Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005582.1 Hibiscus syriacus cultivar Beakdansim tig00012954_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: 187717
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3635 original size:19 final size:20
Alignment explanation
Indices: 3591--3636 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
3581 AACCGCTAAA
*
3591 GAACCGGTAGAATCGGTTGG
1 GAACCGGTAAAATCGGTTGG
*
3611 GAACCGGTAAAATCGG-TGT
1 GAACCGGTAAAATCGGTTGG
3630 GAACCGG
1 GAACCGG
3637 CGATTCAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.28, C:0.17, G:0.37, T:0.17
Consensus pattern (20 bp):
GAACCGGTAAAATCGGTTGG
Found at i:17068 original size:9 final size:10
Alignment explanation
Indices: 17041--17065 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17031 ACTTTTAATT
17041 ATTTTTGAAA
1 ATTTTTGAAA
17051 ATTTTTGAAA
1 ATTTTTGAAA
17061 ATTTT
1 ATTTT
17066 GAATAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (10 bp):
ATTTTTGAAA
Found at i:22680 original size:2 final size:2
Alignment explanation
Indices: 22675--22703 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22665 CTGTGTGCGA
22675 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22704 CCTGATTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29180 original size:15 final size:15
Alignment explanation
Indices: 29160--29189 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29150 GGGGATGTCC
29160 CCAAGAGTAATTTTG
1 CCAAGAGTAATTTTG
29175 CCAAGAGTAATTTTG
1 CCAAGAGTAATTTTG
29190 GTGATGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
CCAAGAGTAATTTTG
Found at i:30375 original size:25 final size:25
Alignment explanation
Indices: 30341--30389 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
30331 TCTAAAGTCA
30341 CCTGGAGGTGACCTTTTAACTGTCG
1 CCTGGAGGTGACCTTTTAACTGTCG
30366 CCTGGAGGTGACCTTTTAACTGTC
1 CCTGGAGGTGACCTTTTAACTGTC
30390 ACCAGCCGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (25 bp):
CCTGGAGGTGACCTTTTAACTGTCG
Found at i:33875 original size:26 final size:26
Alignment explanation
Indices: 33835--33884 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33825 AAATTAGTTA
33835 ATTAAATAATAATAAAATAATAAATT
1 ATTAAATAATAATAAAATAATAAATT
* * *
33861 ATTAAATGATTATAATATAATAAA
1 ATTAAATAATAATAAAATAATAAA
33885 AAAATTTAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
ATTAAATAATAATAAAATAATAAATT
Found at i:41769 original size:39 final size:36
Alignment explanation
Indices: 41576--41821 Score: 228
Period size: 39 Copynumber: 6.5 Consensus size: 36
41566 TCGCAAATGG
*
41576 TTTTTGAAAATACATATAATATATAGGTTTTTTAAAAGCA
1 TTTTTGAAAAT-TATATAATATATA-G-TTTTTAAAA-CA
* *
41616 -TTTTAAAAATGTATATAATATATAGTTTTTAAGACA
1 TTTTTGAAAAT-TATATAATATATAGTTTTTAAAACA
* * * *
41652 CTTTTGAAAACTATATAATATATAATTTTTAAAATA
1 TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
* *
41688 TTTTAGAAAAATATATAATATAT-GCTTTTTTAAAATCA
1 TTTTTGAAAATTATATAATATATAG--TTTTTAAAA-CA
41726 TTTTTTGAAAACTTATATAATATATAGTTTTTGAAAACA
1 -TTTTTGAAAA-TTATATAATATATAGTTTTT-AAAACA
*
41765 TTTTTTGAAAACTTATATATAATATATAATTTTTAAAAC-
1 -TTTTTGAAAA--T-TATATAATATATAGTTTTTAAAACA
*
41804 TCTTTTGGAAATTATATA
1 T-TTTTGAAAATTATATA
41822 GTTTTTTAAA
Statistics
Matches: 176, Mismatches: 19, Indels: 26
0.80 0.09 0.12
Matches are distributed among these distances:
36 50 0.28
37 26 0.15
38 3 0.02
39 56 0.32
40 22 0.12
41 19 0.11
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
Found at i:41841 original size:112 final size:109
Alignment explanation
Indices: 41616--41854 Score: 263
Period size: 117 Copynumber: 2.1 Consensus size: 109
41606 TTTAAAAGCA
* *
41616 TTTTAAAAATGTATATAATATATAGTTTTTAAGACACTTTTGAAAACTATATAATATATAATTTT
1 TTTTGAAAAT-TATATAATATATAGTTTTTAAAACACTTTTGAAAACTATATAATATATAATTTT
***
41681 TAAAATATTTTAGAAAAATATATAATATATGCTTTTTTAAAATCATT
65 TAAAATATTTTAGAAAAATATATAATATAT-CTTTAAAAAAATCA-T
*
41728 TTTTGAAAACTTATATAATATATAGTTTTTGAAAACATTTTTTGAAAACTTATATATAATATATA
1 TTTTGAAAA-TTATATAATATATAGTTTTT-AAAACA-CTTTTGAAAAC---TATATAATATATA
* * * *
41793 ATTTTTAAAACTCTTTT-GGAAATTATATAGT-T-T-TTTAAAAAAAT-AT
60 ATTTTTAAAA-TATTTTAGAAAAATATATAATATATCTTTAAAAAAATCAT
41839 TTTTGAAAATTATATA
1 TTTTGAAAATTATATA
41855 GTTTTTTAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
110 7 0.06
111 10 0.09
112 28 0.25
113 14 0.13
114 10 0.09
115 1 0.01
116 1 0.01
117 34 0.31
118 5 0.05
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (109 bp):
TTTTGAAAATTATATAATATATAGTTTTTAAAACACTTTTGAAAACTATATAATATATAATTTTT
AAAATATTTTAGAAAAATATATAATATATCTTTAAAAAAATCAT
Found at i:41849 original size:33 final size:32
Alignment explanation
Indices: 41806--41887 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 32
41796 TTTAAAACTC
* *
41806 TTTTGGAAATTATATAGTTTTTTAAAAAAATAT
1 TTTTGAAAATTATATAGTTTTTT-AAAAAACAT
41839 TTTTGAAAATTATATAGTTTTTTAAAAAACAT
1 TTTTGAAAATTATATAGTTTTTTAAAAAACAT
*
41871 TTTTAAAAATTTATATA
1 TTTTGAAAA-TTATATA
41888 TAATATGTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 16 0.36
33 29 0.64
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (32 bp):
TTTTGAAAATTATATAGTTTTTTAAAAAACAT
Found at i:41981 original size:16 final size:17
Alignment explanation
Indices: 41952--41983 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
41942 TTTAAAATAA
41952 TTATTTACTTATTATTG
1 TTATTTACTTATTATTG
41969 TTATTTA-TTATTATT
1 TTATTTACTTATTATT
41984 TATTACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
TTATTTACTTATTATTG
Found at i:41982 original size:10 final size:10
Alignment explanation
Indices: 41963--42021 Score: 55
Period size: 10 Copynumber: 5.5 Consensus size: 10
41953 TATTTACTTA
*
41963 TTATTGTTAT
1 TTATTATTAT
41973 TTATTATTAT
1 TTATTATTAT
41983 TTATTACTATTAT
1 TTA-T--TATTAT
41996 TTATTATTAT
1 TTATTATTAT
**
42006 TCCTTATTCAT
1 TTATTATT-AT
42017 TTATT
1 TTATT
42022 TTTCTGTCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
10 24 0.60
11 6 0.15
12 1 0.03
13 9 0.22
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATTATTAT
Found at i:42013 original size:13 final size:13
Alignment explanation
Indices: 41951--42006 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
41941 TTTTAAAATA
41951 ATTATTTACTTATT
1 ATTATTTA-TTATT
*
41965 ATT-GTTATTTATT
1 ATTATTTA-TTATT
*
41978 ATTATTTATTACT
1 ATTATTTATTATT
41991 ATTATTTATTATT
1 ATTATTTATTATT
42004 ATT
1 ATT
42007 CCTTATTCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
13 30 0.83
14 6 0.17
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:44850 original size:23 final size:22
Alignment explanation
Indices: 44801--44851 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
44791 ATTAAGTTAG
* * *
44801 TTTATTTAATTTGAGTTGATTA
1 TTTATTTAATTGGAGATAATTA
*
44823 ATTATTTAAGTTGGAGATAATTA
1 TTTATTTAA-TTGGAGATAATTA
44846 TTTATT
1 TTTATT
44852 ATACTTCTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (22 bp):
TTTATTTAATTGGAGATAATTA
Found at i:58103 original size:21 final size:21
Alignment explanation
Indices: 58077--58120 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
58067 ATTCTGGGCT
* *
58077 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
58098 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
58119 AG
1 AG
