAGGAGAG
1 GAAAGAAAGAAAAG
16021080 GAAAGAAAGAAAAG
1 GAAAGAAAGAAAAG
* *
16021094 GAAAG-GAGAAGA-
1 GAAAGAAAGAAAAG
*
16021106 GAAA-AAAGGAAA-
1 GAAAGAAAGAAAAG
16021118 GAAAGAAGAAGAAAAG
1 GAAAG-A-AAGAAAAG
*
16021134 GAGAAGAGAAGAAAAAA
1 GA-AAGA-AAG-AAAAG
16021151 GAAAGAAAG--AAG
1 GAAAGAAAGAAAAG
*
16021163 GAAAGAAAGGGAAAG
1 GAAAGAAA-GAAAAG
16021178 GAGAAGAGAA-AAAA-
1 GA-AAGA-AAGAAAAG
* *
16021192 AAAAG-AAGAAGAG
1 GAAAGAAAGAAAAG
*
16021205 GGAAGAAAGGAAAA
1 GAAAGAAA-GAAAA
16021219 AAAAAGGGAA
Statistics
Matches: 107, Mismatches: 16, Indels: 31
0.69 0.10 0.20
Matches are distributed among these distances:
11 2 0.02
12 25 0.23
13 12 0.11
14 21 0.20
15 21 0.20
16 15 0.14
17 11 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GAAAGAAAGAAAAG
Found at i:16021093 original size:19 final size:19
Alignment explanation
Indices: 16021055--16021147 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 19
16021045 GTGGGGGCAG
16021055 AAGGAG-GGAAAGAAAG-A
1 AAGGAGAGGAAAGAAAGAA
16021072 AAGGAGAGGAAAGAAAGAA
1 AAGGAGAGGAAAGAAAGAA
*
16021091 AAGGAAAGGAGAAGAGAA-AA
1 AAGGAGAGGA-AAGA-AAGAA
*
16021111 AAGGA-AAGAAAGAAGAAGAA
1 AAGGAGAGGAAAG-A-AAGAA
*
16021131 AAGGAGAAGAGAAGAAA
1 AAGGAGAGGA-AAGAAA
16021148 AAAGAAAGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
17 6 0.09
18 13 0.20
19 17 0.26
20 20 0.30
21 7 0.11
22 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (19 bp):
AAGGAGAGGAAAGAAAGAA
Found at i:16021121 original size:34 final size:37
Alignment explanation
Indices: 16021078--16021203 Score: 140
Period size: 37 Copynumber: 3.5 Consensus size: 37
16021068 AAGAAAGGAG
*
16021078 AGGAAAGAAAGAA-AAGGAAAGGAGAAGAG-A-AAAA
1 AGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAA
16021112 AGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAA
1 AGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAA
* *
16021149 AAGAAAGAAAGAAGGAAAGAAAGGGA-AAGGAGAAGAGAAA
1 AGGAAAGAAAGAA-G-AAGAAAAGGAGAA-GAGAAGA-AAA
16021189 A--AAA-AAAGAAGAAGA
1 AGGAAAGAAAGAAGAAGA
16021204 GGGAAGAAAG
Statistics
Matches: 82, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
34 13 0.16
35 19 0.23
36 2 0.02
37 22 0.27
38 6 0.07
39 16 0.20
40 4 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (37 bp):
AGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAA
Found at i:16021166 original size:49 final size:45
Alignment explanation
Indices: 16021100--16021200 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 45
16021090 AAAGGAAAGG
*
16021100 AGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAAA
1 AGAAGAGAAAAAAGGAAAGAAAG--G--G-AAAGGAGAAGAGAAAAAAAA
*
16021150 AGAA-AGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAAA
1 AGAAGAGAAAAAAGGAAAGAAAGGGAAAGGAGAAGAG-AAAAAAAA
16021195 AGAAGA
1 AGAAGA
16021201 AGAGGGAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
44 12 0.26
45 12 0.26
46 1 0.02
47 1 0.02
49 17 0.36
50 4 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (45 bp):
AGAAGAGAAAAAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAA
Found at i:16027567 original size:15 final size:12
Alignment explanation
Indices: 16027530--16027560 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16027520 AAAAAAATTT
*
16027530 ATACTCAAAATA
1 ATACACAAAATA
16027542 ATACACAAAATA
1 ATACACAAAATA
16027554 ATACACA
1 ATACACA
16027561 CTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACAAAATA
Found at i:16027615 original size:26 final size:26
Alignment explanation
Indices: 16027566--16027618 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16027556 ACACACTAAA
* *
16027566 ATTATTAATTTTATACTACGAATAAT
1 ATTAATAATTTTATACTACAAATAAT
16027592 ATTAATAATTTTATACT-CAAAATAAT
1 ATTAATAATTTTATACTAC-AAATAAT
16027618 A
1 A
16027619 CACACTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTAATAATTTTATACTACAAATAAT
Found at i:16027835 original size:3 final size:3
Alignment explanation
Indices: 16027829--16027855 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16027819 CAACAACAAC
16027829 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
16027856 CTAACTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16027935 original size:19 final size:21
Alignment explanation
Indices: 16027911--16027949 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
16027901 ACTACAACAA
*
16027911 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAATAATATAC
16027930 AAAATAATAACAATAATATA
1 AAAATAATAACAATAATATA
16027950 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAATAACAATAATATAC
Found at i:16028111 original size:27 final size:27
Alignment explanation
Indices: 16028073--16028148 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
16028063 ATAATACGAG
*
16028073 TGGTGCCACCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
*
16028100 TGGTGCCGCCAATGGCATTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
16028127 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
16028149 GTGACCAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.18, C:0.30, G:0.28, T:0.24
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:16028208 original size:12 final size:13
Alignment explanation
Indices: 16028191--16028219 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16028181 TTTTTGCAGG
16028191 TTTTGTTTT-TTT
1 TTTTGTTTTGTTT
16028203 TTTTGTTTTGTTT
1 TTTTGTTTTGTTT
16028216 TTTT
1 TTTT
16028220 TGTATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (13 bp):
TTTTGTTTTGTTT
Found at i:16028251 original size:26 final size:27
Alignment explanation
Indices: 16028219--16028321 Score: 138
Period size: 28 Copynumber: 3.7 Consensus size: 27
16028209 TTTGTTTTTT
16028219 TTGTATATATTTTGGTAAAT-AAAAAAG
1 TTGTA-ATATTTTGGTAAATAAAAAAAG
16028246 TT-TATATATTTTGGTAAATAAAAAAATAG
1 TTGTA-ATATTTTGGTAAAT-AAAAAA-AG
*
16028275 TTGTAATATTTTGATAAATAAAAAAAAG
1 TTGTAATATTTTGGTAAAT-AAAAAAAG
16028303 TTGTAATATTTTGGTAAAT
1 TTGTAATATTTTGGTAAAT
16028322 TTTTATTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
26 17 0.24
27 2 0.03
28 25 0.36
29 24 0.34
30 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.42
Consensus pattern (27 bp):
TTGTAATATTTTGGTAAATAAAAAAAG
Found at i:16030470 original size:13 final size:14
Alignment explanation
Indices: 16030452--16030483 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16030442 TCTTTTTCTG
16030452 TTCTTTTC-TCTCT
1 TTCTTTTCTTCTCT
16030465 TTC-TTTCTTCTCT
1 TTCTTTTCTTCTCT
