Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 154 of 182
Found at i:47536889 original size:29 final size:29
Alignment explanation
Indices: 47536796--47537164 Score: 138
Period size: 29 Copynumber: 12.7 Consensus size: 29
47536786 ACATCAAAAC
* *
47536796 TTCCAAAAATTATCATTTTACCCCCGAACC
1 TTCCAAAAATTACCATTTTA-CCCCGAACT
*
47536826 TTCC-AAAATT-CCATTTTTGACCGCG-A-T
1 TTCCAAAAATTACCA-TTTT-ACCCCGAACT
*
47536853 TTCACCAAAAATTACCATTTTACCTCGAACT
1 TT--CCAAAAATTACCATTTTACCCCGAACT
47536884 TTCC--AAATT-CCATTTTAACCCC-AA-T
1 TTCCAAAAATTACCATTTT-ACCCCGAACT
*
47536909 TTCACCCAAAATTACCATTTTACCCCGAACT
1 TT--CCAAAAATTACCATTTTACCCCGAACT
* * *
47536940 TTCC--AAATT-TCATTTTCAACCCTAA-T
1 TTCCAAAAATTACCATTTT-ACCCCGAACT
* ** *
47536966 TTCACCAAAATTACCATTTTACCCTTAAATT
1 TTC-CAAAAATTACCATTTTACCC-CGAACT
* ** * *
47536997 TTCC-AAAATT-TCATTTTTAATCCTAATT
1 TTCCAAAAATTACCA-TTTTACCCCGAACT
47537025 TTAGCCAAAAATTACCATTTTACCCCCGAAC-
1 TT--CCAAAAATTACCATTTTA-CCCCGAACT
* *
47537056 CTCCCAAAA-T-CTCATTTTTAACCCCG-A-T
1 TTCCAAAAATTAC-CA-TTTT-ACCCCGAACT
47537084 TTCACCCAAAAATTACCATTTTACCCACGAACCT
1 TT---CCAAAAATTACCATTTTACCC-CGAA-CT
* *
47537118 TT-C-AAAA-TCCCATTTTTTAACCCCGAATT
1 TTCCAAAAATTACCA--TTTT-ACCCCGAACT
*
47537147 TTCCTAAAATTA-CATTTT
1 TTCCAAAAATTACCATTTT
47537165 TTCCCCTAGA
Statistics
Matches: 262, Mismatches: 29, Indels: 97
0.68 0.07 0.25
Matches are distributed among these distances:
25 3 0.01
26 19 0.07
27 26 0.10
28 20 0.08
29 81 0.31
30 51 0.19
31 47 0.18
32 11 0.04
33 1 0.00
34 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
TTCCAAAAATTACCATTTTACCCCGAACT
Found at i:47537124 original size:60 final size:57
Alignment explanation
Indices: 47536798--47537164 Score: 350
Period size: 60 Copynumber: 6.3 Consensus size: 57
47536788 ATCAAAACTT
* * * * *
47536798 CCAAAAATTATCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCGCGATTTCA
1 CCAAAAATTACCATTTTA-CCCCGAACCTTTCAAAATT-CATTTTTAACCCCAATTTCA
* *
47536857 CCAAAAATTACCATTTTACCTCGAA-CTTTCCAAATTCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCGAACCTTTCAAAATT-CATTTTTAACCCCAATTTCA
* * * *
47536913 CCCAAAATTACCATTTTACCCCGAA-CTTTCCAAATTTCATTTTCAACCCTAATTTCA
1 CCAAAAATTACCATTTTACCCCGAACCTTT-CAAAATTCATTTTTAACCCCAATTTCA
** ** * * *
47536970 CC-AAAATTACCATTTTACCCTTAAATTTTCCAAAATTTCATTTTTAATCCTAATTTTA
1 CCAAAAATTACCATTTTACCCCGAACCTTT-CAAAA-TTCATTTTTAACCCCAATTTCA
** *
47537028 GCCAAAAATTACCATTTTACCCCCGAACCTCCCAAAATCTCATTTTTAACCCCGATTTCA
1 -CCAAAAATTACCATTTTA-CCCCGAACCTTTCAAAAT-TCATTTTTAACCCCAATTTCA
* *
47537088 CCCAAAAATTACCATTTTACCCACGAACCTTTCAAAATCCCATTTTTTAACCCCGAATTT-T
1 -CCAAAAATTACCATTTTACCC-CGAACCTTTCAAAAT-TCA-TTTTTAACCCC-AATTTCA
*
47537149 CCTAAAATTA-CATTTT
1 CCAAAAATTACCATTTT
47537165 TTCCCCTAGA
Statistics
Matches: 260, Mismatches: 37, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
56 63 0.24
57 42 0.16
58 25 0.10
59 29 0.11
60 80 0.31
61 17 0.07
62 4 0.02
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (57 bp):
CCAAAAATTACCATTTTACCCCGAACCTTTCAAAATTCATTTTTAACCCCAATTTCA
Found at i:47539758 original size:102 final size:102
Alignment explanation
Indices: 47539582--47539777 Score: 383
Period size: 102 Copynumber: 1.9 Consensus size: 102
47539572 ATTTTCAATT
*
47539582 TGATAAAACAAATTGGCTATCCCAATTCCCAACAGCTTATTGTCTCCTGTCTGCTGCACCTGAGC
1 TGATAAAACAAATTGGCTATCCCAATTCCCAACAGCTTATTGTCTCCTGTCTGCTGAACCTGAGC
47539647 CCATGGTTTCATTTTCCTTGGAAAGAACCTGAGCCCA
66 CCATGGTTTCATTTTCCTTGGAAAGAACCTGAGCCCA
47539684 TGATAAAACAAATTGGCTATCCCAATTCCCAACAGCTTATTGTCTCCTGTCTGCTGAACCTGAGC
1 TGATAAAACAAATTGGCTATCCCAATTCCCAACAGCTTATTGTCTCCTGTCTGCTGAACCTGAGC
47539749 CCATGGTTTCATTTTCCTTGGAAAGAACC
66 CCATGGTTTCATTTTCCTTGGAAAGAACC
47539778 GGTCGCTGCT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (102 bp):
TGATAAAACAAATTGGCTATCCCAATTCCCAACAGCTTATTGTCTCCTGTCTGCTGAACCTGAGC
CCATGGTTTCATTTTCCTTGGAAAGAACCTGAGCCCA
Found at i:47540856 original size:20 final size:21
Alignment explanation
Indices: 47540815--47540862 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
47540805 CAATGATATA
*
47540815 AAATAAATTTTAAATATGATT
1 AAATAAATTTTAAATATCATT
**
47540836 -AATAAATTTTATTTATCATT
1 AAATAAATTTTAAATATCATT
47540856 AAATAAA
1 AAATAAA
47540863 CTTAAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATAAATTTTAAATATCATT
Found at i:47543112 original size:34 final size:34
Alignment explanation
Indices: 47543074--47543142 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
47543064 GACATAACTA
*
47543074 ATTGAGATATCTCATTATATTCAGAATTTCAGGT
1 ATTGAGATATCTCATTATATTCAGAACTTCAGGT
47543108 ATTGAGATATCTCATTATATTCAGAACTTCAGGT
1 ATTGAGATATCTCATTATATTCAGAACTTCAGGT
47543142 A
1 A
47543143 CCTGAACCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (34 bp):
ATTGAGATATCTCATTATATTCAGAACTTCAGGT
Found at i:47545367 original size:17 final size:17
Alignment explanation
Indices: 47545328--47545402 Score: 89
Period size: 17 Copynumber: 4.4 Consensus size: 17
47545318 TAAAATGATT
47545328 TTTAAATTTATTTCTAAA
1 TTTAAATTTATTT-TAAA
*
47545346 ATTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
47545363 TTTAAATTTAGTTTAAA
1 TTTAAATTTATTTTAAA
*
47545380 TTTGAAA-TAATTTTAAA
1 TTT-AAATTTATTTTAAA
*
47545397 ATTAAA
1 TTTAAA
47545403 ATTAAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.06
17 32 0.64
18 15 0.30
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:47547253 original size:29 final size:29
Alignment explanation
Indices: 47547221--47547463 Score: 118
Period size: 29 Copynumber: 8.4 Consensus size: 29
47547211 AACTATTTAG
*
47547221 AAATTACATTTTAACCCTGAAAC-TTCCAA
1 AAATTACATTTTAACCCTCAAACTTTCC-A
47547250 AAATTACCATTTT-ACCCTCAAACTTTCCA
1 AAATTA-CATTTTAACCCTCAAACTTTCCA
* *
47547279 AAATTCCATTTTTAACCCT---A-TTTCATAA
1 AAATTACA-TTTTAACCCTCAAACTTTC--CA
* *
47547307 AAATTACCATTTT-ACCCCCGAACTTTCCA
1 AAATTA-CATTTTAACCCTCAAACTTTCCA
* * * *
47547336 AAATTCCATTTTTA-TCTC-GA-TTTCATCA
1 AAATTACATTTTAACCCTCAAACTTTC--CA
*
47547364 AAATTACCATTTT-ACCCTCGAACTTTCCA
1 AAATTA-CATTTTAACCCTCAAACTTTCCA
* * *
47547393 AAATTCCATTTTTGA-CCTC-GA-TTTCACTAA
1 AAATTACA-TTTTAACCCTCAAACTTTC-C--A
* * *
47547423 AAATTACCTTTTTACCCTTAAACTTTCCA
1 AAATTACATTTTAACCCTCAAACTTTCCA
*
47547452 AAATTTCATTTT
1 AAATTACATTTT
47547464 CGACCTCGAT
Statistics
Matches: 166, Mismatches: 22, Indels: 52
0.69 0.09 0.22
Matches are distributed among these distances:
26 8 0.05
27 10 0.06
28 32 0.19
29 74 0.45
30 28 0.17
31 10 0.06
32 4 0.02
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (29 bp):
AAATTACATTTTAACCCTCAAACTTTCCA
Found at i:47547448 original size:59 final size:58
Alignment explanation
Indices: 47547248--47547497 Score: 360
Period size: 57 Copynumber: 4.3 Consensus size: 58
47547238 TGAAACTTCC
* *
47547248 AAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACC-CTATTTCAT
1 AAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCAT
* * *
47547305 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTT-ATCTCGATTTCAT
1 AAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCAT
* *
47547362 CAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCGATTTCACT
1 AAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA-T
* * * * *
47547421 AAAAATTACCTTTTTACCCTTAAACTTTCCAAAATTTCATTTTCGACCTCGATTTCACC
1 AAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA-T
47547480 AAAAATTACCATTTTACC
1 AAAAATTACCATTTTACC
47547498 GCCGTGAGTC
Statistics
Matches: 175, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
56 2 0.01
57 92 0.53
58 11 0.06
59 70 0.40
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCAT
Found at i:47555247 original size:25 final size:25
Alignment explanation
Indices: 47555219--47555267 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
47555209 TTTCAATTCC
* * *
47555219 AAATAAATTATTTTTTAACACATAA
1 AAATAAATCATTCTTGAACACATAA
47555244 AAATAAATCATTCTTGAACACATA
1 AAATAAATCATTCTTGAACACATA
47555268 CACCCATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (25 bp):
AAATAAATCATTCTTGAACACATAA
Found at i:47559608 original size:38 final size:38
Alignment explanation
Indices: 47559557--47560231 Score: 353
Period size: 38 Copynumber: 17.6 Consensus size: 38
47559547 CCTATCCTCT
47559557 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
1 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
* * ** *
47559595 TGAAATTGAAGTAAGAGC--AAGATC-TTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC
*
47559631 TTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
* * ** *
47559670 TGAAATTGAAGTAAGAGC--AAGATCATTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC
*
47559707 TTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
* * ** *
47559746 TG-AATTGAAGTAAGAGC--AAGATCATTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC
* *
47559782 TTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
* *** *
47559820 TGAAATTGAAGTAAGAGC--GAGATCTTTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC
47559857 TTGAAATTGAAGTAAAGCTGGATATCAAGTCTTGTATCTC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTCTT-TATCTC
* * *** *
47559897 TGAAATTGAAGTAAGAGC--AAGATCTTTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC
47559934 TTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
* * ** *
47559973 TGAAATTGAAGTAAGAGC--AAGATCATTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC
* * *
47560010 TTGAAATTTGAAGTAAAGTTGGATAAC-AGTCTGTATCTC
1 -TGAAA-TTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
* ** * * *
47560049 TGAAA-TGAAGAATAAGAAGTAAGAGCAAGATCATTTCCTATCCTC
1 TGAAATTGAAGTA-AAGCTG-GATATCAAG-TC--TT--TAT-CTC
*
47560094 TTG-AATTGAAGTAAAGCTGGATATCAAGTCTGTATCTC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
* * *** *
47560132 TGAAATTGAAGTAAGAGC--AAGATCTTTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC
* * *
47560169 TTAAATTGAAATAAAGCTGGATA-AAAGTCTTTATCTCTC
1 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTA--TCTC
*
47560208 TGAAATTGAAGTAAGAGCTAGATA
1 TGAAATTGAAGTAA-AGCTGGATA
47560232 AAGCATTAAA
Statistics
Matches: 476, Mismatches: 100, Indels: 120
0.68 0.14 0.17
Matches are distributed among these distances:
35 6 0.01
36 42 0.09
37 116 0.24
38 153 0.32
39 94 0.20
40 32 0.07
41 4 0.01
42 1 0.00
43 2 0.00
44 9 0.02
45 9 0.02
46 8 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (38 bp):
TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
Found at i:47559733 original size:76 final size:76
Alignment explanation
Indices: 47559537--47560319 Score: 1121
Period size: 75 Copynumber: 10.1 Consensus size: 76
47559527 TGATCAATCA
47559537 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATT
1 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATT
47559602 GAAGTAAGAGC
66 GAAGTAAGAGC
*
47559613 AAGATC-TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATT
1 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATT
47559677 GAAGTAAGAGC
66 GAAGTAAGAGC
*
47559688 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTCTG-AATT
1 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATT
47559752 GAAGTAAGAGC
66 GAAGTAAGAGC
* *
47559763 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAATT
1 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATT
47559827 GAAGTAAGAGC
66 GAAGTAAGAGC
* *
47559838 GAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTGTATCTCTGAAAT
1 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTT-TATCTCTGAAAT
47559903 TGAAGTAAGAGC
65 TGAAGTAAGAGC
*
47559915 AAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATT
1 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATT
47559980 GAAGTAAGAGC
66 GAAGTAAGAGC
* * *
47559991 AAGATCATTTCCTATCCTCTTGAAATTTGAAGTAAAGTTGGATAAC-AGTCTGTATCTCTGAAAT
1 AAGATCATTTCCTATCCTCTTGAAA-TTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
47560055 GAAGAATAAGAAGTAAGAGC
65 ------T--GAAGTAAGAGC
*
47560075 AAGATCATTTCCTATCCTCTTG-AATTGAAGTAAAGCTGGATATCAAGTCTGTATCTCTGAAATT
1 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATT
47560139 GAAGTAAGAGC
66 GAAGTAAGAGC
* * *
47560150 AAGATCTTTTCCTATCCTCTT-AAATTGAAATAAAGCTGGATA-AAAGTCTTTATCTCTCTGAAA
1 AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTA--TCTCTGAAA
47560213 TTGAAGTAAGAGC
64 TTGAAGTAAGAGC
* * * * *
47560226 TAGATAAAGCATTAAATTATTTCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAATTCTTTA
1 ------AAG-A-T-CA-T-TTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTA
47560291 TCTCTCTGAAATTGAAGTAAGAGC
55 --TCTCTGAAATTGAAGTAAGAGC
47560315 AAGAT
1 AAGAT
47560320 GATGAAGCCT
Statistics
Matches: 649, Mismatches: 28, Indels: 55
0.89 0.04 0.08
Matches are distributed among these distances:
74 29 0.04
75 222 0.34
76 158 0.24
77 94 0.14
81 1 0.00
82 23 0.04
83 24 0.04
84 34 0.05
86 1 0.00
87 12 0.02
88 19 0.03
89 32 0.05
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (76 bp):
AAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATT
GAAGTAAGAGC
Found at i:47560581 original size:29 final size:29
Alignment explanation
Indices: 47560549--47560620 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
47560539 ATTTTGGGTC
**
47560549 AATTTTAATTTAAGTTTAAAATTA-TTTTA
1 AATTTTAATTTAAAATT-AAATTACTTTTA
*
47560578 AA-TTTATTTTTAAAATTAAATTACTTTTA
1 AATTTTA-ATTTAAAATTAAATTACTTTTA
*
47560607 AATTTAAATTTAAA
1 AATTTTAATTTAAA
47560621 TTCATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
28 10 0.29
29 22 0.63
30 3 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
AATTTTAATTTAAAATTAAATTACTTTTA
Found at i:47560583 original size:6 final size:6
Alignment explanation
Indices: 47560549--47560622 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
47560539 ATTTTGGGTC
* * * * ** *
47560549 AATTTT AATTTA AGTTTA AAATT- ATTTTA AATTTA TTTTTA AAATTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
**
47560596 AA-TTA CTTTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATT
47560623 CATTTTTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
5 6 0.12
6 44 0.88
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
AATTTA
Found at i:47560589 original size:23 final size:22
Alignment explanation
Indices: 47560550--47560595 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
47560540 TTTTGGGTCA
47560550 ATTTTAATTTAAGTTTAAAATT
1 ATTTTAATTTAAGTTTAAAATT
**
47560572 ATTTTAAATTTATTTTTAAAATT
1 ATTTT-AATTTAAGTTTAAAATT
47560595 A
1 A
47560596 AATTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTAATTTAAGTTTAAAATT
Found at i:47560607 original size:17 final size:17
Alignment explanation
Indices: 47560575--47560616 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
47560565 TAAAATTATT
*
47560575 TTAAATTTATTTTTAAAA
1 TTAAA-TTACTTTTAAAA
*
47560593 TTAAATTACTTTTAAAT
1 TTAAATTACTTTTAAAA
47560610 TTAAATT
1 TTAAATT
47560617 TAAATTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAAATTACTTTTAAAA
Found at i:47560622 original size:41 final size:42
Alignment explanation
Indices: 47560574--47560657 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 42
47560564 TTAAAATTAT
* *
47560574 TTTAAATTTATTTTTAAAATTAAA-TTACTTTTAAATTT-AAA
1 TTTAAATTCATTTTTAAAATTAAATTTA-GTTTAAATTTGAAA
**
47560615 TTTAAATTCATTTTTTTAATTAAATTTAGTTTAAATTTGAAA
1 TTTAAATTCATTTTTAAAATTAAATTTAGTTTAAATTTGAAA
47560657 T
1 T
47560658 AATTTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 30 0.81
42 7 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (42 bp):
TTTAAATTCATTTTTAAAATTAAATTTAGTTTAAATTTGAAA
Found at i:47562537 original size:30 final size:30
Alignment explanation
Indices: 47562497--47562688 Score: 102
Period size: 30 Copynumber: 6.4 Consensus size: 30
47562487 AACTGTTTAG
* *
47562497 AAATTA-CATTTTGACCTCAAAAC-TTCCAA
1 AAATTACCATTTTAACCCCAAAACTTTCC-A
*
47562526 AAATTACCATTTTAACCCCCAAACTTTCCA
1 AAATTACCATTTTAACCCCAAAACTTTCCA
* * *
47562556 AAATT-CCATTTTTTACTCC--GA-TTTCCACCAA
1 AAATTACCA-TTTTAACCCCAAAACTTT---CC-A
* *
47562587 AAATTACCATTTT-ACCCTCTAAACTTTCTA
1 AAATTACCATTTTAACCC-CAAAACTTTCCA
47562617 AAATT-CCATTTTTAACCCC--AA-TTTCACCAA
1 AAATTACCA-TTTTAACCCCAAAACTTT--CC-A
* * *
47562647 AAATTGCCATTTTTACCCCTAAACTTTCCA
1 AAATTACCATTTTAACCCCAAAACTTTCCA
47562677 AAATT-CCATTTT
1 AAATTACCATTTT
47562689 TGACCCTAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 42
0.71 0.06 0.23
Matches are distributed among these distances:
27 6 0.05
28 3 0.02
29 20 0.15
30 65 0.50
31 25 0.19
32 5 0.04
33 4 0.03
34 3 0.02
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (30 bp):
AAATTACCATTTTAACCCCAAAACTTTCCA
Found at i:47562658 original size:60 final size:60
Alignment explanation
Indices: 47562522--47562896 Score: 456
Period size: 59 Copynumber: 6.3 Consensus size: 60
47562512 CTCAAAACTT
* * *
47562522 CCAAAAATTACCATTTTAACCC-CCAAACTTTCCAAAATTCCATTTTTTACTCCGATTTCCA
1 CCAAAAATTACCATTTT-ACCCTCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTT-CA
* *
47562583 CCAAAAATTACCATTTTACCCTCTAAACTTTCTAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCTCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * ** *
47562643 CCAAAAATTGCCATTTTTACCC-CTAAACTTTCCAAAATTCCATTTTTGACCCTAATTTGA
1 CCAAAAATTACCA-TTTTACCCTCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
47562703 TCAAAAATTACCATTTTACCCTC-GAAC-TTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCTCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
47562761 CCAAAAAATTACCATTTTACCCTC-GAACTTTTCAAAATTCCATTTTTAACCTCGATTTCA
1 CC-AAAAATTACCATTTTACCCTCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
** * * **
47562821 CCAAAAATTATGATTTTACCCT-TAAATTTTCCAAAATTCCCTTTTTGTCCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
**
47562880 CTGAAAATTACCATTTT
1 CCAAAAATTACCATTTT
47562897 GCCTCCGCGA
Statistics
Matches: 275, Mismatches: 33, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
58 27 0.10
59 96 0.35
60 96 0.35
61 56 0.20
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (60 bp):
CCAAAAATTACCATTTTACCCTCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:47562710 original size:30 final size:29
Alignment explanation
Indices: 47562584--47562808 Score: 98
Period size: 30 Copynumber: 7.6 Consensus size: 29
47562574 CGATTTCCAC
*
47562584 CAAAAATTACCA-TTTTACCCTCTAAACTT-T
1 CAAAAATTACCATTTTTA-CC-CT-AATTTAT
* * *
47562614 CTAAAATT-CCATTTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTT-ACCCTAATTT-AT
* *
47562644 CAAAAATTGCCATTTTTACCCCTAAACTT-T
1 CAAAAATTACCATTTTTA-CCCT-AATTTAT
*
47562674 CCAAAATT-CCATTTTTGACCCTAATTTGAT
1 CAAAAATTACCATTTTT-ACCCTAATTT-AT
*
47562704 CAAAAATTACCA-TTTTACCCTCGAA-CT-T
1 CAAAAATTACCATTTTTACCCT--AATTTAT
* * * *
47562732 CCAAAATT-CCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTTACCCT-AATTT-AT
47562762 CAAAAAATTACCA-TTTTACCCTCGAACTTT-T
1 C-AAAAATTACCATTTTTACCCT--AA-TTTAT
47562793 C-AAAATT-CCATTTTTA
1 CAAAAATTACCATTTTTA
47562809 ACCTCGATTT
Statistics
Matches: 150, Mismatches: 23, Indels: 45
0.69 0.11 0.21
Matches are distributed among these distances:
27 4 0.03
28 28 0.19
29 32 0.21
30 43 0.29
31 32 0.21
32 8 0.05
33 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
CAAAAATTACCATTTTTACCCTAATTTAT
Found at i:47565585 original size:44 final size:44
Alignment explanation
Indices: 47565522--47565617 Score: 183
Period size: 44 Copynumber: 2.2 Consensus size: 44
47565512 AATGTGTTAT
47565522 AAAATAATAATAATAATGATGTAAAGAACACAAGAATAACAAAC
1 AAAATAATAATAATAATGATGTAAAGAACACAAGAATAACAAAC
47565566 AAAATAATAATAATAATGATGTAAAGAACACAAGAATAACAAAC
1 AAAATAATAATAATAATGATGTAAAGAACACAAGAATAACAAAC
47565610 AAGAATAA
1 AA-AATAA
47565618 GGAGAGAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 46 0.90
45 5 0.10
ACGTcount: A:0.65, C:0.08, G:0.09, T:0.18
Consensus pattern (44 bp):
AAAATAATAATAATAATGATGTAAAGAACACAAGAATAACAAAC
Found at i:47573705 original size:30 final size:30
Alignment explanation
Indices: 47573671--47573783 Score: 118
Period size: 30 Copynumber: 3.6 Consensus size: 30
47573661 TTTGTCATAG
47573671 GTTACATTTTAGTCACTTATGTTTTAAAAT
1 GTTACATTTTAGTCACTTATGTTTTAAAAT
* * * * * * *
47573701 GTTACATTTTATTAATTACTTTTATTTGTCATAG
1 GTTACA--TT-TTAGTCACTTATGTTT-TAAAAT
47573735 GTTACATTTTAGTCACTTATGTTTTAAAAT
1 GTTACATTTTAGTCACTTATGTTTTAAAAT
*
47573765 GTTACATTTTATTCACTTA
1 GTTACATTTTAGTCACTTA
47573784 CGTCTTTCAG
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
30 27 0.42
31 12 0.19
32 4 0.06
33 12 0.19
34 9 0.14
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (30 bp):
GTTACATTTTAGTCACTTATGTTTTAAAAT
Found at i:47573750 original size:64 final size:64
Alignment explanation
Indices: 47573649--47573777 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
47573639 ACTATTAAAA
47573649 TAATTACTTTTATTTGTCATAGGTTACATTTTAGTCACTTATGTTTTAAAATGTTACATTTTAT
1 TAATTACTTTTATTTGTCATAGGTTACATTTTAGTCACTTATGTTTTAAAATGTTACATTTTAT
47573713 TAATTACTTTTATTTGTCATAGGTTACATTTTAGTCACTTATGTTTTAAAATGTTACATTTTAT
1 TAATTACTTTTATTTGTCATAGGTTACATTTTAGTCACTTATGTTTTAAAATGTTACATTTTAT
47573777 T
1 T
47573778 CACTTACGTC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (64 bp):
TAATTACTTTTATTTGTCATAGGTTACATTTTAGTCACTTATGTTTTAAAATGTTACATTTTAT
Found at i:47577200 original size:17 final size:17
Alignment explanation
Indices: 47577160--47577239 Score: 61
Period size: 17 Copynumber: 4.7 Consensus size: 17
47577150 AGCCCAACAG
47577160 AGTTTAAATTTATTTTA
1 AGTTTAAATTTATTTTA
** *
47577177 AAATTAAATTTATTTTG
1 AGTTTAAATTTATTTTA
* ** *
47577194 GGTTTAAATTTGCTTAA
1 AGTTTAAATTTATTTTA
* *
47577211 AATTTAAATTTATTATA
1 AGTTTAAATTTATTTTA
* *
47577228 AATTTAAGTTTA
1 AGTTTAAATTTA
47577240 AAAATAAATT
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (17 bp):
AGTTTAAATTTATTTTA
Found at i:47577257 original size:17 final size:17
Alignment explanation
Indices: 47577210--47577258 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
47577200 AATTTGCTTA
* **
47577210 AAATTTAAATTTATTAT
1 AAATTTAAATTAAAAAT
*
47577227 AAATTTAAGTTTAAAAAT
1 AAATTTAA-ATTAAAAAT
47577245 AAATTTAAATTAAA
1 AAATTTAAATTAAA
47577259 TGTCTAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AAATTTAAATTAAAAAT
Found at i:47578006 original size:27 final size:26
Alignment explanation
Indices: 47577976--47578029 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
47577966 ATAGATATGG
47577976 TAATAATAATA-AGTCCATTAATAAAAA
1 TAATAATAATATAGT--ATTAATAAAAA
*
47578003 TAATTATAATATTAGTATTAATAAAAA
1 TAATAATAATA-TAGTATTAATAAAAA
47578030 AGGGAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 21 0.88
29 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (26 bp):
TAATAATAATATAGTATTAATAAAAA
Found at i:47578092 original size:23 final size:23
Alignment explanation
Indices: 47578066--47578117 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
47578056 CCCGTTACGG
*
47578066 CGTCGCTGAAGGTTTGCCAAATC
1 CGTCGCTGAAGGTCTGCCAAATC
* *
47578089 CGTCGCTGGAGGTCTGCTAAATC
1 CGTCGCTGAAGGTCTGCCAAATC
*
47578112 CATCGC
1 CGTCGC
47578118 CAAGCCTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
CGTCGCTGAAGGTCTGCCAAATC
Found at i:47579143 original size:29 final size:29
Alignment explanation
Indices: 47579111--47579312 Score: 127
Period size: 29 Copynumber: 6.9 Consensus size: 29
47579101 TCGAAATTGT
47579111 ATTTTGACCTCT-AAACTTTCAAAAATTCC
1 ATTTTGACC-CTAAAACTTTCAAAAATTCC
* *
47579140 ATTTTTTGACCCCAAAAC-TTCCAAAATTCC
1 A--TTTTGACCCTAAAACTTTCAAAAATTCC
*
47579170 ATTTT-AGCCCTAAAACTTTC-AAAATCTAC
1 ATTTTGA-CCCTAAAACTTTCAAAAAT-TCC
**
47579199 ATTTT-ACCC-CCAAC-TTCTAAAAATTCC
1 ATTTTGACCCTAAAACTTTC-AAAAATTCC
* *
47579226 ATTTTTTGACCCTAAAACTTGCAAAAATTATC
1 A--TTTTGACCCTAAAACTTTCAAAAATT-CC
* * **
47579258 ATTTT-ACCCTCAGA-TGTTTGAAAATTCC
1 ATTTTGACCCTAAAACT-TTCAAAAATTCC
*
47579286 ATTTTGACCCTGAAA-TTTCTAAAAATT
1 ATTTTGACCCTAAAACTTTC-AAAAATT
47579313 ATCATTTTAC
Statistics
Matches: 135, Mismatches: 21, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
26 3 0.02
27 7 0.05
28 34 0.25
29 44 0.33
30 21 0.16
31 22 0.16
32 4 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.37
Consensus pattern (29 bp):
ATTTTGACCCTAAAACTTTCAAAAATTCC
Found at i:47579291 original size:58 final size:57
Alignment explanation
Indices: 47579111--47579322 Score: 188
Period size: 58 Copynumber: 3.6 Consensus size: 57
47579101 TCGAAATTGT
* * *
47579111 ATTTTGACCTCT-AAACTTTCAAAAATTCCAT-TTTTTGACCCCAAAACTTC-CAAAATTCC
1 ATTTTGACC-CTAAAACTTTCAAAAATT--ATCATTTT-ACCCC-CAACTTCTAAAAATTCC
47579170 ATTTT-AGCCCTAAAACTTTC-AAAATCTA-CATTTTACCCCCAACTTCTAAAAATTCC
1 ATTTTGA-CCCTAAAACTTTCAAAAAT-TATCATTTTACCCCCAACTTCTAAAAATTCC
* * * *
47579226 ATTTTTTGACCCTAAAACTTGCAAAAATTATCATTTTACCCTCAGA-TGTTTGAAAATTCC
1 A--TTTTGACCCTAAAACTTTCAAAAATTATCATTTTACCCCCA-ACT-TCTAAAAATTCC
*
47579286 ATTTTGACCCTGAAA-TTTCTAAAAATTATCATTTTAC
1 ATTTTGACCCTAAAACTTTC-AAAAATTATCATTTTAC
47579323 ATTTTCCCTC
Statistics
Matches: 131, Mismatches: 9, Indels: 27
0.78 0.05 0.16
Matches are distributed among these distances:
55 6 0.05
56 14 0.11
57 8 0.06
58 56 0.43
59 35 0.27
60 12 0.09
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (57 bp):
ATTTTGACCCTAAAACTTTCAAAAATTATCATTTTACCCCCAACTTCTAAAAATTCC
Found at i:47579365 original size:63 final size:65
Alignment explanation
Indices: 47579257--47579384 Score: 163
Period size: 63 Copynumber: 2.0 Consensus size: 65
47579247 CAAAAATTAT
* * * * *
47579257 CATTTTACCCTCAGATGTTTGAAAATTCCATTTTGACCCTGAAATTTCTAAAAATTATCATTTTA
1 CATTTTACCCTCAGATATCTGAAAATGCCATTTTAACCCTGAAATTTCTAAAAATTACCATTTTA
* *
47579322 CATTTT-CCCTCAGATATCT-AAAATGCCATTTTTAACCCT-AAATTTTTCAAAATTACCATTTT
1 CATTTTACCCTCAGATATCTGAAAATGCCA-TTTTAACCCTGAAATTTCTAAAAATTACCATTTT
47579384 A
65 A
47579385 ACCTCCCTCG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 29 0.53
64 20 0.36
65 6 0.11
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.41
Consensus pattern (65 bp):
CATTTTACCCTCAGATATCTGAAAATGCCATTTTAACCCTGAAATTTCTAAAAATTACCATTTTA
Found at i:47582547 original size:58 final size:60
Alignment explanation
Indices: 47582481--47582840 Score: 284
Period size: 58 Copynumber: 6.1 Consensus size: 60
47582471 ATGGTCACAA
* * *
47582481 CCGACACCCCTTTTTTGTCAGAT-AAAAATTC-AATTTTTTTGTATTAGCCATGCCATGG
1 CCGACACCCCTTTTTTATCAGATAAAAAATTCAAATTTTTTTGTATTGGCCATGCAATGG
* * * *
47582539 CCGACACCCCCTATTTATCTGAT-AAAAA-TCAAATTTTTTTGTATTGGTCATGCAATGG
1 CCGACACCCCTTTTTTATCAGATAAAAAATTCAAATTTTTTTGTATTGGCCATGCAATGG
* *
47582597 CCGACA--CCTCTTTT-CCAGATAAAAAATTTCAAATTTTTTTAGTATTGGCCATTG-AATGG
1 CCGACACCCCTTTTTTATCAGATAAAAAA-TTCAAATTTTTTT-GTATTGGCCA-TGCAATGG
* * * * * ** * *
47582656 TCGACAACCC-TATTTATCTGATAAAAAAATCAAA-TTTTGGGTGTTGACCATGCAATGG
1 CCGACACCCCTTTTTTATCAGATAAAAAATTCAAATTTTTTTGTATTGGCCATGCAATGG
* * * *
47582714 CCGACACCCC--TTTT-TCAGATAAAAAAATTTCAAATTTTTTTGGTGTTTGTCATGCCATGG
1 CCGACACCCCTTTTTTATCAGAT-AAAAAA-TTCAAATTTTTTT-GTATTGGCCATGCAATGG
* * * * * *
47582774 TCGACA-CCCTCTCTTTATCTGAATAAAAAATT-GAA-GTTTTTGTGTTGGCCATGCAATGG
1 CCGACACCCCT-TTTTTATCAG-ATAAAAAATTCAAATTTTTTTGTATTGGCCATGCAATGG
47582833 CCGACACC
1 CCGACACC
47582841 AACTTTTCCT
Statistics
Matches: 239, Mismatches: 43, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
55 4 0.02
56 15 0.06
57 13 0.05
58 92 0.38
59 50 0.21
60 35 0.15
61 14 0.06
62 5 0.02
63 9 0.04
64 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (60 bp):
CCGACACCCCTTTTTTATCAGATAAAAAATTCAAATTTTTTTGTATTGGCCATGCAATGG
Found at i:47582719 original size:117 final size:115
Alignment explanation
Indices: 47582499--47582849 Score: 399
Period size: 117 Copynumber: 3.0 Consensus size: 115
47582489 CCTTTTTTGT
*
47582499 CAGAT-AAAAA-TTC-AATTTTTTTGTATTAGCCATGCCATGGCCGACACCCCCTATTTATCTGA
1 CAGATAAAAAATTTCAAATTTTTTTGTATTAGCCATGCCATGGTCGACA-CCCCTATTTATCTGA
* * *
47582561 T--AAAAATCAAATTTTTTTGTATTGGTCATGCAATGGCCGACACCTCTTTTC