58121 CGAATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:58192 original size:23 final size:22
Alignment explanation
Indices: 58148--58192 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
58138 ATGTCATGGG
*
58148 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
* *
58170 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
58193 AAATTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:58969 original size:31 final size:31
Alignment explanation
Indices: 58885--59008 Score: 126
Period size: 31 Copynumber: 4.0 Consensus size: 31
58875 GAGTCGAGGG
* *
58885 TACCTATGTTCTAAAGAACATATGGACAGAA
1 TACCTATGTTCTAAGGAACATATGGACAGTA
***
58916 TTACCTATG-TCTTTCGAGACATATGGACAGTA
1 -TACCTATGTTCTAAGGA-ACATATGGACAGTA
58948 TACCTATGTTCTAAGGAACATATGGACAGT-
1 TACCTATGTTCTAAGGAACATATGGACAGTA
* ** *
58978 TCACCTAGGTTCTTCGGAACCTATGGACAGT
1 T-ACCTATGTTCTAAGGAACATATGGACAGT
59009 TGCCGAGGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
30 1 0.01
31 51 0.65
32 26 0.33
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:59047 original size:30 final size:30
Alignment explanation
Indices: 58996--59067 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
58986 GTTCTTCGGA
* * * *
58996 ACCTATGGACAGTTGCCGAGGATTTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
59026 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
59056 ACCTCTGGATAG
1 ACCTCTGGATAG
59068 GTCTTGCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:63346 original size:21 final size:21
Alignment explanation
Indices: 63320--63363 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
63310 ATTCTGGGCT
* *
63320 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
63341 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
63362 AG
1 AG
63364 CGAATAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:63433 original size:23 final size:22
Alignment explanation
Indices: 63389--63433 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
63379 AATGTCATGG
*
63389 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
63411 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
63434 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:64198 original size:31 final size:31
Alignment explanation
Indices: 64128--64251 Score: 135
Period size: 31 Copynumber: 4.0 Consensus size: 31
64118 GAGTCGAGGG
** *
64128 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTTTGGAACATATGGACAGTA
*
64159 TTACCTATG-TCTTTTGAGACATATGGACAGTA
1 -TACCTATGTTCTTTGGA-ACATATGGACAGTA
**
64191 TACCTATGTTCTAAGGAACATATGGACAGT-
1 TACCTATGTTCTTTGGAACATATGGACAGTA
* *
64221 TCACCTAGGTTCTTTGGAACCTATGGACAGT
1 T-ACCTATGTTCTTTGGAACATATGGACAGT
64252 TGCCGAGGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
30 1 0.01
31 51 0.65
32 26 0.33
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTTTGGAACATATGGACAGTA
Found at i:64235 original size:63 final size:61
Alignment explanation
Indices: 64128--64251 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 61
64118 GAGTCGAGGG
* * *
64128 TACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTTGAGACATATGGACAGTA
1 TACCTATGTTCTAAGGAACATATGGACAG-ATTACCTAGGTCTTTGGA-ACATATGGACAGTA
*
64191 TACCTATGTTCTAAGGAACATATGGACAG-TTCACCTAGGTTCTTTGGAACCTATGGACAGT
1 TACCTATGTTCTAAGGAACATATGGACAGATT-ACCTAGG-TCTTTGGAACATATGGACAGT
64252 TGCCGAGGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
61 2 0.04
62 18 0.33
63 35 0.64
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (61 bp):
TACCTATGTTCTAAGGAACATATGGACAGATTACCTAGGTCTTTGGAACATATGGACAGTA
Found at i:67024 original size:15 final size:15
Alignment explanation
Indices: 67000--67032 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
66990 CGTAGGACCC
*
67000 CTACATCCCGAAGGA
1 CTACAACCCGAAGGA
67015 CTACAACCCGAAGGA
1 CTACAACCCGAAGGA
67030 CTA
1 CTA
67033 TTATACCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.18, T:0.12
Consensus pattern (15 bp):
CTACAACCCGAAGGA
Found at i:67181 original size:23 final size:26
Alignment explanation
Indices: 67144--67196 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 26
67134 TTCTCTTGTG
67144 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
67168 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
67193 ATCA
1 ATCA
67197 CATGAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 11 0.41
24 8 0.30
25 8 0.30
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.40
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:67640 original size:64 final size:64
Alignment explanation
Indices: 67572--67709 Score: 190
Period size: 64 Copynumber: 2.2 Consensus size: 64
67562 TATTGCTGGG
* *
67572 ATGCATCGATGCACCAATTGCATTCGATG-TTTCATTATT-AATGGGATGCATCGATGCACTACT
1 ATGCATCGATGCACCAATTGCATTCGATGTTTTCATT-TTAAAAGAG-TGCATCGATGCACTACT
*
67635 T
64 A
** *
67636 ATGCATCGATGCATGAATTGCATTCGATGTTTTTATTTTAAAAGAGTGCATCGATGCACTACTA
1 ATGCATCGATGCACCAATTGCATTCGATGTTTTCATTTTAAAAGAGTGCATCGATGCACTACTA
67700 ATGCATCGAT
1 ATGCATCGAT
67710 ACTCCTTCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
64 56 0.85
65 10 0.15
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACCAATTGCATTCGATGTTTTCATTTTAAAAGAGTGCATCGATGCACTACTA
Found at i:70433 original size:38 final size:37
Alignment explanation
Indices: 70384--70468 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 37
70374 TCTAATTCAT
70384 ATATTCGGGTCGGGACGGGTCGGGTTTT-TTTAAGTGTG
1 ATATTCGGGTCGGG-CGGGTCGGGTTTTATTTAA-TGTG
70422 ATATTCGGGT----CGGGTCGGGTTTTATTTAATGTG
1 ATATTCGGGTCGGGCGGGTCGGGTTTTATTTAATGTG
*
70455 ATATTCGGATCGGG
1 ATATTCGGGTCGGG
70469 TTCGGGTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
33 26 0.63
34 5 0.12
38 10 0.24
ACGTcount: A:0.15, C:0.11, G:0.36, T:0.38
Consensus pattern (37 bp):
ATATTCGGGTCGGGCGGGTCGGGTTTTATTTAATGTG
Found at i:70436 original size:33 final size:33
Alignment explanation
Indices: 70393--70477 Score: 127
Period size: 33 Copynumber: 2.5 Consensus size: 33
70383 TATATTCGGG
*
70393 TCGGGACGGGTCGGGTTTT-TTTAAGTGTGATAT
1 TCGGGTCGGGTCGGGTTTTATTTAA-TGTGATAT
70426 TCGGGTCGGGTCGGGTTTTATTTAATGTGATAT
1 TCGGGTCGGGTCGGGTTTTATTTAATGTGATAT
*
70459 TCGGATCGGGTTCGGGTTT
1 TCGGGTCGGG-TCGGGTTT
70478 AGGGTGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
33 35 0.73
34 13 0.27
ACGTcount: A:0.13, C:0.11, G:0.36, T:0.40
Consensus pattern (33 bp):
TCGGGTCGGGTCGGGTTTTATTTAATGTGATAT
Found at i:70821 original size:269 final size:262
Alignment explanation
Indices: 70459--71004 Score: 837
Period size: 269 Copynumber: 2.0 Consensus size: 262
70449 AATGTGATAT
*
70459 TCGGATCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCAAAAATATATATAATTTTACC
1 TCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCAAAAATATATATAATTTTACC
70524 TTATATATTTAGGAATAATTACAATAATACCCCTATATATATATATATGGTTTTCAATTAAGTCA
66 TTATATATTTAGGAATAATTACAATAATACCCCTATATATATATAT-T--TTTTCAATTAAGTCA
70589 CTATTTTTATTAAATAAAAATAATTTTTTATTATTTCAGGTCATGTCGGGTCGGATTTCTAATTC
128 CTATTTTTATTAAATAAAAATAATTTTTT-TTATTTC-GG----GTCGGGTCGGATTTCTAATTC
70654 ATATATTCGGGTCAGGTCGGGTGAAACTTTATTTTGTTC-G-GGTCGGGCTTTTTAAGTGTGATA
187 ATATATTCGGGTCAGGTCGGGTGAAACTTTATTTTGTTCGGAGGTCGGGCTTTTTAAGTGTGATA
* *
70717 TTCGGGTTGGG
252 TTCGGGTCGAG
* *