16030478 TTCTTT
1 TTCTTT
16030484 ATTTCTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 11 0.65
14 2 0.12
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTCTTTTCTTCTCT
Found at i:16030482 original size:17 final size:17
Alignment explanation
Indices: 16030439--16030490 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
16030429 TTTTTTTTTA
*
16030439 CTCTCTTTTTCTGTTCTT
1 CTCTCTCTTTCT-TTCTT
*
16030457 TTCTCTCTTTCTTTCTT
1 CTCTCTCTTTCTTTCTT
* *
16030474 CTCTTTCTTTATTTCTT
1 CTCTCTCTTTCTTTCTT
16030491 TCCTTATCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 19 0.66
18 10 0.34
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (17 bp):
CTCTCTCTTTCTTTCTT
Found at i:16036596 original size:15 final size:14
Alignment explanation
Indices: 16036576--16036610 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
16036566 AAGATATAGG
16036576 GTTTAGGATTTTAGA
1 GTTTAGGA-TTTAGA
*
16036591 GTTTAGGATTTAGG
1 GTTTAGGATTTAGA
16036605 GTTTAG
1 GTTTAG
16036611 CACAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GTTTAGGATTTAGA
Found at i:16041231 original size:3 final size:3
Alignment explanation
Indices: 16041223--16041252 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16041213 GTCATAAATC
16041223 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16041253 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16041343 original size:15 final size:16
Alignment explanation
Indices: 16041305--16041343 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
16041295 AATCCATAAT
*
16041305 ATATTAATATTTTATA
1 ATATTAATTTTTTATA
16041321 A-ATTAATTTTTTA-A
1 ATATTAATTTTTTATA
16041335 ATATTAATT
1 ATATTAATT
16041344 CAAGCTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.86
16 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTAATTTTTTATA
Found at i:16043714 original size:7 final size:7
Alignment explanation
Indices: 16043702--16043731 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
16043692 AATATATTAT
16043702 AATTTTA
1 AATTTTA
16043709 AATTTTA
1 AATTTTA
16043716 AATTTTA
1 AATTTTA
16043723 AATTTTA
1 AATTTTA
16043730 AA
1 AA
16043732 AAAATTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTTA
Found at i:16047214 original size:28 final size:26
Alignment explanation
Indices: 16047183--16047256 Score: 69
Period size: 31 Copynumber: 2.6 Consensus size: 26
16047173 GGATATTCAT
16047183 TTTTATTATTTAAAAATAATTTAATAAA
1 TTTTATT-TTTAAAAATAA-TTAATAAA
*
16047211 TTTTAATGTTTTTAAAAATCTAATTAATATA
1 TTTT-A--TTTTTAAAAA--TAATTAATAAA
16047242 TTTTA-TTTTAAAAAT
1 TTTTATTTTTAAAAAT
16047257 CAAATCAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
25 1 0.03
27 9 0.22
28 4 0.10
29 1 0.03
30 9 0.22
31 13 0.32
32 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (26 bp):
TTTTATTTTTAAAAATAATTAATAAA
Found at i:16048130 original size:3 final size:3
Alignment explanation
Indices: 16048117--16048155 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
16048107 CTATTATAAC
* *
16048117 TGG TTG TGG TGG TGG GGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
16048156 CGGCACTAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:16048576 original size:2 final size:2
Alignment explanation
Indices: 16048569--16048599 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16048559 TTATATTATA
16048569 AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16048600 TGAAGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16050375 original size:21 final size:21
Alignment explanation
Indices: 16050338--16050379 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16050328 AATGAACTAA
16050338 ATTTTTAATTTAATTTATAATT
1 ATTTTTAATTT-ATTTATAATT
16050360 ATTTTTAAATTT-TTTATAAT
1 ATTTTT-AATTTATTTATAAT
16050380 GTAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTAATTTATTTATAATT
Found at i:16055406 original size:3 final size:3
Alignment explanation
Indices: 16055398--16055439 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
16055388 ACAGACGAAC
16055398 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
16055440 ATTATACAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:16055972 original size:13 final size:13
Alignment explanation
Indices: 16055950--16055981 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16055940 ACTAAAAAAC
*
16055950 TATATCTTATATT
1 TATATTTTATATT
16055963 TATATTTTATATT
1 TATATTTTATATT
16055976 TATATT
1 TATATT
16055982 ATGAATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
TATATTTTATATT
Found at i:16058978 original size:18 final size:17
Alignment explanation
Indices: 16058950--16058984 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16058940 ATTGTTAAGA
*
16058950 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16058967 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16058985 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16059026 original size:59 final size:58
Alignment explanation
Indices: 16058963--16059238 Score: 178
Period size: 66 Copynumber: 4.6 Consensus size: 58
16058953 TTATTAAATT
16058963 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTAT-TTTTATAGTATC
* * ** * *
16059022 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-TTATTA-A--AT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTCA-AATTATTTTTATAGTAT
*
16059082 T
58 C
*
16059083 ATTTATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTAT-TTTTATAGTATC
* ** * *
16059142 ATATATTATAATTTGAGTAAATTAATATAAGAATATTAATTA-TTAAGAATT-TTATTA-A--AT
1 ATATATTTTAA-TT-A--AAA-T-ATAT-TTAATATTAATTATTTCA-AATTATTTTTATAGTAT
*
16059202 T
58 C
16059203 ATATATTTTAATTAAAATATATTTAAT-TATAATTAT
1 ATATATTTTAATTAAAATATATTTAATAT-TAATTAT
16059239 GTTTAAATAT
Statistics
Matches: 168, Mismatches: 25, Indels: 52
0.69 0.10 0.21
Matches are distributed among these distances:
53 1 0.01
54 24 0.14
55 12 0.07
56 6 0.04
57 7 0.04
59 20 0.12
60 12 0.07
61 22 0.13
63 8 0.05
64 10 0.06
65 16 0.10
66 30 0.18
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATTTTTATAGTATC
Found at i:16059057 original size:66 final size:63
Alignment explanation
Indices: 16058987--16059185 Score: 202
Period size: 66 Copynumber: 3.2 Consensus size: 63
16058977 AAATATATTT
16058987 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTCAAATTAT-TTTTATAGTATCATATATTAT-ATTTGAGTAAATT-ATATAA
16059052 G
63 G
* * * * * **
16059053 AATATTAATTA-TTAAGAATT-TTATTA-A--AT--TAT-TTAT-TTTAATTAAAATATAT-TT