65 TAAAAAAATCAAA--TTTTTGTGTTGGCCATGCAATGGCCGACACCACTTTTC
* * *
47582612 CAGATAAAAAATTTCAAATTTTTTTAGTATTGGCCATTG-AATGGTCGACAACCCTATTTATCTG
1 CAGATAAAAAATTTCAAATTTTTTT-GTATTAGCCA-TGCCATGGTCGACACCCCTATTTATCTG
* * * *
47582676 ATAAAAAAATCAAATTTTGGGTGTTGACCATGCAATGGCCGACACCCCTTTTT
64 ATAAAAAAATCAAATTTT-TGTGTTGGCCATGCAATGGCCGACACCACTTTTC
* * * *
47582729 CAGATAAAAAAATTTCAAATTTTTTTGGTGTTTGTCATGCCATGGTCGACACCCTCTCTTTATCT
1 CAGAT-AAAAAATTTCAAATTTTTTT-GTATTAGCCATGCCATGGTCGACACCC-CTATTTATCT
* * *
47582794 GAATAAAAAATTGAAGTTTTTGTGTTGGCCATGCAATGGCCGACACCAACTTTTC
63 G-ATAAAAAAATCAAATTTTTGTGTTGGCCATGCAATGGCCGACACC-ACTTTTC
47582849 C
1 C
47582850 TCATTTCTCT
Statistics
Matches: 201, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
113 5 0.02
114 5 0.02
115 3 0.01
116 28 0.14
117 53 0.26
118 51 0.25
119 35 0.17
120 21 0.10
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (115 bp):
CAGATAAAAAATTTCAAATTTTTTTGTATTAGCCATGCCATGGTCGACACCCCTATTTATCTGAT
AAAAAAATCAAATTTTTGTGTTGGCCATGCAATGGCCGACACCACTTTTC
Found at i:47583687 original size:30 final size:30
Alignment explanation
Indices: 47583648--47583735 Score: 124
Period size: 30 Copynumber: 2.9 Consensus size: 30
47583638 AATTAGAATG
*
47583648 TACAGGAAATTAGAAATTAAATTTAAAATA
1 TACAAGAAATTAGAAATTAAATTTAAAATA
47583678 TACAAGAAATTAGAAATTAAATTTAAAATA
1 TACAAGAAATTAGAAATTAAATTTAAAATA
* * *
47583708 -AAAACAAAATTAAAAATTAAATTTAAAA
1 TACAA-GAAATTAGAAATTAAATTTAAAA
47583736 AGTAAACAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 3 0.06
30 50 0.94
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (30 bp):
TACAAGAAATTAGAAATTAAATTTAAAATA
Found at i:47584933 original size:54 final size:52
Alignment explanation
Indices: 47584882--47584984 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 52
47584872 TAAAAAAATT
*
47584882 TCAAAATTGTA-TTTTTTAT-ATTTCGAAAATGTAAAAAAAAAATTTGTAAAAAA
1 TCAAAATTGTATTTTTTTATAATTT-GAAAATAT-AAAAAAAAATTTG-AAAAAA
* * * *
47584935 TCATATTTTTATTTTTTTTTAATTTGAAAATATAAAAAAAAATTTGAAAA
1 TCAAAATTGTATTTTTTTATAATTTGAAAATATAAAAAAAAATTTGAAAA
47584985 TAGAAAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
52 4 0.09
53 21 0.49
54 14 0.33
55 4 0.09
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (52 bp):
TCAAAATTGTATTTTTTTATAATTTGAAAATATAAAAAAAAATTTGAAAAAA
Found at i:47584980 original size:20 final size:20
Alignment explanation
Indices: 47584955--47584992 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47584945 ATTTTTTTTT
*
47584955 AATTTGAAAATATAAAAAAA
1 AATTTGAAAATAGAAAAAAA
47584975 AATTTGAAAATAGAAAAA
1 AATTTGAAAATAGAAAAA
47584993 TATTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
AATTTGAAAATAGAAAAAAA
Found at i:47586042 original size:22 final size:22
Alignment explanation
Indices: 47586023--47586092 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
47586013 GCAAAATTAG
47586023 GGTGTTGGTGAGCTGGAATTTC
1 GGTGTTGGTGAGCTGGAATTTC
** * *
47586045 AATTTTGATGAGCTGGAATTTC
1 GGTGTTGGTGAGCTGGAATTTC
*
47586067 GGT-TTAGGTGAGCTGGAATTTG
1 GGTGTT-GGTGAGCTGGAATTTC
47586089 GGTG
1 GGTG
47586093 GTCCAATGCT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 2 0.05
22 36 0.95
ACGTcount: A:0.19, C:0.07, G:0.37, T:0.37
Consensus pattern (22 bp):
GGTGTTGGTGAGCTGGAATTTC
Found at i:47586413 original size:84 final size:84
Alignment explanation
Indices: 47586180--47586811 Score: 963
Period size: 84 Copynumber: 7.5 Consensus size: 84
47586170 TAAATTTAAA
* *
47586180 ATTTGATAAAATTTGT-A-AT-ATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAACGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
47586242 ATTGTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
* *
47586261 ATTTGATAAAAATTGTAATATAACAATGATCTTTTTAATTTAAATATTAAAATTTGATAAATAAT
1 ATTTGATAAAAATTGTAATATAATAAT-A-ATTTTTAATTTAAATATTAAAATTTGATAAATAAT
* **
47586326 ATATTAACAAATCAACACATT
64 GTATTGTCAAATCAACACATT
* *
47586347 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAGTAT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
*
47586412 ATTATCAAATCAACACATT
66 ATTGTCAAATCAACACATT
*
47586431 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTTAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
*
47586496 ATTGTCAAATTAACACATT
66 ATTGTCAAATCAACACATT
* *
47586515 ATTTGAT-AAAATTGTAATATAATAGTATTTTTTAATTTAAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
*
47586579 ATTGTCAAATTAACACATT
66 ATTGTCAAATCAACACATT
*
47586598 ATTTGATAAAAATTGTAATATAATAATGATATTTTTTATTTAAA-ATTAAAATTTGATAAATAAT
1 ATTTGATAAAAATTGTAATATAATAAT-A-ATTTTTAATTTAAATATTAAAATTTGATAAATAAT
47586662 GTATTGTCAAATCAACACATT
64 GTATTGTCAAATCAACACATT
* * *
47586683 ATTTGATAAAAATT-TAATATAATAATGATCTTTTTTATTTAAATATTAAAATTTGGTAAATAAT
1 ATTTGATAAAAATTGTAATATAATAAT-A-ATTTTTAATTTAAATATTAAAATTTGATAAATAAT
47586747 GTATTGTCAAATCAACACATT
64 GTATTGTCAAATCAACACATT
* *
47586768 ATTTAATAAAAA-TGTAATATAATAATAATCTTTTTATTTAAATA
1 ATTTGATAAAAATTGTAATATAATAATAAT-TTTTAATTTAAATA
47586812 ATTTTAAATT
Statistics
Matches: 513, Mismatches: 27, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
81 15 0.03
82 1 0.00
83 83 0.16
84 205 0.40
85 120 0.23
86 89 0.17
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (84 bp):
ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
ATTGTCAAATCAACACATT
Found at i:47586543 original size:45 final size:44
Alignment explanation
Indices: 47586476--47586693 Score: 160
Period size: 45 Copynumber: 5.1 Consensus size: 44
47586466 ATTTTAATAT
47586476 TAAAATTTGATAAATAATGTATTGTCAAATTAACACATTATTTGA
1 TAAAA-TTGATAAATAATGTATTGTCAAATTAACACATTATTTGA
* ** *
47586521 TAAAATTG-TAATATAATAGTATTTTTTAATTTA-A-A-TA-TT-A
1 TAAAATTGATAA-ATAAT-GTATTGTCAAATTAACACATTATTTGA
*
47586561 -AAATTTGATAAATAATGTATTGTCAAATTAACACATTATTTGA
1 TAAAATTGATAAATAATGTATTGTCAAATTAACACATTATTTGA
*** *
47586604 TAAAAATTGTAATATAATAATGATATT-TTTTATTTA-A-A--A-TT-A
1 T-AAAATTG--ATA-AATAATG-TATTGTCAAATTAACACATTATTTGA
* *
47586646 -AAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTGA
1 TAAAATTGATAAATAATGTATTGTCAAATTAACACATTATTTGA
47586689 TAAAA
1 TAAAA
47586694 ATTTAATATA
Statistics
Matches: 130, Mismatches: 21, Indels: 45
0.66 0.11 0.23
Matches are distributed among these distances:
36 4 0.03
37 11 0.08
38 15 0.12
39 13 0.10
40 11 0.08
41 5 0.04
42 7 0.05
43 8 0.06
44 13 0.10
45 22 0.17
46 1 0.01
47 4 0.03
48 12 0.09
49 4 0.03
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (44 bp):
TAAAATTGATAAATAATGTATTGTCAAATTAACACATTATTTGA
Found at i:47586875 original size:170 final size:170
Alignment explanation
Indices: 47586206--47586809 Score: 793
Period size: 170 Copynumber: 3.6 Consensus size: 170
47586196 AATATAATAA
* *
47586206 TTTTTAATTTAAATATTAAAATTTGATAAATAACGTATTGTCAAATCAACACATTATTTGATAAA
1 TTTTTAATTTAAATATTAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTAATAAA
* * * * **
47586271 AATTGTAATATAACAATGATCTTTTTAATTTAAATATTAAAATTTGATAAATAATATATTAACAA
66 AATTGTAATATAATAATGATATTTTTTATTTAAA-ATTAAAATTTGATAAATAATGTATTGTCAA
** * *
47586336 ATCAACACATTATTTGATAAAAATTGTAATATAATAAT-A--A
130 AT-AACACATTATTAAATAAAAACT-TAATATAATAATGATCT
* * * *
47586376 TTTTTAATTTAAATATTAAAATTTGATAAATAGTATATTATCAAATCAACACATTATTTGATAAA
1 TTTTTAATTTAAATATTAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTAATAAA
* *
47586441 AATTGTAATATAATAAT-A-ATTTTTAATTTTAATATTAAAATTTGATAAATAATGTATTGTCAA
66 AATTGTAATATAATAATGATATTTTTTA-TTTAAAATTAAAATTTGATAAATAATGTATTGTCAA
** * *
47586504 ATTAACACATTATTTGAT-AAAATTGTAATATAAT-A-G-TAT
130 A-TAACACATTATTAAATAAAAACT-TAATATAATAATGATCT
* *
47586543 TTTTTAATTTAAATATTAAAATTTGATAAATAATGTATTGTCAAATTAACACATTATTTGATAAA
1 TTTTTAATTTAAATATTAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTAATAAA
47586608 AATTGTAATATAATAATGATATTTTTTATTTAAAATTAAAATTTGATAAATAATGTATTGTCAAA
66 AATTGTAATATAATAATGATATTTTTTATTTAAAATTAAAATTTGATAAATAATGTATTGTCAAA
** *
47586673 TCAACACATTATTTGATAAAAATTTAATATAATAATGATCT
131 T-AACACATTATTAAATAAAAACTTAATATAATAATGATCT
*
47586714 TTTTT-ATTTAAATATTAAAATTTGGTAAATAATGTATTGTCAAATCAACACATTATTTAATAAA
1 TTTTTAATTTAAATATTAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTAATAAA
47586778 AA-TGTAATATAATAAT-A-ATCTTTTTATTTAAA
66 AATTGTAATATAATAATGATAT-TTTTTATTTAAA
47586810 TAATTTTAAA
Statistics
Matches: 400, Mismatches: 21, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
166 1 0.00
167 97 0.24
168 124 0.31
169 35 0.09
170 136 0.34
171 7 0.02
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (170 bp):
TTTTTAATTTAAATATTAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTAATAAA
AATTGTAATATAATAATGATATTTTTTATTTAAAATTAAAATTTGATAAATAATGTATTGTCAAA
TAACACATTATTAAATAAAAACTTAATATAATAATGATCT
Found at i:47590456 original size:58 final size:59
Alignment explanation
Indices: 47590257--47590595 Score: 268
Period size: 60 Copynumber: 5.8 Consensus size: 59
47590247 CGGCTATTGA
* * * * **
47590257 AACAC-AAAAATTTTG--ATTTTTTATTTAGATAAAAAGGGGTGTCGGCCATGACATGGTT
1 AACACAAAAAAATTTGATATTTTTTA-TCAGAT-AAAAGGGGTGTCGGTCATTACATGGCC
* * * * *
47590315 AACACAAAAAAATTTGAATTTTTTTTTATCTGA-AAAAGGAGTGTCAGCCATTACATGGCC
1 AACACAAAAAAATTTG-A-TATTTTTTATCAGATAAAAGGGGTGTCGGTCATTACATGGCC
** * *
47590375 AACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCA-TGCAAT-GCC
1 AACACAAAAAAATTTGATATTTTTTATCAGATAAA-AGGGGTGTCGGTCATTAC-ATGGCC
* * *
47590434 AACACAAAAAAAATTGA-ATTTTTTTATCTGA-AAAAGGGGTGTCGATCATTACATGGCC
1 AACACAAAAAAATTTGATA-TTTTTTATCAGATAAAAGGGGTGTCGGTCATTACATGGCC
* * * *
47590492 AACACAAAAAAATTTGATTTTTTTTATCATATAAATAGGGGTATCGGTCATTACATGACC
1 AACACAAAAAAATTTGATATTTTTTATCAGATAAA-AGGGGTGTCGGTCATTACATGGCC
* ** * * *
47590552 AATAC-CCAAAATTTG--AGTTTTTGTCAGATAAAAAAGGGTGTCGG
1 AACACAAAAAAATTTGATATTTTTTATCAGAT-AAAAGGGGTGTCGG
47590596 CCATGTAATG
Statistics
Matches: 227, Mismatches: 39, Indels: 31
0.76 0.13 0.10
Matches are distributed among these distances:
57 34 0.15
58 55 0.24
59 54 0.24
60 74 0.33
62 3 0.01
63 7 0.03
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (59 bp):
AACACAAAAAAATTTGATATTTTTTATCAGATAAAAGGGGTGTCGGTCATTACATGGCC
Found at i:47590470 original size:177 final size:174
Alignment explanation
Indices: 47590287--47590605 Score: 410
Period size: 177 Copynumber: 1.8 Consensus size: 174
47590277 TTATTTAGAT
* **
47590287 AAAAAGGGGTGTCGGCCATGACATGGTTAACACAAAAAAATTTGAATTTTTTTTTATC-TGA-AA
1 AAAAAGGGGTGTCGACCATGACATGGCCAACACAAAAAAATTTG-A-TTTTTTTTATCAT-ATAA
* * * * *
47590350 A-AGGAGTGTCAGCCATTACATGGCCAACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGG
63 ATAGGAGTATCAGCCATTACATGACCAACACCC-AAAATTTGA--GTTTTTATCAGATAAAAAAG
*
47590414 GGTGTCGGTCATGCAATGCCAACACAAAAAAAATTGAATTTTTTTATCTG
125 GGTGTCGGCCATGCAATGCCAACACAAAAAAAATTGAATTTTTTTATCTG
* *
47590464 AAAAAGGGGTGTCGATCATTACATGGCCAACACAAAAAAATTTGATTTTTTTTATCATATAAATA
1 AAAAAGGGGTGTCGACCATGACATGGCCAACACAAAAAAATTTGATTTTTTTTATCATATAAATA
* * * * *
47590529 GGGGTATCGGTCATTACATGACCAATACCCAAAATTTGAGTTTTTGTCAGATAAAAAAGGGTGTC
66 GGAGTATCAGCCATTACATGACCAACACCCAAAATTTGAGTTTTTATCAGATAAAAAAGGGTGTC
*
47590594 GGCCATGTAATG
131 GGCCATGCAATG
47590606 ACTAACACCA
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
174 32 0.26
175 12 0.10
176 14 0.11
177 64 0.52
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (174 bp):
AAAAAGGGGTGTCGACCATGACATGGCCAACACAAAAAAATTTGATTTTTTTTATCATATAAATA
GGAGTATCAGCCATTACATGACCAACACCCAAAATTTGAGTTTTTATCAGATAAAAAAGGGTGTC
GGCCATGCAATGCCAACACAAAAAAAATTGAATTTTTTTATCTG
Found at i:47590503 original size:117 final size:118
Alignment explanation
Indices: 47590257--47590553 Score: 381
Period size: 117 Copynumber: 2.5 Consensus size: 118
47590247 CGGCTATTGA
* * * **
47590257 AACACAAAAATTTTGATTTTTTATT-T-AGATAAAAAGGGGTGTCGGCCATGACATGGTTAACAC
1 AACACAAAAAATTTGATTTTTT-TTATCAGATAAATAGGGGTGTCGGTCATGACATGGCCAACAC
*
47590320 AAAAAAATTTGAATTTTTTTTTATCTGAAAAAGGAGTGTCAGCCATTACATGGCC
65 AAAAAAAATTGAA-TTTTTTTTATCTGAAAAAGGAGTGTCAGCCATTACATGGCC
*
47590375 AACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCATG-CAAT-GCCAACA
1 AACA-CAAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCATGAC-ATGGCCAACA
* *
47590438 CAAAAAAAATTGAA-TTTTTTTATCTGAAAAAGGGGTGTC-GATCATTACATGGCC
64 CAAAAAAAATTGAATTTTTTTTATCTGAAAAAGGAGTGTCAG-CCATTACATGGCC
* * * *
47590492 AACACAAAAAAATTTGATTTTTTTTATCATATAAATAGGGGTATCGGTCATTACATGACCAA
1 AACAC-AAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCATGACATGGCCAA
47590554 TACCCAAAAT
Statistics
Matches: 157, Mismatches: 14, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
116 2 0.01
117 84 0.54
118 11 0.07
119 36 0.23
120 24 0.15
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (118 bp):
AACACAAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCATGACATGGCCAACACA
AAAAAAATTGAATTTTTTTTATCTGAAAAAGGAGTGTCAGCCATTACATGGCC
Found at i:47590573 original size:60 final size:60
Alignment explanation
Indices: 47590257--47590553 Score: 292
Period size: 60 Copynumber: 5.0 Consensus size: 60
47590247 CGGCTATTGA
* * * * * **
47590257 AACAC-AAAAATTTTGATTTTTTATT-T-AGATAAAAAGGGGTGTCGGCCATGACATGGTT
1 AACACAAAAAAATTTGATTTTTT-TTATCATATAAATAGGGGTGTCGGTCATTACATGGCC
* * *
47590315 AACACAAAAAAATTTGAATTTTTTTTTATC-TGA-AAA-AGGAGTGTCAGCCATTACATGGCC
1 AACACAAAAAAATTTG-A-TTTTTTTTATCAT-ATAAATAGGGGTGTCGGTCATTACATGGCC
** * *
47590375 AACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCA-TGCAAT-GCC
1 AACACAAAAAAATTTGATTTTTTTTATCATATAAATAGGGGTGTCGGTCATTAC-ATGGCC
* * *
47590434 AACACAAAAAAAATTGAATTTTTTTATC-TGA-AAA-AGGGGTGTCGATCATTACATGGCC
1 AACACAAAAAAATTTGATTTTTTTTATCAT-ATAAATAGGGGTGTCGGTCATTACATGGCC
* *
47590492 AACACAAAAAAATTTGATTTTTTTTATCATATAAATAGGGGTATCGGTCATTACATGACC
1 AACACAAAAAAATTTGATTTTTTTTATCATATAAATAGGGGTGTCGGTCATTACATGGCC
47590552 AA
1 AA
47590554 TACCCAAAAT
Statistics
Matches: 197, Mismatches: 26, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
57 15 0.08
58 52 0.26
59 47 0.24