70728 TCGGGTTCGGGTTCGGGTTTAGGGTG-AAAAAACTGGACCGACCCGAAAATATATATAATTTTAC
1 TCGGG-TCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCAAAAATATATATAATTTTAC
*
70792 CTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATATATTTTTTCAATTAAGTCACT
65 CTTATATATTTAGGAATAATTACAATAATACCCCTATATATATATATTTTTTCAATTAAGTCACT
*
70857 GTTTTTATTAAATAAAAATAATTTTTTTTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTC
130 ATTTTTATTAAATAAAAATAATTTTTTTTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTC
** * * * *
70922 GGGTTGGGTTGGTTGAAACTTTGTTTTGTTCGGGTCAGGTCGGGTTTTTTAAGTGTGATATTCGG
195 GGGTCAGGTCGGGTGAAACTTTATTTTGTTC-GG--AGGTCGGGCTTTTTAAGTGTGATATTCGG
70987 GTCGAG
257 GTCGAG
70993 TCGGGTCGGGTT
1 TCGGGTCGGGTT
71005 TTTTTAAGTG
Statistics
Matches: 258, Mismatches: 13, Indels: 17
0.90 0.05 0.06
Matches are distributed among these distances:
260 55 0.21
262 1 0.00
264 9 0.03
265 43 0.17
266 43 0.17
268 1 0.00
269 86 0.33
270 20 0.08
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (262 bp):
TCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCAAAAATATATATAATTTTACC
TTATATATTTAGGAATAATTACAATAATACCCCTATATATATATATTTTTTCAATTAAGTCACTA
TTTTTATTAAATAAAAATAATTTTTTTTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCG
GGTCAGGTCGGGTGAAACTTTATTTTGTTCGGAGGTCGGGCTTTTTAAGTGTGATATTCGGGTCG
AG
Found at i:71002 original size:37 final size:39
Alignment explanation
Indices: 70959--71037 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 39
70949 GTTCGGGTCA
70959 GGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGAG-TCG
1 GGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAGTTCG
*
70996 GGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCG
1 GGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAGTTCG
71035 GGT
1 GGT
71038 TTAGGGTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 7 0.18
38 26 0.67
39 6 0.15
ACGTcount: A:0.11, C:0.10, G:0.39, T:0.39
Consensus pattern (39 bp):
GGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAGTTCG
Found at i:73307 original size:23 final size:23
Alignment explanation
Indices: 73264--73309 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
73254 GACCACATAT
* **
73264 ATGTCCCAAAGGACCGCGTAGAA
1 ATGTCACAAAGGACCAAGTAGAA
73287 ATGTCACAAAGGACCAAGTAGAA
1 ATGTCACAAAGGACCAAGTAGAA
73310 TTATCCCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.13
Consensus pattern (23 bp):
ATGTCACAAAGGACCAAGTAGAA
Found at i:74314 original size:64 final size:64
Alignment explanation
Indices: 74240--74464 Score: 255
Period size: 64 Copynumber: 3.5 Consensus size: 64
74230 TTGAAGGTGT
* * * *
74240 ATCGATGCATAGGTAGTGCATCGATGTA-CTCTTTTAAATAGAAAACATCGAATAGGATTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCTTTTAAATAGAAAACATCGAAT-GAATTTATGC
* ** **
74304 ATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-AAAACATCGAATGTAATTCGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCTTTTAAATAGAAAACATCGAATG-AATTTATGC
*
74368 ATCGATGCATAAGTAGTGCATCGATGCATCCCGTTATT-AAT-G--AACATCGAATGCATTTTAT
1 ATCGATGCATAAGTAGTGCATCGATGCATCCC-TT-TTAAATAGAAAACATCGAATG-AATTTAT
74429 GC
63 GC
* *
74431 ATCGATGCACAAGTAGTGCATCGATGCATACCTT
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCTT
74465 CATTAAAAGA
Statistics
Matches: 138, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
62 2 0.01
63 48 0.35
64 74 0.54
65 12 0.09
66 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCTTTTAAATAGAAAACATCGAATGAATTTATGC
Found at i:75130 original size:30 final size:30
Alignment explanation
Indices: 75094--75157 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
75084 AAGGAACATA
* *
75094 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
75124 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
75154 TGGA
1 TGGA
75158 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:78744 original size:64 final size:63
Alignment explanation
Indices: 78662--78879 Score: 234
Period size: 64 Copynumber: 3.4 Consensus size: 63
78652 TTGAAGGTGT
* *
78662 ATCGATGCATAGGTAGTGCATCGATGCACTCTTTTAAATAGAAAACATCGAATAGGATTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCACTCTTTTAAATAGAAAACATCGAAT-GAATTTATGC
* ** **
78726 ATCGATGCATAA-TGAGTGCATCGATGCATCCCCATTAAATA-AAAACATCGAATGTAATTCGTG
1 ATCGATGCATAAGT-AGTGCATCGATGCA-CTCTTTTAAATAGAAAACATCGAATG-AATTTATG
78789 C
63 C
*
78790 ATCGATGCATAAGTAGTGCATCGATGCA-TCCGTTATT-AAT-G--AACATCGAATGCATTTTAT
1 ATCGATGCATAAGTAGTGCATCGATGCACT-C-TT-TTAAATAGAAAACATCGAATG-AATTTAT
78850 GC
62 GC
*
78852 ATCGATGCACAAGTAGTGCATCGATGCA
1 ATCGATGCATAAGTAGTGCATCGATGCA
78880 TACCTTCATT
Statistics
Matches: 131, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
62 44 0.34
63 3 0.02
64 72 0.55
65 12 0.09
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAAGTAGTGCATCGATGCACTCTTTTAAATAGAAAACATCGAATGAATTTATGC
Found at i:79552 original size:30 final size:30
Alignment explanation
Indices: 79516--79579 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
79506 AAGGAACATA
* *
79516 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
79546 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
79576 TGGA
1 TGGA
79580 CAGGTCATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:81513 original size:21 final size:21
Alignment explanation
Indices: 81489--81532 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
81479 CTAACTGATG
81489 ACAAGTCAAATTTAACCTCAA
1 ACAAGTCAAATTTAACCTCAA
81510 ACAAGTCAAATTTAACCTCAA
1 ACAAGTCAAATTTAACCTCAA
81531 AC
1 AC
81533 TTCCCTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.25, G:0.05, T:0.23
Consensus pattern (21 bp):
ACAAGTCAAATTTAACCTCAA
Found at i:83347 original size:23 final size:21
Alignment explanation
Indices: 83297--83368 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 21
83287 AATGTTAATA
*
83297 TAATATTTT-AATATCATT-T
1 TAATATTTTAAATATAATTAT
83316 TAATA---TAAATAGTAATTAT
1 TAATATTTTAAATA-TAATTAT
*
83335 TAATATATTTAAAATATATTTAT
1 TAATAT-TTT-AAATATAATTAT
83358 TAATATTTTAA
1 TAATATTTTAA
83369 TAATTTAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
16 1 0.02
17 4 0.09
18 4 0.09
19 11 0.26
21 2 0.05
22 3 0.07
23 13 0.30
24 5 0.12
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
TAATATTTTAAATATAATTAT
Found at i:83351 original size:30 final size:31
Alignment explanation
Indices: 83293--83383 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 31
83283 ATTTAATGTT
* *
83293 AATA-TAATATTTTAATATCATTT-TAATATA
1 AATAGTAATATATTAATAT-ATTTAAAATATA
83323 AATAGTAAT-TATTAATATATTTAAAATATA
1 AATAGTAATATATTAATATATTTAAAATATA
** * *
83353 TTTATTAATATTTTAATA-ATTTAATAATATA
1 AATAGTAATATATTAATATATTTAA-AATATA
83384 TTTTTTAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 4 0.08
30 30 0.59
31 17 0.33
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
AATAGTAATATATTAATATATTTAAAATATA
Found at i:83382 original size:31 final size:31
Alignment explanation
Indices: 83297--83395 Score: 105
Period size: 31 Copynumber: 3.2 Consensus size: 31
83287 AATGTTAATA
* ** *
83297 TAATATTTTAATATCATTT-TAATATAAATAG
1 TAATATTTTAATAT-ATTTAAAATATATTTAT
*
83328 TAAT-TATTAATATATTTAAAATATATTTAT
1 TAATATTTTAATATATTTAAAATATATTTAT
*
83358 TAATATTTTAATA-ATTTAATAATATATTTTT
1 TAATATTTTAATATATTTAA-AATATATTTAT
83389 TAATATT