1 AATATTAATTATTTCA-AATTATTTTTATAGTATCATATATTATATTTGAGTAAATTATATAAG
16059107 AATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTGAGTAAATTAATATAA
1 AATATTAATTATTTCAAATTAT-TTTTATAGTATCATATATTAT-ATTTGAGTAAATT-ATATAA
16059172 G
63 G
16059173 AATATTAATTATT
1 AATATTAATTATT
16059186 AAGAATTTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
54 15 0.14
55 8 0.08
56 13 0.12
57 1 0.01
58 4 0.04
59 5 0.05
61 5 0.05
62 4 0.04
63 1 0.01
64 13 0.12
65 8 0.08
66 28 0.27
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTCAAATTATTTTTATAGTATCATATATTATATTTGAGTAAATTATATAAG
Found at i:16059068 original size:120 final size:120
Alignment explanation
Indices: 16058923--16059238 Score: 571
Period size: 120 Copynumber: 2.6 Consensus size: 120
16058913 TGGAGATCTC
*
16058923 TTAATATAAGAATATTAATTGTTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
1 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
* *
16058988 ATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAA
66 ATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTGAGTAAA
* *
16059043 TTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATTTATTTTAATTAAAATATATTTA
1 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
16059108 ATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTGAGTAAA
66 ATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTGAGTAAA
16059163 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
1 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
16059228 AT-TATAATTAT
66 ATAT-TAATTAT
16059239 GTTTAAATAT
Statistics
Matches: 188, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
119 1 0.01
120 187 0.99
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
ATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTGAGTAAA
Found at i:16059116 original size:21 final size:19
Alignment explanation
Indices: 16059078--16059117 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
16059068 GAATTTTATT
*
16059078 AAATTATTTATTTTAATTA
1 AAATTATTTATATTAATTA
16059097 AAATATATTTAATATTAATTA
1 AAAT-TATTT-ATATTAATTA
16059118 TTTCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTATTTATATTAATTA
Found at i:16059218 original size:18 final size:18
Alignment explanation
Indices: 16059190--16059238 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
16059180 ATTATTAAGA
16059190 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
16059207 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
16059223 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
16059239 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:16059224 original size:16 final size:16
Alignment explanation
Indices: 16059190--16059244 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
16059180 ATTATTAAGA
16059190 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
16059207 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
16059223 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
16059237 ATGTTTAA
1 AT-TTTAA
16059245 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:16059454 original size:44 final size:45
Alignment explanation
Indices: 16059389--16059479 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
16059379 ACCTCTATTC
* * *
16059389 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
16059433 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
16059478 CA
1 CA
16059480 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:16059481 original size:16 final size:16
Alignment explanation
Indices: 16059460--16059511 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
16059450 GATTAGCTAT
16059460 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16059476 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
16059492 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
16059508 TACA
1 TACA
16059512 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:16061640 original size:28 final size:28
Alignment explanation
Indices: 16061604--16061668 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
16061594 TTGAGTAATT
*
16061604 TAATTTTTTTCTTTTATATTT-TTTTAACT
1 TAATTTTTTTC-TTTAT-TTTCTTTTAACG
*
16061633 TTATTTTTTTCTTTATTTTCTTTTAACG
1 TAATTTTTTTCTTTATTTTCTTTTAACG
16061661 TAATTTTT
1 TAATTTTT
16061669 CTATGTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 3 0.09
28 19 0.59
29 10 0.31
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (28 bp):
TAATTTTTTTCTTTATTTTCTTTTAACG
Found at i:16071899 original size:78 final size:77
Alignment explanation
Indices: 16071802--16071944 Score: 225
Period size: 78 Copynumber: 1.8 Consensus size: 77
16071792 CCTATTAAAA
** * *
16071802 AATATATTAATATATTAAAAATTTAAAATTGGTTATACTTAA-ATTTTTTTAATATATTCAAAAT
1 AATATATTAATATATTAAAAATTTAAAATCAGTTATACTCAACATTTTTTTAACATATT-AAAAT
16071866 TTTAATATATTTT
65 TTTAATATATTTT
16071879 AATATATTAAGTATATTAAAAATTTAAAATCAGTTATACTCAACATTTTTTTAACATATTAAAAT
1 AATATATTAA-TATATTAAAAATTTAAAATCAGTTATACTCAACATTTTTTTAACATATTAAAAT
16071944 T
65 T
16071945 GGAAACTGGT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
77 10 0.17
78 35 0.58
79 15 0.25
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (77 bp):
AATATATTAATATATTAAAAATTTAAAATCAGTTATACTCAACATTTTTTTAACATATTAAAATT
TTAATATATTTT
Found at i:16071905 original size:17 final size:16
Alignment explanation
Indices: 16071849--16071905 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
16071839 CTTAAATTTT
*
16071849 TTTAATATATTCAAAAT
1 TTTAATATATT-AAAAA
* *
16071866 TTTAATATATTTTAATA
1 TTTAATATA-TTAAAAA
16071883 TATTAAGTATATTAAAAA
1 T-TTAA-TATATTAAAAA
16071901 TTTAA
1 TTTAA
16071906 AATCAGTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 16 0.50
18 12 0.38
19 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
TTTAATATATTAAAAA
Found at i:16093787 original size:23 final size:25
Alignment explanation
Indices: 16093755--16093800 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
16093745 TTTGAAATGC
16093755 TTTATAATAT-TATTTTTTAAAAAT
1 TTTATAATATATATTTTTTAAAAAT
*
16093779 TTTA-AATATATTTTTTTTAAAA
1 TTTATAATATATATTTTTTAAAA
16093801 TTAGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTATAATATATATTTTTTAAAAAT
Found at i:16093798 original size:15 final size:17
Alignment explanation
Indices: 16093778--16093816 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
16093768 TTTTTAAAAA
16093778 TTTTAAATA-TA-TTTT
1 TTTTAAATATTAGTTTT
16093793 TTTTAAA-ATTAGTTTT