60 72 0.37
61 10 0.05
62 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (60 bp):
AACACAAAAAAATTTGATTTTTTTTATCATATAAATAGGGGTGTCGGTCATTACATGGCC
Found at i:47590613 original size:117 final size:117
Alignment explanation
Indices: 47590257--47590599 Score: 306
Period size: 117 Copynumber: 2.9 Consensus size: 117
47590247 CGGCTATTGA
* * * * **
47590257 AACAC-AAAAATTTTGATTTTTTATT-T-AGATAAAAAGGGGTGTCGGCCATGAC-ATGGTTAAC
1 AACACAAAAAAATTTGATTTTTT-TTATCAGATAAATAGGGGTATCGGTCAT-ACAAT-GCCAAC
* * ** *
47590318 ACAAAAAAATTTGAATTTTTTTTTATCTG-AAAAAGGAGTGTCAGCCATTACATGGCC
63 ACAAAAAAAATTGAA--TTTTTTCAGATGAAAAAAGG-GTGTCGGCCATTACATGGCC
** * *
47590375 AACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCATGCAATGCCAACACA
1 AACACAAAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTATCGGTCATACAATGCCAACACA
* ** * **
47590440 AAAAAAATTGAATTTTTTTATCTGAAAAAGGGGTGTCGATCATTACATGGCC
66 AAAAAAATTGAATTTTTTCAGATGAAAAAAGGGTGTCGGCCATTACATGGCC
* *
47590492 AACACAAAAAAATTTGATTTTTTTTATCATATAAATAGGGGTATCGGTCATTAC-ATGACCAATA
1 AACACAAAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTATCGGTCA-TACAATG-CCAACA
** * *
47590556 C-CCAAAATTTGAGTTTTTGTCAGAT-AAAAAAGGGTGTCGGCCAT
64 CAAAAAAAATTGAATTTTT-TCAGATGAAAAAAGGGTGTCGGCCAT
47590600 GTAATGACTA
Statistics
Matches: 189, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
117 107 0.57
118 24 0.13
119 35 0.19
120 23 0.12
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (117 bp):
AACACAAAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTATCGGTCATACAATGCCAACACA
AAAAAAATTGAATTTTTTCAGATGAAAAAAGGGTGTCGGCCATTACATGGCC
Found at i:47598099 original size:97 final size:97
Alignment explanation
Indices: 47597906--47598099 Score: 218
Period size: 97 Copynumber: 2.0 Consensus size: 97
47597896 AGCCTTGGAA
* * * *
47597906 AAGGTTATTCGATTATCTCGATTTGAAAAAAAGTCGCACCCCGTAAGTTAAGGCACAAATTTTAA
1 AAGGGTATTCGATTATCTCGATTTGAAAAAAAGTCGCACCCAGCAAGTTAACGCACAAATTTTAA
*
47597971 GAATCAAAGATAAAGAAACATTGCCTCGATTT
66 GAATCAAAGATAAAGAAACATAGCCTCGATTT
* * *
47598003 AAGGGTATTTGATTAT-TCCGATTTGAAGAAAAA-TCGCGCCTAGCAAGTTAACGCACAAATTTT
1 AAGGGTATTCGATTATCT-CGATTTGAA-AAAAAGTCGCACCCAGCAAGTTAACGCACAAATTTT
* *
47598066 CAA-AACTCGAA-ATAAAG-AATATAGCCTCGGATTT
64 -AAGAA-TCAAAGATAAAGAAACATAGCCTC-GATTT
47598100 TAAAAAGTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
96 10 0.12
97 61 0.74
98 11 0.13
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (97 bp):
AAGGGTATTCGATTATCTCGATTTGAAAAAAAGTCGCACCCAGCAAGTTAACGCACAAATTTTAA
GAATCAAAGATAAAGAAACATAGCCTCGATTT
Found at i:47598402 original size:29 final size:29
Alignment explanation
Indices: 47598370--47598641 Score: 120
Period size: 30 Copynumber: 9.3 Consensus size: 29
47598360 CAAAATAATG
*
47598370 ATTTTTGGAGGTTCGGGGTCAAAAATAGA
1 ATTTTTGGAAGTTCGGGGTCAAAAATAGA
* * *
47598399 ATTTTTGGACATTTGGGGGT-ATAATATA-A
1 ATTTTTGGA-AGTTCGGGGTCA-AAAATAGA
* * * * *
47598428 ATTTTTGAAAGTTTCAGCGTTAAAAATGGA
1 ATTTTTGGAAG-TTCGGGGTCAAAAATAGA
*
47598458 ATTTTTGGATA-TTCAGGGGT--AAAATGGTA
1 ATTTTTGGA-AGTTC-GGGGTCAAAAATAG-A
* * *
47598487 ATTTTTTGAAAGTCTCGAGGTCAAAAATGGA
1 A-TTTTTGGAAGT-TCGGGGTCAAAAATAGA
** *
47598518 A-TTTTGGACA-TTC-TCG-CTAAAATAGTA
1 ATTTTTGGA-AGTTCGGGGTCAAAAATAG-A
*
47598545 ATTTTTGGAAGTCTCGAGGTCAAAAATAGA
1 ATTTTTGGAAGT-TCGGGGTCAAAAATAGA
* *
47598575 ATTTTTGGACA-TTCAGCGGT--AAAATGGTA
1 ATTTTTGGA-AGTTC-GGGGTCAAAAATAG-A
* * *
47598604 ATTTTT-GAAGTCTTGAGGTCAAAAATAAA
1 ATTTTTGGAAGT-TCGGGGTCAAAAATAGA
47598633 ATTTTTGGA
1 ATTTTTGGA
47598642 TGTTTGAGGG
Statistics
Matches: 185, Mismatches: 30, Indels: 55
0.69 0.11 0.20
Matches are distributed among these distances:
26 7 0.04
27 5 0.03
28 31 0.17
29 60 0.32
30 61 0.33
31 14 0.08
32 7 0.04
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (29 bp):
ATTTTTGGAAGTTCGGGGTCAAAAATAGA
Found at i:47598460 original size:59 final size:58
Alignment explanation
Indices: 47598386--47598757 Score: 244
Period size: 59 Copynumber: 6.3 Consensus size: 58
47598376 GGAGGTTCGG
* * *
47598386 GGTCAAAAATAGAATTTTTGGACATTTGGGGGTATAATATAAATTTTTGAAAGTTTCA
1 GGTCAAAAATGGAATTTTTGGACATTTAGGGGTAAAATATAAATTTTTGAAAGTTTCA
* * * * * *
47598444 GCGTTAAAAATGGAATTTTTGGATATTCAGGGGTAAAATGGTAATTTTTTGAAAGTCTCGA
1 G-GTCAAAAATGGAATTTTTGGACATTTAGGGGTAAAAT-ATAAATTTTTGAAAGTTTC-A
* * * *
47598505 GGTCAAAAATGGAA-TTTTGGACATTCT--CGCTAAAATAGT-AATTTTTGGAAGTCTCGA
1 GGTCAAAAATGGAATTTTTGGACATT-TAGGGGTAAAATA-TAAATTTTTGAAAGTTTC-A
* * * * *
47598562 GGTCAAAAATAGAATTTTTGGACATTCAGCGGTAAAATGGT-AATTTTTG-AAGTCTTGA
1 GGTCAAAAATGGAATTTTTGGACATTTAGGGGTAAAAT-ATAAATTTTTGAAAGT-TTCA
** ** * *
47598620 GGTCAAAAATAAAATTTTTGGATGTTT-GAGGGTAAAATGAT--ATTTTTTAGAAGTTTTA
1 GGTCAAAAATGGAATTTTTGGACATTTAG-GGGTAAAAT-ATAAATTTTTGA-AAGTTTCA
* * * * *
47598678 GGTTTAAAAATGGAATTTTTGGA-AGTTTAGGGGAAAAAAATGTAATTTTTAAAAAGTTT-A
1 GG-TCAAAAATGGAATTTTTGGACA-TTTAGGGGTAAAATAT-AAATTTTT-GAAAGTTTCA
* *
47598738 GGGTTAAAAATGTAATTTTT
1 -GGTCAAAAATGGAATTTTT
47598758 TAAAAGTTTA
Statistics
Matches: 254, Mismatches: 39, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
57 36 0.14
58 65 0.26
59 90 0.35
60 46 0.18
61 16 0.06
62 1 0.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (58 bp):
GGTCAAAAATGGAATTTTTGGACATTTAGGGGTAAAATATAAATTTTTGAAAGTTTCA
Found at i:47598588 original size:58 final size:59
Alignment explanation
Indices: 47598361--47598641 Score: 295
Period size: 58 Copynumber: 4.8 Consensus size: 59
47598351 TTTCGTGGGC
* * * * ** *
47598361 AAAATAATGATTTTTGGAGGT-TCGGGGTCAAAAATAGAATTTTTGGACATTTGGGGGT
1 AAAATAGTAATTTTTGGAAGTCTCGAGGTCAAAAATAGAATTTTTGGACATTCAGCGGT
* * * * * * *
47598419 ATAATA-TAAATTTTTGAAAGTTTC-AGCGTTAAAAATGGAATTTTTGGATATTCAGGGGT
1 AAAATAGT-AATTTTTGGAAGTCTCGAG-GTCAAAAATAGAATTTTTGGACATTCAGCGGT
* * * * *
47598478 AAAATGGTAATTTTTTGAAAGTCTCGAGGTCAAAAATGGAA-TTTTGGACATTC-TCGCT
1 AAAATAGTAA-TTTTTGGAAGTCTCGAGGTCAAAAATAGAATTTTTGGACATTCAGCGGT
47598536 AAAATAGTAATTTTTGGAAGTCTCGAGGTCAAAAATAGAATTTTTGGACATTCAGCGGT
1 AAAATAGTAATTTTTGGAAGTCTCGAGGTCAAAAATAGAATTTTTGGACATTCAGCGGT
* * *
47598595 AAAATGGTAATTTTT-GAAGTCTTGAGGTCAAAAATAAAATTTTTGGA
1 AAAATAGTAATTTTTGGAAGTCTCGAGGTCAAAAATAGAATTTTTGGA
47598642 TGTTTGAGGG
Statistics
Matches: 189, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
57 29 0.15
58 69 0.37
59 63 0.33
60 26 0.14
61 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.35
Consensus pattern (59 bp):
AAAATAGTAATTTTTGGAAGTCTCGAGGTCAAAAATAGAATTTTTGGACATTCAGCGGT
Found at i:47598654 original size:58 final size:57
Alignment explanation
Indices: 47598386--47598714 Score: 274
Period size: 58 Copynumber: 5.6 Consensus size: 57
47598376 GGAGGTTCGG
* * * *
47598386 GGTCAAAAATAGAATTTTTGGACATTTGGGGGTATAAT-ATAAATTTTTGAAAGT-TTCA
1 GGTCAAAAATAGAATTTTTGGACATTT-AGGGTAAAATGGT-AATTTTTG-AAGTCTTGA
* * * * *
47598444 GCGTTAAAAATGGAATTTTTGGATATTCAGGGGTAAAATGGTAATTTTTTGAAAGTCTCGA
1 G-GTCAAAAATAGAATTTTTGGACATTTA-GGGTAAAATGGTAA-TTTTTG-AAGTCTTGA
* * * * *
47598505 GGTCAAAAATGGAA-TTTTGGACATTCT-CGCTAAAATAGTAATTTTTGGAAGTCTCGA
1 GGTCAAAAATAGAATTTTTGGACATT-TAGGGTAAAATGGTAATTTTT-GAAGTCTTGA
*
47598562 GGTCAAAAATAGAATTTTTGGACATTCAGCGGTAAAATGGTAATTTTTGAAGTCTTGA
1 GGTCAAAAATAGAATTTTTGGACATTTAG-GGTAAAATGGTAATTTTTGAAGTCTTGA
* ** * * *
47598620 GGTCAAAAATAAAATTTTTGGATGTTTGAGGGTAAAATGATATTTTTTAGAAGT-TTTA
1 GGTCAAAAATAGAATTTTTGGACATTT-AGGGTAAAATGGTAATTTTT-GAAGTCTTGA
* * *
47598678 GGTTTAAAAATGGAATTTTTGGA-AGTTTAGGGGAAAA
1 GG-TCAAAAATAGAATTTTTGGACA-TTTAGGGTAAAA
47598715 AAATGTAATT
Statistics
Matches: 224, Mismatches: 33, Indels: 28
0.79 0.12 0.10
Matches are distributed among these distances:
57 27 0.12
58 85 0.38
59 85 0.38
60 24 0.11
61 3 0.01
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (57 bp):
GGTCAAAAATAGAATTTTTGGACATTTAGGGTAAAATGGTAATTTTTGAAGTCTTGA
Found at i:47598656 original size:117 final size:116
Alignment explanation
Indices: 47598386--47598700 Score: 345
Period size: 117 Copynumber: 2.7 Consensus size: 116
47598376 GGAGGTTCGG
* *
47598386 GGTCAAAAATAGAATTTTTGGACATTTGGGGGTATAATA-TAAATTTTTGAAAGTTTCAGCGTTA
1 GGTCAAAAATAGAATTTTTGGACATTT-GGGGTAAAATAGT-AATTTTTGGAAG-TTCAG-GTTA
* *
47598450 AAAATGGAATTTTTGGATATTCAGGGGTAAAATGGTAATTTTTTGAAAGTCTCGA
62 AAAATGGAATTTTTGGACATTCAGCGGTAAAATGGTAATTTTTTGAAAGTCTCGA
* * * *
47598505 GGTCAAAAATGGAA-TTTTGGACATTCT-CGCTAAAATAGTAATTTTTGGAAGTCTCGAGGTCAA
1 GGTCAAAAATAGAATTTTTGGACATT-TGGGGTAAAATAGTAATTTTTGGAAGT-TC-AGGTTAA
* *
47598568 AAATAGAATTTTTGGACATTCAGCGGTAAAATGGTAA-TTTTTG-AAGTCTTGA
63 AAATGGAATTTTTGGACATTCAGCGGTAAAATGGTAATTTTTTGAAAGTCTCGA
* ** * * *
47598620 GGTCAAAAATAAAATTTTTGGATGTTTGAGGGTAAAAT-GATATTTTTTAGAAGTTTTAGGTTTA
1 GGTCAAAAATAGAATTTTTGGACATTTG-GGGTAAAATAG-TAATTTTTGGAAG-TTCAGG-TTA
47598684 AAAATGGAATTTTTGGA
62 AAAATGGAATTTTTGGA
47598701 AGTTTAGGGG
Statistics
Matches: 165, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
115 21 0.13
116 20 0.12
117 95 0.58
118 15 0.09
119 14 0.08
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (116 bp):
GGTCAAAAATAGAATTTTTGGACATTTGGGGTAAAATAGTAATTTTTGGAAGTTCAGGTTAAAAA
TGGAATTTTTGGACATTCAGCGGTAAAATGGTAATTTTTTGAAAGTCTCGA
Found at i:47598675 original size:29 final size:27
Alignment explanation
Indices: 47598592--47598680 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 27
47598582 GACATTCAGC
*
47598592 GGTAAAATGGTAATTTTTGAAGTCTTGA
1 GGTAAAATGATAATTTTTGAAGT-TTGA
* *
47598620 GGTCAAAAAT-AAAATTTTTGGATGTTTGA
1 GGT--AAAATGATAATTTTT-GAAGTTTGA
* *
47598649 GGGTAAAATGATATTTTTTAGAAGTTTTA
1 -GGTAAAATGATAATTTTT-GAAGTTTGA
47598678 GGT
1 GGT
47598681 TTAAAAATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
28 11 0.23
29 25 0.52
30 12 0.25
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (27 bp):
GGTAAAATGATAATTTTTGAAGTTTGA
Found at i:47598697 original size:30 final size:29
Alignment explanation
Indices: 47598595--47598797 Score: 144
Period size: 30 Copynumber: 6.8 Consensus size: 29
47598585 ATTCAGCGGT
*
47598595 AAAATGGTAATTTTT-GAAGTCTT-GAGGTCA
1 AAAAT-GTAATTTTTAGAAGT-TTAG-GGTTA
** * *
47598625 AAAATAAAATTTTTGGATGTTTGAGGG-T-
1 AAAATGTAATTTTTAGAAGTTT-AGGGTTA
* *
47598653 AAAATGATATTTTTTAGAAGTTTTAGGTTTA
1 AAAATG-TAATTTTTAGAAG-TTTAGGGTTA
* * **
47598684 AAAATGGAATTTTTGGAAGTTTAGGGGAAA
1 AAAATGTAATTTTTAGAAGTTTA-GGGTTA
*
47598714 AAAATGTAATTTTTAAAAAGTTTAGGGTTA
1 AAAATGTAATTTTT-AGAAGTTTAGGGTTA
* *
47598744 AAAATGTAATTTTTTAAAAGTTTAGGTGTTG
1 AAAATGTAA-TTTTTAGAAGTTTAGG-GTTA
*
47598775 TAAATGTAATTTTTGAGAAGTTT
1 AAAATGTAATTTTT-AGAAGTTT
47598798 GGGAGCCAAA
Statistics
Matches: 137, Mismatches: 24, Indels: 23
0.74 0.13 0.12
Matches are distributed among these distances:
28 5 0.04
29 25 0.18
30 70 0.51
31 37 0.27
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (29 bp):
AAAATGTAATTTTTAGAAGTTTAGGGTTA
Found at i:47601046 original size:205 final size:204
Alignment explanation
Indices: 47600662--47601049 Score: 564
Period size: 205 Copynumber: 1.9 Consensus size: 204
47600652 GTTTGGTGTT
* * * *
47600662 GTTTATTTGGTCTACTTCTCATTATCTCATCAGGAAGATGACCGCATCCCTTGCTTTGATCACTT
1 GTTTATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATAACCGCATCACTTGCTTTAATCACTT
* * * * * * *
47600727 CTCTGTGTCTCATTAGGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCAT
66 CTCTATATCCCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
47600792 TTTATTGCTTTGACTTGCTTCTCAGTATCTAATCAAGAAGCTAGGGTTCGAAGATTTGCTCGCAT
131 TTTATTGCTTTGACTTGCTTCTCAGTATCTAATCAAGAAGCTAGGGTTCGAAGATTTGCTCGCAT
47600857 CGAGCCTGG
196 CGAGCCTGG
* *
47600866 GTTTGATTTGGTTTACTTCTCAGTATCTCATCAGGAAGATAACCGCATCACTTG-TTTCAATCCG
1 GTTT-ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATAACCGCATCACTTGCTTT-AAT-CA
*
47600930 CTTCTCTATATCCCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAAC
63 CTTCTCTATATCCCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAAC
* * * * *
47600995 CATTTTATTGCTTTGA-TTGCTTCTTAGTATCTCATCAGGAAGTTGGGGTTCGAAG
128 CATTTTATTGCTTTGACTTGCTTCTCAGTATCTAATCAAGAAGCTAGGGTTCGAAG
47601050 GTTCGTTCAC
Statistics
Matches: 162, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
204 7 0.04
205 81 0.50
206 74 0.46
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (204 bp):
GTTTATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATAACCGCATCACTTGCTTTAATCACTT
CTCTATATCCCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
TTTATTGCTTTGACTTGCTTCTCAGTATCTAATCAAGAAGCTAGGGTTCGAAGATTTGCTCGCAT
CGAGCCTGG
Found at i:47601198 original size:39 final size:39
Alignment explanation
Indices: 47601134--47601276 Score: 139
Period size: 39 Copynumber: 3.7 Consensus size: 39
47601124 AATGATTGCC
* * *
47601134 ATCTGCCCCATGATCG-GGAAAGAGATTGGCTGATGATG
1 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGATG
* * **
47601172 ATCTGCCTCAAGCTCGAGGTAAGAGATCGAATGAT--TG
1 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGATG
* *
47601209 CAATCTGCCCCAGGCTCGAGGTAAGAGATTTGCTGATGATG
1 --ATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGATG
* * *
47601250 ATTTGCCCCAAGCTCGGGGTAAAAGAT
1 ATCTGCCCCAAGCTCGAGGTAAGAGAT
47601277 CGAATGACTG
Statistics
Matches: 83, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
37 2 0.02
38 13 0.16
39 66 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGATG
Found at i:47601251 original size:78 final size:77
Alignment explanation
Indices: 47601123--47601317 Score: 255
Period size: 78 Copynumber: 2.5 Consensus size: 77
47601113 TTATCACTTT
* * * *
47601123 GAATGATTGCCATCTGCCCCATGATCGGGAAAGAGATTGGCTGATGATGATCTGCCTCAAGCTCG
1 GAATGATTGCAATCTGCCCCAGGATCGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCG
*
47601188 AGGTAAGAGATC
66 AGGTAAAAGATC
* * *
47601200 GAATGATTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTTGCTGATGATGATTTGCCCCAAGCTC
1 GAATGATTGCAATCTGCCCCAGGATCG-GGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTC
*
47601265 GGGGTAAAAGATC
65 GAGGTAAAAGATC
