Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 48 of 79
Found at i:16100744 original size:20 final size:19
Alignment explanation
Indices: 16100699--16100746 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
16100689 GATTAAGATT
* * *
16100699 AATTAATTAAGGTTTATTT
1 AATTAATTAAGGATTAATG
16100718 AAGTTAATTAAGTGATTAATG
1 AA-TTAATTAAG-GATTAATG
16100739 AATTAATT
1 AATTAATT
16100747 TATGTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 15 0.62
21 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (19 bp):
AATTAATTAAGGATTAATG
Found at i:16101869 original size:30 final size:29
Alignment explanation
Indices: 16101835--16101926 Score: 85
Period size: 30 Copynumber: 3.1 Consensus size: 29
16101825 TAGCCCGTGC
*
16101835 GAGAAACCTTAATATAATGTTAGCTTGTGT
1 GAGAAACC-TAATATAATGTCAGCTTGTGT
* * * *
16101865 GAGAAATCCGATTACAATGTCAACTTGTGT
1 GAGAAA-CCTAATATAATGTCAGCTTGTGT
* * *
16101895 GAGCAACCCTAAAATACTGTCAGCTTGTGT
1 GAG-AAACCTAATATAATGTCAGCTTGTGT
16101925 GA
1 GA
16101927 ACATTACATT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
30 44 0.92
31 4 0.08
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (29 bp):
GAGAAACCTAATATAATGTCAGCTTGTGT
Found at i:16111867 original size:60 final size:60
Alignment explanation
Indices: 16111774--16111892 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
16111764 TTTCATCCAT
* *
16111774 CTCCGTCCATCCCATCATACCATGTGGGGTTAAAAACACCCACCCATCCCTACACACCAA
1 CTCCGTCCATCCCATCACACCATGTGGGGTTAAAAAAACCCACCCATCCCTACACACCAA
* * *
16111834 CTCCGTCCATCCCATCACACCATGTGGGTTTAAAAAAATCCACCCATCCCTACATACCA
1 CTCCGTCCATCCCATCACACCATGTGGGGTTAAAAAAACCCACCCATCCCTACACACCA
16111893 TATAGTGTCG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.20
Consensus pattern (60 bp):
CTCCGTCCATCCCATCACACCATGTGGGGTTAAAAAAACCCACCCATCCCTACACACCAA
Found at i:16121241 original size:50 final size:50
Alignment explanation
Indices: 16121186--16121337 Score: 126
Period size: 48 Copynumber: 3.1 Consensus size: 50
16121176 TATTTGAATT
16121186 ATTTAATTAAATAAATTTATATTATTTAGATCAAGAAACGCTACAATTGG
1 ATTTAATTAAATAAATTTATATTATTTAGATCAAGAAACGCTACAATTGG
* ** ** *
16121236 A--T--TTAAATCCAATTGTAGCGTT-TCTT-GATCTAA-ATAA-TATA-AATT-T
1 ATTTAATTAAAT-AAATT-TA-TATTAT-TTAGATC-AAGA-AACGCTACAATTGG
16121282 ATTTAATTAAATAAATTTATATTATTTAGATCAAGAAACGCTACAATTGG
1 ATTTAATTAAATAAATTTATATTATTTAGATCAAGAAACGCTACAATTGG
16121332 ATTTAA
1 ATTTAA
16121338 ATCCAAGAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 32
0.63 0.10 0.27
Matches are distributed among these distances:
46 7 0.09
47 16 0.22
48 22 0.30
49 16 0.22
50 13 0.18
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (50 bp):
ATTTAATTAAATAAATTTATATTATTTAGATCAAGAAACGCTACAATTGG
Found at i:16129335 original size:172 final size:172
Alignment explanation
Indices: 16129049--16129567 Score: 966
Period size: 172 Copynumber: 3.0 Consensus size: 172
16129039 CTGATATTGA
*
16129049 TGTCCCCAATACATGAATGATTTGAATTTGATTATACGAGAACTCTCTGATACTCTGTGATGGAC
1 TGTCCCCAATACATGAATGATTTGAATTTGATTATACGAGAACTCTCCGATACTCTGTGATGGAC
* * *
16129114 GTATGAATAACATAATTGTATACGTACTATGATACTTATTCTTATATTGAGCTGTATTATCTACT
66 GTATGAATAACATAATTGTATGCATACTATGATACTTATTCTGATATTGAGCTGTATTATCTACT
16129179 TGTGAAACAATTTGGAATGACTGATTAGATATTGTGGACATT
131 TGTGAAACAATTTGGAATGACTGATTAGATATTGTGGACATT
16129221 TGTCCCCAATACATGAATGATTTGAATTTGATTATACGAGAACTCTCCGATACTCTGTGATGGAC
1 TGTCCCCAATACATGAATGATTTGAATTTGATTATACGAGAACTCTCCGATACTCTGTGATGGAC
16129286 GTATGAATAACATAATTGTATGCATACTATGATACTTATTCTGATATTGAGCTGTATTATCTACT
66 GTATGAATAACATAATTGTATGCATACTATGATACTTATTCTGATATTGAGCTGTATTATCTACT
16129351 TGTGAAACAATTTGGAATGACTGATTAGATATTGTGGACATT
131 TGTGAAACAATTTGGAATGACTGATTAGATATTGTGGACATT
16129393 TGTCCCCAATACATGAATGATTTGAATTTGATTATACGAGAACTCTCCGATACTCTGTGATGGAC
1 TGTCCCCAATACATGAATGATTTGAATTTGATTATACGAGAACTCTCCGATACTCTGTGATGGAC
16129458 GTATGAATAACATAATTGTATGCATACTATGATACTTATTCTGATATTGAGCTGTATTATCTACT
66 GTATGAATAACATAATTGTATGCATACTATGATACTTATTCTGATATTGAGCTGTATTATCTACT
* * * *
16129523 TGTGAAACAATTTGGAATGACTGATGAGAGATTGTAGATATT
131 TGTGAAACAATTTGGAATGACTGATTAGATATTGTGGACATT
16129565 TGT
1 TGT
16129568 ACTCTGCATT
Statistics
Matches: 339, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 339 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (172 bp):
TGTCCCCAATACATGAATGATTTGAATTTGATTATACGAGAACTCTCCGATACTCTGTGATGGAC
GTATGAATAACATAATTGTATGCATACTATGATACTTATTCTGATATTGAGCTGTATTATCTACT
TGTGAAACAATTTGGAATGACTGATTAGATATTGTGGACATT
Found at i:16131851 original size:19 final size:19
Alignment explanation
Indices: 16131827--16131945 Score: 193
Period size: 19 Copynumber: 6.2 Consensus size: 19
16131817 AATTTTTGAG
16131827 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
16131846 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
16131865 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16131884 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
16131905 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
16131924 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16131943 GAT
1 GAT
16131946 TTTGTATCTT
Statistics
Matches: 94, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
19 75 0.80
21 19 0.20
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:16131894 original size:59 final size:59
Alignment explanation
Indices: 16131828--16131945 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
16131818 ATTTTTGAGG
*
16131828 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
* *
16131887 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
16131946 TTTGTATCTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
Found at i:16131902 original size:40 final size:40
Alignment explanation
Indices: 16131827--16131945 Score: 201
Period size: 40 Copynumber: 3.1 Consensus size: 40
16131817 AATTTTTGAG
*
16131827 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
16131865 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
16131905 GATATGCAATCTTAGATATGATATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
16131943 GAT
1 GAT
16131946 TTTGTATCTT
Statistics
Matches: 78, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 35 0.45
40 43 0.55
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (40 bp):
GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
Found at i:16131954 original size:19 final size:19
Alignment explanation
Indices: 16131829--16131981 Score: 143
Period size: 19 Copynumber: 7.7 Consensus size: 19
16131819 TTTTTGAGGA
16131829 TATGCAATCTTAGATATGA-
1 TATG-AATCTTAGATATGAT
*
16131848 TATGCAATCCTAGATATGA-
1 TATG-AATCTTAGATATGAT
16131867 TATGCAATCTTAGATATGAT
1 TATG-AATCTTAGATATGAT
16131887 ATATGCAATCTTAGATATGA-
1 -TATG-AATCTTAGATATGAT
16131907 TATGCAATCTTAGATATGAT
1 TATG-AATCTTAGATATGAT
16131927 ATAT-AATCTTAGATATGAT
1 -TATGAATCTTAGATATGAT
* *
16131946 TTTGTATCTTAGAATATATGAT
1 TATGAATCTTAG---ATATGAT
*
16131968 TTTGTAATCTTAGA
1 TATG-AATCTTAGA
16131982 GATTTAATTT
Statistics
Matches: 120, Mismatches: 5, Indels: 17
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.02
19 77 0.64
20 1 0.01
21 22 0.18
22 11 0.09
23 7 0.06
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (19 bp):
TATGAATCTTAGATATGAT
Found at i:16131967 original size:22 final size:23
Alignment explanation
Indices: 16131939--16131981 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
16131929 ATAATCTTAG
16131939 ATATGATTTTGT-ATCTTAGAAT
1 ATATGATTTTGTAATCTTAGAAT
16131961 ATATGATTTTGTAATCTTAGA
1 ATATGATTTTGTAATCTTAGA
16131982 GATTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (23 bp):
ATATGATTTTGTAATCTTAGAAT
Found at i:16138009 original size:44 final size:43
Alignment explanation
Indices: 16137732--16138018 Score: 198
Period size: 44 Copynumber: 6.7 Consensus size: 43
16137722 GAAGATGGCA
16137732 AATCTTATCTCCCT-ACAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGCC-AT
* * *
16137776 AATCCTATCTCCCTGAAGTTGCTGTGGAGCAGATTAAAG--TT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT
* * * * * *
16137817 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACA-TC-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT
** * * **
16137857 GGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AGCCAT
* * ** * *
16137901 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCATACCCAAGATGGC-G
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCAT
* *
16137946 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-AT
*
16137990 AATCATATCTCCCTGAAGTTGCAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
16138019 TGGGTTAAAA
Statistics
Matches: 190, Mismatches: 36, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
40 32 0.17
41 29 0.15
42 2 0.01
43 5 0.03
44 90 0.47
45 29 0.15
46 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT
Found at i:16138816 original size:19 final size:19
Alignment explanation
Indices: 16138792--16138907 Score: 187
Period size: 19 Copynumber: 6.0 Consensus size: 19
16138782 AATTTTTGAG
16138792 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
16138811 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
16138830 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16138849 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
16138870 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
16138889 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16138908 TTAATTTGTA
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
19 72 0.79
21 19 0.21
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:16138859 original size:59 final size:59
Alignment explanation
Indices: 16138793--16138907 Score: 203
Period size: 59 Copynumber: 1.9 Consensus size: 59
16138783 ATTTTTGAGG
*
16138793 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
* *
16138852 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
16138908 TTAATTTGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
Found at i:16138867 original size:40 final size:40
Alignment explanation
Indices: 16138792--16138907 Score: 195
Period size: 40 Copynumber: 3.0 Consensus size: 40
16138782 AATTTTTGAG
*
16138792 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
16138830 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
16138870 GATATGCAATCTTAGATATGATATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
16138908 TTAATTTGTA
Statistics
Matches: 75, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 32 0.43
40 43 0.57
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (40 bp):
GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
Found at i:16142165 original size:26 final size:25
Alignment explanation
Indices: 16142135--16142196 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 25
16142125 CATTATTAAC
16142135 TTAATTTAATTACATTATATAACATT
1 TTAATTTAATTACATTATATAACA-T
* **
16142161 TTAATTTAATCACATTATATAGTAT
1 TTAATTTAATTACATTATATAACAT
16142186 TTAATTTAATT
1 TTAATTTAATT
16142197 TAATTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (25 bp):
TTAATTTAATTACATTATATAACAT
Found at i:16147133 original size:42 final size:41
Alignment explanation
Indices: 16147034--16147133 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 41
16147024 TGCCACACAT
* * * *
16147034 CCTGGACACACGCCTATGTCCTTACCGTGTGACTCATACGG
1 CCTGGACACACGCCCATGTCCTTACCGTATGACTCACACGA
* * *
16147075 CCTAGACACACACCCATGTCCTTGTCCGTATGACTCACACGA
1 CCTGGACACACGCCCATGTCCTT-ACCGTATGACTCACACGA
* *
16147117 CCTGGGCACATGCCCAT
1 CCTGGACACACGCCCAT
16147134 ATCCGTAGCC
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
41 20 0.43
42 27 0.57
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (41 bp):
CCTGGACACACGCCCATGTCCTTACCGTATGACTCACACGA
Found at i:16155561 original size:31 final size:31
Alignment explanation
Indices: 16155496--16155569 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
16155486 AAAAGTTAAA
*
16155496 ATTT-AGTCATTAAACTATTCAAAACTTTTC
1 ATTTAAGTCACTAAACTATTCAAAACTTTTC
* ** *
16155526 ATTTAAGTCACTAAACTATTTAAATTTTTTT
1 ATTTAAGTCACTAAACTATTCAAAACTTTTC
*
16155557 ATTTAAATCACTA
1 ATTTAAGTCACTA
16155570 GGTTGTTAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.46
Consensus pattern (31 bp):
ATTTAAGTCACTAAACTATTCAAAACTTTTC
Found at i:16157662 original size:18 final size:20
Alignment explanation
Indices: 16157635--16157672 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
16157625 TATCGGATTG
16157635 TTTATAATTA-A-TTAAAAT
1 TTTATAATTATATTTAAAAT
*
16157653 TTTATGATTATATTTAAAAT
1 TTTATAATTATATTTAAAAT
16157673 AATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTATAATTATATTTAAAAT
Found at i:16161643 original size:96 final size:96
Alignment explanation
Indices: 16161543--16161731 Score: 263
Period size: 96 Copynumber: 2.0 Consensus size: 96
16161533 CTTACTTTAT
* * *
16161543 TCTCTAGTTGGATATTTAACTGGACATTGAAAACTCTTGTAATCTTTTGAATTACACCAATAACA
1 TCTCTAGTTGGATATTTAACTGGACATTGAAAACCCTTATAATCTTTTGAACTACACCAATAACA
* *
16161608 TTACACAAAATG-TGATATCTCAATCGTAGTC
66 TCACACAAAA-GATGATACCTCAATCGTAGTC
* * * * *
16161639 TCTCTATTTGGATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTATACCAATAACA
1 TCTCTAGTTGGATATTTAACTGGACATTGAAAACCCTTATAATCTTTTGAACTACACCAATAACA
*
16161704 TCGCACAAAAGATGATACCTCAATCGTA
66 TCACACAAAAGATGATACCTCAATCGTA
16161732 TTCCTCCTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 1 0.01
96 80 0.99
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAACTGGACATTGAAAACCCTTATAATCTTTTGAACTACACCAATAACA