1 TTTTAAATATTAGTTTT
16093809 TTTTAAAT
1 TTTTAAAT
16093817 TTAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.05
15 9 0.43
16 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTAAATATTAGTTTT
Found at i:16094007 original size:35 final size:32
Alignment explanation
Indices: 16093924--16094054 Score: 102
Period size: 35 Copynumber: 3.8 Consensus size: 32
16093914 TATTTGTTTT
* *
16093924 ATAATATTTTAAATGTATATTTTAAAAATTTTAA
1 ATAA-ATTTAAAAT-TATATTTTTAAAATTTTAA
**
16093958 A-AATATTTTTAATTATGATTTTTTAAAATTTTAA
1 ATAA-ATTTAAAATTAT-A-TTTTTAAAATTTTAA
16093992 ATAGAATTTAAAATTATATTTTTAAATTATTTTAA
1 ATA-AATTTAAAATTATATTTTTAAA--ATTTTAA
**
16094027 ATATAATTTTAATGTATATATTTTTAAA
1 ATA-AA-TTTAAAAT-TATATTTTTAAA
16094055 GATATTCAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
32 3 0.04
33 20 0.24
34 17 0.21
35 23 0.28
36 7 0.09
37 12 0.15
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (32 bp):
ATAAATTTAAAATTATATTTTTAAAATTTTAA
Found at i:16094020 original size:13 final size:12
Alignment explanation
Indices: 16093930--16094060 Score: 71
Period size: 12 Copynumber: 11.1 Consensus size: 12
16093920 TTTTATAATA
*
16093930 TTTTAAATGTAT
1 TTTTAAATATAT
16093942 ATTTTAAA-A-A-
1 -TTTTAAATATAT
*
16093952 TTTTAAAAATAT
1 TTTTAAATATAT
*
16093964 TTTTAATTATGAT
1 TTTTAAATAT-AT
*
16093977 TTTTTAA-A-A-
1 TTTTAAATATAT
* *
16093986 TTTTAAATAGAA
1 TTTTAAATATAT
*
16093998 TTTAAAATTATAT
1 TTTTAAA-TATAT
16094011 TTTTAAAT-TA-
1 TTTTAAATATAT
*
16094021 TTTTAAATATAA
1 TTTTAAATATAT
16094033 TTTTAATGTATATAT
1 TTTTAA---ATATAT
*
16094048 TTTTAAAGATAT
1 TTTTAAATATAT
16094060 T
1 T
16094061 CAAACATTTT
Statistics
Matches: 93, Mismatches: 12, Indels: 27
0.70 0.09 0.20
Matches are distributed among these distances:
9 13 0.14
10 11 0.12
11 7 0.08
12 28 0.30
13 23 0.25
15 11 0.12
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (12 bp):
TTTTAAATATAT
Found at i:16094036 original size:22 final size:22
Alignment explanation
Indices: 16093920--16094038 Score: 57
Period size: 23 Copynumber: 5.3 Consensus size: 22
16093910 TTATTATTTG
*
16093920 TTTTATAA-TATTTTAAATGTATA
1 TTTTA-AATTATTTTAAATATA-A
* *
16093943 TTTTAAA-AATTTTAAAAAT-A
1 TTTTAAATTATTTTAAATATAA
* ** *
16093963 TTTTTAATTATGATTT-TTTAAAA
1 TTTTAAATTAT--TTTAAATATAA
* * *
16093986 TTTTAAATAGAATTTAAAATTATAT
1 TTTTAAAT--TATTTTAAA-TATAA
16094011 TTTTAAATTATTTTAAATATAA
1 TTTTAAATTATTTTAAATATAA
16094033 TTTTAA
1 TTTTAA
16094039 TGTATATATT
Statistics
Matches: 69, Mismatches: 19, Indels: 17
0.66 0.18 0.16
Matches are distributed among these distances:
20 7 0.10
21 2 0.03
22 22 0.32
23 25 0.36
25 13 0.19
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
TTTTAAATTATTTTAAATATAA
Found at i:16094114 original size:13 final size:15
Alignment explanation
Indices: 16094092--16094123 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16094082 TAAAATTTTA
16094092 AAAAATTATA-ATTT
1 AAAAATTATATATTT
16094106 AAAAA-TATATATTT
1 AAAAATTATATATTT
16094120 AAAA
1 AAAA
16094124 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAATTATATATTT
Found at i:16094124 original size:13 final size:13
Alignment explanation
Indices: 16094093--16094169 Score: 57
Period size: 13 Copynumber: 6.5 Consensus size: 13
16094083 AAAATTTTAA
16094093 AAAAT-TATAATTT
1 AAAATATAT-ATTT
16094106 AAAAATATATATTT
1 -AAAATATATATTT
16094120 AAAAT-TA-A---
1 AAAATATATATTT
16094128 AAAATATATATTT
1 AAAATATATATTT
16094141 --AA-ATAT-TTT
1 AAAATATATATTT
*
16094150 AAAATATACATTT
1 AAAATATATATTT
16094163 AAAATAT
1 AAAATAT
16094170 TATAAAACAG
Statistics
Matches: 52, Mismatches: 1, Indels: 21
0.70 0.01 0.28
Matches are distributed among these distances:
8 5 0.10
9 5 0.10
10 5 0.10
11 5 0.10
12 5 0.10
13 15 0.29
14 9 0.17
15 3 0.06
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATATATATTT
Found at i:16094130 original size:21 final size:21
Alignment explanation
Indices: 16094101--16094176 Score: 98
Period size: 21 Copynumber: 3.5 Consensus size: 21
16094091 AAAAAATTAT
16094101 AATTTAAAAATATATATTTAA
1 AATTTAAAAATATATATTTAA
*
16094122 AATTAAAAAATATATATTTAA
1 AATTTAAAAATATATATTTAA
* *
16094143 ATATTTTAAAATATACATTTAA
1 A-ATTTAAAAATATATATTTAA
16094165 AATATTATAAAA
1 AAT-TTA-AAAA
16094177 CAGATAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 23 0.49
22 20 0.43
23 4 0.09
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTAAAAATATATATTTAA
Found at i:16094276 original size:22 final size:23
Alignment explanation
Indices: 16094245--16094292 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
16094235 ATATTAATAT
*
16094245 AAAAATATATT-TAAAA-TTTTA
1 AAAAATATATTATAAAACATTTA
16094266 AAAAATAATATTATAAAACATTTA
1 AAAAAT-ATATTATAAAACATTTA
16094290 AAA
1 AAA
16094293 TATGCCTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 5 0.22
23 5 0.22
24 7 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATATATTATAAAACATTTA
Found at i:16097889 original size:13 final size:13
Alignment explanation
Indices: 16097871--16097895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16097861 GCGAAGGAAT
16097871 TGTATAAAAAATA
1 TGTATAAAAAATA
16097884 TGTATAAAAAAT
1 TGTATAAAAAAT
16097896 TGCTTCTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATAAAAAATA
Found at i:16100748 original size:26 final size:27
Alignment explanation
Indices: 16100719--16100780 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
16100709 AAGAATGATA
16100719 TTTTTAATTTTTAATTAATAA-ACATG
1 TTTTTAATTTTTAATTAATAATACATG
* * ** *
16100745 TTTTTGATTTTTTATTTTTAATTCATG
1 TTTTTAATTTTTAATTAATAATACATG
16100772 TTTTTAATT
1 TTTTTAATT
16100781 AATAATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (27 bp):
TTTTTAATTTTTAATTAATAATACATG
Found at i:16118419 original size:21 final size:21
Alignment explanation
Indices: 16118387--16118427 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16118377 AGGCTCGAGG
16118387 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
16118408 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
16118428 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:16125413 original size:14 final size:14
Alignment explanation
Indices: 16125389--16125423 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
16125379 AGCAAAAATA
16125389 ATCATTGTATGATTT
1 ATCA-TGTATGATTT
16125404 ATCATGTATGATTT
1 ATCATGTATGATTT
16125418 A-CATGT
1 ATCATGT
16125424 GGTAGATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 11 0.55