1 TAATATT
83396 ATAACAATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
29 4 0.07
30 26 0.45
31 28 0.48
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (31 bp):
TAATATTTTAATATATTTAAAATATATTTAT
Found at i:83392 original size:23 final size:23
Alignment explanation
Indices: 83363--83406 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
83353 TTTATTAATA
*
83363 TTTTAATAATT-TAATAATATATT
1 TTTTAAT-ATTATAACAATATATT
83386 TTTTAATATTATAACAATATA
1 TTTTAATATTATAACAATATA
83407 AACAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTAATATTATAACAATATATT
Found at i:83472 original size:21 final size:21
Alignment explanation
Indices: 83448--83490 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
83438 TATTTTGTTT
83448 AAATAAAATAAATTA-TTAATA
1 AAAT-AAATAAATTATTTAATA
* *
83469 AAATATATATATTATTTAATA
1 AAATAAATAAATTATTTAATA
83490 A
1 A
83491 TTTCATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATAAATAAATTATTTAATA
Found at i:83545 original size:26 final size:27
Alignment explanation
Indices: 83477--83550 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 27
83467 TAAAATATAT
* * * **
83477 ATATTATTTAATAATTTCATAAAAATA
1 ATATTATTAAATTATTTAATATTAATA
83504 ATATTATTAAATTA-TTAATATTAATA
1 ATATTATTAAATTATTTAATATTAATA
*
83530 ATATTATT-TATATATTTAATA
1 ATATTATTAAAT-TATTTAATA
83551 CTACTATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.05
26 19 0.49
27 18 0.46
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTATTAAATTATTTAATATTAATA
Found at i:83628 original size:21 final size:20
Alignment explanation
Indices: 83604--83650 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
83594 ATATATTTAT
83604 TAATAATTTTCAAATATAATA
1 TAATAATTTT-AAATATAATA
* *
83625 TAAT-ATTTTTAATTTAATA
1 TAATAATTTTAAATATAATA
83644 -AATAATT
1 TAATAATT
83651 AATATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 5 0.22
21 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAATTTTAAATATAATA
Found at i:83687 original size:123 final size:122
Alignment explanation
Indices: 83467--83688 Score: 258
Period size: 123 Copynumber: 1.8 Consensus size: 122
83457 AAATTATTAA
*
83467 TAAAATATATATATTATTTAATAATTTCATAAAAATAATATTATTAAATTATTAATATTAATAAT
1 TAAAATATATATATTATTTAATAATTTCATAAAAATAATATTATTAAATTAATAATATTAATAAT
* * * *
83532 ATTATTTATATATTTAATACTACTATAATAATCTACTAATGATTTAATAAAAATACT
66 ATAATTTATATATTTAATACGAATACAATAATCTACTAATGATTTAATAAAAATACT
* * *
83589 TAAAA-ATATAT-TTA-TTAATAATTTTCAAATATAATATAATATTTTTAATTTAATAA-A-TAA
1 TAAAATATATATATTATTTAATAA-TTTC--ATA-AAAATAATATTATTAAATTAATAATATTAA
*
83649 TTAATATAATTTATAATATTTTAATA-GAATACATTAATCT
62 -TAATATAATTTAT-ATA-TTTAATACGAATACAATAATCT
83689 TAATAATTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
119 7 0.08
120 7 0.08
121 9 0.11
122 21 0.25
123 33 0.39
124 7 0.08
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (122 bp):
TAAAATATATATATTATTTAATAATTTCATAAAAATAATATTATTAAATTAATAATATTAATAAT
ATAATTTATATATTTAATACGAATACAATAATCTACTAATGATTTAATAAAAATACT
Found at i:89498 original size:29 final size:31
Alignment explanation
Indices: 89465--89535 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 31
89455 CGTTAAACAT
*
89465 ATATATTTTATTCTTATCTTAACTT-TAAA-
1 ATATATTTTATTCTTATCTTAACTTAAAAAG
* *
89494 ATATATTTTGTTCTTATTTTAACTTAAAAAG
1 ATATATTTTATTCTTATCTTAACTTAAAAAG
89525 ATATATTTTAT
1 ATATATTTTAT
89536 ATATCTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 23 0.64
30 3 0.08
31 10 0.28
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (31 bp):
ATATATTTTATTCTTATCTTAACTTAAAAAG
Found at i:89673 original size:31 final size:31
Alignment explanation
Indices: 89635--89696 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
89625 TTATCATAAC
*
89635 TTAAAAATACATTTTATTTTTATCTTAACTT
1 TTAAAAATACATCTTATTTTTATCTTAACTT
* *
89666 TTAAAAATATATCTTATTTTTATTTTAACTT
1 TTAAAAATACATCTTATTTTTATCTTAACTT
89697 ATTACATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (31 bp):
TTAAAAATACATCTTATTTTTATCTTAACTT
Found at i:89729 original size:30 final size:30
Alignment explanation
Indices: 89690--89765 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
89680 TATTTTTATT
* * * *
89690 TTAACTTATTACATATATTATATTCTTAAC
1 TTAAATTATTAAATATATTACAATCTTAAC
* *
89720 TTAAATTATTAAATATATTCCAATCTTACC
1 TTAAATTATTAAATATATTACAATCTTAAC
89750 TTAAATTATTAAATAT
1 TTAAATTATTAAATAT
89766 GATTTATCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (30 bp):
TTAAATTATTAAATATATTACAATCTTAAC
Found at i:89914 original size:29 final size:27
Alignment explanation
Indices: 89826--89914 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 27
89816 TTAACATGTA
89826 TATTTTATTTT-TTTATTTAAAAATATT
1 TATTTTATTTTATTTATTTAAAAATA-T
*
89853 TATATTAATTTTATTTTCATTTAAAAATA-
1 TAT-TTTATTTTA-TTT-ATTTAAAAATAT
*
89882 TATTTTATTTTATCTTAATTTTAAAATAT
1 TATTTTATTTTAT-TT-ATTTAAAAATAT
89911 TATT
1 TATT
89915 ATAATAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 4 0.08
28 27 0.52
29 7 0.13
30 3 0.06
31 11 0.21
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTTATTTTATTTATTTAAAAATAT
Found at i:90009 original size:29 final size:29
Alignment explanation
Indices: 89917--90079 Score: 172
Period size: 29 Copynumber: 5.6 Consensus size: 29
89907 ATATTATTAT
* *
89917 AATAAAATATAAATATTTAAGTTAAGGTAAG
1 AATAAAATAT--ATTTTTAAGTTAAGATAAG
*
89948 AAT-AAAT-TATTTTTAAAGTT-A-ATAAA
1 AATAAAATATATTTTT-AAGTTAAGATAAG
* *
89974 AATTAAAATATATTTTTATGTTAAAATAAG
1 AA-TAAAATATATTTTTAAGTTAAGATAAG
* *
90004 AATAAAAATAGATTTTAAAGTTAAGATAAG
1 AAT-AAAATATATTTTTAAGTTAAGATAAG
*
90034 AATAAAATATATTTTAAAGTTAAGATAAG
1 AATAAAATATATTTTTAAGTTAAGATAAG
90063 AATAAAATATATATTTT
1 AATAAAATATAT-TTTT
90080 TAATGTTTAG
Statistics
Matches: 113, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
26 5 0.04
27 7 0.06
28 13 0.12
29 47 0.42
30 38 0.34
31 3 0.03
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (29 bp):
AATAAAATATATTTTTAAGTTAAGATAAG
Found at i:90012 original size:30 final size:30
Alignment explanation
Indices: 89917--90079 Score: 158
Period size: 30 Copynumber: 5.5 Consensus size: 30
89907 ATATTATTAT
* **
89917 AATAAAATATAAATATTT-AAGTTAAGGTAAG
1 AATAAAA-ATATAT-TTTAAAGTTAAAATAAG
* *
89948 AAT-AAATTAT-TTTTAAAGTT--AATAAA
1 AATAAAAATATATTTTAAAGTTAAAATAAG
* * *
89974 AATTAAAATATATTTTTATGTTAAAATAAG
1 AATAAAAATATATTTTAAAGTTAAAATAAG
* *
90004 AATAAAAATAGATTTTAAAGTTAAGATAAG
1 AATAAAAATATATTTTAAAGTTAAAATAAG
*
90034 AAT-AAAATATATTTTAAAGTTAAGATAAG
1 AATAAAAATATATTTTAAAGTTAAAATAAG
90063 AATAAAATATATATTTT
1 AATAAAA-ATATATTTT
90080 TAATGTTTAG
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
26 6 0.05
27 9 0.08
28 14 0.13
29 30 0.27
30 39 0.35
31 12 0.11
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (30 bp):
AATAAAAATATATTTTAAAGTTAAAATAAG
Found at i:90045 original size:59 final size:59
Alignment explanation
Indices: 89958--90079 Score: 167
Period size: 59 Copynumber: 2.1 Consensus size: 59
89948 AATAAATTAT
* *
89958 TTTTAAAGTTAATAAAAATTAAAATATATTTTTATGTTAAAATAAGAATAAAA-ATAGA
1 TTTTAAAGTTAATAAAAATTAAAATATATTTTAAAGTTAAAATAAGAATAAAATATAGA
* * *
90016 TTTTAAAGTTAAGATAAGAA-TAAAATATATTTTAAAGTTAAGATAAGAATAAAATATATA
1 TTTTAAAGTT-A-ATAAAAATTAAAATATATTTTAAAGTTAAAATAAGAATAAAATATAGA