TCACACAAAAGATGATACCTCAATCGTAGTC
Found at i:16182432 original size:19 final size:16
Alignment explanation
Indices: 16182389--16182429 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
16182379 GAGTGGTTGG
16182389 AAGAAGA-GAAGAATA
1 AAGAAGAGGAAGAATA
16182404 AAGAAGAGGAAGAATA
1 AAGAAGAGGAAGAATA
*
16182420 AAGTAGAGGA
1 AAGAAGAGGA
16182430 GGATCTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.07
Consensus pattern (16 bp):
AAGAAGAGGAAGAATA
Found at i:16191856 original size:44 final size:44
Alignment explanation
Indices: 16191788--16192165 Score: 242
Period size: 44 Copynumber: 8.1 Consensus size: 44
16191778 TAGATCGCAT
*
16191788 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGCGGAG
* * * *
16191832 CATATTGAAGCTAGTAATCCTATCTCCCTTAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGCGGAG
* * * * * *
16191876 CGGATT-AAGATAAATGATCTTATCTCTCTGA-AGTTACAGTAGAGTAG
1 CAGATTGAAGCT-AGTAATCTTATCTCCCTGAGA-TTACAG-CG-G-AG
* **
16191923 ATCACATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAG
1 -------CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGCGGAG
* * * * *
16191974 TAGATTAAAGCTAGTAATCCTATCTCCCTTAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGCGGAG
* * * * * *
16192018 CGGATT-AAGATAAATGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCT-AGTAATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
* *
16192069 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGCGGAG
* *
16192116 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGCGGAG
*
16192160 CGGATT
1 CAGATT
16192166 AAAATAAAGG
Statistics
Matches: 255, Mismatches: 51, Indels: 56
0.70 0.14 0.15
Matches are distributed among these distances:
43 10 0.04
44 166 0.65
45 1 0.00
46 1 0.00
47 6 0.02
49 4 0.02
51 6 0.02
52 1 0.00
53 1 0.00
54 51 0.20
55 8 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGCGGAG
Found at i:16192006 original size:142 final size:142
Alignment explanation
Indices: 16191750--16192216 Score: 844
Period size: 142 Copynumber: 3.3 Consensus size: 142
16191740 GAAATAGCGA
*
16191750 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCC
1 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCC
*
16191815 CTGAGATTACAGCGGAGCATATTGAAGCTAGTAATCCTATCTCCCTTAGATTACAGTGGAGCGGA
66 CTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTTAGATTACAGTGGAGCGGA
16191880 TTAAGATAAATG
131 TTAAGATAAATG
* *
16191892 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAAAAATCTTATCTCC
1 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCC
* *
16191957 CTGAGATTACAGCGGAGTAGATTAAAGCTAGTAATCCTATCTCCCTTAGATTACAGTGGAGCGGA
66 CTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTTAGATTACAGTGGAGCGGA
16192022 TTAAGATAAATG
131 TTAAGATAAATG
16192034 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCC
1 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCC
*
16192099 CTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGA
66 CTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTTAGATTACAGTGGAGCGGA
* *
16192164 TTAAAATAAAGG
131 TTAAGATAAATG
*
16192176 ATCTTATCTTTCTGAAGTTACAGTAGAGTAGATCGCATCAG
1 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
16192217 GTCTTATCTG
Statistics
Matches: 311, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 311 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (142 bp):
ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCC
CTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTTAGATTACAGTGGAGCGGA
TTAAGATAAATG
Found at i:16192153 original size:98 final size:98
Alignment explanation
Indices: 16191975--16192155 Score: 222
Period size: 98 Copynumber: 1.8 Consensus size: 98
16191965 ACAGCGGAGT
* * * * * * *
16191975 AGATTAAAGCTAGTAATCCTATCTCCCTTAGATTACAGTGGAGCGGATTAAGATAAATGATCTTA
1 AGATTAAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAGATAAATAATCCTA
*
16192040 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
66 TCTCCCTGAAGTTACAGTAGAGTAGATCGCATC
* * * *
16192073 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCCT
1 AGATTAAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAGATAAATAATCCT
16192137 ATCTCCCTG-AGATTACAGT
65 ATCTCCCTGAAG-TTACAGT
16192156 GGAGCGGATT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
97 2 0.03
98 63 0.91
99 4 0.06
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (98 bp):
AGATTAAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAGATAAATAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCATC
Found at i:16192259 original size:23 final size:23
Alignment explanation
Indices: 16192233--16192308 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
16192223 TCTGCCTGAG
16192233 ATTACAGTGGAATAGACCGAAGA
1 ATTACAGTGGAATAGACCGAAGA
*** ***
16192256 ATTACAGATCTTATCCCCCTG-AG-
1 ATTACAG-TGGAATAGACC-GAAGA
16192279 ATTACAGTGGAATAGACCGAAGA
1 ATTACAGTGGAATAGACCGAAGA
16192302 ATTACAG
1 ATTACAG
16192309 ATCTTATCTC
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
21 1 0.03
22 7 0.19
23 21 0.57
24 7 0.19
25 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (23 bp):
ATTACAGTGGAATAGACCGAAGA
Found at i:16192285 original size:46 final size:46
Alignment explanation
Indices: 16192218--16192316 Score: 180
Period size: 46 Copynumber: 2.2 Consensus size: 46
16192208 TCGCATCAGG
**
16192218 TCTTATCTGCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
1 TCTTATCCCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
16192264 TCTTATCCCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
1 TCTTATCCCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
16192310 TCTTATC
1 TCTTATC
16192317 TCCCAAATGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (46 bp):
TCTTATCCCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
Found at i:16192397 original size:50 final size:50
Alignment explanation
Indices: 16192338--16192572 Score: 188
Period size: 50 Copynumber: 4.6 Consensus size: 50
16192328 GCAGTGGAGC
* *
16192338 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * ** * * * *
16192388 AGATTAAAGCTACAACAGCAAATCTTAC-TCCCCAGGCAATGCAGTGAAAC
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCC-GACATTGCAGTTAAAA
** *
16192438 AGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGCTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * **
16192488 GGATTAAAGCTGC-CATAACGGTGAATCTTACTTCCCTGGCGGTGCAGTTAAAA
1 AGATTAAAGC--CACAT--CGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
16192541 AGATTGAAGCTACAAT-GGCGAATCATACTTCC
1 AGATTAAAGCCAC-ATCGGTGAATCTTACTTCC
16192573 TAAAAGTTAC
Statistics
Matches: 141, Mismatches: 36, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
49 5 0.04
50 88 0.62
51 8 0.06
52 2 0.01
53 38 0.27
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:16194454 original size:19 final size:20
Alignment explanation
Indices: 16194426--16194465 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16194416 TTCTAAATTA
*
16194426 TTATCCACATGA-TTTAAAT
1 TTATCAACATGATTTTAAAT
*
16194445 TTATCAACATTATTTTAAAT
1 TTATCAACATGATTTTAAAT
16194465 T
1 T
16194466 CTTTTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATCAACATGATTTTAAAT
Found at i:16200644 original size:14 final size:15
Alignment explanation
Indices: 16200618--16200650 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16200608 TCCCAAGCTG
16200618 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
16200633 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
16200647 GGAA
1 GGAA
16200651 AAGCGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:16200758 original size:10 final size:10
Alignment explanation
Indices: 16200736--16200788 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
16200726 TTAAAAAAAG
16200736 GGAAAAA-AA
1 GGAAAAAGAA
16200745 -GAAAAAGAA
1 GGAAAAAGAA
16200754 GGAAAAAGAA
1 GGAAAAAGAA
*
16200764 GAAAAAAGAA
1 GGAAAAAGAA
*
16200774 GGAAGAAGAA
1 GGAAAAAGAA
16200784 -GAAAA
1 GGAAAA
16200789 GAAAAAGGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 6 0.16
9 6 0.16
10 26 0.68
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (10 bp):
GGAAAAAGAA
Found at i:16200771 original size:20 final size:20
Alignment explanation
Indices: 16200736--16200788 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
16200726 TTAAAAAAAG
16200736 GGAAAAA-AAG-AAAAAGAA
1 GGAAAAAGAAGAAAAAAGAA
16200754 GGAAAAAGAAGAAAAAAGAA
1 GGAAAAAGAAGAAAAAAGAA
*
16200774 GGAAGAAGAAGAAAA
1 GGAAAAAGAAGAAAA
16200789 GAAAAAGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 7 0.22
19 3 0.09
20 22 0.69
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
GGAAAAAGAAGAAAAAAGAA
Found at i:16201069 original size:14 final size:14
Alignment explanation
Indices: 16201050--16201076 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16201040 AAGGGTCTTC
16201050 AAGAAGCTCATGCA
1 AAGAAGCTCATGCA
16201064 AAGAAGCTCATGC
1 AAGAAGCTCATGC
16201077 TACGATATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (14 bp):
AAGAAGCTCATGCA
Found at i:16201227 original size:48 final size:47
Alignment explanation
Indices: 16201175--16201326 Score: 123
Period size: 48 Copynumber: 3.1 Consensus size: 47
16201165 TGCTCTCAAT
16201175 AAAATTTCATCTTATCCATTGTGATGATCTTTTTCATCTTATCCTAGC
1 AAAATTTCATCTTATCCATTGTGAT-ATCTTTTTCATCTTATCCTAGC
** * * * * **
16201223 AAAATTTGCTATCTTGATTAATT-T-AT-TC-ATTTCGAGCTGTGCTCTTAAT
1 AAAATTT-C-ATCTT-ATCCATTGTGATATCTTTTTC-ATCT-T-ATCCTAGC
*
16201272 AAAATTTTATCTTATCCATTGTGATAATCTTTTTCATCTTATCCTAGC
1 AAAATTTCATCTTATCCATTGTGAT-ATCTTTTTCATCTTATCCTAGC
16201320 AAAATTT
1 AAAATTT
16201327 GCTATCTTGA
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
46 9 0.12
47 11 0.14
48 21 0.28
49 15 0.20
50 11 0.14
51 9 0.12
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (47 bp):
AAAATTTCATCTTATCCATTGTGATATCTTTTTCATCTTATCCTAGC
Found at i:16201288 original size:97 final size:97
Alignment explanation
Indices: 16201117--16201404 Score: 495
Period size: 97 Copynumber: 3.0 Consensus size: 97
16201107 ATTCATTTCG
* * *
16201117 TATCTTAGCAGAATTTGCTATCTTGATTAATTTATTCATTTTGAGCTGTGCTCTCAATAAAATTT
1 TATCCTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
*
16201182 CATCTTATCCATTGTGATGATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
*
16201214 TATCCTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTTAATAAAATTT
1 TATCCTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
*
16201279 TATCTTATCCATTGTGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
* *
16201311 TATCCTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCCTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
*
16201376 CATCTTGTCCATTGTGATAATCTTTTTCA
66 CATCTTATCCATTGTGATAATCTTTTTCA
16201405 AGCATTTTTC
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 180 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (97 bp):
TATCCTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
CATCTTATCCATTGTGATAATCTTTTTCATCT
Found at i:16201916 original size:24 final size:24
Alignment explanation
Indices: 16201877--16201931 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
16201867 TATGTCCAAA
*
16201877 ATTACAGTGGACTGAACCTTGAAG
1 ATTACAGCGGACTGAACCTTGAAG
* *
16201901 ATTACAGCGGATTGAACTTTGAAG
1 ATTACAGCGGACTGAACCTTGAAG
16201925 ATTACAG
1 ATTACAG
16201932 TGGGGGCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (24 bp):
ATTACAGCGGACTGAACCTTGAAG
Found at i:16202315 original size:44 final size:44
Alignment explanation
Indices: 16202265--16202778 Score: 235
Period size: 44 Copynumber: 11.7 Consensus size: 44
16202255 CATATCAAGC
* * * *
16202265 CTTATCTCCCTGAGCAGTAGTGAAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATTGCAGAT
* * ** *
16202309 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGGAT
1 CTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATTGCAGAT
* * * * *
16202353 CTTATCTTCCTAAGGTAGTAG-GAAGCAGATTTAAG---CCACCAT
1 CTTATCTCCCTAA-GCAGTAGTGAAGCAGATTGAAGATTGCA-GAT
* * * * *
16202395 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGAT
1 -CTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATTGCAGAT
* * * ** *
16202440 CTTATCTCCCCTATGCAGTAGTGGAGCAGATCGAAGACGGCAAAT
1 CTTATCT-CCCTAAGCAGTAGTGAAGCAGATTGAAGATTGCAGAT
* * **** *
16202485 CTTATCTTCCTAAG--GTAGTACGAAGCAGATTTAAGCCACCAG-C
1 CTTATCTCCCTAAGCAGTAGT--GAAGCAGATTGAAGATTGCAGAT
* * * * * *
16202528 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCATAT
1 CTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATTGCAGAT
* * * ** *
16202572 CTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATTGCAGAT
* * ***
16202616 CTTATCTTCCTAAG--GTAGTACGAAGCAGATTTAAG-CCACA-AGT
1 CTTATCTCCCTAAGCAGTAGT--GAAGCAGATTGAAGATTGCAGA-T
* * * * * * * *
16202659 CCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGGTTGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATTGCAGAT
* * * * * **
16202703 CCTGTCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATTGCAG-AT
* *
16202747 CTTATCTTCCC-AAGGTAGTAGGGAAGCAGATT
1 CTTATC-TCCCTAA-GCAGTAGTGAAGCAGATT
16202779 TAAGCCACTA
Statistics
Matches: 344, Mismatches: 103, Indels: 45
0.70 0.21 0.09
Matches are distributed among these distances:
41 1 0.00
42 18 0.05
43 70 0.20
44 183 0.53
45 70 0.20
46 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATTGCAGAT
Found at i:16202460 original size:87 final size:88
Alignment explanation
Indices: 16202309--16202732 Score: 213
Period size: 87 Copynumber: 4.9 Consensus size: 88