15 4 0.20
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (14 bp):
ATCATGTATGATTT
Found at i:16127616 original size:21 final size:21
Alignment explanation
Indices: 16127589--16127644 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
16127579 AACAGTGGTG
*
16127589 ACGGTGAGATTAGTTACTGTA
1 ACGGTGAGATTAGATACTGTA
* *
16127610 GCGGTGAGATTGGATACTGTA
1 ACGGTGAGATTAGATACTGTA
16127631 ACGGTGAGATTAGA
1 ACGGTGAGATTAGA
16127645 AACAATGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
ACGGTGAGATTAGATACTGTA
Found at i:16129429 original size:18 final size:17
Alignment explanation
Indices: 16129388--16129432 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
16129378 CTTAATTTTG
16129388 TATAAAAATTGTAAAAA
1 TATAAAAATTGTAAAAA
*
16129405 T-TCAAAAATATTTAAAAA
1 TAT-AAAAAT-TGTAAAAA
16129423 TATAAAAATT
1 TATAAAAATT
16129433 CAACTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 8 0.33
18 14 0.58
19 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
TATAAAAATTGTAAAAA
Found at i:16154310 original size:3 final size:3
Alignment explanation
Indices: 16154302--16154330 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16154292 GTTTATTTTC
16154302 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
16154331 TTAGACAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16158070 original size:31 final size:31
Alignment explanation
Indices: 16158032--16158105 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
16158022 TAGTTTGTCC
*
16158032 CCTGAACTTGTCCAGAAATACCTATTTGATA
1 CCTGAACTTGTCCAGAAATACCTAATTGATA
* * *
16158063 CCTGAACTTGTCCGGAAGTACCTAATTGGTA
1 CCTGAACTTGTCCAGAAATACCTAATTGATA
16158094 CCTGAACTTGTC
1 CCTGAACTTGTC
16158106 TAAAAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (31 bp):
CCTGAACTTGTCCAGAAATACCTAATTGATA
Found at i:16160632 original size:46 final size:45
Alignment explanation
Indices: 16160565--16160848 Score: 377
Period size: 46 Copynumber: 6.6 Consensus size: 45
16160555 TTTGAGTACT
* *
16160565 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
16160611 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
16160657 TC--AT--A--GACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
16160697 TCTGATCAAGTAACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
16160743 TCTGATCAAGTGACAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
16160779 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
16160824 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
16160849 ATCATACGTA
Statistics
Matches: 216, Mismatches: 7, Indels: 33
0.84 0.03 0.13
Matches are distributed among these distances:
36 29 0.13
38 1 0.00
39 2 0.01
40 41 0.19
41 2 0.01
42 5 0.02
43 15 0.07
44 8 0.04
45 12 0.06
46 101 0.47
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:16160724 original size:86 final size:84
Alignment explanation
Indices: 16160579--16160831 Score: 372
Period size: 86 Copynumber: 3.0 Consensus size: 84
16160569 ATCAAGAGAT
*
16160579 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCA
1 AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-
16160644 TTAGCTACACTTATCATAGA-C
65 TTAGCTACACTTATC-T-GATC
*
16160665 AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTAACAAAGTGATAAGTGGTAGCT
1 AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-
16160730 TTAGCTACACTTATCTGATC
65 TTAGCTACACTTATCTGATC
* * * *
16160750 -AAGTGACAAAGTGATA--AGT-GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 AAAGTGA-TAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
16160811 TTAGCTACACTTATCTGATC
65 TTAGCTACACTTATCTGATC
16160831 A
1 A
16160832 GGGACAAGTG
Statistics
Matches: 156, Mismatches: 8, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
81 20 0.13
82 40 0.26
83 2 0.01
84 8 0.05
85 9 0.06
86 77 0.49
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.30
Consensus pattern (84 bp):
AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCT
TAGCTACACTTATCTGATC
Found at i:16160779 original size:36 final size:36
Alignment explanation
Indices: 16160733--16160805 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
16160723 GGTAGCTTTA
16160733 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
16160769 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
16160805 G
1 G
16160806 GTAGCTTAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:16160848 original size:132 final size:132
Alignment explanation
Indices: 16160571--16160850 Score: 360
Period size: 132 Copynumber: 2.1 Consensus size: 132
16160561 TACTTCTGAT
16160571 CAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
1 CAAG-GAT-AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
* *
16160636 TGGTAGCATTAGCTACACTTATCATAGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTG
64 TGCTA--ATTAGCTACACTGATCATAGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTG
16160701 ATCAAG
127 ATCAAG
* *
16160707 TAA-CA-AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 CAAGGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
*
16160770 CT-A-TA-CTTA-TCTGATCA-AGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGA
66 CTAATTAGC-TACACTGATCATA--GACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGA
*
16160829 TCAGGG
128 TCA-AG
16160835 ACAAGTGATAAGTGAT
1 -CAAG-GATAAGTGAT
16160851 CATACGTAAG
Statistics
Matches: 128, Mismatches: 8, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
126 1 0.01
127 28 0.22
128 26 0.20
129 3 0.02
131 1 0.01
132 66 0.52
134 1 0.01
136 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (132 bp):
CAAGGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
CTAATTAGCTACACTGATCATAGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCA
AG
Found at i:16163340 original size:30 final size:29
Alignment explanation
Indices: 16163267--16163352 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
16163257 TTTCTTTCGG
* *
16163267 TAATTAGGTTTATTTTAATATTTAATATTT
1 TAATTAGATATATTTTAATATTTAA-ATTT
*
16163297 T--TTA-TTATATTTTAATATTTAAATTT
1 TAATTAGATATATTTTAATATTTAAATTT
* * *
16163323 ATAATTAGATCTATTTTAGTATTTGAATTT
1 -TAATTAGATATATTTTAATATTTAAATTT
16163353 GGATTTTGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 4 0.09
27 17 0.37
28 3 0.07
29 3 0.07
30 19 0.41
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (29 bp):
TAATTAGATATATTTTAATATTTAAATTT
Found at i:16163980 original size:12 final size:12