90076 TTTT
1 TTTT
90080 TAATGTTTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 10 0.18
59 32 0.57
60 14 0.25
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (59 bp):
TTTTAAAGTTAATAAAAATTAAAATATATTTTAAAGTTAAAATAAGAATAAAATATAGA
Found at i:95715 original size:16 final size:17
Alignment explanation
Indices: 95687--95720 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
95677 CGTATCGCCG
95687 ACAAAATTTTACTATTC
1 ACAAAATTTTACTATTC
95704 ACAAAA-TTTACTATTC
1 ACAAAATTTTACTATTC
95720 A
1 A
95721 TGTGAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (17 bp):
ACAAAATTTTACTATTC
Found at i:111680 original size:45 final size:45
Alignment explanation
Indices: 111586--111708 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
111576 TTGATATATG
* * * **
111586 TGATTACATGAAAAAGTGATATAAGATATGTGTCATTGACCTATG
1 TGATTACATGAAAATGTGATATAAGATATGTGACAATGACCTAAA
* *
111631 TGATTACATGAAAATGTGATATAAGCTATGTGACAATGAGCTAAA
1 TGATTACATGAAAATGTGATATAAGATATGTGACAATGACCTAAA
* * * * *
111676 TGATTATATGTATATGTGATACAAGTTATGTGA
1 TGATTACATGAAAATGTGATATAAGATATGTGA
111709 ATATGTAAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.34
Consensus pattern (45 bp):
TGATTACATGAAAATGTGATATAAGATATGTGACAATGACCTAAA
Found at i:111845 original size:23 final size:23
Alignment explanation
Indices: 111783--111848 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
111773 GAGTTGAGGG
* * *
111783 TTCTACGCGGTCCTTTGAGACAA
1 TTCTACGCGGTTCTTCGGGACAA
* *
111806 TTCTATGTGG-TCTTTCGGGACAA
1 TTCTACGCGGTTC-TTCGGGACAA
111829 TTCTACGCGGTTCTTCGGGA
1 TTCTACGCGGTTCTTCGGGA
111849 TATATCTATG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
22 1 0.03
23 31 0.91
24 2 0.06
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.35
Consensus pattern (23 bp):
TTCTACGCGGTTCTTCGGGACAA
Found at i:122985 original size:2 final size:2
Alignment explanation
Indices: 122974--123005 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
122964 TCATTGAAAT
122974 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123006 AAAGCAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123553 original size:16 final size:17
Alignment explanation
Indices: 123534--123568 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
123524 AAGTAATTAA
*
123534 TTATTTTATTA-TTATT
1 TTATTTTAGTATTTATT
123550 TTATTTTAGTATTTATT
1 TTATTTTAGTATTTATT
123567 TT
1 TT
123569 TTATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTATTTTAGTATTTATT
Found at i:123581 original size:19 final size:20
Alignment explanation
Indices: 123542--123583 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
123532 AATTATTTTA
*
123542 TTATTATTTTATTTTAGTAT
1 TTATTATTTTATTTGAGTAT
*
123562 TTATT-TTTTATTTGATTAT
1 TTATTATTTTATTTGAGTAT
123581 TTA
1 TTA
123584 ACAGTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTATTATTTTATTTGAGTAT
Found at i:124552 original size:2 final size:2
Alignment explanation
Indices: 124545--124581 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
124535 TCATAGAATG
*
124545 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124582 TAAATATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:129242 original size:20 final size:20
Alignment explanation
Indices: 129217--129267 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
129207 ATATATTATA
*
129217 TTTTCGAG-CTGCTCACGAAC
1 TTTTCGAGTC-GCTCACAAAC
129237 TTTTCGAGTCGCTCACAAAC
1 TTTTCGAGTCGCTCACAAAC
129257 TTTTCGAGTCG
1 TTTTCGAGTCG
129268 AATATCGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (20 bp):
TTTTCGAGTCGCTCACAAAC
Found at i:131612 original size:37 final size:36
Alignment explanation
Indices: 131541--131612 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
131531 TATATTTTTT
*
131541 ATTTTGTAAAAAAATTATATAAATATTATGAATTTA
1 ATTTTGTAAAAAAATTATATAAATATTATCAATTTA
* *
131577 ATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 ATTTTGTAAA-AAAATTATATAAATATTAT-CAATTT
131613 GTAATATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 22 0.71
37 9 0.29
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (36 bp):
ATTTTGTAAAAAAATTATATAAATATTATCAATTTA
Found at i:135406 original size:21 final size:20
Alignment explanation
Indices: 135381--135479 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
135371 AATCAGTTTC
135381 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
135402 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
135423 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
135443 ACAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
135464 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
135480 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:135508 original size:20 final size:20
Alignment explanation
Indices: 135446--135715 Score: 260
Period size: 20 Copynumber: 13.5 Consensus size: 20
135436 CGATTTTACA
* ** *
135446 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
135466 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
135486 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
135506 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
135526 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
135546 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
135566 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
135586 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * **
135606 AAATCGCAACGAGAATCTTT
1 AAATCGCAACGCGTATCCGT
*
135626 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
135646 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
135666 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
135686 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
135706 AAATCACAAC
1 AAATCGCAAC
135716 ACTGAAATTT
Statistics
Matches: 208, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 204 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:135532 original size:40 final size:40
Alignment explanation
Indices: 135485--135715 Score: 288
Period size: 40 Copynumber: 5.8 Consensus size: 40
135475 CGCGAACACA
* * *
135485 TAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCG
* * *
135525 TATATCGCAACGCGTATCCGTAAATCGCAATGCG-T-ATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAA--CGATAATCCG
* * *
135565 TATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
**
135605 TAAATCGCAACGAGAATCTTTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
135645 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
* *
135685 TAAATCGCAACGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGAGAATCCGTAAATCGCAAC
135716 ACTGAAATTT
Statistics
Matches: 179, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 173 0.97
42 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (40 bp):
TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
Found at i:136435 original size:24 final size:24
Alignment explanation
Indices: 136396--136442 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
136386 AAATTTGGTC
136396 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
136420 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
136443 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:136634 original size:12 final size:12
Alignment explanation