16202299 GATTGTAGAT
* * * *
16202309 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTCCTAAGGTAGTAG
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCAGATCTTATCTCCCTAAGGCAGTAG
16202374 -GAAGCAGATTTAAGCCACCATC
66 TGAAGCAGATTTAAGCCACCATC
* * * * ** *
16202396 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCCT-ATGCAGTA
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCAGATCTTATCT-CCCTAAGGCAGTA
* ** *
16202460 GTGGAGCAGATCGAAGACGGCA-AAT-
65 GTGAAGCAGATTTAAG-C--CACCATC
* * * ** * ** * * *
16202485 CTTATCTTCCTAAG--GTAGTACGAAGCAGATTTAAGCCACCAG-CCTTATCTCCCTGA-GCAGC
1 CTTATCTCCCTAAGCAGCAGT--GGAGCAGATCGAAGACGGCAGATCTTATCTCCCTAAGGCAGT
* * * * **** *
16202546 AGTGGAGTAGGTTGAAGATTGCATAT
64 AGTGAAGCAGATTTAAGCCACCAT-C
* * * * *
16202572 CTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTA-
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCAGATCTTATCTCCCTAAGGCAGTAG
* *
16202636 CGAAGCAGATTTAAGCCACAAGTC
66 TGAAGCAGATTTAAGCCACCA-TC
* * * * * *** * * *
16202660 C-TATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGGTTGCAGATCCTGTCTCCCTAA-GAAGTAG
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCAGATCTTATCTCCCTAAGGCAGTAG
*
16202723 TGGAGCAGAT
66 TGAAGCAGAT
16202733 CGAAGACGGC
Statistics
Matches: 244, Mismatches: 76, Indels: 34
0.69 0.21 0.10
Matches are distributed among these distances:
85 2 0.01
86 5 0.02
87 152 0.62
88 45 0.18
89 36 0.15
90 2 0.01
91 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (88 bp):
CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCAGATCTTATCTCCCTAAGGCAGTAG
TGAAGCAGATTTAAGCCACCATC
Found at i:16202665 original size:131 final size:131
Alignment explanation
Indices: 16202262--16202837 Score: 911
Period size: 131 Copynumber: 4.4 Consensus size: 131
16202252 CATCATATCA
* * * *
16202262 AGCCTTATCTCCCTGAGCAGTAGTGAAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAGT
** *
16202327 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCAC
16202392 C
131 C
* * *
16202393 ATCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCCTATGCAG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCT-CCCTAAGAAG
16202458 TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCA
65 TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCA
16202523 CC
130 CC
*
16202525 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCATATCTTATCTCCCTAAGAAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAGT
16202590 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCAC
*
16202655 A
131 C
* * * *
16202656 AGTCC-TATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGGTTGCAGATCCTGTCTCCCTAAGAAG
1 AG-CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAG
* * *
16202720 TAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCC
65 TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTA-CGAAGCAGATTTAAGCC
*
16202785 ACT
129 ACC
* * *
16202788 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAAATTGTAGATCTT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTT
16202838 GTCTTCCAGG
Statistics
Matches: 413, Mismatches: 28, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
131 227 0.55
132 186 0.45
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (131 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAGT
AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCAC
C
Found at i:16202775 original size:263 final size:263
Alignment explanation
Indices: 16202262--16202837 Score: 922
Period size: 263 Copynumber: 2.2 Consensus size: 263
16202252 CATCATATCA
* * * *
16202262 AGCCTTATCTCCCTGAGCAGTAGTGAAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAGT
** *
16202327 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCAC
* * * *
16202392 CATCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCCTATGCA
131 AATCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCCTAAGAA
*
16202457 GTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCC
196 GTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCAAGGTAGTACGAAGCAGATTTAAGCC
16202522 ACC
261 ACC
*
16202525 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCATATCTTATCTCCCTAAGAAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAGT
16202590 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCAC
* * *
16202655 AAGTCC-TATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGGTTGCAGATCCTGTCT-CCCTAAGA
131 AA-TCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCCTAAGA
* *
16202718 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAG
195 AGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCAAGGTAGTA-CGAAGCAGATTTAAG
*
16202783 CCACT
259 CCACC
* * *
16202788 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAAATTGTAGATCTT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTT
16202838 GTCTTCCAGG
Statistics
Matches: 288, Mismatches: 23, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
262 53 0.18
263 232 0.81
264 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (263 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAGT
AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTACGAAGCAGATTTAAGCCAC
AATCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCCTAAGAA
GTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCAAGGTAGTACGAAGCAGATTTAAGCC
ACC
Found at i:16203327 original size:183 final size:182
Alignment explanation
Indices: 16203019--16203420 Score: 610
Period size: 183 Copynumber: 2.2 Consensus size: 182
16203009 TTGAGGATAC
* *
16203019 AAGTCTTATCTCCTTGAAGTTACAGTGGAGCAGACTGAAGCTACTAATTCTATCTCCCTAAAGTT
1 AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGCTACTAATCCTATCTCCCTAAAGTT
* * * * * *
16203084 GCAGTGGAGCGGATTAAAATGATGAATCCTATACCTTTGAAGTTGTAGAGGGTCGGATTAAATCT
66 GCAGTGGAACGGATTAAAACGATGAATCCTATACCTTTGAAATTGCAAAGGGTCGGATTAAACCT
* *
16203149 TATCGTATCAAACCTTATCTCCCTGAGGTCGCAGTAGAGCAGGTTGA-AAAT
131 TATCATATCAAACATTATCTCCCTGAGGTCGCAGTAGAGCAGGTTGAGAAAT
*
16203200 AGAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGGCTGAAGCTACTAATCCTATCTCCCTAAAG
1 --AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGCTACTAATCCTATCTCCCTAAAG
16203265 TTGCAGTGGAACGGATTAAAACGATGAATCCTATACCTTTGAAATTGCAAAGGGTCGGATTAAAC
64 TTGCAGTGGAACGGATTAAAACGATGAATCCTATACCTTTGAAATTGCAAAGGGTCGGATTAAAC
* * *
16203330 CTTATCATATCAAACATTATCTCCCTGAGGTCGTAGTGGAGCAGGTTGAGGCAAT
129 CTTATCATATCAAACATTATCTCCCTGAGGTCGCAGTAGAGCAGGTTGA-GAAAT
* *
16203385 AAGTCTTATCTCCCT-AACATTGCAGTGGAGCAGACT
1 AAGTCTTATCTCCCTGAA-GTTACAGTGGAGCAGACT
16203421 AGAACCACAA
Statistics
Matches: 199, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
182 2 0.01
183 194 0.97
185 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (182 bp):
AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGCTACTAATCCTATCTCCCTAAAGTT
GCAGTGGAACGGATTAAAACGATGAATCCTATACCTTTGAAATTGCAAAGGGTCGGATTAAACCT
TATCATATCAAACATTATCTCCCTGAGGTCGCAGTAGAGCAGGTTGAGAAAT
Found at i:16203451 original size:183 final size:182
Alignment explanation
Indices: 16202982--16203451 Score: 585
Period size: 183 Copynumber: 2.6 Consensus size: 182
16202972 AAACTAGTCC
* * *
16202982 TATCTCCCTGA-G-CAGTAGTGGAGCAAGTTGAGGATACAAGTCTTATCTCCTTGAAGTTACAGT
1 TATCTCCCTGAGGTC-GTAGTGGAGCAGGTTGAGGA-ATAAGTCTTATCTCCCTGAAGTTACAGT
* * * *
16203045 GGAGCAGACTGAAGCTACTAA-TTCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATGATGA
64 GGAGCAGACTGAAGCTACAAACATC-ATCTCCCTAAAGTTGCAGTGGAACGGATTAAAACGATGA
* * * * * *
16203109 ATCCTATACCTTTGAAGTTGTAGAGGGTCGGATTAAATCTTATCGTATCAAACCT
128 ATCCTATACCTTTGAAATTGCAAAGGGTCGGATTAAACCTTATCATATCAAACAT
* * *
16203164 TATCTCCCTGAGGTCGCAGTAGAGCAGGTTGA-AAATAGAAGTCTTATCTCCCTGAAGTTACAGT
1 TATCTCCCTGAGGTCGTAGTGGAGCAGGTTGAGGAAT--AAGTCTTATCTCCCTGAAGTTACAGT
* * *
16203228 GGAGCAGGCTGAAGCTACTAATCCT-ATCTCCCTAAAGTTGCAGTGGAACGGATTAAAACGATGA
64 GGAGCAGACTGAAGCTAC-AAACATCATCTCCCTAAAGTTGCAGTGGAACGGATTAAAACGATGA
16203292 ATCCTATACCTTTGAAATTGCAAAGGGTCGGATTAAACCTTATCATATCAAACAT
128 ATCCTATACCTTTGAAATTGCAAAGGGTCGGATTAAACCTTATCATATCAAACAT
* *
16203347 TATCTCCCTGAGGTCGTAGTGGAGCAGGTTGAGGCAATAAGTCTTATCTCCCT-AACATTGCAGT
1 TATCTCCCTGAGGTCGTAGTGGAGCAGGTTGAGG-AATAAGTCTTATCTCCCTGAA-GTTACAGT
* * * *
16203411 GGAGCAGACTAGAA-CCACAAACATCGTCCCCCTGAAGTTGC
64 GGAGCAGACT-GAAGCTACAAACATCATCTCCCTAAAGTTGC
16203452 TGTGAAGAAG
Statistics
Matches: 247, Mismatches: 30, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
181 1 0.00
182 18 0.07
183 219 0.89
184 5 0.02
185 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (182 bp):
TATCTCCCTGAGGTCGTAGTGGAGCAGGTTGAGGAATAAGTCTTATCTCCCTGAAGTTACAGTGG
AGCAGACTGAAGCTACAAACATCATCTCCCTAAAGTTGCAGTGGAACGGATTAAAACGATGAATC
CTATACCTTTGAAATTGCAAAGGGTCGGATTAAACCTTATCATATCAAACAT
Found at i:16204265 original size:16 final size:14
Alignment explanation
Indices: 16204246--16204276 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16204236 TCATGTATAT
*
16204246 ATATATATAAAATA
1 ATATATATAAAAAA
16204260 ATATATATAAAAAA
1 ATATATATAAAAAA
16204274 ATA
1 ATA
16204277 AAAAGAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATATATAAAAAA
Found at i:16205305 original size:13 final size:13
Alignment explanation
Indices: 16205287--16205337 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
16205277 TTTTTATAAT
16205287 TTTATTCATTTTC
1 TTTATTCATTTTC
*
16205300 TTTATTCA-TTTA
1 TTTATTCATTTTC
16205312 TTTATTTACATTTTC
1 TTTA-TT-CATTTTC
*
16205327 ATTATT-ATTTT
1 TTTATTCATTTT
16205338 GAGAGAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 4 0.12
15 6 0.19
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTCATTTTC
Found at i:16211180 original size:25 final size:28
Alignment explanation
Indices: 16211150--16211204 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
16211140 ATTTTGTTTA
*
16211150 TAATTAT-T-TAAATAT-ATTGTTTTTG
1 TAATTATCTATAAATATAATTGTATTTG
*
16211175 TAATTATCTATCAATATAATTGTATTTG
1 TAATTATCTATAAATATAATTGTATTTG
16211203 TA
1 TA
16211205 CTCTTTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 1 0.04
27 6 0.24
28 11 0.44
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.55
Consensus pattern (28 bp):
TAATTATCTATAAATATAATTGTATTTG
Found at i:16213099 original size:20 final size:20
Alignment explanation
Indices: 16213018--16213134 Score: 69
Period size: 20 Copynumber: 5.8 Consensus size: 20
16213008 ATCATTAGGG
*
16213018 TTTATCAAAA-TATCTAATAA
1 TTTATCAAAACT-TCTAAAAA
* * **
16213038 TTTATCAGAACTTCTACACT
1 TTTATCAAAACTTCTAAAAA
* *
16213058 TTTACCAAAACTTGC-AAGAA
1 TTTATCAAAACTT-CTAAAAA
*
16213078 TTTATCAAAACTTTTAAAAA
1 TTTATCAAAACTTCTAAAAA
* * **
16213098 TTTA-CTAATATTTCTAAGCA
1 TTTATC-AAAACTTCTAAAAA
*
16213118 TTTATCAAAACGTCTAA
1 TTTATCAAAACTTCTAA
16213135 TCATTTATTA
Statistics
Matches: 70, Mismatches: 22, Indels: 10
0.69 0.22 0.10
Matches are distributed among these distances:
19 1 0.01
20 66 0.94
21 3 0.04
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (20 bp):
TTTATCAAAACTTCTAAAAA
Found at i:16213139 original size:20 final size:20
Alignment explanation
Indices: 16213110--16213147 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16213100 TACTAATATT
16213110 TCTAAGCATTTATCAAAACG
1 TCTAAGCATTTATCAAAACG
* *
16213130 TCTAATCATTTATTAAAA
1 TCTAAGCATTTATCAAAA
16213148 ATCAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (20 bp):
TCTAAGCATTTATCAAAACG
Found at i:16213265 original size:20 final size:20
Alignment explanation
Indices: 16213242--16213279 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16213232 TTCCTATAAA
*
16213242 TTTAACAAATTTTCTAAGCT
1 TTTAACAAAATTTCTAAGCT
*
16213262 TTTACCAAAATTTCTAAG
1 TTTAACAAAATTTCTAAG
16213280 GATATCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTAACAAAATTTCTAAGCT
Found at i:16213431 original size:20 final size:20
Alignment explanation
Indices: 16213349--16213431 Score: 53
Period size: 20 Copynumber: 4.2 Consensus size: 20
16213339 ATTTATAAGG
*
16213349 ATTTACGAAAATATCTAATA
1 ATTTACCAAAATATCTAATA
* ** * * **
16213369 CTTTATTAATATTTCTAACG
1 ATTTACCAAAATATCTAATA
*
16213389 ATTTATCAAAAT-T-TATATGA
1 ATTTACCAAAATATCTA-AT-A
16213409 ATTTACCAAAATATCTAATA
1 ATTTACCAAAATATCTAATA
16213429 ATT
1 ATT
16213432 ATTTACTGAT
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
20 37 0.80
21 3 0.07
22 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (20 bp):
ATTTACCAAAATATCTAATA
Found at i:16215974 original size:16 final size:17
Alignment explanation
Indices: 16215953--16215995 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
16215943 ATGGTAGAAA
16215953 GAAAATTAGAA-AGATG
1 GAAAATTAGAAGAGATG
*
16215969 GAAAATT-GAAGAGGTG
1 GAAAATTAGAAGAGATG
*
16215985 AAAAATTAGAA
1 GAAAATTAGAA
16215996 TGATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 17 0.74
17 3 0.13
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.19
Consensus pattern (17 bp):
GAAAATTAGAAGAGATG
Found at i:16217988 original size:28 final size:29
Alignment explanation
Indices: 16217934--16217988 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
16217924 ACGGTTCAAA
*
16217934 GGTTTGGGGTTATGGATTCAAGATTTAAT
1 GGTTTGGGGTTATCGATTCAAGATTTAAT
**
16217963 GGTTTGGGGTTA-CGATTTTAGATTTA
1 GGTTTGGGGTTATCGATTCAAGATTTA
16217989 GGGATTCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.22, C:0.04, G:0.31, T:0.44
Consensus pattern (29 bp):
GGTTTGGGGTTATCGATTCAAGATTTAAT
Found at i:16218101 original size:42 final size:42
Alignment explanation
Indices: 16218055--16218135 Score: 94