Alignment explanation
Indices: 16163965--16164006 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
16163955 TATATTATTG
*
16163965 TCTATATTTAAA
1 TCTAAATTTAAA
*
16163977 TCTAAATCTAAA
1 TCTAAATTTAAA
*
16163989 TTTAAATTTAAA
1 TCTAAATTTAAA
16164001 T-TAAAT
1 TCTAAAT
16164007 ATTATTATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (12 bp):
TCTAAATTTAAA
Found at i:16163991 original size:18 final size:18
Alignment explanation
Indices: 16163965--16164006 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16163955 TATATTATTG
*
16163965 TCTATATTTAAATCTAAA
1 TCTAAATTTAAATCTAAA
*
16163983 TCTAAATTTAAATTTAAA
1 TCTAAATTTAAATCTAAA
16164001 T-TAAAT
1 TCTAAAT
16164007 ATTATTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (18 bp):
TCTAAATTTAAATCTAAA
Found at i:16165273 original size:20 final size:20
Alignment explanation
Indices: 16165222--16165273 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
16165212 AAATCATTGC
16165222 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* *
16165242 AA-A-ATATAAAAAT-TTATT
1 AATATATGTAAAAATAAT-TT
16165260 AATATATGTAAAAA
1 AATATATGTAAAAA
16165274 AAACTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 2 0.08
20 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:16165392 original size:19 final size:18
Alignment explanation
Indices: 16165350--16165392 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
16165340 CCAAACACTA
16165350 AAAAAATAAATCATTTTT
1 AAAAAATAAATCATTTTT
*
16165368 AGAAAAGTAAATCATTTTCT
1 A-AAAAATAAATCATTTT-T
16165388 AAAAA
1 AAAAA
16165393 TCATTATGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.86
20 2 0.09
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAAAATAAATCATTTTT
Found at i:16171256 original size:25 final size:21
Alignment explanation
Indices: 16171238--16171279 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
16171228 GATTATTAAG
16171238 TTTAGTGTTAATAATGATTCATT
1 TTTAG-GTTAATAATGATT-ATT
*
16171261 TTTAGGTTTATAATGATTA
1 TTTAGGTTAATAATGATTA
16171280 ATAGAGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 12 0.67
23 5 0.28
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTAGGTTAATAATGATTATT
Found at i:16173904 original size:15 final size:15
Alignment explanation
Indices: 16173873--16173911 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
16173863 ATAGTATATA
16173873 ATATATAATATTTTT
1 ATATATAATATTTTT
16173888 ATAT-TAATATTTATT
1 ATATATAATATTT-TT
16173903 ATAATATAA
1 AT-ATATAA
16173912 AAATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 2 0.10
17 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATATAATATTTTT
Found at i:16174358 original size:6 final size:6
Alignment explanation
Indices: 16174347--16174371 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16174337 CTAATTACAC
16174347 TTAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA T
16174372 ATAATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TTAAAA
Found at i:16179421 original size:40 final size:41
Alignment explanation
Indices: 16179377--16179464 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
16179367 CTTGTATCGT
16179377 TGTTTTATAG-CTTTTTTTTGTTTGACTTGAATTTAAGGTA
1 TGTTTTATAGTCTTTTTTTTGTTTGACTTGAATTTAAGGTA
16179417 TGTTTTATAGTCTTTTTTTTGTTTGACTTGAATTTAAGGTA
1 TGTTTTATAGTCTTTTTTTTGTTTGACTTGAATTTAAGGTA
16179458 TGTTTTA
1 TGTTTTA
16179465 CCTGTCAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 10 0.21
41 37 0.79
ACGTcount: A:0.19, C:0.05, G:0.17, T:0.59
Consensus pattern (41 bp):
TGTTTTATAGTCTTTTTTTTGTTTGACTTGAATTTAAGGTA
Found at i:16187638 original size:19 final size:18
Alignment explanation
Indices: 16187609--16187651 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
16187599 TTTTCCCTTA
*
16187609 ATTTAACTATTAATTTAG
1 ATTTAAATATTAATTTAG
*
16187627 ATGTTAAATATTAGTTTAG
1 AT-TTAAATATTAATTTAG
16187646 ATTTAA
1 ATTTAA
16187652 TATGTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (18 bp):
ATTTAAATATTAATTTAG
Found at i:16188941 original size:29 final size:29
Alignment explanation
Indices: 16188904--16188959 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
16188894 TATGAATCGC
*
16188904 AATTCAAATTTACGTAT-ATAATTACATCA
1 AATTAAAATTTACGTATGA-AATTACATCA
16188933 AATTAAAATTTACGTATGAAATTACAT
1 AATTAAAATTTACGTATGAAATTACAT
16188960 ATTAAATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (29 bp):
AATTAAAATTTACGTATGAAATTACATCA
Found at i:16191409 original size:38 final size:38
Alignment explanation
Indices: 16191367--16191447 Score: 87
Period size: 38 Copynumber: 2.1 Consensus size: 38
16191357 ATAAAATATT
* *
16191367 TAATA-AATAAAAATGTATAAAATTATT-AAATATT-AAAA
1 TAATAGAAT-AAAATATA-AAAATT-TTAAAAAATTAAAAA
*
16191405 TAATAGAATATAATATAAAAATTTTAAAAAATTAAAAA
1 TAATAGAATAAAATATAAAAATTTTAAAAAATTAAAAA
16191443 TAATA
1 TAATA
16191448 TGGATGGGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
36 2 0.05
37 12 0.32
38 20 0.54
39 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (38 bp):
TAATAGAATAAAATATAAAAATTTTAAAAAATTAAAAA
Found at i:16191673 original size:15 final size:15
Alignment explanation
Indices: 16191644--16191691 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
16191634 AAATTTTAAT
*
16191644 AAATTAAAAGTATATA
1 AAATTAAAA-AATATA
** *
16191660 AAATTATTAAATATC
1 AAATTAAAAAATATA
16191675 AAATTAAAAAATATA
1 AAATTAAAAAATATA
16191690 AA
1 AA
16191692 TATATTTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
AAATTAAAAAATATA
Found at i:16192139 original size:34 final size:35
Alignment explanation
Indices: 16192101--16192167 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
16192091 CAGTAAAATG
* *
16192101 TTTTCCGTAAAATAATTT-TTGAAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
* *
16192135 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTT
16192168 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
Found at i:16195185 original size:30 final size:28
Alignment explanation
Indices: 16195157--16195213 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
16195147 ATTTAAAATT
16195157 TAAAA-TTTA-ATTTTAATTCCTCTAAAAA
1 TAAAACTTTATATTTTAA-TCC-CTAAAAA
16195185 TAAAACTTTTATATTTTAATCCCTAAAAA
1 TAAAAC-TTTATATTTTAATCCCTAAAAA
16195214 AATCTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 5 0.19
29 7 0.27
30 7 0.27
31 7 0.27
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAACTTTATATTTTAATCCCTAAAAA
Found at i:16195436 original size:2 final size:2