* * * *
47601278 GAATGACTGTAATCTGCCCCAGGTTTGGGGTAAGAGATTG
1 GAATGATTGCAATCTGCCCCAGG-ATCGGGTAAGAGATTG
47601318 ATTGGCTTTC
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
77 24 0.24
78 76 0.75
79 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (77 bp):
GAATGATTGCAATCTGCCCCAGGATCGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCG
AGGTAAAAGATC
Found at i:47601296 original size:39 final size:39
Alignment explanation
Indices: 47601172--47601355 Score: 147
Period size: 39 Copynumber: 4.7 Consensus size: 39
47601162 GCTGATGATG
* * * *
47601172 ATCTGCCTCAAGCTCGAGGTAAGAGATCGAATGATTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGACTGTA
* * * * *
47601211 ATCTGCCCCAGGCTCGAGGTAAGAGATTTG-CTGA-TGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGA-TCGAATGACTG-TA
* *
47601250 ATTTGCCCCAAGCTCGGGGTAAAAGATCGAATGACTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGACTGTA
* * * * * * *
47601289 ATCTGCCCCAGGTTTGGGGTAAGAGATTGATTGGCTTTCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGACTGT-A
* *
47601329 ATCTGCCCCATGATCGGGGTAAGAGAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGAT
47601356 TGGTGATGTA
Statistics
Matches: 115, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
38 4 0.03
39 82 0.71
40 29 0.25
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGACTGTA
Found at i:47601718 original size:49 final size:49
Alignment explanation
Indices: 47601661--47601840 Score: 182
Period size: 49 Copynumber: 3.7 Consensus size: 49
47601651 TGGTACTGGA
* * *
47601661 TTCGCCATTGTGGCTTAAATCTTTCCCTTCATACTTTCGAGGTACAAGG
1 TTCGCCATTGCGACTTAAACCTTTCCCTTCATACTTTCGAGGTACAAGG
* * * * * *
47601710 TTCACCATTGCGACTTAAACCTTTCTCTTCATATCCTT-GTGGTACTAGA
1 TTCGCCATTGCGACTTAAACCTTTCCCTTCATA-CTTTCGAGGTACAAGG
* * * * * * *
47601759 TTTGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCCAAGGTACAAGG
1 TTCGCCATTGCGACTTAAACCTTTCCCTTCATACTTTCGAGGTACAAGG
* *
47601808 TTCGCCATTGCGACTTACACCTTTCCCTCCATA
1 TTCGCCATTGCGACTTAAACCTTTCCCTTCATA
47601841 TCTGCGTGGT
Statistics
Matches: 100, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
48 2 0.02
49 95 0.95
50 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (49 bp):
TTCGCCATTGCGACTTAAACCTTTCCCTTCATACTTTCGAGGTACAAGG
Found at i:47601787 original size:98 final size:97
Alignment explanation
Indices: 47601629--47601865 Score: 321
Period size: 98 Copynumber: 2.4 Consensus size: 97
47601619 TTGCAGTCGT
* * * *
47601629 AACCTTTCGCTCCATATCTTCGTGGTACTGGATTCGCCATTGTGGCTTAAATCTTTCCCTTCATA
1 AACCTTTCCCTCCATATCTT-GTGGTACTGGATTTGCCGTTGCGGCTTAAATCTTTCCCTTCATA
* *
47601694 CTTTCGAGGTACAAGGTTCACCATTGCGACTTA
65 CTTCCAAGGTACAAGGTTCACCATTGCGACTTA
* * * *
47601727 AACCTTTCTCTTCATATCCTTGTGGTACTAGATTTGCCGTTGCGGCTTAAATCTTTCCCTTCATG
1 AACCTTTCCCTCCATAT-CTTGTGGTACTGGATTTGCCGTTGCGGCTTAAATCTTTCCCTTCATA
*
47601792 CTTCCAAGGTACAAGGTTCGCCATTGCGACTTA
65 CTTCCAAGGTACAAGGTTCACCATTGCGACTTA
* * *
47601825 CACCTTTCCCTCCATATCTGCGTGGTATTGGATTTGCCGTT
1 AACCTTTCCCTCCATATCT-TGTGGTACTGGATTTGCCGTT
47601866 ACACAATTTT
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
97 2 0.02
98 116 0.96
99 3 0.02
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (97 bp):
AACCTTTCCCTCCATATCTTGTGGTACTGGATTTGCCGTTGCGGCTTAAATCTTTCCCTTCATAC
TTCCAAGGTACAAGGTTCACCATTGCGACTTA
Found at i:47601980 original size:44 final size:42
Alignment explanation
Indices: 47601890--47601980 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 42
47601880 TGTGTAACGG
* *
47601890 CGCTTTTTCCAAAAACGCCGCTAAAGAACACAATTTTAGCGG
1 CGCTTTTTCCAAAAACGCCGCTAAAAAACACAATTTTAGCGA
* * ***
47601932 CGCTTTTTACCACAAACGCCTCTAAAAAACATGGTCTTTAGCGA
1 CGCTTTTT-CCAAAAACGCCGCTAAAAAACACAAT-TTTAGCGA
47601976 CGCTT
1 CGCTT
47601981 CCCACAAACG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 8 0.20
43 20 0.50
44 12 0.30
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
CGCTTTTTCCAAAAACGCCGCTAAAAAACACAATTTTAGCGA
Found at i:47606665 original size:28 final size:27
Alignment explanation
Indices: 47606634--47606693 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
47606624 AAAATAAGAC
*
47606634 TTTGAATGCTCGAGGG-TAAAATGGTAAT
1 TTTGAAT-CTC-AGGGAGAAAATGGTAAT
*
47606662 TTTGGACTCTCAGGGAGAAAATGGTAAT
1 TTT-GAATCTCAGGGAGAAAATGGTAAT
47606690 TTTG
1 TTTG
47606694 GGAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.18
28 20 0.71
29 3 0.11
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.33
Consensus pattern (27 bp):
TTTGAATCTCAGGGAGAAAATGGTAAT
Found at i:47606748 original size:28 final size:28
Alignment explanation
Indices: 47606647--47606750 Score: 72
Period size: 28 Copynumber: 3.7 Consensus size: 28
47606637 GAATGCTCGA
* *
47606647 GGGTAAAATGGTAATTTTGGAC-TCTCAG
1 GGGTAAAATGGTAATTTTAGACAT-TTAG
* * * *
47606675 GGAG-AAAATGGTAATTTTGGGAAAATTAA
1 GG-GTAAAATGGTAATTTT-AGACATTTAG
*
47606704 GGTTAAAAAT-G-ACATTTTAGACATTTAG
1 GGGT-AAAATGGTA-ATTTTAGACATTTAG
47606732 GGGTAAAATGGTAATTTTA
1 GGGTAAAATGGTAATTTTA
47606751 TGAAAAAATC
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
27 5 0.09
28 33 0.57
29 15 0.26
30 5 0.09
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTAGACATTTAG
Found at i:47606832 original size:30 final size:29
Alignment explanation
Indices: 47606791--47606896 Score: 128
Period size: 30 Copynumber: 3.7 Consensus size: 29
47606781 TGGACATCCA
47606791 AGGGT-AAAATGGTAA-TTTTGAAAGTTTT
1 AGGGTAAAAATGG-AATTTTTGAAAGTTTT
*
47606819 AGGGTCAAAAATGGAATTTTTGGAAG-TTT
1 AGGGT-AAAAATGGAATTTTTGAAAGTTTT
* * *
47606848 AGGGTTAAAATGGAATTTTTGAAAATTTA
1 AGGGTAAAAATGGAATTTTTGAAAGTTTT
47606877 AGGGTAAAAAATGGAATTTT
1 AGGGT-AAAAATGGAATTTT
47606897 AGGGTTAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
28 22 0.33
29 17 0.25
30 28 0.42
ACGTcount: A:0.39, C:0.01, G:0.25, T:0.36
Consensus pattern (29 bp):
AGGGTAAAAATGGAATTTTTGAAAGTTTT
Found at i:47606841 original size:58 final size:58
Alignment explanation
Indices: 47606765--47606896 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 58
47606755 AAAATCGAGA
* * *
47606765 TAAAAAATGGGATTTTTGGACA-TCCAAGGG-TAAAATGGTAA-TTTTGAAAGTTTTAGGG
1 TAAAAAATGGAATTTTTGGA-AGT-CAAGGGTTAAAATGG-AATTTTTGAAAATTTAAGGG
* **
47606823 TCAAAAATGGAATTTTTGGAAGTTTAGGGTTAAAATGGAATTTTTGAAAATTTAAGGG
1 TAAAAAATGGAATTTTTGGAAGTCAAGGGTTAAAATGGAATTTTTGAAAATTTAAGGG
47606881 TAAAAAATGGAATTTT
1 TAAAAAATGGAATTTT
47606897 AGGGTTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
57 7 0.11
58 57 0.89
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (58 bp):
TAAAAAATGGAATTTTTGGAAGTCAAGGGTTAAAATGGAATTTTTGAAAATTTAAGGG
Found at i:47606919 original size:21 final size:20
Alignment explanation
Indices: 47606871--47606916 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
47606861 AATTTTTGAA
*
47606871 AATTTAAGGGTAAAAAATGG
1 AATTTTAGGGTAAAAAATGG
* *
47606891 AATTTTAGGGTTAAAAATGT
1 AATTTTAGGGTAAAAAATGG
47606911 AATTTT
1 AATTTT
47606917 TAGAAGTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (20 bp):
AATTTTAGGGTAAAAAATGG
Found at i:47606938 original size:30 final size:31
Alignment explanation
Indices: 47606899--47606956 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
47606889 GGAATTTTAG
*
47606899 GGTTAAAAATGTAATTTTTAGA-AGTTTCGA
1 GGTTAAAAATATAATTTTTAGACAGTTTCGA
* *
47606929 GGTTCAAAATATAATTTTTGGACAGTTT
1 GGTTAAAAATATAATTTTTAGACAGTTT
47606957 AGGGACCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (31 bp):
GGTTAAAAATATAATTTTTAGACAGTTTCGA
Found at i:47608093 original size:21 final size:20
Alignment explanation
Indices: 47608068--47608125 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 20
47608058 TACTAATAAC
47608068 TTTATTATTATTAAAAAAAT
1 TTTATTATTATTAAAAAAAT
* *
47608088 ATTTATTATCATTTAAAAAAT
1 -TTTATTATTATTAAAAAAAT
47608109 TATTATTATTATTAAAA
1 T-TTATTATTATTAAAA
47608126 TATTTAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTATTATTATTAAAAAAAT
Found at i:47608838 original size:18 final size:17
Alignment explanation
Indices: 47608816--47608909 Score: 107
Period size: 18 Copynumber: 5.3 Consensus size: 17
47608806 ATATTAAGTG
47608816 TTAAATTTAAATATAAAT
1 TTAAATTTAAA-ATAAAT
* *
47608834 ATAAATTTAAATTAAAT
1 TTAAATTTAAAATAAAT
*
47608851 TTAAATTTTAAAACAAAT
1 TTAAA-TTTAAAATAAAT
*
47608869 TTAAACTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
47608886 TTAATCTTTAAAATAAAT
1 TTAA-ATTTAAAATAAAT
47608904 CTTAAA
1 -TTAAA
47608910 AATGGGTTCA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
17 23 0.37
18 36 0.57
19 4 0.06
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:47608862 original size:7 final size:6
Alignment explanation
Indices: 47608816--47608889 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
47608806 ATATTAAGTG
* *
47608816 TTAAAT TTAAAT ATAAAT ATAAAT TTAAA- TTAAAT TTAAATT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T TTAAAT
** * *
47608863 ACAAAT TTAAAC TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
47608890 TCTTTAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
5 12 0.22
6 37 0.67
7 6 0.11
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:47608879 original size:35 final size:35
Alignment explanation
Indices: 47608816--47608909 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
47608806 ATATTAAGTG
* * *
47608816 TTAAA-TTTAAATATAAATATAAATTTAAATTAAAT
1 TTAAATTTTAAA-ATAAATTTAAACTTAAAATAAAT
*
47608851 TTAAATTTTAAAACAAATTTAAACTTAAAATAAAT
1 TTAAATTTTAAAATAAATTTAAACTTAAAATAAAT
47608886 TT-AATCTTTAAAATAAATCTTAAA
1 TTAAAT-TTTAAAATAAAT-TTAAA
47608910 AATGGGTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
34 3 0.06
35 37 0.73
36 11 0.22
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (35 bp):
TTAAATTTTAAAATAAATTTAAACTTAAAATAAAT
Found at i:47609723 original size:206 final size:206
Alignment explanation
Indices: 47609238--47609759 Score: 588
Period size: 206 Copynumber: 2.5 Consensus size: 206
47609228 AGTTTGGCCG
* * * ** * * * *
47609238 TCTTCTCAGTGTCTCATCAGGAAGATGATCGAATCACTTATTTTGATCCACTTCTTTGTGTTTCA
1 TCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCACTTCTCTGTATCTCA
* * ** * ** * *
47609303 -TCGAGAAGTCGGATTGGGTTTACCTCTCCA-TATCTCATCGGGAAGTTAACCATTTCATTACTT
66 GTAG-GAAGACAAATTTGGTCCACTTCT-CAGTATCTCATCAGGAAGTTAACCATTTCATTACTT
* * * * *
47609366 TGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGCCTGGG
129 CGACCTACTTCTCAATATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTCGCATTAAGCCTGGG
47609431 TTTGATTTGGTCT
194 TTTGATTTGGTCT
* *
47609444 TCTTCTCAGTGTCTCATTAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTATCTCA
1 TCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCACTTCTCTGTATCTCA
* * * *
47609509 GTAGGAAGACGAATTTGGTCCAGTTCTCAGTATCTCATCAGGAAGTTAACCATTTTATTGCTTCG
66 GTAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGTTAACCATTTCATTACTTCG
* * * * *
47609574 ACCTACTTCTCAGTGTCTCATCAGGGAGTTGAGGTTCAAAGATTTGCTCGCATTAAGCTTGGGTT
131 ACCTACTTCTCAATATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTCGCATTAAGCCTGGGTT
47609639 TGATTTGGTCT
196 TGATTTGGTCT
* * *
47609650 TCTTCTTAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCTCATTTC-CATGT-T-
1 TCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT--TCACTTCTC-TGTATC
* * *
47609712 TCA-TCAGGAAGACAAATTTGGTTCACTTCTCTGTATCTCATCAAGAAG
63 TCAGT-AGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAG
47609760 ATGACAGTCT
Statistics
Matches: 268, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
205 3 0.01
206 253 0.94
207 4 0.01
208 8 0.03
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (206 bp):
TCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCACTTCTCTGTATCTCA
GTAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGTTAACCATTTCATTACTTCG
ACCTACTTCTCAATATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTCGCATTAAGCCTGGGTT
TGATTTGGTCT
Found at i:47609760 original size:86 final size:86
Alignment explanation
Indices: 47609641--47609840 Score: 219
Period size: 86 Copynumber: 2.3 Consensus size: 86
47609631 CTTGGGTTTG
** * * * * * *
47609641 ATTTGGTCTTCTTCTTAGTGTCTCATCAGGAAGATGACCG-CATCACTTGTTTTAATCCTCATTT
1 ATTTGGTCCACTTCTCAGTATCTCATCAAGAAGATGACAGTC-TCACTGGTTTTAAT--TCACTT
47609705 C-CATGT-T-TCATCAGGAAGACAA
63 CTC-TGTATCTCATCAGGAAGACAA
* * * *
47609727 ATTTGGTTCACTTCTCTGTATCTCATCAAGAAGATGACAGTCTCGCTGGTTTTAATTCGCTTCTC
1 ATTTGGTCCACTTCTCAGTATCTCATCAAGAAGATGACAGTCTCACTGGTTTTAATTCACTTCTC
*
47609792 TGTATCTCATCAGGAAGACGA
66 TGTATCTCATCAGGAAGACAA
47609813 ATTTGGTCCACTTCTCAGTATCTCATCA
1 ATTTGGTCCACTTCTCAGTATCTCATCA
47609841 GCAAGCTAAC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
84 8 0.08
85 2 0.02
86 84 0.88
87 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (86 bp):
ATTTGGTCCACTTCTCAGTATCTCATCAAGAAGATGACAGTCTCACTGGTTTTAATTCACTTCTC
TGTATCTCATCAGGAAGACAA
Found at i:47609959 original size:292 final size:292
Alignment explanation
Indices: 47609483--47610046 Score: 816
Period size: 292 Copynumber: 1.9 Consensus size: 292
47609473 CGCATCACTT
*
47609483 GTTTCAATTCGCTTCTCTGTATCTCAGTAGGAAGACGAATTTGGTCCAGTTCTCAGTATCTCATC
1 GTTTCAATTCGCTTCTCTGTATCTCAGTAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATC
* * * * *
47609548 AGGAAGTTAACCATTTTATTGCTTCGACCTACTTCTCAGTGTCTCATCAGGGAGTTGAGGTTCAA
66 AGCAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGTGGAGGTTCAA
* * * * * *
47609613 AGATTTGCTCGCATTAAGCTTGGGTTTGATTTGGTCTTCTTCTTAGTGTCTCATCAGGAAGATGA
131 AGATTTGCTCACATCAAGCATGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGA
* * *
47609678 CCGCATCACTT-GTTTTAATCCTCATTTC-CATGT-T-TCATCAGGAAGACAAATTTGGTTCACT
196 CCGCATCA-TTCGTTTCAAT--TCACTTCTC-TGTATCTCATCAGGAAGACAAATTTGGTCCACT
**
47609739 TCTCTGTATCTCATCAAGAAGATGACAGTCTCGCTG
257 TCTCAATATCTCATCAAGAAGATGACAGTCTCGCTG
*
47609775 GTTTTAATTCGCTTCTCTGTATCTCA-TCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCAT
1 GTTTCAATTCGCTTCTCTGTATCTCAGT-AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCAT
* *
47609839 CAGCAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGGTTC
65 CAGCAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAG-TGGAGGTTC
* *
47609904 AAA-ATTTGCTCATATCGAGCATGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGAT
129 AAAGATTTGCTCACATCAAGCATGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGAT
* *
47609968 GACCGCATCATTCGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTC
194 GACCGCATCATTCGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTC
47610033 TCAATATCTCATCA
259 TCAATATCTCATCA
47610047 GGAGCTGACC
Statistics
Matches: 242, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
290 8 0.03
291 5 0.02
292 219 0.90
293 10 0.04
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (292 bp):
GTTTCAATTCGCTTCTCTGTATCTCAGTAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATC
AGCAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGTGGAGGTTCAA
AGATTTGCTCACATCAAGCATGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGA
CCGCATCATTCGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTC
AATATCTCATCAAGAAGATGACAGTCTCGCTG
Found at i:47622029 original size:30 final size:30
Alignment explanation
Indices: 47621946--47622194 Score: 248
Period size: 29 Copynumber: 8.6 Consensus size: 30
47621936 TTTAGGGTCT
* *
47621946 AAAATGGAATTTTTGGAAG-TTCAAGGTCA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
*
47621975 AAAATGG-ATTTTTGGAA-ATTCGAGGTTA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
*
47622003 AAAATGGACTTTTTGGAAGTTTCGAGGTTA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
*
47622033 AAAATGGAATTTTTGGAAG-TTCGAGTGTAA
1 AAAATGGAATTTTTGGAAGTTTCGAG-GTTA
* * * *
47622063 AAACAT--AATTTTTGGAAATTTTGAGATAA
1 AAA-ATGGAATTTTTGGAAGTTTCGAGGTTA
*
47622092 AAAATGGAATTTTTGGAAGTTT-GAGGGTA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
* * *
47622121 AAAATGTAACTTTTGGAAGTTTCGAGG-TC
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
** *
47622150 AAAATTTAATTTTTGGAAG-TTCGAGGGT-
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
* *
47622178 AAAATGTAAGTTTTGGA
1 AAAATGGAATTTTTGGA
47622195 CAATTTAGGG
Statistics
Matches: 190, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
28 49 0.26
29 82 0.43
30 57 0.30
31 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAGTTTCGAGGTTA
Found at i:47622064 original size:59 final size:59
Alignment explanation
Indices: 47621946--47622194 Score: 281
Period size: 59 Copynumber: 4.3 Consensus size: 59
47621936 TTTAGGGTCT
* * * *
47621946 AAAATGGAATTTTTGGAAG-TTCAAGGTCAAAAATGG-ATTTTTGGAAATTCGAGGTTA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
* *
47622003 AAAATGGACTTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGTGTA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
*** * * * * *
47622062 AAAACATAATTTTTGGAAATTTTGAGATAAAAAATGGAATTTTTGGAAGTTTGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
* * * **
47622121 AAAATGTAACTTTTGGAAGTTTCGAGG-TCAAAATTTAATTTTTGGAAGTTCGAGGGT-
1 AAAATGGAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
* *
47622178 AAAATGTAAGTTTTGGA
1 AAAATGGAATTTTTGGA
47622195 CAATTTAGGG
Statistics
Matches: 162, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
57 34 0.21
58 40 0.25
59 88 0.54
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.35
Consensus pattern (59 bp):
AAAATGGAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
Found at i:47623323 original size:22 final size:21
Alignment explanation
Indices: 47623298--47623356 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
47623288 TACTAATAAC
47623298 TTTATTATTTTTAAAAAAATTA
1 TTTATTATTTTTAAAAAAA-TA
*
47623320 TTTATTATCATTTAAAAAAATA
1 TTTATTAT-TTTTAAAAAAATA
*
47623342 -TTATTATTATTAAAA
1 TTTATTATTTTTAAAA
47623357 TATTTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 6 0.18
21 7 0.21
22 10 0.30
23 10 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATTATTTTTAAAAAAATA
Found at i:47624054 original size:6 final size:6
Alignment explanation
Indices: 47624044--47624133 Score: 89
Period size: 6 Copynumber: 15.7 Consensus size: 6
47624034 ATATTAAGTG
*
47624044 TTAAAT ATAAAT TTAAAT TTAAAT TTAAA- TTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
** * * * *
47624090 ACAAAT TTAAAC TTAAA- ATAAAT TTAAAT TCAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
47624134 TCTTTAAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
5 15 0.22
6 52 0.78
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:47624078 original size:17 final size:17
Alignment explanation
Indices: 47624057--47624153 Score: 131
Period size: 17 Copynumber: 5.6 Consensus size: 17
47624047 AATATAAATT
*
47624057 TAAATTTAAATTTAAAT
1 TAAATTTAAATTTAAAA
47624074 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
47624091 CAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
47624108 TAAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
*
47624125 TAAATTTAATCTTTAAAA
1 TAAATTTAA-ATTTAAAA
47624143 TAAATCTTAAA
1 TAAAT-TTAAA
47624154 AATGGGTTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
17 54 0.78
18 11 0.16
19 4 0.06
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:47624928 original size:41 final size:41
Alignment explanation
Indices: 47624878--47625023 Score: 213
Period size: 41 Copynumber: 3.6 Consensus size: 41
47624868 CTTTTCAACT
*
47624878 AGCGTCGCTAATGCTCTGACCTTTAGGGGCGCTTTCCCACA
1 AGCGCCGCTAATGCTCTGACCTTTAGGGGCGCTTTCCCACA
*
47624919 AGCGCCGCTAATGCTCTGACCTTTAGGGGCGCTCTCCCACA
1 AGCGCCGCTAATGCTCTGACCTTTAGGGGCGCTTTCCCACA
* * * *
47624960 AGCACCGCTAATGCTCTTACCTTTAGCGGCGCTTTCCCATA
1 AGCGCCGCTAATGCTCTGACCTTTAGGGGCGCTTTCCCACA
* *
47625001 AGCCCCGCTAATGCT-TTACCTTT
1 AGCGCCGCTAATGCTCTGACCTTT
47625024 GCGGCATTTA
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 8 0.08
41 89 0.92
ACGTcount: A:0.18, C:0.34, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCGCCGCTAATGCTCTGACCTTTAGGGGCGCTTTCCCACA
Found at i:47648207 original size:39 final size:40
Alignment explanation
Indices: 47648153--47648233 Score: 128
Period size: 39 Copynumber: 2.0 Consensus size: 40
47648143 TATGCACTCA
* *
47648153 ATGGACACCTTTTGAAGAGTCAGAACCC-TTTCAAATTGG
1 ATGGACACCTTTTGAAGAATCACAACCCTTTTCAAATTGG
*
47648192 ATGGACACCTTTTGAAGAATCACAACCCTTTTCATATTGG
1 ATGGACACCTTTTGAAGAATCACAACCCTTTTCAAATTGG
47648232 AT
1 AT
47648234 ATACCTCTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 26 0.68
40 12 0.32
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (40 bp):
ATGGACACCTTTTGAAGAATCACAACCCTTTTCAAATTGG
Found at i:47648248 original size:39 final size:38
Alignment explanation
Indices: 47648156--47648248 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
47648146 GCACTCAATG
* * *
47648156 GACACCTTTTGAAGAGTCAGAACCCTTTCAAATTGGAT
1 GACACCTTTGGAAGAATCACAACCCTTTCAAATTGGAT
* *
47648194 GGACACCTTTTGAAGAATCACAACCCTTTTCATATTGGAT
1 -GACACCTTTGGAAGAATCACAACCC-TTTCAAATTGGAT
*
47648234 -ATACCTCTTGGAAGA
1 GACACCT-TTGGAAGA
47648249 GAGTTGTCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.11
39 30 0.64
40 12 0.26
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (38 bp):
GACACCTTTGGAAGAATCACAACCCTTTCAAATTGGAT
Found at i:47657563 original size:34 final size:32
Alignment explanation
Indices: 47657525--47657604 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 32
47657515 AATTCAATCC
* *
47657525 AAATTTTAATTTTAAATAAGTTTGAATTTATTTT
1 AAATTTAAATTTT--ATAAGTTTGAATTTACTTT
* *
47657559 AAATTTAAATTCATTCTGAGTTTGAATTTACTTT
1 AAATTTAAATT--TTATAAGTTTGAATTTACTTT
47657593 AAATTTAAATTT
1 AAATTTAAATTT
47657605 ATTTTCAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 1 0.03
34 37 0.93
36 2 0.05
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (32 bp):
AAATTTAAATTTTATAAGTTTGAATTTACTTT
Found at i:47657569 original size:17 final size:17
Alignment explanation
Indices: 47657549--47657620 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
47657539 AATAAGTTTG
47657549 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * * * *
47657566 AATTCATTCTGAGTTTG
1 AATTTATTTTAAATTTA
*
47657583 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
47657600 AATTTATTTTCAATTAA
1 AATTTATTTTAAATTTA
47657617 AATT
1 AATT
47657621 AATTAAAAAG
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:47657872 original size:25 final size:25
Alignment explanation
Indices: 47657844--47657893 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
47657834 AACCAAGTTA
*
47657844 CCACCACCAGCTTCAACTTGCTCTG
1 CCACCACCAGCTTCAACCTGCTCTG
*
47657869 CCACCATCAGCTTCAACCTGCTCTG
1 CCACCACCAGCTTCAACCTGCTCTG
47657894 TCATTACCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.44, G:0.12, T:0.24
Consensus pattern (25 bp):
CCACCACCAGCTTCAACCTGCTCTG
Found at i:47659487 original size:30 final size:29
Alignment explanation
Indices: 47659451--47659542 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 29
47659441 CCTTAAAGGT
47659451 CCCTAAACTATCCAAAATTTACATTTTTAC
1 CCCTAAACT-TCCAAAATTTACATTTTTAC
* * *
47659481 CCCTAAACTTCCAAAAATTCCATTTATAAC
1 CCCTAAACTTCCAAAATTTACATTT-TTAC
* *
47659511 CCCAAAACTTCTTAAAA-TTACCA-TTTTAC
1 CCCTAAACTTC-CAAAATTTA-CATTTTTAC
47659540 CCC
1 CCC
47659543 CAAATATCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
29 20 0.38
30 26 0.50
31 6 0.12
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (29 bp):
CCCTAAACTTCCAAAATTTACATTTTTAC
Found at i:47659544 original size:30 final size:28
Alignment explanation
Indices: 47659455--47659834 Score: 97
Period size: 29 Copynumber: 12.9 Consensus size: 28
47659445 AAAGGTCCCT
* * *
47659455 AAACTATCCAAAATTTACATTTTTACCCCT
1 AAACT-TCCAAAAATTCCA-TTTTACCCCA
47659485 AAACTTCCAAAAATTCCATTTATAACCCCA
1 AAACTTCCAAAAATTCCATTT-T-ACCCCA
** *
47659515 AAACTTCTTAAAATTACCATTTTACCCCC
1 AAACTTCCAAAAATT-CCATTTTACCCCA
* *
47659544 AAA-TATCC-AAATTTCCTTTTTTGACCCCA
1 AAACT-TCCAAAAATTCC-ATTTT-ACCCCA
* ** * *
47659573 AATCTTTTGAAAAATACCATTTTACCCCC
1 AAAC-TTCCAAAAATTCCATTTTACCCCA
* ** * * * **
47659602 GAAGGTCTAAAAATTCTATTTTTAACCTT
1 AAACTTCCAAAAATTCCA-TTTTACCCCA
* **
47659631 GAACTTTCCAAAAATTATAATTTTACCCTC-
1 AAAC-TTCCAAAAATT-CCATTTTACCC-CA
** * * *
47659661 GGA-TGTCTAAAAATTCCATTTTTGATCCCG
1 AAACT-TCCAAAAATTCCA-TTTT-ACCCCA
* * * *
47659691 AACCTTCCAAGAAGTACCATTTTACCCCT
1 AAACTTCCAA-AAATTCCATTTTACCCCA
* ***
47659720 AAA-TATCTAAAAATTCCATTTTTGACCTTG
1 AAACT-TCCAAAAATTCCA-TTTT-ACCCCA
* *
47659750 AACCTTCCAAAAATTACCATTTTACCCCC
1 AAACTTCCAAAAATT-CCATTTTACCCCA
* * * * *
47659779 GAACGTCTAAAAATTCCATTTTTGACCTCG
1 AAACTTCCAAAAATTCCA-TTTT-ACCCCA
*
47659809 AACCTTCCAAAAATTACCA-TTTACCC
1 AAACTTCCAAAAATT-CCATTTTACCC
47659835 TCGAGTATCC
Statistics
Matches: 252, Mismatches: 71, Indels: 56
0.66 0.19 0.15
Matches are distributed among these distances:
27 2 0.01
28 37 0.15
29 94 0.37
30 91 0.36
31 28 0.11
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (28 bp):
AAACTTCCAAAAATTCCATTTTACCCCA
Found at i:47659669 original size:59 final size:59
Alignment explanation
Indices: 47659493--47659834 Score: 323
Period size: 59 Copynumber: 5.8 Consensus size: 59
47659483 CTAAACTTCC
* * * * ** * *
47659493 AAAAATTCCATTTATAACCCCAAAACTTCTTAAAATTACCATTTTACCCCCAAATATC-
1 AAAAATTCCATTTTTAACCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAATGTCT
* * * * * * * ** *
47659551 CAAATTTCCTTTTTTGACCCCAAATCTTTTGAAAAA-TACCATTTTACCCCCGAAGGTCT
1 AAAAATTCCATTTTTAACCTCGAA-CCTTCCAAAAATTACCATTTTACCCCCGAATGTCT
* * * ** * *
47659610 AAAAATTCTATTTTTAACCTTGAACTTTCCAAAAATTATAATTTTACCCTCGGATGTCT
1 AAAAATTCCATTTTTAACCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAATGTCT
* * * ** *
47659669 AAAAATTCCATTTTTGATCC-CGAACCTTCCAAGAAGTACCATTTTACCCCTAAATATCT
1 AAAAATTCCATTTTT-AACCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAATGTCT
* * *
47659728 AAAAATTCCATTTTTGACCTTGAACCTTCCAAAAATTACCATTTTACCCCCGAACGTCT
1 AAAAATTCCATTTTTAACCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAATGTCT
*
47659787 AAAAATTCCATTTTTGACCTCGAACCTTCCAAAAATTACCA-TTTACCC
1 AAAAATTCCATTTTTAACCTCGAACCTTCCAAAAATTACCATTTTACCC
47659835 TCGAGTATCC
Statistics
Matches: 228, Mismatches: 51, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
58 56 0.25
59 169 0.74
60 3 0.01
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (59 bp):
AAAAATTCCATTTTTAACCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAATGTCT
Found at i:47659836 original size:29 final size:30
Alignment explanation
Indices: 47659582--47659862 Score: 130
Period size: 29 Copynumber: 9.6 Consensus size: 30
47659572 AAATCTTTTG
* ** *
47659582 AAAAA-TACCATTTTACCCCCGAA-GGTCT
1 AAAAATTACCATTTTACCCTCGAACCTTCC
* * * *
47659610 AAAAATT-CTATTTTTAACCTTGAACTTTCC
1 AAAAATTACCA-TTTTACCCTCGAACCTTCC
** * *
47659640 AAAAATTATAATTTTACCCTCGGA--TGTCT
1 AAAAATTACCATTTTACCCTCGAACCT-TCC
*
47659669 AAAAATT-CCATTTTTGATCC-CGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAACCTTCC
* * * * *
47659699 AAGAAGTACCATTTTACCC-CTAA-ATATCT
1 AAAAATTACCATTTTACCCTCGAACCT-TCC
*
47659728 AAAAATT-CCATTTTTGA-CCTTGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAACCTTCC
* * *
47659758 AAAAATTACCATTTTACCCCCGAA-CGTCT
1 AAAAATTACCATTTTACCCTCGAACCTTCC
47659787 AAAAATT-CCATTTTTGA-CCTCGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAACCTTCC
*
47659817 AAAAATTACCA-TTTACCCTCG-A-GTATCC
1 AAAAATTACCATTTTACCCTCGAACCT-TCC
*
47659845 -AAAATTACCGTTTTACCC
1 AAAAATTACCATTTTACCC
47659863 CTGGGCATCC
Statistics
Matches: 190, Mismatches: 39, Indels: 48
0.69 0.14 0.17
Matches are distributed among these distances:
27 10 0.05
28 28 0.15
29 75 0.39
30 65 0.34
31 12 0.06
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (30 bp):
AAAAATTACCATTTTACCCTCGAACCTTCC
Found at i:47661226 original size:59 final size:60
Alignment explanation