Period size: 42 Copynumber: 1.9 Consensus size: 42
16218045 AGTTCAATGG
*
16218055 TTTGGGGTTACGGG-TTT-AAATTTAGGATTTAAGATTTTAAGC
1 TTTGGAGTTA-GGGTTTTGAAATTTA-GATTTAAGATTTTAAGC
* * *
16218097 TTTGGATTTAGGGTTTTGAATTTTAGATTTAAGGTTTTA
1 TTTGGAGTTAGGGTTTTGAAATTTAGATTTAAGATTTTA
16218136 GAGTAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.09
42 24 0.73
43 6 0.18
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (42 bp):
TTTGGAGTTAGGGTTTTGAAATTTAGATTTAAGATTTTAAGC
Found at i:16218113 original size:21 final size:20
Alignment explanation
Indices: 16218069--16218135 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
16218059 GGGTTACGGG
* *
16218069 TTTAAATTTAGGATTTAAGAT
1 TTTAACTTT-GGATTTAAGGT
*
16218090 TTTAAGCTTTGGATTTAGGGT
1 TTTAA-CTTTGGATTTAAGGT
* *
16218111 TTTGAATTTTAGATTTAAGGT
1 TTT-AACTTTGGATTTAAGGT
16218132 TTTA
1 TTTA
16218136 GAGTAAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 32 0.84
22 5 0.13
ACGTcount: A:0.28, C:0.01, G:0.19, T:0.51
Consensus pattern (20 bp):
TTTAACTTTGGATTTAAGGT
Found at i:16222221 original size:16 final size:16
Alignment explanation
Indices: 16222196--16222231 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16222186 TATACTACCA
16222196 AAAAAACAAATAAAAT
1 AAAAAACAAATAAAAT
* *
16222212 AAAAACCAAATAAATT
1 AAAAAACAAATAAAAT
16222228 AAAA
1 AAAA
16222232 GTCCAGTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAAACAAATAAAAT
Found at i:16223628 original size:19 final size:20
Alignment explanation
Indices: 16223600--16223639 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16223590 TTCTAAATTA
*
16223600 TTATCCACATGA-TTTAAAT
1 TTATCAACATGATTTTAAAT
*
16223619 TTATCAACATTATTTTAAAT
1 TTATCAACATGATTTTAAAT
16223639 T
1 T
16223640 CTTTCCACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATCAACATGATTTTAAAT
Found at i:16223846 original size:15 final size:17
Alignment explanation
Indices: 16223816--16223847 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16223806 GGTTGGTTTG
16223816 TTTGTGATTAAATTATT
1 TTTGTGATTAAATTATT
16223833 TTTGT-ATT-AATTATT
1 TTTGTGATTAAATTATT
16223848 CTCGTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTTGTGATTAAATTATT
Found at i:16224070 original size:15 final size:17
Alignment explanation
Indices: 16224040--16224071 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16224030 GGTTGGTTTG
16224040 TTTGTGATTAAATTATT
1 TTTGTGATTAAATTATT
16224057 TTTGT-ATT-AATTATT
1 TTTGTGATTAAATTATT
16224072 CTCGTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTTGTGATTAAATTATT
Found at i:16224190 original size:224 final size:225
Alignment explanation
Indices: 16223787--16224239 Score: 899
Period size: 224 Copynumber: 2.0 Consensus size: 225
16223777 TTTAAAATTT
16223787 TATTCATGTAGATTATTTTGGTTGGTTTGTTTGTGATTAAATTATTTTTGTATTAATTATTCTCG
1 TATTCATGTAGATTATTTTGGTTGGTTTGTTTGTGATTAAATTATTTTTGTATTAATTATTCTCG
16223852 TTTTGTTATTTGTCAGATTGATGATTAGCTTATTTGATTATAAATGTTAATGCATCATATGTTTG
66 TTTTGTTATTTGTCAGATTGATGATTAGCTTATTTGATTATAAATGTTAATGCATCATATGTTTG
16223917 GGTGCTTCAAATTGAAGAGTTGGTTTGTTATTCATCATTTGCTTTATATATTGTTATTCAACCAT
131 GGTGCTTCAAATTGAAGAGTTGGTTTGTTATTCATCATTTGCTTTATATATTGTTATTCAACCAT
16223982 ATTGTTTGTACGAATTGCATTTCATTAATA
196 ATTGTTTGTACGAATTGCATTTCATTAATA
16224012 TATTCATGTAGA-TATTTTGGTTGGTTTGTTTGTGATTAAATTATTTTTGTATTAATTATTCTCG
1 TATTCATGTAGATTATTTTGGTTGGTTTGTTTGTGATTAAATTATTTTTGTATTAATTATTCTCG
16224076 TTTTGTTATTTGTCAGATTGATGATTAGCTTATTTGATTATAAATGTTAATGCATCATATGTTTG
66 TTTTGTTATTTGTCAGATTGATGATTAGCTTATTTGATTATAAATGTTAATGCATCATATGTTTG
16224141 GGTGCTTCAAATTGAAGAGTTGGTTTGTTATTCATCATTTGCTTTATATATTGTTATTCAACCAT
131 GGTGCTTCAAATTGAAGAGTTGGTTTGTTATTCATCATTTGCTTTATATATTGTTATTCAACCAT
16224206 ATTGTTTGTACGAATTGCATTTCATTAATA
196 ATTGTTTGTACGAATTGCATTTCATTAATA
16224236 TATT
1 TATT
16224240 ATAATCGTTT
Statistics
Matches: 228, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
224 216 0.95
225 12 0.05
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (225 bp):
TATTCATGTAGATTATTTTGGTTGGTTTGTTTGTGATTAAATTATTTTTGTATTAATTATTCTCG
TTTTGTTATTTGTCAGATTGATGATTAGCTTATTTGATTATAAATGTTAATGCATCATATGTTTG
GGTGCTTCAAATTGAAGAGTTGGTTTGTTATTCATCATTTGCTTTATATATTGTTATTCAACCAT
ATTGTTTGTACGAATTGCATTTCATTAATA
Found at i:16228527 original size:25 final size:23
Alignment explanation
Indices: 16228490--16228534 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
16228480 TATCATGTCT
* *
16228490 ATATATATTCATAC-T-TTGTAA
1 ATATATATACATACATATTTTAA
16228511 ATATATATACATACATATTTTAA
1 ATATATATACATACATATTTTAA
16228534 A
1 A
16228535 ACGAAGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATATATACATACATATTTTAA
Found at i:16235599 original size:19 final size:19
Alignment explanation
Indices: 16235575--16235614 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
16235565 TCTTACATCT
16235575 CATTCATGACCATATTGCA
1 CATTCATGACCATATTGCA
16235594 CATTCATGACCATATTGCA
1 CATTCATGACCATATTGCA
16235613 CA
1 CA
16235615 AGTAGTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.30
Consensus pattern (19 bp):
CATTCATGACCATATTGCA
Found at i:16240057 original size:44 final size:44
Alignment explanation
Indices: 16239996--16240349 Score: 477
Period size: 44 Copynumber: 8.0 Consensus size: 44
16239986 ATACTGGTGG
*
16239996 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTTATTGACA
1 TGAAGTAGATCGAAGATAGTGGATCTTGTCTTCATG-TATTGACA
**
16240041 TG-AGTAGATC-AGAGATAGCAGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGA-AGATAGTGGATCTTGTCTTCATGTATTGACA
16240084 TGAAGTAGATC-AGAGATAGTGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGA-AGATAGTGGATCTTGTCTTCATGTATTGACA
* *
16240128 TGAAGTAGATCGAAGATAGCGAATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAGTGGATCTTGTCTTCATGTATTGACA
*
16240172 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAGTGGATCTTGTCTTCATGTATTGACA
16240216 TGAAGTAGATC-AGAGATAGTGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGA-AGATAGTGGATCTTGTCTTCATGTATTGACA
* * * * * * *
16240260 TTAAGTATATCGAAGATGGTAGATCTTGTCTTCCCATACTAGTG--G
1 TGAAGTAGATCGAAGATAGTGGATCTTGTCTT--CAT-GTATTGACA
*
16240305 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAGTGGATCTTGTCTTCATGTATTGACA
16240349 T
1 T
16240350 AATGGATCTT
Statistics
Matches: 273, Mismatches: 26, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
42 4 0.01
43 15 0.05
44 216 0.79
45 31 0.11
46 3 0.01
47 4 0.01
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (44 bp):
TGAAGTAGATCGAAGATAGTGGATCTTGTCTTCATGTATTGACA
Found at i:16240360 original size:28 final size:28
Alignment explanation
Indices: 16240320--16240377 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
16240310 TAGATCGAAG
16240320 ATAATGGATCTTGTCTTCATGTATTGAC
1 ATAATGGATCTTGTCTTCATGTATTGAC
16240348 ATAATGGATCTTGTCTTCATGTATTGAC
1 ATAATGGATCTTGTCTTCATGTATTGAC
16240376 AT
1 AT
16240378 GAAGTAGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (28 bp):
ATAATGGATCTTGTCTTCATGTATTGAC
Found at i:16245249 original size:23 final size:22
Alignment explanation
Indices: 16245213--16245262 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
16245203 AAAAATAATA
* *
16245213 ATTAAAAATTTTTCTTTTCATCT
1 ATTAAAAATTTTTC-CTGCATCT
16245236 ATTAAAAGA-TTTTCCTGCATCT
1 ATTAAAA-ATTTTTCCTGCATCT
16245258 ATTAA
1 ATTAA
16245263 GTTTATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.46
23 12 0.50
24 1 0.04
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTAAAAATTTTTCCTGCATCT
Found at i:16246758 original size:15 final size:17
Alignment explanation
Indices: 16246728--16246761 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
16246718 GAAAAGAATG
16246728 AAGGAAAAGAAATAAGA
1 AAGGAAAAGAAATAAGA
16246745 AAGG-AAAG-AATAAGA
1 AAGGAAAAGAAATAAGA
16246760 AA
1 AA
16246762 AAAAAATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 4 0.24
17 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (17 bp):
AAGGAAAAGAAATAAGA
Found at i:16246772 original size:22 final size:21
Alignment explanation
Indices: 16246719--16246790 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
16246709 TCTAAGGGAG
* *
16246719 AAAAGAAT-GAAGGAAAAGAA
1 AAAAAAATGGAAGAAAAAGAA
* *
16246739 ATAAGAAA-GGAAAGAATAAGAA
1 A-AAAAAATGG-AAGAAAAAGAA
*
16246761 AAAAAAATGGAAGAAAAATAA
1 AAAAAAATGGAAGAAAAAGAA
*
16246782 AGAAAAATG
1 AAAAAAATG
16246791 AAATAAAGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
20 1 0.03
21 27 0.68
22 12 0.30
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (21 bp):
AAAAAAATGGAAGAAAAAGAA
Found at i:16246779 original size:11 final size:11
Alignment explanation
Indices: 16246748--16246793 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
16246738 AATAAGAAAG
*
16246748 GAAAGAATAA-
1 GAAAGAAAAAT
*
16246758 GAAAAAAAAAT
1 GAAAGAAAAAT
*
16246769 GGAAGAAAAAT
1 GAAAGAAAAAT
16246780 -AAAGAAAAAT
1 GAAAGAAAAAT
16246790 GAAA
1 GAAA
16246794 TAAAGTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 17 0.59
11 12 0.41
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (11 bp):
GAAAGAAAAAT
Found at i:16251868 original size:79 final size:79
Alignment explanation
Indices: 16251729--16251874 Score: 215
Period size: 79 Copynumber: 1.8 Consensus size: 79
16251719 ATACATACTG
* *
16251729 CATTGAACATCAGCTGGCCTAACTAGCATTTGAGAACATGGATGGTATAAGGTATCTGATAGAAC
1 CATTGAACATCAGCTGGCCTAACTAGCATTTGAGAACATGGAGGGTATAAGGTATATGATAGAAC
16251794 ACACACATACACCA
66 ACACACATACACCA
* * *
16251808 CATTGAACATCA-CTCGGTCTAACTAGCGTTTGAGAGCATGGAGGGTAT-AGGCTATATGATAGA
1 CATTGAACATCAGCT-GGCCTAACTAGCATTTGAGAACATGGAGGGTATAAGG-TATATGATAGA
16251871 ACAC
64 ACAC
16251875 TTATAAACGT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 5 0.08
79 55 0.92
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (79 bp):
CATTGAACATCAGCTGGCCTAACTAGCATTTGAGAACATGGAGGGTATAAGGTATATGATAGAAC
ACACACATACACCA
Found at i:16253334 original size:40 final size:42
Alignment explanation
Indices: 16253285--16253366 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 42
16253275 GATAAAGTAG
16253285 GAAAACGCTTCCTCAAGGAAGCGC-TT-TGTCCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
** **
16253325 GAAAACGCTTCCTTGAGGGCGCGCTTTGTGTCCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
16253367 AAGTGTTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 20 0.56
41 2 0.06
42 14 0.39
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (42 bp):
GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
Found at i:16253780 original size:97 final size:97
Alignment explanation
Indices: 16253639--16254207 Score: 1006
Period size: 97 Copynumber: 5.9 Consensus size: 97
16253629 CTACAGTTTA
16253639 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
1 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
16253704 TTATTTGATTTTTTCCCTTAAAAACCAAACAC
66 TTATTTGATTTTTTCCCTTAAAAACCAAACAC
16253736 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
1 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
16253801 TTATTTGATTTTTTCCCTTAAAAACCAAACAC
66 TTATTTGATTTTTTCCCTTAAAAACCAAACAC
16253833 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
1 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
16253898 TTATTTGATTTTTTCCCTTAAAAACCAAACAC
66 TTATTTGATTTTTTCCCTTAAAAACCAAACAC
16253930 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
1 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
16253995 TTATTTGATTTTTTCCCTTAAAAACCAAACAC
66 TTATTTGATTTTTTCCCTTAAAAACCAAACAC
16254027 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
1 TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
16254092 TTATTTGATTTTTT--CTTAAAAACCATAAACAC
66 TTATTTGATTTTTTCCCTTAAAAACC--AAACAC
* * * * * *
16254124 TAAACCCTAATCTAATTTTTT---AAAATCTATAATTAATTTAATTAAGAAACCCTAAACCCTTA
1 TAAACCCTAATCTATTTTTTTAAAAAAAT-TATAATTAATTTACTCAAGTAACCTTAAACCCTAA
*
16254186 TTTATTTAATTTTTT-CCTTAAA
65 TTTATTTGATTTTTTCCCTTAAA
16254208 CCCCTAAAAT
Statistics
Matches: 461, Mismatches: 7, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
94 5 0.01
95 54 0.12
96 6 0.01
97 396 0.86
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (97 bp):
TAAACCCTAATCTATTTTTTTAAAAAAATTATAATTAATTTACTCAAGTAACCTTAAACCCTAAT
TTATTTGATTTTTTCCCTTAAAAACCAAACAC
Found at i:16254342 original size:40 final size:42
Alignment explanation
Indices: 16254287--16254367 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 42
16254277 AAAACGGAAA
**
16254287 AAAGTGCTTCCTCAAGGAAGCG-CTT-TGTCCACGTGGACAC
1 AAAGTGCGCCCTCAAGGAAGCGTCTTCTGTCCACGTGGACAC
* *
16254327 AAAGTGCGCCCTCAAGGAAGTGTTTTCTGTCCACGTGGACA
1 AAAGTGCGCCCTCAAGGAAGCGTCTTCTGTCCACGTGGACA
16254368 AGCGCTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 19 0.54
41 2 0.06
42 14 0.40
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (42 bp):
AAAGTGCGCCCTCAAGGAAGCGTCTTCTGTCCACGTGGACAC
Found at i:16259422 original size:21 final size:20
Alignment explanation
Indices: 16259391--16259431 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
16259381 ATTTAAAAAA
*
16259391 ATAAAATTTTTGAAATTTTT
1 ATAAAATTTTTGAAAATTTT
16259411 ATAAATATTTTTGAAAATTTT
1 ATAAA-ATTTTTGAAAATTTT
16259432 GGTGAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
ATAAAATTTTTGAAAATTTT
Found at i:16259907 original size:6 final size:6
Alignment explanation
Indices: 16259898--16259924 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16259888 TGAAATTTAA
16259898 ATATGG ATATGG ATATGG ATATGG ATA