Indices: 136617--136641 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
136607 ATATAATCCT
136617 GAAGAAGAAAAA
1 GAAGAAGAAAAA
136629 GAAGAAGAAAAA
1 GAAGAAGAAAAA
136641 G
1 G
136642 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:139027 original size:19 final size:19
Alignment explanation
Indices: 138937--139214 Score: 346
Period size: 19 Copynumber: 15.7 Consensus size: 19
138927 GCAACGAGAG
138937 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
138955 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
138969 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
138989 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
139003 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
139022 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
139041 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
139060 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
139074 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
139093 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
139112 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
139131 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
139150 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
139169 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
139183 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
139202 AATCGCATTGCGA
1 AATCGCAATGCGA
139215 TTCTCCCGTT
Statistics
Matches: 228, Mismatches: 10, Indels: 43
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.01
14 38 0.17
15 3 0.01
16 8 0.04
17 5 0.02
18 11 0.05
19 147 0.64
20 13 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:139147 original size:109 final size:107
Alignment explanation
Indices: 138937--139214 Score: 440
Period size: 109 Copynumber: 2.6 Consensus size: 107
138927 GCAACGAGAG
* *
138937 AATCGCAATGCGAAATG-AAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAAAATCGCAATGC
*
138998 G-AGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
64 GAAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
139041 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCG-
139106 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
65 AA-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
139150 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
139215 TTCTCCCGTT
Statistics
Matches: 162, Mismatches: 5, Indels: 10
0.92 0.03 0.06
Matches are distributed among these distances:
104 33 0.20
105 22 0.14
106 3 0.02
108 2 0.01
109 102 0.63
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (107 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
AGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:139214 original size:71 final size:69
Alignment explanation
Indices: 138923--139208 Score: 397
Period size: 71 Copynumber: 4.1 Consensus size: 69
138913 CGGAAATTAC
*
138923 AATCGCAACGAGAGAATCGCAATGCGAAATG-AAATCCCAA-C--ATGAAAATCGCAATGCGGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGC-GAA
138984 ATGAA
65 ATGAA
138989 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGA
139054 AATGAA
64 AATGAA
139060 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGA
139125 AATGAA
64 AATGAA
* *
139131 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATG
1 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATG
*
139193 CGAAATTAA
61 CGAAATGAA
139202 AATCGCA
1 AATCGCA
139209 TTGCGATTCT
Statistics
Matches: 205, Mismatches: 4, Indels: 17
0.91 0.02 0.08
Matches are distributed among these distances:
66 31 0.15
67 8 0.04
69 1 0.00
71 114 0.56
72 17 0.08
73 2 0.01
74 2 0.01
75 1 0.00
76 29 0.14
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (69 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAAA
TGAA
Found at i:139262 original size:53 final size:50
Alignment explanation
Indices: 139204--139318 Score: 194
Period size: 53 Copynumber: 2.2 Consensus size: 50
139194 GAAATTAAAA
139204 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGA-TTTCATTT-CGCATTGCGA-TTTCATT
*
139257 TCGCATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCGATTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTCATTTCGCATTGCGATTTCATT
139307 TCGCATTGCGAT
1 TCGCATTGCGAT
139319 AGTCATTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
50 19 0.31
51 10 0.16
52 8 0.13
53 24 0.39
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (50 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTCATTTCGCATTGCGATTTCATT
Found at i:139326 original size:19 final size:18
Alignment explanation
Indices: 139223--139318 Score: 128
Period size: 18 Copynumber: 5.4 Consensus size: 18
139213 GATTCTCCCG
139223 TTGCGATTTTCATTTCCGCA
1 TTGCGA-TTTCATTT-CGCA
139243 TTGCGATTTTCATTTCGCA
1 TTGCGA-TTTCATTTCGCA
*
139262 TTGCGA-TTC-TCTCG--
1 TTGCGATTTCATTTCGCA
139276 TTGCGATTTCATTTCGCA
1 TTGCGATTTCATTTCGCA
139294 TTGCGATTTCATTTCGCA
1 TTGCGATTTCATTTCGCA
139312 TTGCGAT
1 TTGCGAT
139319 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.09
15 3 0.04
16 8 0.11
17 3 0.04
18 25 0.36
19 10 0.14
20 15 0.21
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (18 bp):
TTGCGATTTCATTTCGCA
Found at i:139443 original size:14 final size:14
Alignment explanation
Indices: 139424--139460 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
139414 CATCAATTAC
139424 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
139438 ACAAATCATCTTTT
1 ACAAATCAACTTTT
139452 ACAAATCAA
1 ACAAATCAA
139461 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:141457 original size:14 final size:14
Alignment explanation
Indices: 141438--141494 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
141428 GCGAAATGAA
*
141438 AATCGCAACGACAG
1 AATCGCAACGAAAG
141452 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
141469 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
141485 AATCGCAACG
1 AATCGCAACG
141495 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:141465 original size:33 final size:33
Alignment explanation
Indices: 141419--141511 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
141409 GCGAAACCAA
*
141419 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
141452 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
141485 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
141512 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:141476 original size:19 final size:19
Alignment explanation
Indices: 141382--141516 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
141372 TAGTTTACTT
* *
141382 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
141402 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
141421 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
141440 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
141454 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
141473 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
141487 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
141506 TCGCAATGCGA
1 TCGCAACGCGA
141517 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:141534 original size:19 final size:19
Alignment explanation
Indices: 141512--141640 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
141502 AAAATCGCAA
141512 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