Indices: 47661148--47661287 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 60
47661138 AAAATTTGTG
* * * * *
47661148 TTTTTGGTTGTTGGCCATGCAATGGTCGACACCCCC-TTTTTGTCAGATAATAATTCGAAT
1 TTTTTGG-TGTCGGCCATGCAATGGCCGACACCCCCTTTTTTATCAGATAAAAATTCAAAT
* * * *
47661208 TTTTTTGTGTCGGCCATGCCATGGCCGACACCCCCTTTTTTATCTGGTAAAAATTCAAAT
1 TTTTTGGTGTCGGCCATGCAATGGCCGACACCCCCTTTTTTATCAGATAAAAATTCAAAT
47661268 TTTTTGGTGTCGGCCATGCA
1 TTTTTGGTGTCGGCCATGCA
47661288 CCAACTTTCC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 25 0.37
60 43 0.63
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (60 bp):
TTTTTGGTGTCGGCCATGCAATGGCCGACACCCCCTTTTTTATCAGATAAAAATTCAAAT
Found at i:47662920 original size:22 final size:22
Alignment explanation
Indices: 47662862--47662913 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
47662852 TTAGGGTGTT
*
47662862 GGTGAGCTGGAATTTCGGTTTT
1 GGTGAGCTGGAATTTCGGTTTA
* *
47662884 GATGAGTTGGAATTTCGGTTTA
1 GGTGAGCTGGAATTTCGGTTTA
47662906 GGTGAGCT
1 GGTGAGCT
47662914 AAAATTTGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.08, G:0.37, T:0.38
Consensus pattern (22 bp):
GGTGAGCTGGAATTTCGGTTTA
Found at i:47663263 original size:82 final size:84
Alignment explanation
Indices: 47663012--47663388 Score: 604
Period size: 82 Copynumber: 4.5 Consensus size: 84
47663002 TAAATTTAAA
47663012 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
47663077 ATTGTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
* *
47663096 ATTTGATAAAAATTGTAATATAATAATGATTTTTTAATTTAAATAATAAAATTTGATAAAT-ATG
1 ATTTGATAAAAATTGTAATATAATAAT-AATTTTTAATTTAAATATTAAAATTTGATAAATAATG
*
47663160 TATTGTCAAATCAATACATT
65 TATTGTCAAATCAACACATT
*
47663180 ATCTGATAAAAA-TGTAATATAATAATAATTTTT-ATTTAAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
*
47663243 ATTGTCAAATCAACATATT
66 ATTGTCAAATCAACACATT
*
47663262 ATTTGATAAAAATTATAATATAATAAT-ATTTTTAATTT-AATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
*
47663325 ATTGTCAAATCAACAAATT
66 ATTGTCAAATCAACACATT
* *
47663344 ATTTGAT-AAAATTGTAATGTAATAATAATCTTTTTTATTTAAATA
1 ATTTGATAAAAATTGTAATATAATAATAA--TTTTTAATTTAAATA
47663389 ATGTTAAATT
Statistics
Matches: 271, Mismatches: 14, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
81 41 0.15
82 95 0.35
83 31 0.11
84 69 0.25
85 35 0.13
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (84 bp):
ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
ATTGTCAAATCAACACATT
Found at i:47663431 original size:23 final size:23
Alignment explanation
Indices: 47663387--47663435 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
47663377 TTTATTTAAA
* *
47663387 TAATGTTAAATTAATTTTAAATG
1 TAATGTTAAATTAACTTCAAATG
47663410 TAAT-TTAAATTCAACTTCAAATG
1 TAATGTTAAATT-AACTTCAAATG
47663433 TAA
1 TAA
47663436 AGTAGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (23 bp):
TAATGTTAAATTAACTTCAAATG
Found at i:47682156 original size:13 final size:13
Alignment explanation
Indices: 47682138--47682183 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
47682128 TAGAGTTTCT
47682138 TATATTTTTAAAA
1 TATATTTTTAAAA
* *
47682151 TATATTTTTATAT
1 TATATTTTTAAAA
*
47682164 TTTATTTTT-AAA
1 TATATTTTTAAAA
47682176 TAT-TTTTT
1 TATATTTTT
47682184 CCATATTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
11 5 0.19
12 3 0.11
13 19 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATATTTTTAAAA
Found at i:47682175 original size:26 final size:25
Alignment explanation
Indices: 47682140--47682192 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
47682130 GAGTTTCTTA
47682140 TATTTTTAAAATATATTTTT-ATATTT
1 TATTTTT-AAATAT-TTTTTCATATTT
47682166 TATTTTTAAATATTTTTTCCATATTT
1 TATTTTTAAATATTTTTT-CATATTT
47682192 T
1 T
47682193 TAATTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.20
25 6 0.24
26 14 0.56
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (25 bp):
TATTTTTAAATATTTTTTCATATTT
Found at i:47687911 original size:33 final size:33
Alignment explanation
Indices: 47687872--47687937 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
47687862 TAGCTGCTTC
* *
47687872 TTTAAGATCAAGATGTTTAGTCGCTTGGGCTCT
1 TTTAAGATCAAGAAGTTTAGTCACTTGGGCTCT
*
47687905 TTTAAGATCAAGAAGTTTAGTCACTTGGTCTCT
1 TTTAAGATCAAGAAGTTTAGTCACTTGGGCTCT
47687938 CTTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (33 bp):
TTTAAGATCAAGAAGTTTAGTCACTTGGGCTCT
Found at i:47688283 original size:42 final size:41
Alignment explanation
Indices: 47688032--47688397 Score: 281
Period size: 41 Copynumber: 9.0 Consensus size: 41
47688022 CGTTTGGAAA
* * *
47688032 TAAAGCGCCGCAAAAGGTA-AAGCATTAGCGGCGCTTTTC-T
1 TAAAGCGCCGCTAAAGGTAGGATCATTAGCGGCGC-TTTCAT
* * * * *
47688072 TAATGCGCCGCAAAATGTA-AAGCATTAGCGGCGCTTT-AT
1 TAAAGCGCCGCTAAAGGTAGGATCATTAGCGGCGCTTTCAT
* *
47688111 CACAAGCGCCGCTAAAGGTCAGG-TAATTAGCGGCGCTTTC-T
1 TA-AAGCGCCGCTAAAGGT-AGGATCATTAGCGGCGCTTTCAT
* * * * * * *
47688152 CAAATGCACCGCTAAAGGTAGGGTAATTAGCGACGC-TTGAGG
1 TAAA-GCGCCGCTAAAGGTAGGATCATTAGCGGCGCTTTCA-T
* **
47688194 GAAAGCGCCGCTAAAGGTTAGG-TCATTAGCGGCGCTTTCCC
1 TAAAGCGCCGCTAAAGG-TAGGATCATTAGCGGCGCTTTCAT
47688235 TAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCAT
1 TAAAGCGCCGCTAAAGGTAGGATCA-TTAGCGGCGCTTTCAT
* * * *
47688277 TTAAGCGCCGCTAAAGTTCGGGTCATTAGCGGCGCTTATACA-
1 TAAAGCGCCGCTAAAGGTAGGATCATTAGCGGCGCTT-T-CAT
*
47688319 TAAAGCGCCGCTAAAGGTCAGG-TCATTAGCGGCGCTTTTAT
1 TAAAGCGCCGCTAAAGGT-AGGATCATTAGCGGCGCTTTCAT
* * *
47688360 AATAAGCGTCACTAAAGGT-GTGA--ATTAGCGGCGCTTTC
1 TA-AAGCGCCGCTAAAGGTAG-GATCATTAGCGGCGCTTTC
47688398 CCATAAGCGC
Statistics
Matches: 271, Mismatches: 35, Indels: 40
0.78 0.10 0.12
Matches are distributed among these distances:
39 5 0.02
40 72 0.27
41 100 0.37
42 90 0.33
43 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (41 bp):
TAAAGCGCCGCTAAAGGTAGGATCATTAGCGGCGCTTTCAT
Found at i:47688375 original size:84 final size:83
Alignment explanation
Indices: 47688054--47688376 Score: 254
Period size: 83 Copynumber: 3.9 Consensus size: 83
47688044 AAAGGTAAAG
* * * * * * * *
47688054 CATTAGCGGCGCTTTTCTTAATGCGCCGCAAAATGTA-AAGCA-TTAGCGGCGCTTT-ATCACAA
1 CATTAGCGGCGCTTTACATAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCAT-ATAA
* * *
47688116 GCGCCGCTAAAGGTCAGGT
65 GCGCCACTAAAGTTCGGGT
* * * * * * *
47688135 AATTAGCGGCGCTTT-C-TCAAATGCACCGCTAAAGGTAGGGT-AATTAGCGACGC-TTGAGGGA
1 CATTAGCGGCGCTTTACAT-AAA-GCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCA--TA
* *
47688196 -AAGCGCCGCTAAAGGTT-AGGT
62 TAAGCGCCACTAAA-GTTCGGGT
* * *
47688217 CATTAGCGGCGCTTTCCCTAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCATTTAAG
1 CATTAGCGGCGCTTTACATAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCATATAAG
*
47688282 CGCCGCTAAAGTTCGGGT
66 CGCCACTAAAGTTCGGGT
*
47688300 CATTAGCGGCGCTTATACATAAAGCGCCGCTAAAGGTCAGG-TCA-TTAGCGGCGCTTTTATAAT
1 CATTAGCGGCGCTT-TACATAAAGCGCCGCTAAAGGT-AGGATCATTTAGCGGCGCTTTCAT-AT
*
47688363 AAGCGTCACTAAAG
63 AAGCGCCACTAAAG
47688377 GTGTGAATTA
Statistics
Matches: 199, Mismatches: 26, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
80 3 0.02
81 29 0.15
82 61 0.31
83 62 0.31
84 40 0.20
85 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (83 bp):
CATTAGCGGCGCTTTACATAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCATATAAG
CGCCACTAAAGTTCGGGT
Found at i:47690741 original size:49 final size:49
Alignment explanation
Indices: 47690698--47691399 Score: 332
Period size: 49 Copynumber: 14.2 Consensus size: 49
47690688 AAGTATCCTT
47690698 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * *
47690747 GTATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * * *
47690795 GTATATTAATTTAAAAAATATAATTATTTAATTGTATTAAACTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * ** * *
47690844 TTATATTAAATTATTTAATCATG-TTTAATTATGTATTTA-ATTATAAACACTATCGA
1 TTATATTAAGTTA---AA--A-GATTTAATTATTTAATTATATTA-AAGTA-AAT-AA
* ** *
47690900 TTA-ATTAAATATTTAAG-TTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAGT-TAAAAGATT--TA-A-TT-ATT---TAATTATATTAAAGTAAATAA
*
47690956 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAATTAAA-AGA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATA-A
* * * * * ** * * *
47691005 TT-TAATT-ATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAATAT
1 TTAT-ATTAAGTTAA-AAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * * ** * **
47691054 TTA-ATT-ATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAA-AGA
1 TTATATTAAGTTAA-AAGATTTAATTATTTAATTATATTAAAGTAAATA-A
* ** * * ** * **
47691102 -TATAATT-ATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAA
1 TTAT-ATTAAGTTAAAAG-ATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * * * * * *
47691151 TCATGTTTAA-TT-ATATATTTAATTA--TAA--ACACTACCGATTAATTAA
1 TTAT-ATTAAGTTAAAAGATTTAATTATTTAATTATATTA--AAGTAAATAA
* *
47691197 ATAT-TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * ** *
47691245 TTATATCAAGTTGAAAGATTTAATTATTTAATTATATTAAAGTATCCT-T
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTA-AATAA
*
47691294 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTTAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * ** *
47691343 GTATATTAAATT-AATTATTTAATTATTTAATTATATTAAGGTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
47691391 TTATATTAA
1 TTATATTAA
47691400 ATTATTTAAT
Statistics
Matches: 519, Mismatches: 89, Indels: 91
0.74 0.13 0.13
Matches are distributed among these distances:
44 8 0.02
45 2 0.00
46 24 0.05
47 3 0.01
48 156 0.30
49 227 0.44
50 17 0.03
51 2 0.00
52 6 0.01
53 8 0.02
54 19 0.04
55 12 0.02
56 13 0.03
57 10 0.02
58 8 0.02
59 4 0.01
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (49 bp):
TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
Found at i:47690862 original size:18 final size:18
Alignment explanation
Indices: 47690719--47691421 Score: 144
Period size: 18 Copynumber: 41.3 Consensus size: 18
47690709 TAAAAGATTT
47690719 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
47690737 AAGTAAATAAGTATATTA
1 AATTATTTAATTATATTA
47690755 AATTA---AA-TAT-TT-
1 AATTATTTAATTATATTA
47690767 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
47690785 AAGTAAATAAGTATATT-
1 AATTATTTAATTATATTA
* **
47690802 AA-T-TTAAAAAATA-T-
1 AATTATTTAATTATATTA
*
47690816 AATTATTTAATTGTATTA
1 AATTATTTAATTATATTA
* **
47690834 AACTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
47690852 AATTATTTAATCATGTTTA
1 AATTATTTAATTAT-ATTA
47690871 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* **
47690890 ACACTA-TCGATTA-ATTA
1 A-ATTATTTAATTATATTA
* *
47690907 AA-TATTTAAGTTAAAAGATTT
1 AATTATTTAA-TT---ATATTA
47690928 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
47690946 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
* * *
47690964 AGTTA---AA--AGATTT
1 AATTATTTAATTATATTA
47690977 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* *
47690995 AATTA---AA--AGATTT
1 AATTATTTAATTATATTA
47691008 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
47691026 AAGTAAATAAGTATATTA
1 AATTATTTAATTATATTA
47691044 AATTA---AA-TAT-TT-
1 AATTATTTAATTATATTA
47691056 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
47691074 AAGTAAATAAGTATATT-
1 AATTATTTAATTATATTA
* **
47691091 AA-T-TTAAAAGATA-T-
1 AATTATTTAATTATATTA
*
47691105 AATTATTTAATTGTATTA
1 AATTATTTAATTATATTA
* **
47691123 AACTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
47691141 AATTATTTAATCATGTTTA
1 AATTATTTAATTAT-ATTA
47691160 ATTATATATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* ***
47691179 ACACTA-CCGATTA-ATTA
1 A-ATTATTTAATTATATTA
* *
47691196 AA-TATTTAAGTTAAAAGATTT
1 AATTATTTAA-TT---ATATTA
47691217 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
47691235 AAGTAACTAATTATATCA
1 AATTATTTAATTATATTA
* *
47691253 AGTTGA---AA-GAT-TT-
1 AATT-ATTTAATTATATTA
47691266 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
*
47691284 AAGTATCCTT--TTATATTA
1 AATTAT--TTAATTATATTA
* * *
47691302 AGTTA---AA--AGATTT
1 AATTATTTAATTATATTA
47691315 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* *
47691333 AAGTTA-ATAAGTATATT-
1 AA-TTATTTAATTATATTA
47691350 AA--A-TTAATTAT-TT-
1 AATTATTTAATTATATTA
47691363 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
** **
47691381 AGGTAAATAATTATATTA
1 AATTATTTAATTATATTA
*
47691399 AATTATTTAATTATATTT
1 AATTATTTAATTATATTA
47691417 AATTA
1 AATTA
47691422 ACTATTTAAC
Statistics
Matches: 484, Mismatches: 123, Indels: 156
0.63 0.16 0.20
Matches are distributed among these distances:
12 11 0.02
13 36 0.07
14 20 0.04
15 35 0.07
16 52 0.11
17 28 0.06
18 230 0.48
19 16 0.03
20 4 0.01
21 18 0.04
22 34 0.07
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (18 bp):
AATTATTTAATTATATTA
Found at i:47690986 original size:8 final size:8
Alignment explanation
Indices: 47690973--47691074 Score: 52
Period size: 8 Copynumber: 12.8 Consensus size: 8
47690963 AAGTTAAAAG
47690973 ATTTAATT
1 ATTTAATT
47690981 ATTTAATT
1 ATTTAATT
47690989 ATATTAA--
1 AT-TTAATT
* **
47690996 ATTAAAAG
1 ATTTAATT
47691004 ATTTAATT
1 ATTTAATT
47691012 ATTTAATT
1 ATTTAATT
*
47691020 ATATTAAAGT
1 AT-TT-AATT
** *
47691030 AAATAAGT
1 ATTTAATT
47691038 ATATTAA--
1 AT-TTAATT
*
47691045 A-TTAAAT
1 ATTTAATT
47691052 ATTTAATT
1 ATTTAATT
47691060 ATTTAATT
1 ATTTAATT
47691068 ATATTAA
1 AT-TTAA
47691075 AGTAAATAAG
Statistics
Matches: 74, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.05
6 3 0.04
7 4 0.05
8 45 0.61
9 14 0.19
10 4 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (8 bp):
ATTTAATT
Found at i:47690988 original size:31 final size:31
Alignment explanation
Indices: 47690953--47691032 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
47690943 TTAAAGTAAA
*
47690953 TAATTATATTAAGTTAAAAGATTTAATTATT
1 TAATTATATTAAATTAAAAGATTTAATTATT
47690984 TAATTATATTAAATTAAAAGATTTAATTATT
1 TAATTATATTAAATTAAAAGATTTAATTATT
*
47691015 TAATTATATTAAAGTAAA
1 TAATTATATTAAATTAAA