1 ATATGG ATATGG ATATGG ATATGG ATA
16259925 CGTTGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (6 bp):
ATATGG
Found at i:16260158 original size:22 final size:22
Alignment explanation
Indices: 16260133--16260181 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
16260123 GGTTGTTTCA
*
16260133 AGTTTAGATC-GTCTTGAGTTTG
1 AGTTCAGATCGGT-TTGAGTTTG
*
16260155 AGTTCAGGTCGGTTTGAGTTTG
1 AGTTCAGATCGGTTTGAGTTTG
16260177 A-TTCA
1 AGTTCA
16260182 ATTTGGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.17
22 18 0.75
23 2 0.08
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (22 bp):
AGTTCAGATCGGTTTGAGTTTG
Found at i:16261728 original size:27 final size:28
Alignment explanation
Indices: 16261692--16261749 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
16261682 TAGGTTATAA
16261692 AAAAATAATTACA-TATAATAAAAAAAT
1 AAAAATAATTACATTATAATAAAAAAAT
* * *
16261719 AAAAATAATTATATTATACTACAAAAAT
1 AAAAATAATTACATTATAATAAAAAAAT
16261747 AAA
1 AAA
16261750 TATGCGTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATAATTACATTATAATAAAAAAAT
Found at i:16261816 original size:27 final size:25
Alignment explanation
Indices: 16261773--16261835 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 25
16261763 AAATATGTAT
16261773 ATAAAAAAATAATTTAATATGAAAAAGA
1 ATAAAAAAATAATTTAATA--AAAAA-A
*
16261801 ATAAAAAACTAA-TTAATAAAAAAA
1 ATAAAAAAATAATTTAATAAAAAAA
16261825 ATAAAGAAAAT
1 ATAAA-AAAAT
16261836 GAAAAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 6 0.19
25 9 0.28
27 6 0.19
28 11 0.34
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (25 bp):
ATAAAAAAATAATTTAATAAAAAAA
Found at i:16262955 original size:16 final size:17
Alignment explanation
Indices: 16262934--16262973 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
16262924 CCAAATCTGC
* *
16262934 TTTGGGCTTCTGTT-TG
1 TTTGGGCTTCAGTTGGG
16262950 TTTGGGCTTCAGTTGGG
1 TTTGGGCTTCAGTTGGG
16262967 TTTGGGC
1 TTTGGGC
16262974 CACTTCGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.03, C:0.12, G:0.38, T:0.47
Consensus pattern (17 bp):
TTTGGGCTTCAGTTGGG
Found at i:16263318 original size:44 final size:44
Alignment explanation
Indices: 16263231--16263782 Score: 326
Period size: 44 Copynumber: 12.7 Consensus size: 44
16263221 GATCTACCAG
* * * *
16263231 TCTGCTCCACTACAACTTCAGGGGGATAAGATCTG-AGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTCGGCTTTAA
* * *
16263275 TCCGCTCTACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAA
* * *
16263319 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTAC--CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-T-CGGCTTTAA
*** *
16263364 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTTAC-TTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTG-TCGGCTTTAA
* * *
16263409 TCTGCTCCACTACAACTTCAGGGAGATAAGACTAGAT--GC---GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TCGGCTTTAA
* * * * * *
16263450 TCTACT-CTCTGCATCTTCAGAGAGATAAGATCTG-GGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTCGGCTTTAA
** * *
16263493 TCCACTCCACTGTAACTTCAGGGAGATAGGATTGTCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAA
* ** * *
16263537 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTCGGCTTTAA
* * *
16263582 TCTAC-CTCACTGCAACTTCA-GGAGGATAAGACT-T--GCTTACATAT
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTGTCGGCTT---TAA
* * * *
16263626 TCTGCTCCACTGCAACCTCAGGGAGATATGACTAGAT--GC---GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TCGGCTTTAA
* * * * *
16263667 TTTGCT-CTCTGCAACTTCAGAGAGATAAGATCTG-AGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTCGGCTTTAA
* * *
16263710 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAA
16263754 TCTGCTCCACTGCAACTTCAGGGAGATAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAA
16263783 AACTCAATTT
Statistics
Matches: 392, Mismatches: 79, Indels: 74
0.72 0.14 0.14
Matches are distributed among these distances:
39 2 0.01
40 44 0.11
41 13 0.03
43 17 0.04
44 203 0.52
45 103 0.26
46 6 0.02
47 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAA
Found at i:16263750 original size:217 final size:218
Alignment explanation
Indices: 16263243--16263782 Score: 902
Period size: 217 Copynumber: 2.5 Consensus size: 218
16263233 TGCTCCACTA
* * *
16263243 CAACTTCAGGGGGATAAGATCTGAGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
* * *
16263308 GTCGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTACCTTCAGTCTGCCTCA
66 GTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAGTCTACCTCA
* *
16263373 CTGCAACTTCAGGAGGATAAGACTTGCTTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAA
131 CTGCAACTTCAGGAGGATAAGACTTGCTTTACATAGTCTGCTCCACTACAACCTCAGGGAGATAA
16263438 GACTAGATGCGATCTACTCTCTG
196 GACTAGATGCGATCTACTCTCTG
* * * *
16263461 CATCTTCAGAGAGATAAGATCTGGGGTTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
*
16263526 GTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCA
66 GTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAGTCTACCTCA
* * *
16263591 CTGCAACTTCAGGAGGATAAGACTTGC-TTACATATTCTGCTCCACTGCAACCTCAGGGAGATAT
131 CTGCAACTTCAGGAGGATAAGACTTGCTTTACATAGTCTGCTCCACTACAACCTCAGGGAGATAA
* *
16263655 GACTAGATGCGATTTGCTCTCTG
196 GACTAGATGCGATCTACTCTCTG
16263678 CAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
*
16263743 ATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
66 GTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
16263783 AACTCAATTT
Statistics
Matches: 299, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
217 153 0.51
218 146 0.49
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (218 bp):
CAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
GTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAGTCTACCTCA
CTGCAACTTCAGGAGGATAAGACTTGCTTTACATAGTCTGCTCCACTACAACCTCAGGGAGATAA
GACTAGATGCGATCTACTCTCTG
Found at i:16277839 original size:17 final size:17
Alignment explanation
Indices: 16277817--16277858 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
16277807 CCAAATCTGC
* * *
16277817 TTTGGGCTTCTGTTTGG
1 TTTGGGCCTCAGTTGGG
16277834 TTTGGGCCTCAGTTGGG
1 TTTGGGCCTCAGTTGGG
16277851 TTTGGGCC
1 TTTGGGCC
16277859 ACCTCGGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.02, C:0.17, G:0.38, T:0.43
Consensus pattern (17 bp):
TTTGGGCCTCAGTTGGG
Found at i:16278946 original size:27 final size:27
Alignment explanation
Indices: 16278911--16278963 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
16278901 GACTGAAACT
*
16278911 ATAGCATATTCGGTGCTTTCTATTCAA
1 ATAGAATATTCGGTGCTTTCTATTCAA
*
16278938 ATAGAATATTCTGTGCTTTCTATTCA
1 ATAGAATATTCGGTGCTTTCTATTCA
16278964 CTTCTCAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (27 bp):
ATAGAATATTCGGTGCTTTCTATTCAA
Found at i:16289340 original size:63 final size:64
Alignment explanation
Indices: 16289232--16289358 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 64
16289222 GATAAAAATG
16289232 CCTTTGCGAAATAGGCTCATGTCTGAACGTCATTATTCTAATAAAATACATCTTTGCATTCATT
1 CCTTTGCGAAATAGGCTCATGTCTGAACGTCATTATTCTAATAAAATACATCTTTGCATTCATT
* * **
16289296 CCTTTGTG-AATAGGCTCATGTTTGAACGTCATTATTCTAATAAAATACATCTTTTTATTCATT
1 CCTTTGCGAAATAGGCTCATGTCTGAACGTCATTATTCTAATAAAATACATCTTTGCATTCATT
16289359 TTTGAGCCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 52 0.88
64 7 0.12
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (64 bp):
CCTTTGCGAAATAGGCTCATGTCTGAACGTCATTATTCTAATAAAATACATCTTTGCATTCATT
Found at i:16290269 original size:14 final size:15
Alignment explanation
Indices: 16290243--16290275 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16290233 TCTCAAGCAG
16290243 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
16290258 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
16290272 GGAA
1 GGAA
16290276 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:16291615 original size:44 final size:43
Alignment explanation
Indices: 16291479--16291976 Score: 221
Period size: 44 Copynumber: 11.3 Consensus size: 43
16291469 AGATAGCAGA
* *
16291479 TCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAG
1 TCTTGCCTTCCTGGA-CTGCAGCGAAGCAGATCAAAGACACCAG
* * ** * * * * * * *
16291523 TCTTTCCTCCCTGGGTTGCAGTGCAGCAGGTTAAAAATAGCAG
1 TCTTGCCTTCCTGGACTGCAGCGAAGCAGATCAAAGACACCAG
* * *
16291566 ATCTTGTCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAG
1 -TCTTGCCTTCCTGGACTG-CAGCGAAGCAGATCAAAGACACCAG
* ** * * * * *
16291611 TCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAG
1 TCTTGCCTTCCTGGACTGCAGCGAAGCAGATCAAAGACACCAG
* * *
16291654 ATCTTGCCTTCCTGTAATGACAGCGAAGCAGATCGAAGACACCAG
1 -TCTTGCCTTCCTGGACTG-CAGCGAAGCAGATCAAAGACACCAG
* * * * * *
16291699 TCTTGCC-TCCTTAGG-TTGCAGTGGAGCAGA-CTGAAGATAGCAG
1 TCTTGCCTTCC-T-GGACTGCAGCGAAGCAGATC-AAAGACACCAG
** * *
16291742 ATCTTGTTTTCCTGTATCGGCAGCGAAGCAGATCAAAGACACCAG
1 -TCTTGCCTTCCTGGA-CTGCAGCGAAGCAGATCAAAGACACCAG
* * ** * * * * * *
16291787 CCTTGCCTCCCTGGGTTGCAACGGAGCAGGTTGAAA-ATAGCAG
1 TCTTGCCTTCCTGGACTGCAGCGAAGCA-GATCAAAGACACCAG
* * * * *
16291830 ATCTTGCCTTCCTGTAATAACAGCGAAGCAGATCGAAGACACTAG
1 -TCTTGCCTTCCTGGACT-GCAGCGAAGCAGATCAAAGACACCAG
* * ** * * * * * * *
16291875 CCTTGCCTCCCTGGGTTGCAACGGAGCAGGTTAAAAATAGCAG
1 TCTTGCCTTCCTGGACTGCAGCGAAGCAGATCAAAGACACCAG
* * * *
16291918 ATCTTGTCTTCCTGTACCGGCAGTGAAGCAGATCAAAGACACCAG
1 -TCTTGCCTTCCTGGA-CTGCAGCGAAGCAGATCAAAGACACCAG
*
16291963 TCTTGCCTCCCTGG
1 TCTTGCCTTCCTGG
16291977 GTTGCAGCAG
Statistics
Matches: 311, Mismatches: 125, Indels: 36
0.66 0.26 0.08
Matches are distributed among these distances:
42 1 0.00
43 92 0.30
44 127 0.41
45 90 0.29
46 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.22
Consensus pattern (43 bp):
TCTTGCCTTCCTGGACTGCAGCGAAGCAGATCAAAGACACCAG
Found at i:16291948 original size:264 final size:263
Alignment explanation
Indices: 16291465--16292280 Score: 1058
Period size: 264 Copynumber: 3.1 Consensus size: 263
16291455 GAACAGATCA
* * *
16291465 TTGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGTCTTTCC
1 TTGAAGATAGCAGATCTTGTCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
* * * * *
16291530 TCCCTGGGTTGCAGTGCAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTGCACCGACAGCGAAGC
66 TCCCTGGGTTGCAGCGGAGCAGGTT-AAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
* * * *
16291595 AGATCAAAGACACCAGTCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGATCTTG
130 AGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTG
* * * **
16291660 CCTTCCTGTAATGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCTCCTTAGGTTGCAGTGGAG
195 CCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTAGGTTGCAGCAGAG
*
16291725 CAGA
260 CAGG
* * *
16291729 CTGAAGATAGCAGATCTTGTTTTCCTGTATCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
1 TTGAAGATAGCAGATCTTGTCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
* * *
16291794 TCCCTGGGTTGCAACGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTAATAACAGCGAAGC
66 TCCCTGGGTTGCAGCGGAGCAGGTT-AAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
*
16291859 AGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAACGGAGCAGGTTAAAAATAGCAGATCTTG
130 AGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTG
* * * * *
16291924 TCTTCCTGTACCGGCAGTGAAGCAGATCAAAGACACCAGTCTTGCCTCCCTGGGTTGCAGCAGAG
195 CCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTAGGTTGCAGCAGAG
16291989 CAGG
260 CAGG
* * * * * * * * * * * * *
16291993 TTGAAAATTGCAGATCTTATCTCCCT-AAGCAGTAGTGGAGTAGATCGAAGACACTAGCCTTGCC
1 TTGAAGATAGCAGATCTTGTCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
* * * *
16292057 TCCCTCGGTGGTAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGC
66 TCCCTGGGTTGCAGCGGAGCAGGTTAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
* * * * * * *
16292122 AGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCAGAGTAGGTTAAAGATAACAGATCTTG
130 AGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTG
* * * * *
16292187 CCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGCAGCAGAG
195 CCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTAGGTTGCAGCAGAG
16292252 CAGG
260 CAGG
*
16292256 TTAAAGATAGCAGATCTTGTCTTCC
1 TTGAAGATAGCAGATCTTGTCTTCC
16292281 CATATTGGTG
Statistics
Matches: 476, Mismatches: 75, Indels: 3
0.86 0.14 0.01
Matches are distributed among these distances:
262 3 0.01
263 220 0.46
264 253 0.53
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (263 bp):
TTGAAGATAGCAGATCTTGTCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
TCCCTGGGTTGCAGCGGAGCAGGTTAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA
GATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGC
CTTCCTGTACTGACAGTGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTAGGTTGCAGCAGAGC
AGG
Found at i:16292100 original size:44 final size:43
Alignment explanation
Indices: 16292051--16292274 Score: 141
Period size: 44 Copynumber: 5.1 Consensus size: 43
16292041 AGACACTAGC
*
16292051 CTTGCCTCCCTCGGTGGTAGCGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATA-CAGAT
* * * * * * * * *
16292095 CTTGCCTTCCT-GTACTGACAGTGAAGCAGATTGAAGACACTAG-C
1 CTTGCCTCCCTCG--GTGGCAGCGGAGCAGGTTAAAGATAC-AGAT
* *
16292139 CTTGCCTCCCTCGGTGGCAGCAGAGTAGGTTAAAGATAACAGAT
1 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGAT-ACAGAT
* * * * * * * * *
16292183 CTTGCCTTCCT-GTACTGACAGTGAAGCAGATTGAAGACACTAG-C
1 CTTGCCTCCCTCG--GTGGCAGCGGAGCAGGTTAAAGATAC-AGAT
*
16292227 CTTGCCTCCCTCGGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATA-CAGAT