141531 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
141545 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
141564 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
141578 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
** *
141597 TATGATCTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
141616 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
141636 TGCGA
1 TGCGA
141641 AAGTAAACTA
Statistics
Matches: 84, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
14 22 0.26
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 42 0.50
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:141554 original size:33 final size:33
Alignment explanation
Indices: 141512--141606 Score: 138
Period size: 33 Copynumber: 2.9 Consensus size: 33
141502 AAAATCGCAA
141512 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
141545 TGCGATTTTGGTTTCGCGTTGCGAT-TCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATCT-TGTCGT
** **
141578 TGCGATTTTCATTTCGCGTTATGATCTTG
1 TGCGATTTTGGTTTCGCGTTGCGATCTTG
141607 GTTTCGCGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.02
33 54 0.96
34 1 0.02
ACGTcount: A:0.08, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
Found at i:141824 original size:91 final size:93
Alignment explanation
Indices: 141688--141966 Score: 514
Period size: 91 Copynumber: 3.1 Consensus size: 93
141678 ATGGATTGCA
141688 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
141752 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
141780 TTACTTTCAACCAAAAGAC-AAAC-AAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
141843 TAGCAGAATTGGCAGCAACCGAAC-AAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
141870 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAG-T
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
141934 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
141962 TTACT
1 TTACT
141967 AAGCAATCTA
Statistics
Matches: 182, Mismatches: 1, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
90 22 0.12
91 92 0.51
92 54 0.30
93 14 0.08
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:143690 original size:14 final size:14
Alignment explanation
Indices: 143671--143760 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
143661 TTGAAATGAA
143671 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
143685 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
143704 AATCGTAACGAGAG
1 AATCGCAACGAGAG
* *
143718 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-GAG
143737 AATCGCAACGAGAG
1 AATCGCAACGAGAG
143751 AATCGCAACG
1 AATCGCAACG
143761 CGAAATAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
14 28 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 18 0.31
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:143703 original size:33 final size:33
Alignment explanation
Indices: 143663--143777 Score: 194
Period size: 33 Copynumber: 3.5 Consensus size: 33
143653 TCTTTTGGTT
143663 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
143696 GAAATGAAAATCGTAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
143729 GAAACCAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
143762 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
143778 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.48, C:0.21, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:143813 original size:14 final size:14
Alignment explanation
Indices: 143794--143850 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
143784 TTTGGTTTCG
143794 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
143808 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
143827 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
143841 CGTTGCGATT
1 CGTTGCGATT
143851 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:143826 original size:33 final size:33
Alignment explanation
Indices: 143778--143858 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
143768 AAAATCGCAA
**
143778 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
143811 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
143844 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
143859 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:143861 original size:21 final size:21
Alignment explanation
Indices: 143835--143910 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
143825 CGCGTTGCGA
143835 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
143856 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
143876 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
143897 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
143911 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:143891 original size:41 final size:41
Alignment explanation
Indices: 143834--143911 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
143824 TCGCGTTGCG
*
143834 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
143875 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
143912 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:144032 original size:33 final size:33
Alignment explanation
Indices: 143990--144060 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
143980 AATACTAACT
*
143990 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
144023 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
144056 TGAAA
1 TGAAA
144061 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:144476 original size:41 final size:41
Alignment explanation
Indices: 144421--144534 Score: 158
Period size: 40 Copynumber: 2.8 Consensus size: 41
144411 TTTAAATATC
144421 GCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTA
1 GCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTA
* * *
144462 TCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGTTC
1 GCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTA
* ** *
144502 GCGTTGCGATTTTCATATTCGCGTTGCGATTTT
1 GCGTTGCGATTTACGGATACGCGTTGCGATTTT
144535 GGAAAATCGC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 33 0.52
41 31 0.48
ACGTcount: A:0.16, C:0.17, G:0.26, T:0.41
Consensus pattern (41 bp):
GCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTA
Found at i:144534 original size:20 final size:20
Alignment explanation
Indices: 144419--144534 Score: 108
Period size: 20 Copynumber: 5.8 Consensus size: 20
144409 GCTTTAAATA
* *
144419 TCGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTTCGTAT
* *
144439 ACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTT-CGTAT
** * *
144460 TATCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTTCGTAT
* *
144480 ACGCGTTGCGATTTAT-GTGT
1 TCGCGTTGCGATTT-TCGTAT
*
144500 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCGTAT
144520 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
144535 GGAAAATCGC
Statistics
Matches: 74, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
19 1 0.01
20 59 0.80
21 14 0.19
ACGTcount: A:0.16, C:0.17, G:0.26, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCGTAT
Found at i:144550 original size:21 final size:21
Alignment explanation
Indices: 144520--144602 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
144510 ATTTTCATAT
*
144520 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