47691033 TAAGTATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (31 bp):
TAATTATATTAAATTAAAAGATTTAATTATT
Found at i:47691055 original size:289 final size:292
Alignment explanation
Indices: 47690698--47691399 Score: 1149
Period size: 289 Copynumber: 2.4 Consensus size: 292
47690688 AAGTATCCTT
*
47690698 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAT
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAT
47690763 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAAATATAATTATTTAATT
66 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAAATATAATTATTTAATT
*
47690828 GTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACA
131 GTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTAATTATAAACA
*
47690893 CTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATT
196 CTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATT
*
47690958 ATATTAAGTTAAAAGATTTAATTA-T-TTA-A
261 ATATCAAGTTAAAAGATTTAATTATTATTATA
47690987 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAT
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAT
*
47691052 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATT
66 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAAATATAATTATTTAATT
47691117 GTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTAATTATAAACA
131 GTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTAATTATAAACA
*
47691182 CTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATT
196 CTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATT
*
47691247 ATATCAAGTTGAAAGATTTAATTATTTAATTATA
261 ATATCAAGTTAAAAGATTTAATTA-TT-ATTATA
*
47691281 TTAAAGTATCCTTTTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTTAATAAGTA
1 TT--A-TA------T-TA--AA-TTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTA
* * *
47691346 TATTAAATTAATTATTTAATTATTTAATTATATTAAGGTAAATAATTATATTAA
53 TATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAA
47691400 ATTATTTAAT
Statistics
Matches: 384, Mismatches: 11, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
289 277 0.72
291 1 0.00
293 3 0.01
294 3 0.01
296 1 0.00
297 2 0.01
303 1 0.00
304 2 0.01
306 2 0.01
307 92 0.24
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (292 bp):
TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAT
ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAAATATAATTATTTAATT
GTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTAATTATAAACA
CTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATT
ATATCAAGTTAAAAGATTTAATTATTATTATA
Found at i:47691322 original size:210 final size:210
Alignment explanation
Indices: 47690978--47691355 Score: 562
Period size: 210 Copynumber: 1.8 Consensus size: 210
47690968 AAAAGATTTA
* * *
47690978 ATTATTTAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATT
1 ATTAATTAAATATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATC
* *
47691043 AAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAAT
66 AAATTAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATATAAT
* *
47691108 TATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTAA
131 TATTTAATTATATTAAACTAAATAAGTATATTAAATTATTTAATCATGTTTAATTATATATTTAA
47691173 TTATAAACACTACCG
196 TTATAAACACTACCG
* * *
47691188 ATTAATTAAATAT-TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATC
1 ATTAATTAAATATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATC
* ** ** *
47691252 AAGTTGAAAGATTTAATTATTTAATTATATTAAAGTATCCT-TTTATATTAAGTTAAAAGATTTA
66 AAATT-AAAGATTTAATTATTTAATTATATTAAAGTA-AATAAGTATATTAAGTTAAAAGATATA
* *
47691316 ATTATTTAATTATATTAAAGTTAATAAGTATATTAAATTA
129 ATTATTTAATTATATTAAACTAAATAAGTATATTAAATTA
47691356 ATTATTTAAT
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
209 51 0.34
210 96 0.65
211 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (210 bp):
ATTAATTAAATATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATC
AAATTAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATATAAT
TATTTAATTATATTAAACTAAATAAGTATATTAAATTATTTAATCATGTTTAATTATATATTTAA
TTATAAACACTACCG
Found at i:47691324 original size:8 final size:8
Alignment explanation
Indices: 47691311--47691412 Score: 59
Period size: 8 Copynumber: 12.2 Consensus size: 8
47691301 AAGTTAAAAG
47691311 ATTTAATT
1 ATTTAATT
47691319 ATTTAATT
1 ATTTAATT
47691327 ATATTAAAGTT
1 AT-TT-AA-TT
* *
47691338 A-ATAAGT
1 ATTTAATT
47691345 ATATTAA--
1 AT-TTAATT
47691352 A-TTAATT
1 ATTTAATT
47691359 ATTTAATT
1 ATTTAATT
47691367 ATTTAATT
1 ATTTAATT
*
47691375 ATATTAAGGT
1 AT-TTAA-TT
**
47691385 AAATAATT
1 ATTTAATT
47691393 ATATTAAATT
1 AT-TT-AATT
47691403 ATTTAATT
1 ATTTAATT
47691411 AT
1 AT
47691413 ATTTAATTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
5 4 0.05
7 4 0.05
8 36 0.49
9 16 0.22
10 10 0.14
11 3 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (8 bp):
ATTTAATT
Found at i:47691486 original size:8 final size:8
Alignment explanation
Indices: 47691450--47691543 Score: 56
Period size: 8 Copynumber: 11.8 Consensus size: 8
47691440 TGGTCGTAAA
47691450 TAATTATAT
1 TAATTAT-T
47691459 ATAATTATT
1 -TAATTATT
47691468 TAAGCTTATT
1 TAA--TTATT
47691478 TAATTATT
1 TAATTATT
47691486 TAATTGA--
1 TAATT-ATT
**
47691493 -AAAGATT
1 TAATTATT
47691500 TAATTATT
1 TAATTATT
47691508 TAATTATAT
1 TAATTAT-T
47691517 TAA--A-T
1 TAATTATT
*
47691522 TAAATATT
1 TAATTATT
*
47691530 AAATTATT
1 TAATTATT
47691538 TAATTA
1 TAATTA
47691544 ATAAAAACAG
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
5 5 0.07
6 2 0.03
7 2 0.03
8 37 0.55
9 6 0.09
10 15 0.22
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (8 bp):
TAATTATT
Found at i:47692258 original size:66 final size:66
Alignment explanation
Indices: 47692152--47692308 Score: 226
Period size: 66 Copynumber: 2.4 Consensus size: 66
47692142 CAAATTGCTC
* *
47692152 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATC-T
1 AACTTAAAGAGGAGGTTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCA-CAT
47692216 AA
65 AA
* *
47692218 AACTTAAAGAGGAGGTTGCAATGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACATA
1 AACTTAAAGAGGAGGTTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
*
47692283 C
66 A
* * *
47692284 AACTTAAAGTGGAGGTAGCAGCGAG
1 AACTTAAAGAGGAGGTTGCAACGAG
47692309 GCAAGCCGAG
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 1 0.01
66 80 0.99
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.16
Consensus pattern (66 bp):
AACTTAAAGAGGAGGTTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
A
Found at i:47692321 original size:21 final size:21
Alignment explanation
Indices: 47692295--47692335 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
47692285 ACTTAAAGTG
47692295 GAGGTAGCAGCGAGGCAAGCC
1 GAGGTAGCAGCGAGGCAAGCC
47692316 GAGGTAGCAGCGAGGCAAGC
1 GAGGTAGCAGCGAGGCAAGC
47692336 GAATGAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.44, T:0.05
Consensus pattern (21 bp):
GAGGTAGCAGCGAGGCAAGCC
Found at i:47692710 original size:43 final size:43
Alignment explanation
Indices: 47692645--47692742 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
47692635 ATCTGTTATA
* * *
47692645 TTAGCGGCGCTTTTGGATAAAGCGCCGCT-AAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTGAAA-AACATGGCAT
47692688 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTGAAAAACATGGCAT
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTGAAAAACATGGCAT
* *
47692731 TCAACGGCGCTT
1 TTAGCGGCGCTT
47692743 TTTCAGAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
43 46 0.94
44 3 0.06
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (43 bp):
TTAGCGGCGCTTGTGGAGAAAGCGCCGCTGAAAAACATGGCAT
Found at i:47692752 original size:28 final size:28
Alignment explanation
Indices: 47692721--47692774 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
47692711 GCCGCTGAAA
47692721 AACAT-GGCATTCAACGGCGCTTTTTCAG
1 AACATGGGC-TTCAACGGCGCTTTTTCAG
*
47692749 AACATGGGCTTCAGCGGCGCTTTTTC
1 AACATGGGCTTCAACGGCGCTTTTTC
47692775 GCATAAACGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (28 bp):
AACATGGGCTTCAACGGCGCTTTTTCAG
Found at i:47697516 original size:19 final size:19
Alignment explanation
Indices: 47697494--47697538 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47697484 TTATATTAGG
47697494 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
47697513 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
47697532 ATTTAAT
1 ATTTAAT
47697539 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:47699964 original size:21 final size:21
Alignment explanation
Indices: 47699939--47699988 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
47699929 GAATTTCAGC
*
47699939 AGCAATCTATAGATTTCCAAA
1 AGCAAACTATAGATTTCCAAA
* * *
47699960 AGCAAACTGTGGATTTTCAAA
1 AGCAAACTATAGATTTCCAAA
*
47699981 AGAAAACT
1 AGCAAACT
47699989 GAGGCATCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (21 bp):
AGCAAACTATAGATTTCCAAA
Found at i:47699989 original size:21 final size:21
Alignment explanation
Indices: 47699950--47699989 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47699940 GCAATCTATA
*
47699950 GATTTCCAAAAGCAAACTGTG
1 GATTTCCAAAAGAAAACTGTG
*
47699971 GATTTTCAAAAGAAAACTG
1 GATTTCCAAAAGAAAACTG
47699990 AGGCATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (21 bp):
GATTTCCAAAAGAAAACTGTG
Found at i:47704048 original size:8 final size:8
Alignment explanation
Indices: 47704031--47704086 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
47704021 AACCCAATTA
47704031 TTTTTA-T
1 TTTTTATT
47704038 TTTTTATTT
1 TTTTTA-TT
47704047 TTTTTATT
1 TTTTTATT
*
47704055 TTTCTATCT
1 TTTTTAT-T
47704064 TATTTTATT
1 T-TTTTATT
*
47704073 TATTTATT
1 TTTTTATT
47704081 TATTTT
1 T-TTTT
47704087 TGTCCAGGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 6 0.15
8 15 0.38
9 14 0.35
10 5 0.12
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:47704056 original size:22 final size:22
Alignment explanation
Indices: 47704028--47704087 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
47704018 GGCAACCCAA
*
47704028 TTATTTTTATTTTTTATTTTTT
1 TTATTTTTATTTTTTATTTTAT
* * *
47704050 TTATTTTTCTATCTTATTTTAT
1 TTATTTTTATTTTTTATTTTAT
47704072 TTATTTATTTATTTTT
1 TTA-TT-TTTATTTTT
47704088 GTCCAGGAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
22 21 0.72
23 2 0.07
24 6 0.21
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (22 bp):
TTATTTTTATTTTTTATTTTAT
Found at i:47705551 original size:19 final size:19
Alignment explanation
Indices: 47705529--47705573 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47705519 TTATATTAGG
47705529 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
47705548 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
47705567 ATTTAAT
1 ATTTAAT
47705574 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:47711365 original size:23 final size:22
Alignment explanation
Indices: 47711321--47711369 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
47711311 GAATTCTTGT
* *
47711321 TAAAATAAAATACAGTGGTAAAA
1 TAAAATAAAATAAAGTGCT-AAA
47711344 TAAAATAAAAGTAAAGT-CTAAA
1 TAAAATAAAA-TAAAGTGCTAAA
47711366 TAAA
1 TAAA
47711370 CTAGACTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 11 0.48
24 5 0.22
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.22
Consensus pattern (22 bp):
TAAAATAAAATAAAGTGCTAAA
Found at i:47719354 original size:13 final size:13
Alignment explanation
Indices: 47719336--47719365 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
47719326 CTTGTAAAGT
47719336 TTAATTTGGAGTG
1 TTAATTTGGAGTG
47719349 TTAATTTGGAGTG
1 TTAATTTGGAGTG
47719362 TTAA
1 TTAA
47719366 AGAGCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (13 bp):
TTAATTTGGAGTG
Found at i:47720583 original size:23 final size:23
Alignment explanation
Indices: 47720557--47720656 Score: 98
Period size: 23 Copynumber: 4.3 Consensus size: 23
47720547 AGACCTTAGC
47720557 GTGCTCTTCGATTAGCACTGT-GT
1 GTGCTCTTCGATTAGCACT-TCGT
*
47720580 GTGCTCTTTGATTAGCACGTCTCGT
1 GTGCTCTTCGATTAGCAC-T-TCGT
* *
47720605 GTTCTCTAT-TATTAGCACTTCGT
1 GTGCTCT-TCGATTAGCACTTCGT
*
47720628 GTGCT-TTCTGATTAGCACTTTGT
1 GTGCTCTTC-GATTAGCACTTCGT
47720651 GTGCTC
1 GTGCTC
47720657 AGTATTTTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 42 0.66
24 3 0.05
25 16 0.25
26 1 0.02
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (23 bp):
GTGCTCTTCGATTAGCACTTCGT
Found at i:47727392 original size:22 final size:23
Alignment explanation
Indices: 47727365--47727416 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
47727355 AGCTTCAATT
47727365 TTTTTGTAACT-TTCAGCCATTA
1 TTTTTGTAACTCTTCAGCCATTA
47727387 TTTTTGTAACTCTTCAGCCATTA
1 TTTTTGTAACTCTTCAGCCATTA
*
47727410 TATTTGT
1 TTTTTGT
47727417 TTTAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (23 bp):
TTTTTGTAACTCTTCAGCCATTA
Found at i:47729675 original size:6 final size:6
Alignment explanation
Indices: 47729659--47729691 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
47729649 AATATTATTT
47729659 TTTTTC TTTTTTC TTTTTC -TTTTC TTTTTC TTT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTT
47729692 CTTTTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:47729686 original size:17 final size:17
Alignment explanation
Indices: 47729656--47729697 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
47729646 ATAAATATTA
47729656 TTTTTTTTCTTTTTTCT
1 TTTTTTTTCTTTTTTCT
47729673 TTTTCTTTTC-TTTTTCT
1 TTTT-TTTTCTTTTTTCT
47729690 TTCTTTTT
1 TT-TTTTT
47729698 ATGTGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTCT
Found at i:47729697 original size:10 final size:11
Alignment explanation
Indices: 47729667--47729697 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
47729657 TTTTTTTCTT
47729667 TTTTCTTTTTC
1 TTTTCTTTTTC
47729678 TTTTCTTTTTC
1 TTTTCTTTTTC
47729689 -TTTCTTTTT
1 TTTTCTTTTT
47729698 ATGTGATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTC
Done.