Alignment explanation
Indices: 16195425--16195453 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16195415 AACCTTACAT
16195425 TA TA -A 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
16195454 GAAAAGCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16205097 original size:24 final size:23
Alignment explanation
Indices: 16205069--16205119 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
16205059 TTTCTAGAAG
* *
16205069 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCAT-ATAT
* *
16205093 ATTTAGCATTTATTAGCATATAT
1 ATTTAACATTTATGAGCATATAT
16205116 ATTT
1 ATTT
16205120 GACTTTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (23 bp):
ATTTAACATTTATGAGCATATAT
Found at i:16205909 original size:18 final size:19
Alignment explanation
Indices: 16205876--16205911 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16205866 AATTTTCAAA
16205876 AATTCAAAATATTTATAAG
1 AATTCAAAATATTTATAAG
*
16205895 AATTCTAAA-ATTTATAA
1 AATTCAAAATATTTATAA
16205912 ATTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (19 bp):
AATTCAAAATATTTATAAG
Found at i:16205917 original size:27 final size:27
Alignment explanation
Indices: 16205869--16205930 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
16205859 ACAAAATAAT
* *
16205869 TTTCAAAAATTCAAAATATTTATAAGAA
1 TTTCTAAAATTCAAAATATTTA-AAAAA
*
16205897 -TTCTAAAATTTATAAAT-TTTAAAAAA
1 TTTCTAAAATTCA-AAATATTTAAAAAA
16205923 TTTCTAAA
1 TTTCTAAA
16205931 GAATATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 21 0.72
28 4 0.14
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTCTAAAATTCAAAATATTTAAAAAA
Found at i:16207623 original size:59 final size:60
Alignment explanation
Indices: 16207510--16207626 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 60
16207500 AACAATTCTT
* * * *
16207510 ATATTGGGGCTTGAACATTTTCTTTGTTCAAGTTAGCCCTTGAACTTGGTAATTGTTCCC
1 ATATTGGGACTTGAACATTTTCTTTGTCCAAGTTAGACCTTGAACTTGGCAATTGTTCCC
* *
16207570 ATATTGGGACTTGAAC-TTATT-TTTGTCCAAGTTA-ATCTATGAACTTTGCAATTGTTC
1 ATATTGGGACTTGAACATT-TTCTTTGTCCAAGTTAGACCT-TGAACTTGGCAATTGTTC
16207627 TCGTATCAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
58 2 0.04
59 30 0.61
60 17 0.35
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (60 bp):
ATATTGGGACTTGAACATTTTCTTTGTCCAAGTTAGACCTTGAACTTGGCAATTGTTCCC
Found at i:16207748 original size:59 final size:59
Alignment explanation
Indices: 16207672--16207808 Score: 195
Period size: 59 Copynumber: 2.3 Consensus size: 59
16207662 AATATCAGGA
* * * *
16207672 ACTAACTTGGACCAAAAAAAGTTTAGG-TTTGAAAGTGGGAACAATTGCCAAGTTTAGGG
1 ACTAACTTGGACAAAAAAAAGTTTAGGCCTT-AAAGTGGGAACAATTGCCAAATTTAAGG
* *
16207731 ATTAACTTGGACAAAAAAAAGTTTAGGCCTTAATGTGGGAACAATTGCCAAATTTAAGG
1 ACTAACTTGGACAAAAAAAAGTTTAGGCCTTAAAGTGGGAACAATTGCCAAATTTAAGG
*
16207790 ACTAACTTAGACAAAAAAA
1 ACTAACTTGGACAAAAAAA
16207809 GTTCAGTCCT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 67 0.97
60 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (59 bp):
ACTAACTTGGACAAAAAAAAGTTTAGGCCTTAAAGTGGGAACAATTGCCAAATTTAAGG
Found at i:16207837 original size:58 final size:59
Alignment explanation
Indices: 16207710--16207839 Score: 154
Period size: 58 Copynumber: 2.2 Consensus size: 59
16207700 TTGAAAGTGG
* * * * * * **
16207710 GAACAATTGCCAAGTTTAGGGATTAACTTGGACAAAAAAAAGTTTAGGCCTTAATGTGG
1 GAACAATTGCCAAATTTAAGGACTAACTTAGACAAAAAAAAGTTCAGGCCTCAATGTAA
*
16207769 GAACAATTGCCAAATTTAAGGACTAACTTAGAC-AAAAAAAGTTCAGTCCTCAATGTAA
1 GAACAATTGCCAAATTTAAGGACTAACTTAGACAAAAAAAAGTTCAGGCCTCAATGTAA
* *
16207827 GAATAGTTGCCAA
1 GAACAATTGCCAA
16207840 GTTCAAGTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
58 31 0.52
59 29 0.48
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (59 bp):
GAACAATTGCCAAATTTAAGGACTAACTTAGACAAAAAAAAGTTCAGGCCTCAATGTAA
Found at i:16209352 original size:17 final size:17
Alignment explanation
Indices: 16209330--16209364 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16209320 ATAACAACAT
16209330 CTGATCAAAATATTACA
1 CTGATCAAAATATTACA
16209347 CTGATCAAAATATTACA
1 CTGATCAAAATATTACA
16209364 C
1 C
16209365 ATGTGGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.29
Consensus pattern (17 bp):
CTGATCAAAATATTACA
Found at i:16210115 original size:33 final size:29
Alignment explanation
Indices: 16210039--16210123 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 29
16210029 ACAAATCTCA
16210039 AAATTATACAT-AAACTTTTATTTGGTGT
1 AAATTATACATGAAACTTTTATTTGGTGT
*
16210067 -AATTATACAGTGAAACTTTGATATTGTGGTTT
1 AAATTATACA-TGAAACTTT--TATT-TGGTGT
*
16210099 AAATGTATACATGAAACTTTAATTT
1 AAAT-TATACATGAAACTTTTATTT
16210124 TGATTCAATC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
27 9 0.19
28 1 0.02
29 7 0.15
30 1 0.02
31 7 0.15
32 5 0.10
33 12 0.25
34 6 0.12
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (29 bp):
AAATTATACATGAAACTTTTATTTGGTGT
Found at i:16211294 original size:17 final size:17
Alignment explanation
Indices: 16211257--16211295 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16211247 ATAAATTATT
* *
16211257 AAAAATTATTTAAAAAT
1 AAAAATGATTTAAAAAG
*
16211274 AAAAATGATTTAAATAG
1 AAAAATGATTTAAAAAG
16211291 AAAAA
1 AAAAA
16211296 AGGAAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAAATGATTTAAAAAG
Found at i:16214027 original size:20 final size:21
Alignment explanation
Indices: 16213988--16214063 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 21
16213978 TCAGGGTTTG
16213988 GGGTTCGAGATTTAAGATTTA
1 GGGTTCGAGATTTAAGATTTA
*
16214009 GGGTTCGAG-TTTGAGATTTA
1 GGGTTCGAGATTTAAGATTTA
* ** * *
16214029 AGGTTTAAGGTTTAGGATTT-
1 GGGTTCGAGATTTAAGATTTA
*
16214049 GGGTTTGAGATTTAA
1 GGGTTCGAGATTTAA
16214064 ATATTAGAGT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 27 0.61
21 17 0.39
ACGTcount: A:0.25, C:0.03, G:0.32, T:0.41
Consensus pattern (21 bp):
GGGTTCGAGATTTAAGATTTA
Found at i:16214036 original size:34 final size:34
Alignment explanation
Indices: 16213998--16214063 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
16213988 GGGTTCGAGA
*
16213998 TTTAAGATTTAGGGTTCGAGTTTGAGATTTAAGG
1 TTTAAGATTTAGGATTCGAGTTTGAGATTTAAGG
* * *
16214032 TTTAAGGTTTAGGATTTGGGTTTGAGATTTAA
1 TTTAAGATTTAGGATTCGAGTTTGAGATTTAA
16214064 ATATTAGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.26, C:0.02, G:0.29, T:0.44
Consensus pattern (34 bp):
TTTAAGATTTAGGATTCGAGTTTGAGATTTAAGG