16292271 CTTG
1 CTTG
16292275 TCTTCCCATA
Statistics
Matches: 126, Mismatches: 42, Indels: 24
0.66 0.22 0.12
Matches are distributed among these distances:
43 38 0.30
44 50 0.40
45 38 0.30
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (43 bp):
CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATACAGAT
Found at i:16292307 original size:88 final size:88
Alignment explanation
Indices: 16291468--16292280 Score: 934
Period size: 88 Copynumber: 9.2 Consensus size: 88
16291458 CAGATCATTG
* * * * * *
16291468 AAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGTCTTTCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* *
16291533 CTGGGTTGCAGTGCAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * * * *
16291556 AAAATAGCAGATCTTGTCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
16291621 CTGGGTTGCAGCGAAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * * *
16291644 AAAATAGCAGATCTTGCCTTCCTGTAATGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * * ** *
16291709 TTAGGTTGCAGTGGAGCAGACTG
66 CTGGGTTGCAGCGGAGCAGGTTA
* * *
16291732 AAGATAGCAGATCTTGTTTTCCTGTA-TCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTC
1 AAGATAGCAGATCTTGTCTTCCTGTACT-GACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
*
16291796 CCTGGGTTGCAACGGAGCAGGTTGA
65 CCTGGGTTGCAGCGGAGCAGGTT-A
* * * *
16291821 AA-ATAGCAGATCTTGCCTTCCTGTAATAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
16291885 CTGGGTTGCAACGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * * * * *
16291908 AAAATAGCAGATCTTGTCTTCCTGTACCGGCAGTGAAGCAGATCAAAGACACCAGTCTTGCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
16291973 CTGGGTTGCAGCAGAGCAGGTTGA
66 CTGGGTTGCAGCGGAGCAGGTT-A
* * * * * * * * * *
16291997 AA-ATTGCAGATCTTATCTCCCT-AAGCAG-TAGTGGAGTAGATCGAAGACACTAGCCTTGCCTC
1 AAGATAGCAGATCTTGTCTTCCTGTA-CTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* * *
16292059 CCTCGGTGGTAGCGGAGCAGGTTA
65 CCTGGGTTGCAGCGGAGCAGGTTA
* * * *
16292083 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * * *
16292148 CTCGGTGGCAGCAGAGTAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * * * *
16292171 AAGATAACAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * *
16292236 CTCGGTGGCAGCAGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
16292259 AAGATAGCAGATCTTGTCTTCC
1 AAGATAGCAGATCTTGTCTTCC
16292281 CATATTGGTG
Statistics
Matches: 635, Mismatches: 81, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
86 3 0.00
87 70 0.11
88 556 0.88
89 6 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (88 bp):
AAGATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
CTGGGTTGCAGCGGAGCAGGTTA
Found at i:16292364 original size:44 final size:44
Alignment explanation
Indices: 16292258--16292677 Score: 396
Period size: 44 Copynumber: 9.5 Consensus size: 44
16292248 AGAGCAGGTT
*** * * *
16292258 AAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAAATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
* * * *
16292303 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTGGATT
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* *
16292347 AAAAATAGCAGAGCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* * *** *
16292391 GAAGATAACAGATCTTGTCTTCCCATATTGGCGGCGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATC
* * *
16292436 GAAGAAAGCAGATCTTGTCTTCATG-ATTCGGCATGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATT-GGCGTGAAGTAGATC
* * * *** * * * *
16292480 AAAGGTAACAAATCTTGTCTTC-CCCACTGGTGGCGAAATAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
* * *
16292524 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* * *
16292568 AAAGGTAGCAGATCTTGTCTTTACGTATTGGCGTGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* * * *
16292612 GAAGAT-GACAGATCTTGTCTTCATGTATTGGCATGAATTTGATC
1 AAAGATAG-CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
*
16292656 AAAGATAGTAGATCTTGTCTTC
1 AAAGATAGCAGATCTTGTCTTC
16292678 CCATACTGGT
Statistics
Matches: 297, Mismatches: 71, Indels: 15
0.78 0.19 0.04
Matches are distributed among these distances:
43 3 0.01
44 229 0.77
45 65 0.22
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (44 bp):
AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
Found at i:16292427 original size:133 final size:133
Alignment explanation
Indices: 16292259--16292682 Score: 462
Period size: 133 Copynumber: 3.2 Consensus size: 133
16292249 GAGCAGGTTA
* * *
16292259 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAAATCGAAGAAAGCAGATCTTGTCTT
1 AAGATAACAGATCTTGTCTTCCCATATTGGCGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * * * *
16292324 CATGTATTGGCGTGAAGTGGATTAAAAATAGCAGAGCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGA
16292389 TCG
131 TCG
16292392 AAGATAACAGATCTTGTCTTCCCATATTGGCGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
1 AAGATAACAGATCTTGTCTTCCCATATTGGCGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * * * *** * * *
16292457 CATG-ATTCGGCATGAAGTAGATCAAAGGTAACAAATCTTGTCTTC-CCCACTGGTGGCGAAATA
66 CATGTATT-GGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAATA
16292520 GATCG
129 GATCG
*** ** * **
16292525 AAGA-AAGCAGATCTTGTCTTCATGTATTGGC-ATGAAGTAGATCAAAGGTAGCAGATCTTGTCT
1 AAGATAA-CAGATCTTGTCTTCCCATATTGGCGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCT
* * * * * *
16292588 TTACGTATTGGCGTGAAGTAGATCGAAGAT-GACAGATCTTGTCTTCATGTATTGGCATGAATTT
65 TCATGTATTGGCGTGAAGTAGATCAAAGATAG-CAGATCTTGTCTTCATGTATTGGCGTGAAATA
*
16292652 GATCA
129 GATCG
**
16292657 AAGATAGTAGATCTTGTCTTCCCATA
1 AAGATAACAGATCTTGTCTTCCCATA
16292683 CTGGTAGTGA
Statistics
Matches: 236, Mismatches: 48, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
132 97 0.41
133 139 0.59
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (133 bp):
AAGATAACAGATCTTGTCTTCCCATATTGGCGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
CATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGA
TCG
Found at i:16292699 original size:221 final size:222
Alignment explanation
Indices: 16292269--16292677 Score: 588
Period size: 221 Copynumber: 1.9 Consensus size: 222
16292259 AAGATAGCAG
* * *
16292269 ATCTTGTCTTCCCATATTGGTGGCGAAGTAAATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 ATCTTGTCTTCCCACACTGGTGGCGAAATAAATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
16292334 CGTGAAGTGGATTAAAAATAGCAGAGCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAA
66 CATGAAGTAGATCAAAAATAGCAGAGCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGATAA
* * * *
16292399 CAGATCTTGTCTTCCCATATTGGCGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGATT
131 CAGATCTTGTCTTCACATATTGGCGACGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGACT
16292464 CGGCATGAAGTAGATCAAAGGTAACAA
196 CGGCATGAAGTAGATCAAAGGTAACAA
*
16292491 ATCTTGTCTTCCC-CACTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 ATCTTGTCTTCCCACACTGGTGGCGAAATAAATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
** * * *
16292555 CATGAAGTAGATCAAAGGTAGCAGATCTTGTCTTTACGTATTGGCGTGAAGTAGATCGAAGATGA
66 CATGAAGTAGATCAAAAATAGCAGAGCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGATAA
** * * * * *
16292620 CAGATCTTGTCTTCATGTATTGGC-ATGAATTTGATCAAAGATAGTAGATCTTGTCTTC
131 CAGATCTTGTCTTCACATATTGGCGACGAAGTAGATCAAAGAAAGCAGATCTTGTCTTC
16292678 CCATACTGGT
Statistics
Matches: 164, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
220 27 0.16
221 124 0.76
222 13 0.08
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (222 bp):
ATCTTGTCTTCCCACACTGGTGGCGAAATAAATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
CATGAAGTAGATCAAAAATAGCAGAGCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGATAA
CAGATCTTGTCTTCACATATTGGCGACGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGACT
CGGCATGAAGTAGATCAAAGGTAACAA
Found at i:16294958 original size:13 final size:14
Alignment explanation
Indices: 16294924--16294960 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
16294914 TTTCCTCATG
16294924 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
16294939 TAT-TTATTT-GTT
1 TATATTATTTCGTT
16294951 TATATTATTT
1 TATATTATTT
16294961 ATGCCATCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:16296146 original size:21 final size:21
Alignment explanation
Indices: 16296122--16296173 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
16296112 CATTCTTTCT
*
16296122 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
* *
16296143 AATCTCACCGCTACAGTAACT
1 AATCTCACTGCTACAGTAACC
16296164 AATCTCACTG
1 AATCTCACTG
16296174 TCACCGCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.27
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:16296574 original size:30 final size:30
Alignment explanation
Indices: 16296506--16296589 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 30
16296496 CCCTAACCTT
* * *
16296506 AACCCATGAAAATTTTCAAA-A-CTTGGGA
1 AACCCAAGATAATTTTCAAACATCCTGGGA
* * *
16296534 ATCTCGAGATAATTTTCAAACATCCTGGGA
1 AACCCAAGATAATTTTCAAACATCCTGGGA
16296564 AACCCAAGATAATTTTCAAACATCCT
1 AACCCAAGATAATTTTCAAACATCCT
16296590 ATCCCAGGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 15 0.33
29 1 0.02
30 29 0.64
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (30 bp):
AACCCAAGATAATTTTCAAACATCCTGGGA
Found at i:16306465 original size:89 final size:89
Alignment explanation
Indices: 16306371--16306659 Score: 308
Period size: 89 Copynumber: 3.3 Consensus size: 89
16306361 CTTTAATCTA
* *
16306371 CTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
* *
16306436 GATAAGACTTATTTACTTAGTTTG
66 GATAAGACTTACTTACTTAGTCTG
* * * * *
16306460 CTCCACTGCAACTTCAGCGAGATAAGACTAG--A--TGC-GATCTG-CTCTCTGCAACTTCA-GA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG-TCTGCCTCACTGCAACTTCAGGA
** * * **
16306518 GAGATAAGATCCAAGGTT--TTAATCCA
65 G-GATAAGA-CTTA-CTTACTTAGTCTG
*
16306544 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
*
16306609 GATAAGACTTGCTTACTTAGTCTG
66 GATAAGACTTACTTACTTAGTCTG
* *
16306633 CTCCACTGCAACATCCGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
16306660 CTAAATGCGA
Statistics
Matches: 157, Mismatches: 30, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
83 3 0.02
84 52 0.33
85 8 0.05
86 3 0.02
87 3 0.02
88 7 0.04
89 78 0.50
90 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
GATAAGACTTACTTACTTAGTCTG
Found at i:16306511 original size:173 final size:173
Alignment explanation
Indices: 16306362--16306745 Score: 633
Period size: 173 Copynumber: 2.2 Consensus size: 173
16306352 GATTATCGGC
* *
16306362 TTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
* * * * *
16306427 CTTTAGGAGGATAAGACTTATTTACTTAGTTTGCTCCACTGCAACTTCAGCGAGATAAGACTAGA
66 CTTCAGGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACATCAGCGAGATAAGACTAAA
16306492 TGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
131 TGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
*
16306535 TTTAATCCACTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
* * *
16306600 CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACATCCGGGAGATAAGACTAAA
66 CTTCAGGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACATCAGCGAGATAAGACTAAA
*
16306665 TGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGT
131 TGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
* * *
16306708 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATT
1 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATT
16306746 ATCGGCTTTA
Statistics
Matches: 195, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
173 195 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (173 bp):
TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
CTTCAGGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACATCAGCGAGATAAGACTAAA
TGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
Found at i:16306548 original size:84 final size:84
Alignment explanation
Indices: 16306459--16306740 Score: 302
Period size: 84 Copynumber: 3.3 Consensus size: 84
16306449 TACTTAGTTT
*
16306459 GCTCCACTGCAACTTCAGCGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
16306524 AGATCCAAGGTTTTAATCC
66 AGATCCAAGGTTTTAATCC
* * * * * *
16306543 ACTCCACTACAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTGCCTCACTGCAACTTCAG-
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAG--ATGC--GA-TCTG-CTCTCTGCAACTTCAGA
** * * *
16306606 GAGGATAAGA--CTTGCTTACTTAGTCT
60 GA-GATAAGATCCAAGGTT--TTAATCC
* * * *
16306632 GCTCCACTGCAACATCCGGGAGATAAGACTAAATGCGATCTGCTCTCTGTAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
16306697 AGATCCAAGGTTTTAATCC
66 AGATCCAAGGTTTTAATCC
*
16306716 GCTCCACTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
16306741 GGATTATCGG
Statistics
Matches: 155, Mismatches: 30, Indels: 26
0.73 0.14 0.12
Matches are distributed among these distances:
84 75 0.48
85 7 0.05
86 7 0.05
87 7 0.05
88 7 0.05
89 52 0.34
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATCCAAGGTTTTAATCC
Found at i:16306633 original size:217 final size:216
Alignment explanation
Indices: 16306218--16306917 Score: 714
Period size: 217 Copynumber: 3.2 Consensus size: 216
16306208 GATTTCAGAA
** * * *
16306218 AGATAAGACTTGCTCACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCT
1 AGATAAGACTTAATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCT
** *
16306283 GCTCTCTGCAACTTCAGAGAGATAAGATCTAATATTTTAATCCGCTCCACTGCAACTTCAGGGAG