144541 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
144562 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
144583 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
144603 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:144593 original size:42 final size:43
Alignment explanation
Indices: 144500--144598 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
144490 ATTTATGTGT
* *
144500 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
144541 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
144583 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
144599 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:147687 original size:15 final size:15
Alignment explanation
Indices: 147667--147698 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
147657 GGAGGATAAC
*
147667 TTTAATTTAATTTAT
1 TTTAATTTAATATAT
147682 TTTAATTTAATATAT
1 TTTAATTTAATATAT
147697 TT
1 TT
147699 ATTTTCAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAATTTAATATAT
Found at i:149267 original size:12 final size:12
Alignment explanation
Indices: 149250--149274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
149240 ACAAAGCATC
149250 ATTTGGTGCCTA
1 ATTTGGTGCCTA
149262 ATTTGGTGCCTA
1 ATTTGGTGCCTA
149274 A
1 A
149275 CATTATTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:157437 original size:17 final size:18
Alignment explanation
Indices: 157415--157452 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
157405 TTAATTATTT
*
157415 TTTATTTGTTTAT-AATA
1 TTTATTTATTTATAAATA
*
157432 TTTATTTATTTTTAAATA
1 TTTATTTATTTATAAATA
157450 TTT
1 TTT
157453 TAGATGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTATTTATTTATAAATA
Found at i:157451 original size:18 final size:19
Alignment explanation
Indices: 157404--157453 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
157394 ATTTCATAAA
*
157404 TTTAATTATTTTTTATTTG
1 TTTAAATATTTTTTATTTG
157423 TTTATAATATTTATTTA-TT-
1 TTTA-AATATTT-TTTATTTG
157442 TTTAAATATTTT
1 TTTAAATATTTT
157454 AGATGGAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 7 0.25
19 8 0.29
20 8 0.29
21 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTAAATATTTTTTATTTG
Found at i:158772 original size:20 final size:20
Alignment explanation
Indices: 158726--158765 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
158716 GAGTTTGGTC
158726 TAATTTTTTTTTTAAATTTTA
1 TAATTTTTTTTTT-AATTTTA
158747 TAATTTTTATTTTT-ATTTT
1 TAATTTTT-TTTTTAATTTT
158766 GAAATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (20 bp):
TAATTTTTTTTTTAATTTTA
Found at i:162679 original size:2 final size:2
Alignment explanation
Indices: 162672--162704 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
162662 TGAGAAGTGA
162672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
162705 ATTCTCCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:163140 original size:39 final size:39
Alignment explanation
Indices: 163097--163179 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
163087 GCTAAACATA
* *
163097 AAGACTCCACGACTATATGGAGTCTTCAGGCAAACCAAG
1 AAGACTCCACGACTACACGGAGTCTTCAGGCAAACCAAG
* * **
163136 AAGACTCCATGACTACACGGTGTCTTCAGGCAAATGAAG
1 AAGACTCCACGACTACACGGAGTCTTCAGGCAAACCAAG
163175 AAGAC
1 AAGAC
163180 ACGAGAGTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (39 bp):
AAGACTCCACGACTACACGGAGTCTTCAGGCAAACCAAG
Found at i:165636 original size:31 final size:31
Alignment explanation
Indices: 165555--165643 Score: 133
Period size: 31 Copynumber: 2.9 Consensus size: 31
165545 GAGTCGAGGG
**
165555 TTACCTATGTTCTTCGAAACATATGGATTGA
1 TTACCTATGTTCTTCGGGACATATGGATTGA
165586 TTACCTATGTTCTTCGGGACATATGGATTGA
1 TTACCTATGTTCTTCGGGACATATGGATTGA
* * *
165617 TTACCTAGGTTCTTTGGGACCTATGGA
1 TTACCTATGTTCTTCGGGACATATGGA
165644 CTGGTCCTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGATTGA
Found at i:166024 original size:20 final size:20
Alignment explanation
Indices: 165996--166061 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
165986 TTCATTATTG
*
165996 TTCACACAGTATCGATACTA
1 TTCATACAGTATCGATACTA
166016 TTCATACAGTATCGATACTA
1 TTCATACAGTATCGATACTA
*
166036 TTCATACAGTATCGGTACTA
1 TTCATACAGTATCGATACTA
166056 TTCATA
1 TTCATA
166062 TAGTGCAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
TTCATACAGTATCGATACTA
Found at i:166074 original size:19 final size:20
Alignment explanation
Indices: 166011--166080 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
166001 ACAGTATCGA
*
166011 TACTATTCATACAGTATC-G
1 TACTATTCATACAGTAGCAG
* *
166030 ATACTATTCATACAGTATCGG
1 -TACTATTCATACAGTAGCAG
*
166051 TACTATTCATATAGT-GCAG
1 TACTATTCATACAGTAGCAG
166070 TACTATTCATA
1 TACTATTCATA
166081 AAATATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.28
20 32 0.70
21 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
TACTATTCATACAGTAGCAG
Found at i:168056 original size:2 final size:2
Alignment explanation
Indices: 168049--168084 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
168039 TGATAATTTA
168049 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
168085 TTCTAAGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:169987 original size:55 final size:55
Alignment explanation
Indices: 169834--170292 Score: 634
Period size: 55 Copynumber: 8.4 Consensus size: 55
169824 TTTATAAAGA
* * * *
169834 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTTCGTGG-GT
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATT
* *
169888 TGCACACATAGTGCTTGTACGGTTATTCATCAACTCATTATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * * * *
169943 TGTACATATAGTGCCTCTATGGTTATTCATCAACTTATGGTGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
169998 TGCAAACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * *
170053 TGCACATATAGTGCCTGTACGATTATTTATCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
170108 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * *
170163 TGCACACATAGTACCTGTACGGTTATTCATTAACTCATGATAAATTTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
170218 TGCACACATAATGCCTGTATGGTTATTCATCAACACATGATGAATTTCGTCGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
170273 TGCACACATAGTGCCTGTAC
1 TGCACACATAGTGCCTGTAC
170293 ACTATTGCAA
Statistics
Matches: 354, Mismatches: 49, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
54 44 0.12
55 310 0.88
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:170650 original size:19 final size:19
Alignment explanation
Indices: 170623--170663 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
170613 GTATCGATAC
*
170623 TACTATATTATGGTACCGA
1 TACTATATTACGGTACCGA
* *
170642 TACTCTATTACGGTATCGA
1 TACTATATTACGGTACCGA
170661 TAC
1 TAC
170664 CATTTTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (19 bp):
TACTATATTACGGTACCGA
Found at i:187210 original size:20 final size:20
Alignment explanation
Indices: 187185--187225 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
187175 TTTGCACTAC
187185 TCTTGCTCATCTTTATTCCT
1 TCTTGCTCATCTTTATTCCT
187205 TCTTGCTCATCTTTATTCCT
1 TCTTGCTCATCTTTATTCCT
187225 T
1 T
187226 TGTATATCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.29, G:0.05, T:0.56
Consensus pattern (20 bp):
TCTTGCTCATCTTTATTCCT
Done.