Found at i:16214826 original size:17 final size:17
Alignment explanation
Indices: 16214804--16214836 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16214794 ATATATTTTA
16214804 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
16214821 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
16214837 TTAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:16216845 original size:5 final size:6
Alignment explanation
Indices: 16216808--16216842 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
16216798 ATTCTTGATT
**
16216808 TTAAAA TTAAAA TTAAAA TTAAAA AGAAAA TTAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAA
16216843 TTACACAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (6 bp):
TTAAAA
Found at i:16216860 original size:23 final size:23
Alignment explanation
Indices: 16216834--16216878 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16216824 AATTAAAAAG
* *
16216834 AAAATTAAATTACACAATTTATT
1 AAAATCAAACTACACAATTTATT
*
16216857 AAAATCAAACTACATAATTTAT
1 AAAATCAAACTACACAATTTAT
16216879 AATTTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATCAAACTACACAATTTATT
Found at i:16218037 original size:18 final size:17
Alignment explanation
Indices: 16218004--16218042 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
16217994 TTGTATAAAT
16218004 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
16218022 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
16218039 TGTG
1 TGTG
16218043 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:16228066 original size:24 final size:24
Alignment explanation
Indices: 16228026--16228071 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16228016 AGGTATCTCT
* *
16228026 CTCCCTTCCCCATTTCTGTCCCCA
1 CTCCCTTCCCCACTTCTCTCCCCA
16228050 CTCCCTTTCCCC-CTTCTCTCCC
1 CTCCC-TTCCCCACTTCTCTCCC
16228072 TCATATGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.04, C:0.59, G:0.02, T:0.35
Consensus pattern (24 bp):
CTCCCTTCCCCACTTCTCTCCCCA
Found at i:16238977 original size:9 final size:10
Alignment explanation
Indices: 16238963--16239047 Score: 70
Period size: 9 Copynumber: 8.7 Consensus size: 10
16238953 ACCAAAGGTT
16238963 TAAATAA-AA
1 TAAATAATAA
*
16238972 TAAATAAAAA
1 TAAATAATAA
**
16238982 TAAATAGGAA
1 TAAATAATAA
*
16238992 GAAATAATAA
1 TAAATAATAA
*
16239002 T-AATAATGA
1 TAAATAATAA
*
16239011 T-AATAACAA
1 TAAATAATAA
16239020 T-AATAATAA
1 TAAATAATAA
16239029 TAAACTCAATAA
1 TAAA-T-AATAA
16239041 TAAATAA
1 TAAATAA
16239048 AATGATAGGA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
9 30 0.48
10 21 0.34
11 2 0.03
12 9 0.15
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (10 bp):
TAAATAATAA
Found at i:16239043 original size:3 final size:3
Alignment explanation
Indices: 16238994--16239031 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
16238984 AATAGGAAGA
* *
16238994 AAT AAT AAT AAT AAT GAT AAT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16239032 ACTCAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:16248671 original size:24 final size:24
Alignment explanation
Indices: 16248644--16248694 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
16248634 TTGAATATTA
* *
16248644 TTTAA-TATTTTTTATTTATATAAT
1 TTTAATTAATTTTAATTT-TATAAT
16248668 TTTAATTAATTTTAATTTTATAAT
1 TTTAATTAATTTTAATTTTATAAT
16248692 TTT
1 TTT
16248695 TTATAACAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTAATTAATTTTAATTTTATAAT
Found at i:16250238 original size:18 final size:18
Alignment explanation
Indices: 16250215--16250257 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16250205 TGTCAGGTGC
**
16250215 GTATCCTAGTCCTTATAT
1 GTATCCTAACCCTTATAT
16250233 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
16250251 GTTTCCT
1 GTATCCT
16250258 TTTCCCAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:16250532 original size:21 final size:22
Alignment explanation
Indices: 16250507--16250566 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
16250497 ACAGCCAGAA
*
16250507 CAACCATAACCCCT-GTCGGAG
1 CAACCACAACCCCTCGTCGGAG
* *
16250528 TAACCACAA-TCCTCGTCGGAG
1 CAACCACAACCCCTCGTCGGAG
16250549 CAACCACAA-CCCTCGTCG
1 CAACCACAACCCCTCGTCG
16250567 AAAGCTAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.28, C:0.40, G:0.17, T:0.15
Consensus pattern (22 bp):
CAACCACAACCCCTCGTCGGAG
Found at i:16250787 original size:61 final size:61
Alignment explanation
Indices: 16250670--16250788 Score: 150
Period size: 61 Copynumber: 2.0 Consensus size: 61
16250660 ATTTGTACAG
** * ***
16250670 ACTATTTTTATATTGTTTTATTTAATAAAATAAAAGCTTGTTTTGAATATTTTAATAGTAA
1 ACTATTTTTATATTGTCCTATTTAATAAAATAAAAGCTTCTTTTGAATAAGGTAATAGTAA
* *
16250731 ACTATTTTTATATTTGTCCTATTTAATGAAATAGAAG-TTCTTTTGAATAAGGTAATAG
1 ACTATTTTTATA-TTGTCCTATTTAATAAAATAAAAGCTTCTTTTGAATAAGGTAATAG
16250789 AAATAATGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 29 0.59
62 20 0.41
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (61 bp):
ACTATTTTTATATTGTCCTATTTAATAAAATAAAAGCTTCTTTTGAATAAGGTAATAGTAA
Found at i:16254167 original size:125 final size:126
Alignment explanation
Indices: 16253818--16254155 Score: 486
Period size: 127 Copynumber: 2.7 Consensus size: 126
16253808 TAAGGCCATG
* * * *
16253818 CAAGAACTAATGTAGAAAAAGAGCATCCACGTGGGAG-TTTTTTTCAGTAATTTTACTGACAGTG
1 CAAGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTTCAGTAATTTTGCTGACAGTG
* * *
16253882 CATCCTGCTTAAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTT
66 CATCCTGCTTGAAGCGTTTTTTACACTATTTTTTCAGAACCG-CTTCTCAAAATTATTTTTT
* * * * *
16253944 CAAGAACTACTATAGAAAAAAAGTG-TCAACGTGAGAGCTTTTTTTCAGTAATTTTGCTGATAGT
1 CAAGAACTACTGTAGAAAAAGAGCGTTC-ACGTGGGAGCTTTTTTTCAGTAATTTTGCTGACAGT
16254008 GCATCCTGCTTGAAGCGTTTTTTACACTATTTTTTCAGAACCG-TTCTCAAAATTATTTTTT
65 GCATCCTGCTTGAAGCGTTTTTTACACTATTTTTTCAGAACCGCTTCTCAAAATTATTTTTT
* * *
16254069 CAGGAACTACTGTAGAAAAAGAGCGTTCATGTGGGAGCTTTTTTT-AGTAATTTTGCTGACAGTA
1 CAAGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTTCAGTAATTTTGCTGACAGTG
*
16254133 CATCCTACTTGAAGCGTTTTTTA
66 CATCCTGCTTGAAGCGTTTTTTA
16254156 TGGAGTTTTT
Statistics
Matches: 188, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
124 39 0.21
125 55 0.29
126 30 0.16
127 64 0.34
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (126 bp):
CAAGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTTCAGTAATTTTGCTGACAGTG
CATCCTGCTTGAAGCGTTTTTTACACTATTTTTTCAGAACCGCTTCTCAAAATTATTTTTT
Done.