66 GCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAG
* * * * * * *
16306348 ATAGGATTATCGGC-T-TTAATCT-ACTCCACTGCAACCTCAGG-GAGATAAGATTTGC-CATCT
131 ATAAGATT-T-GCCATCTTAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTGCTTA-CT
*
16306408 TCAGTCTGC-CTCACTGCAACTTTA-GG
191 T-AGTCTGCTC-CACTGCAACTTCAGGG
* * *
16306434 AGGATAAGACTTATTTACTTAGTTTGCTCCACTGCAACTTCAGCGAGATAAGACTAGATGCGATC
1 A-GATAAGACTTAATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATC
* *
16306499 TGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTACAACTTCAGGGA
65 TGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGA
16306564 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
130 GATAAGATTTGCCATCTT-AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
* *
16306629 TCTGCTCCACTGCAACATCCGGG
194 TCTGCTCCACTGCAACTTCAGGG
* * * * * * * ***
16306652 AGATAAGAC-TAAATGC-GA-TCTGCT-CTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAA
1 AGATAAGACTTAATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGA--CTA-GATGCGA
* * * * * * *
16306713 TCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATCGGCTTTAATCTACTCCACTGCAACCTCA
63 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCCACTCCACTGCAACTTCA
* ** *
16306777 GGGAGTTAAGATTTGCCATCTTTAGTCTGCCTCACTATAACTTCAGGAGGATAAGACTTGTTTAC
126 GGGAGATAAGATTTGCCATC-TTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTAC
16306842 TTAGTCTGCTCCACTGCAACTTCAGGG
190 TTAGTCTGCTCCACTGCAACTTCAGGG
** *
16306869 AGATAAGAC-T-A-TA-TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGAC
1 AGATAAGACTTAATTACTTAG-TCTGCTCCACTGCAACTTCAGAGAGATAAGAC
16306918 CCAAGGTTTT
Statistics
Matches: 414, Mismatches: 52, Indels: 37
0.82 0.10 0.07
Matches are distributed among these distances:
213 21 0.05
214 5 0.01
215 8 0.02
216 17 0.04
217 321 0.78
218 38 0.09
219 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (216 bp):
AGATAAGACTTAATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCT
GCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTC
TGCTCCACTGCAACTTCAGGG
Found at i:16306832 original size:173 final size:173
Alignment explanation
Indices: 16306362--16306834 Score: 532
Period size: 173 Copynumber: 2.7 Consensus size: 173
16306352 GATTATCGGC
* * * * * *
16306362 TTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCCACTCCACTACAACTTCAGAGAGATAAGATTTGCCATCTTCAATCTACCTCACTGCAA
* * *** * * *
16306427 CTTTAGGAGGATAAGACTTATTTACTTAGTTTGCTCCACTGCAACTTCAGCGA-GATAAGACTAG
66 CCTCAGGAGGATAAGACTTGCATACTTAGTCTGCTCCACTACAACTTCAG-GAGGATAAGACTAA
16306491 ATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
130 ATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
* * *
16306535 TTTAATCCACTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCCACTCCACTACAACTTCAGAGAGATAAGATTTGCCATCTTCAATCTACCTCACTGCAA
* * * * *
16306600 CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACATCCGG-GAGATAAGACTAA
66 CCTCAGGAGGATAAGACTTGCATACTTAGTCTGCTCCACTACAACTTCAGGAG-GATAAGACTAA
*
16306664 ATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGT
130 ATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
* * * *
16306708 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATCGGC-T-TT-AATCTA-CTCCACTG
1 TTTAATCCACTCCACTACAACTTCAGAGAGATAAGATT-T-GCCATCTTCAATCTACCT-CACTG
* * *
16306769 CAACCTCAGG-GAGTTAAGATTTGCCAT-CTTTAGTCTGC-CTCACTATAACTTCAGGAGGATAA
63 CAACCTCAGGAG-GATAAGACTTG-CATAC-TTAGTCTGCTC-CACTACAACTTCAGGAGGATAA
16306831 GACT
124 GACT
16306835 TGTTTACTTA
Statistics
Matches: 264, Mismatches: 26, Indels: 20
0.85 0.08 0.06
Matches are distributed among these distances:
171 3 0.01
172 30 0.11
173 226 0.86
174 3 0.01
175 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (173 bp):
TTTAATCCACTCCACTACAACTTCAGAGAGATAAGATTTGCCATCTTCAATCTACCTCACTGCAA
CCTCAGGAGGATAAGACTTGCATACTTAGTCTGCTCCACTACAACTTCAGGAGGATAAGACTAAA
TGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
Found at i:16306924 original size:217 final size:217
Alignment explanation
Indices: 16306505--16306964 Score: 733
Period size: 217 Copynumber: 2.1 Consensus size: 217
16306495 GATCTGCTCT
* * * *
16306505 CTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAA
1 CTGCAACTTCAGAGAGATAGGAT-TATAGGCTTTAATCCACTCCACTACAACCTCAGGGAGATAA
*
16306569 GATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGC
65 GATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGC
* *
16306634 TCCACTGCAACATCCGGGAGATAAGACTAAATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAG
130 TCCACTGCAACATCAGGGAGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
*
16306699 ATCCAAGGTTTTAATCCGCTCCA
195 ACCCAAGGTTTTAATCCGCTCCA
* * * *
16306722 CTGCAACTTCAGAGAGATAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGTTAAG
1 CTGCAACTTCAGAGAGATAGGATTATAGGCTTTAATCCACTCCACTACAACCTCAGGGAGATAAG
* * *
16306787 ATTTGCCATCTTTAGTCTGCCTCACTATAACTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCT
66 ATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCT
* *
16306852 CCACTGCAACTTCAGGGAGATAAGACTATATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
131 CCACTGCAACATCAGGGAGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
*
16306917 CCCAAGGTTTTAATCTGCTCCA
196 CCCAAGGTTTTAATCCGCTCCA
*
16306939 CTGCAACTTCAGGGAGATAGGATTAT
1 CTGCAACTTCAGAGAGATAGGATTAT
16306965 TGGCCACCGA
Statistics
Matches: 223, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 1 0.00
217 222 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
CTGCAACTTCAGAGAGATAGGATTATAGGCTTTAATCCACTCCACTACAACCTCAGGGAGATAAG
ATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCT
CCACTGCAACATCAGGGAGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
CCCAAGGTTTTAATCCGCTCCA
Found at i:16306940 original size:390 final size:390
Alignment explanation
Indices: 16306219--16306962 Score: 1272
Period size: 390 Copynumber: 1.9 Consensus size: 390
16306209 ATTTCAGAAA
* *
16306219 GATAAGACTTGCTCACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTG
1 GATAAGACTTGCTCACTTAGTCTGCTCCACTACAACATCAGGGAGATAAGACTAAATGCGATCTG
* * *
16306284 CTCTCTGCAACTTCAGAGAGATAAGATCTAATATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAGA
16306349 TAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTC
131 TAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTC
* * *
16306414 TGCCTCACTGCAACTTTAGGAGGATAAGACTTATTTACTTAGTTTGCTCCACTGCAACTTCAGCG
196 TGCCTCACTACAACTTCAGGAGGATAAGACTTATTTACTTAGTCTGCTCCACTGCAACTTCAGCG
*
16306479 AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCA
261 AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGACCCAAGGTTTTAATCCA
16306544 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
326 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
* * *
16306609 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACATCCGGGAGATAAGACTAAATGCGATCTG
1 GATAAGACTTGCTCACTTAGTCTGCTCCACTACAACATCAGGGAGATAAGACTAAATGCGATCTG
* *
16306674 CTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAGA
* *
16306739 TAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGTTAAGATTTGCCATCTTTAGTC
131 TAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTC
* * *
16306804 TGCCTCACTATAACTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGG
196 TGCCTCACTACAACTTCAGGAGGATAAGACTTATTTACTTAGTCTGCTCCACTGCAACTTCAGCG
* **
16306869 AGATAAGACTATATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGACCCAAGGTTTTAATCTG
261 AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGACCCAAGGTTTTAATCCA
* *
16306934 CTCCACTGCAACTTCAGGGAGATAGGATT
326 CTCCACTACAACTTCAGGGAGATAAGATT
16306963 ATTGGCCACC
Statistics
Matches: 330, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
390 330 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (390 bp):
GATAAGACTTGCTCACTTAGTCTGCTCCACTACAACATCAGGGAGATAAGACTAAATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAGA
TAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTC
TGCCTCACTACAACTTCAGGAGGATAAGACTTATTTACTTAGTCTGCTCCACTGCAACTTCAGCG
AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGACCCAAGGTTTTAATCCA
CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
Found at i:16306948 original size:44 final size:43
Alignment explanation
Indices: 16306239--16306957 Score: 222
Period size: 44 Copynumber: 16.7 Consensus size: 43
16306229 GCTCACTTAG
* * * ***
16306239 TCTGCTCCACTACAACTTCAGGGAGATAAGA-CTA-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAAGGTTTTAA
* * * **
16306280 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAATATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CCAAGGTTTTAA
* * ** * *
16306323 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCA-AGGTTTTAA
* * * *
16306367 TCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCC-A--TCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA----CCAAGGT-TTTAA
* ** * *
16306412 TCTGC-CTCACTGCAACTTTA-GGAGGATAAGACTTA-TTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACCAAGGTT--TTAA
* * * * ***
16306456 TTTGCTCCACTGCAACTTCAGCGAGATAAGA-CTA-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAAGGTTTTAA
* *
16306497 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CCAAGGTTTTAA
** * * *
16306540 TCCACTCCACTACAACTTCAGGGAGATAAGATTTGCC-A--TCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA----CCAAGGT-TTTAA
** * *
16306585 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGA-CTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACCAAGGTT--TTAA
* * * * ***
16306629 TCTGCTCCACTGCAACATCCGGGAGATAAGACTAA--ATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAAGGTTTTAA
* * *
16306670 TCTGCT-CTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CCAAGGTTTTAA
* * * ** * *
16306713 TCCGCTCCACTGCAACTTCAGAGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCA-AGGTTTTAA
* * * *
16306757 TCTACTCCACTGCAACCTCAGGGAGTTAAGATTTGCC-A--TCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA----CCAAGGT-TTTAA
** ** * *
16306802 TCTGC-CTCACTATAACTTCA-GGAGGATAAGA-CTTGTTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACCAAGGTT--TTAA
* ***
16306846 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTA--TATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAAGGT-TTTAA
* *
16306887 TCTGCT-CTCTGCAACTTCAGAGAGATAAGACCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CCAAGGTTTTAA
16306930 TCTGCTCCACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
16306958 GGATTATTGG
Statistics
Matches: 492, Mismatches: 125, Indels: 119
0.67 0.17 0.16
Matches are distributed among these distances:
40 86 0.17
41 27 0.05
42 10 0.02
43 40 0.08
44 241 0.49
45 85 0.17
46 1 0.00
47 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAAGGTTTTAA
Found at i:16319509 original size:27 final size:27
Alignment explanation
Indices: 16319471--16319522 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
16319461 TTGGGACCAG
*
16319471 ATTGAAATTGAAATTAAATTAAAGGAC
1 ATTGAAATTGAAACTAAATTAAAGGAC
16319498 ATTGAAATTGAAACTAAATTAAAGG
1 ATTGAAATTGAAACTAAATTAAAGG
16319523 GCGAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.29
Consensus pattern (27 bp):
ATTGAAATTGAAACTAAATTAAAGGAC
Found at i:16322277 original size:5 final size:5
Alignment explanation
Indices: 16322269--16322298 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
16322259 GAAAAAAAAA
16322269 TTAAT TTAAT TTAAT TTAATT TTAAT TTAA
1 TTAAT TTAAT TTAAT TTAA-T TTAAT TTAA
16322299 AAATGCAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:16322282 original size:10 final size:11
Alignment explanation
Indices: 16322269--16322298 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
16322259 GAAAAAAAAA
16322269 TTAATTTAA-T
1 TTAATTTAATT
16322279 TTAATTTAATT
1 TTAATTTAATT
16322290 TTAATTTAA
1 TTAATTTAA
16322299 AAATGCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTAATTTAATT
Found at i:16327211 original size:22 final size:22
Alignment explanation
Indices: 16327159--16327211 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
16327149 AAATCTGGTG
**
16327159 AAAGGAAAAAAAAATTCATGAA
1 AAAGGAAAAAAAAAGACATGAA
* *
16327181 AAAGAAAAAAAAAAGAGA-GAA
1 AAAGGAAAAAAAAAGACATGAA
16327202 AGAAGGAAAA
1 A-AAGGAAAA
16327212 GACCAAAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.06
Consensus pattern (22 bp):
AAAGGAAAAAAAAAGACATGAA
Found at i:16333805 original size:40 final size:39
Alignment explanation
Indices: 16333760--16333933 Score: 136
Period size: 41 Copynumber: 4.3 Consensus size: 39
16333750 GCTATGTTTA
* * *
16333760 GCACTTAGTATGAAATTCGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTGTGAGATT-GAGATAGCTTCGGCTATATATG
* *
16333800 GCACTTAGTGTGCGATT-AGGAATAGCTTCGGCTGTATATG
1 GCACTTAGTGTGAGATTGA-G-ATAGCTTCGGCTATATATG
* * * *
16333840 GCACTTAGTGTGCGAGACTGAGATAGCTTCGGTTATGTAAG
1 GCACTTAGTGT--GAGATTGAGATAGCTTCGGCTATATATG
* * *
16333881 GCACTTAGTGTGCGAGATT-ATAATAGCTTCGGCTGTACGATG
1 GCACTTAGTGT--GAGATTGA-GATAGCTTCGGCTATA-TATG
*
16333923 GCAATTAGTGT
1 GCACTTAGTGT
16333934 ACGAAACATT
Statistics
Matches: 108, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 43 0.40
41 45 0.42
42 17 0.16
43 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (39 bp):
GCACTTAGTGTGAGATTGAGATAGCTTCGGCTATATATG
Found at i:16333884 original size:41 final size:40
Alignment explanation
Indices: 16333778--16333933 Score: 152
Period size: 41 Copynumber: 3.8 Consensus size: 40
16333768 TATGAAATTC
* *
16333778 GAGATAGCTTCGGCTATTTATGGCACTTAGTGTGCGATTAG
1 GAGATAGCTTCGGCTATATATGGCACTTAGTGTGCGA-GAG
* *
16333819 GA-ATAGCTTCGGCTGTATATGGCACTTAGTGTGCGAGACT
1 GAGATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA-G
* * * *
16333859 GAGATAGCTTCGGTTATGTAAGGCACTTAGTGTGCGAGAT
1 GAGATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGAG
* * * * *
16333899 TATAATAGCTTCGGCTGTACGATGGCAATTAGTGT
1 GA-GATAGCTTCGGCTATA-TATGGCACTTAGTGT
16333934 ACGAAACATT
Statistics
Matches: 95, Mismatches: 16, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 36 0.38
41 46 0.48
42 12 0.13
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (40 bp):
GAGATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGAG
Found at i:16333894 original size:81 final size:82
Alignment explanation
Indices: 16333778--16333933 Score: 226
Period size: 81 Copynumber: 1.9 Consensus size: 82
16333768 TATGAAATTC
* * *
16333778 GAGATAGCTTCGGCTATTTATGGCACTTAGTGTGC-GATTAGGAATAGCTTCGGCTGTA-TATGG
1 GAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGATTA-GAATAGCTTCGGCTGTACGATGG
*
16333841 CACTTAGTGTGCGAGACT
65 CAATTAGTGTGCGAGACT
* *
16333859 GAGATAGCTTCGGTTATGTAAGGCACTTAGTGTGCGAGATTATAATAGCTTCGGCTGTACGATGG
1 GAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGC-AGATTAGAATAGCTTCGGCTGTACGATGG
16333924 CAATTAGTGT
65 CAATTAGTGT
16333934 ACGAAACATT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 32 0.48
82 16 0.24
83 18 0.27
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (82 bp):
GAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGATTAGAATAGCTTCGGCTGTACGATGGC
AATTAGTGTGCGAGACT
Found at i:16334620 original size:24 final size:23
Alignment explanation
Indices: 16334593--16334896 Score: 112
Period size: 24 Copynumber: 13.2 Consensus size: 23
16334583 ATGTTGCTAT
16334593 TTTTATATGTTATAATGCTGTCCA
1 TTTTATATG-TATAATGCTGTCCA
* *
16334617 TTTTGAGCA-G-ATTGATGCTGTCCA
1 TTTT-A-TATGTA-TAATGCTGTCCA
* * *
16334641 ATTTGT-TGTATAATGTTGTCCA
1 TTTTATATGTATAATGCTGTCCA
* **
16334663 TTTTGAGTATAT-TGGTGCTGTCCA
1 TTTT-A-TATGTATAATGCTGTCCA
*
16334687 ATTTA-ATGTATAATGCTGTCCA
1 TTTTATATGTATAATGCTGTCCA
* * *
16334709 TTTTGAGA-ATATTGATGCTGTCCA
1 TTTT-ATATGTA-TAATGCTGTCCA
* * *
16334733 ATTT-GATGTATAAAGCTGTCCAA
1 TTTTATATGTATAATGCTGTCC-A
* * * *
16334756 TTTGAGCATAT-TAAAGCTGTCCA
1 TTTTA-TATGTATAATGCTGTCCA
* *
16334779 ATTT-GATGTATAATGCTGTCCA
1 TTTTATATGTATAATGCTGTCCA
* * *
16334801 TTTTGAGCATAT-TGATGCTGTCCA
1 TTTT-A-TATGTATAATGCTGTCCA
* *
16334825 ATTT-GATGTATAATGCTGTCCA
1 TTTTATATGTATAATGCTGTCCA
* * *
16334847 TTTTGAGCATAT-TGATGCTGTCCA
1 TTTT-A-TATGTATAATGCTGTCCA
* *
16334871 ATTT-GATGTATAATGCTGTCCA
1 TTTTATATGTATAATGCTGTCCA
16334893 TTTT
1 TTTT
16334897 GAGCATATTA
Statistics
Matches: 205, Mismatches: 50, Indels: 52
0.67 0.16 0.17
Matches are distributed among these distances:
21 12 0.06
22 80 0.39
23 14 0.07
24 85 0.41
25 13 0.06
26 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (23 bp):
TTTTATATGTATAATGCTGTCCA
Found at i:16334667 original size:22 final size:21
Alignment explanation
Indices: 16334635--16334897 Score: 103
Period size: 22 Copynumber: 11.5 Consensus size: 21
16334625 AGATTGATGC
16334635 TGTCCAATTTGTTGTATAATGT
1 TGTCCAATTTG-TGTATAATGT
* * *
16334657 TGTCCATTTTGAGTATATTGGT
1 TGTCCAATTTGTGTATAAT-GT
* *
16334679 GCTGTCCAATTTAATGTATAATGC
1 --TGTCCAATTT-GTGTATAATGT
* * * *
16334703 TGTCCATTTTGAGAATATTGATGC
1 TGTCCAATTTGTG--TA-TAATGT
* *
16334727 TGTCCAATTTGATGTATAAAGC
1 TGTCCAATTTG-TGTATAATGT
* * *
16334749 TGTCCAATTTGAGCATATTAAAGC
1 TGTCCAATTTGTG--TA-TAATGT
*
16334773 TGTCCAATTTGATGTATAATGC
1 TGTCCAATTTG-TGTATAATGT
* * * *
16334795 TGTCCATTTTGAGCATATTGATGC
1 TGTCCAATTTGTG--TA-TAATGT
*
16334819 TGTCCAATTTGATGTATAATGC
1 TGTCCAATTTG-TGTATAATGT
* * * *
16334841 TGTCCATTTTGAGCATATTGATGC
1 TGTCCAATTTGTG--TA-TAATGT
*
16334865 TGTCCAATTTGATGTATAATGC
1 TGTCCAATTTG-TGTATAATGT
*
16334887 TGTCCATTTTG
1 TGTCCAATTTG
16334898 AGCATATTAA
Statistics
Matches: 189, Mismatches: 32, Indels: 40
0.72 0.12 0.15
Matches are distributed among these distances:
21 10 0.05
22 81 0.43
23 16 0.08
24 72 0.38
25 10 0.05
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (21 bp):
TGTCCAATTTGTGTATAATGT
Found at i:16334682 original size:46 final size:46
Alignment explanation
Indices: 16334603--16334913 Score: 514
Period size: 46 Copynumber: 6.8 Consensus size: 46
16334593 TTTTATATGT
* *
16334603 TATAATGCTGTCCATTTTGAGCAGATTGATGCTGTCCAATTTGTTG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * * *
16334649 TATAATGTTGTCCATTTTGAGTATATTGGTGCTGTCCAATTTAATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
*
16334695 TATAATGCTGTCCATTTTGAGAATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * * *
16334741 TATAAAGCTGTCCAATTTGAGCATATTAAAGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
16334787 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
16334833 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
*
16334879 TATAATGCTGTCCATTTTGAGCATATTAATGCTGT
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGT
16334914 TCAAAACAGG
Statistics
Matches: 245, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 245 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (46 bp):
TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
Found at i:16352143 original size:21 final size:20
Alignment explanation
Indices: 16352130--16352185 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
16352120 CAGATGCGGT
**
16352130 AGCGAGAGAAGCAGCAGCTAC
1 AGCGAGAGAAGCAG-AGCCGC
*
16352151 AGTGAGAGAAGCAGAGGCCGC
1 AGCGAGAGAAGCAGA-GCCGC
16352172 AGCGAGAGAAGCAG
1 AGCGAGAGAAGCAG
16352186 CGAGAGAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.38, C:0.20, G:0.39, T:0.04
Consensus pattern (20 bp):
AGCGAGAGAAGCAGAGCCGC
Found at i:16352187 original size:12 final size:12
Alignment explanation
Indices: 16352170--16352209 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
16352160 AGCAGAGGCC
16352170 GCAGCGAGAGAA
1 GCAGCGAGAGAA
16352182 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
16352194 GCAGCGATAGAA
1 GCAGCGAGAGAA
16352206 GCAG
1 GCAG
16352210 AGGCTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.40, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:16352880 original size:42 final size:42
Alignment explanation
Indices: 16352628--16352936 Score: 265
Period size: 42 Copynumber: 7.4 Consensus size: 42
16352618 CATTTGTGAA
* **
16352628 ATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGA
1 ATAAGCGCCACTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTT
* * * * * * * *
16352670 ACAAGCACCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCCTC
1 ATAAGCGCCACTAAAGAACATGATC-TTTAGCGGCGTTTT-TTT
* * * *
16352713 AAAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTATTT
1 ATAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTT
* * ** * *
16352755 CTAAGCGCCGCTAAAGATTATGTTCTTTAGCGGCGTTTATTT
1 ATAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTT
* *
16352797 GTAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTATTTTT
1 ATAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTT
*
16352839 ATAACCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTT
1 ATAAGCGCCACTAAAGAACATGATCTTTAGCGGCG-TTTTTTT
*
16352882 CTAAGCG-C-CT---GAACATGATCTTTAGCGGCGTTTTTTT
1 ATAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTT
*
16352919 ATGTAAGCGCCACAAAAG
1 A--TAAGCGCCACTAAAG
16352937 TTAGCGACGT
Statistics
Matches: 220, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
37 7 0.03
38 20 0.09
39 6 0.03
40 1 0.00
41 4 0.02
42 139 0.63
43 42 0.19
44 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
ATAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTT
Found at i:16353039 original size:22 final size:22
Alignment explanation
Indices: 16353008--16353050 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16352998 TAGTGGCGTT
* *
16353008 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
16353030 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
16353051 GTTCTGCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:16353307 original size:2 final size:2
Alignment explanation
Indices: 16353300--16353328 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16353290 AGCTAGTCGA
16353300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16353329 AGCATATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16362187 original size:70 final size:70
Alignment explanation
Indices: 16362044--16362484 Score: 467
Period size: 70 Copynumber: 6.3 Consensus size: 70
16362034 AACTCTAGGC
* * * * *
16362044 AGTTAGCAAGAGTTAAAAGCTCCCAGCTGTCA-TTTAAGGCTTGTAGGTTTAATATCACAGCCCC
1 AGTTAGCAAGAGTTAAAAGCTCTCAGCTGTCATTTTAAGGCTCGCAGGTTTAATACCGCAGCCCC
16362108 CAAAT
66 CAAAT
* * * * * ** *
16362113 AGTTAGCGAGAGTTAAAAGCTCTTCA-CTGTTATTTTAAAGCTCGCAGGTTTAGTACCACAATCT
1 AGTTAGCAAGAGTTAAAAGCTC-TCAGCTGTCATTTTAAGGCTCGCAGGTTTAATACCGCAGCCC
*
16362177 CTAAAT
65 CCAAAT
* * * * * *
16362183 AGTTAGTAAGAGTTAAAAGCTCTCAGCTATCTTTTTAAGACTCGCAGGTATAATAACGCAGCCCC
1 AGTTAGCAAGAGTTAAAAGCTCTCAGCTGTCATTTTAAGGCTCGCAGGTTTAATACCGCAGCCCC
*
16362248 CAAAC
66 CAAAT
* * * ** *
16362253 AGTTAACAAAATTTAAAAGCT-TCCAATTGTCATTTTAAGGCTCGCAGGTTTAACACCGCAG-CC
1 AGTTAGCAAGAGTTAAAAGCTCT-CAGCTGTCATTTTAAGGCTCGCAGGTTTAATACCGCAGCCC
16362316 CCAAAT
65 CCAAAT
* * * * * *
16362322 AGTCAGCAAGAGTTAAAAACTCTCAGCTGTCATTTTAAGGCTTGCAGATTTAATACCACAGCCTC
1 AGTTAGCAAGAGTTAAAAGCTCTCAGCTGTCATTTTAAGGCTCGCAGGTTTAATACCGCAGCCCC
16362387 CAAAT
66 CAAAT
* * * *
16362392 AGTTAACGAGAGTTAAAAAGCTCTCAGCTATCATTTTAAGGCTCACAGGTTTAATACCGCAGCCC
1 AGTTAGCAAGAGTT-AAAAGCTCTCAGCTGTCATTTTAAGGCTCGCAGGTTTAATACCGCAGCCC
* *
16362457 CCACAC
65 CCAAAT
*
16362463 AGTTAGCGAGAGTTAAAAGCTC
1 AGTTAGCAAGAGTTAAAAGCTC
16362485 CCGACTATAA
Statistics
Matches: 299, Mismatches: 66, Indels: 13
0.79 0.17 0.03
Matches are distributed among these distances:
69 85 0.28
70 154 0.52
71 60 0.20
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (70 bp):
AGTTAGCAAGAGTTAAAAGCTCTCAGCTGTCATTTTAAGGCTCGCAGGTTTAATACCGCAGCCCC
CAAAT
Found at i:16363699 original size:14 final size:14
Alignment explanation
Indices: 16363680--16363708 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16363670 AAGTGGTCCA
16363680 ATTGAACTGAACCG
1 ATTGAACTGAACCG
16363694 ATTGAACTGAACCG
1 ATTGAACTGAACCG
16363708 A
1 A
16363709 CCAAGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
ATTGAACTGAACCG
Found at i:16368882 original size:25 final size:25
Alignment explanation
Indices: 16368865--16368959 Score: 156
Period size: 25 Copynumber: 3.8 Consensus size: 25
16368855 CAGCTCTTAT
*
16368865 GAGCTTACCATTATTCAGCTCAGAG
1 GAGCTTACCGTTATTCAGCTCAGAG
16368890 GAGCTTACCGTTATTCAGCTCAGAG
1 GAGCTTACCGTTATTCAGCTCAGAG
16368915 GAGCTTACCGTTATTCAGCTCAGAG
1 GAGCTTACCGTTATTCAGCTCAGAG
* *
16368940 GAGCTTATCGTT-TACAGCTC
1 GAGCTTACCGTTATTCAGCTC
16368960 GTATGAGCAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
24 7 0.10
25 60 0.90
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTCAGAG
Found at i:16376425 original size:49 final size:45
Alignment explanation
Indices: 16376316--16376426 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 45
16376306 TCCATAAAGA
* *
16376316 ACTACACTTCTTTTATTTTATTTTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTCTATTTTATTTTAGAATAAGGTGTTTCAACCTT
* ** *
16376361 ATTATGCTTCATCTATTTGATATTGATTAGAATAAGGTGTTTCAACCTT
1 ACTACACTTCTTCTATTT--TATT--TTAGAATAAGGTGTTTCAACCTT
16376410 ACTACACTTCTTCTATT
1 ACTACACTTCTTCTATT
16376427 AGAATATGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
45 13 0.25
47 4 0.08
49 35 0.67
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (45 bp):
ACTACACTTCTTCTATTTTATTTTAGAATAAGGTGTTTCAACCTT
Found at i:16376437 original size:49 final size:49
Alignment explanation
Indices: 16376338--16376437 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 49
16376328 TTATTTTATT
* * ** *
16376338 TTAGAATAAGGTTTTTCAACCTTATTATGCTTCATCTATTTGATATTGA
1 TTAGAATAAGGTGTTTCAACCTTACTACACTTCATCTATTAGATATTGA
*
16376387 TTAGAATAAGGTGTTTCAACCTTACTACACTTCTTCTATTAGA-ATATGA
1 TTAGAATAAGGTGTTTCAACCTTACTACACTTCATCTATTAGATAT-TGA
16376436 TT
1 TT
16376438 TTACAAGCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
48 2 0.05
49 42 0.95
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (49 bp):
TTAGAATAAGGTGTTTCAACCTTACTACACTTCATCTATTAGATATTGA
Found at i:16377360 original size:42 final size:42
Alignment explanation
Indices: 16377292--16377373 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
16377282 AAGATCGCAA
* *
16377292 TGCTGATGATGATTATAGAAGGACACAAGAACAAAATCCTTG
1 TGCTGATGATGATCATAGAAGAACACAAGAACAAAATCCTTG
* * * *
16377334 TGCTGATGATGATCGTGGAAGAACACAGGAACGAAATCCT
1 TGCTGATGATGATCATAGAAGAACACAAGAACAAAATCCT
16377374 CACGGTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (42 bp):
TGCTGATGATGATCATAGAAGAACACAAGAACAAAATCCTTG
Found at i:16382374 original size:11 final size:11
Alignment explanation
Indices: 16382351--16382408 Score: 66
Period size: 11 Copynumber: 5.2 Consensus size: 11
16382341 AACAAATCCT
16382351 CTCTCATATTTC
1 CTCTCA-ATTTC
16382363 CTCTCAATTTC
1 CTCTCAATTTC
16382374 CTCTCAATTTC
1 CTCTCAATTTC
*
16382385 CATC-CAAAATT-
1 C-TCTC-AATTTC
16382396 CTCTCAATTTC
1 CTCTCAATTTC
16382407 CT
1 CT
16382409 TCCAAAATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 6 0.15
11 22 0.55
12 12 0.30
ACGTcount: A:0.22, C:0.34, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Done.