Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 58 of 318
Found at i:16574631 original size:28 final size:27
Alignment explanation
Indices: 16574568--16574637 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
16574558 ATAGTGAGTC
16574568 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
16574595 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
16574623 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16574638 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:16590840 original size:6 final size:6
Alignment explanation
Indices: 16590821--16590946 Score: 105
Period size: 6 Copynumber: 20.5 Consensus size: 6
16590811 TCAGAACTAA
* * * * *
16590821 AATCAA AATGAG AATCAG AATCAG AATTAG AATCAG -GTGACAG AATCAA
1 AATCAG AATCAG AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG
* *
16590870 AATCAA AATCAG AATCAG AATCAG AATTAGG TAA-CAG AATCAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AATCA-G -AATCAG AATCAG AATCAG
*
16590919 TATCAGG TAA-CAG AATCAG AATCAG AAT
1 AATCA-G -AATCAG AATCAG AATCAG AAT
16590947 GTGACAACCC
Statistics
Matches: 98, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
5 5 0.05
6 81 0.83
7 8 0.08
8 4 0.04
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (6 bp):
AATCAG
Found at i:16590880 original size:43 final size:43
Alignment explanation
Indices: 16590821--16590943 Score: 158
Period size: 43 Copynumber: 2.8 Consensus size: 43
16590811 TCAGAACTAA
* * *
16590821 AATCAAAATGAGAATCAGAATCAGAATTAGAATCAGGTGACAG
1 AATCAAAATCAGAATCAGAATCAGAATCAGAATCAGGTAACAG
* *
16590864 AATCAAAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAG
1 AATCAAAATCAGAATCAGAATCAGAATCAGAATCAGGTAACAG
* *
16590907 AATCAGAATCAGTATCAGGTAA-CAGAATCAGAATCAG
1 AATCAAAATCAGAATCA-G-AATCAGAATCAGAATCAG
16590944 AATGTGACAA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 52 0.75
44 15 0.22
45 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.19
Consensus pattern (43 bp):
AATCAAAATCAGAATCAGAATCAGAATCAGAATCAGGTAACAG
Found at i:16590911 original size:25 final size:25
Alignment explanation
Indices: 16590879--16590946 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
16590869 AAATCAAAAT
*
16590879 CAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
16590904 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
16590929 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
16590947 GTGACAACCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:16593672 original size:6 final size:6
Alignment explanation
Indices: 16593645--16593724 Score: 56
Period size: 6 Copynumber: 13.0 Consensus size: 6
16593635 GGGTGTTACA
* * * *
16593645 CAGAAC CAGAAT CAAAAC CAGAAT CAGAAT TAGGTAA- CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
* *
16593694 CAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAT
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
16593725 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
5 4 0.07
6 45 0.79
7 5 0.09
8 3 0.05
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.16
Consensus pattern (6 bp):
CAGAAT
Found at i:16593689 original size:31 final size:30
Alignment explanation
Indices: 16593651--16593724 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 30
16593641 TACACAGAAC
*
16593651 CAGAATCAAAACCAGAATCAGAATTAGGTAA
1 CAGAATCAAAA-CAGAATCAGAATCAGGTAA
*
16593682 CAGAAT-----CAGAATCAGTATCAGGTAA
1 CAGAATCAAAACAGAATCAGAATCAGGTAA
16593707 CAGAATCAAAATCAGAAT
1 CAGAATCAAAA-CAGAAT
16593725 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
25 23 0.66
31 12 0.34
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (30 bp):
CAGAATCAAAACAGAATCAGAATCAGGTAA
Found at i:16593692 original size:25 final size:25
Alignment explanation
Indices: 16593663--16593724 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
16593653 GAATCAAAAC
*
16593663 CAGAATCAGAATTAGGTAACAGAAT
1 CAGAATCAGAATCAGGTAACAGAAT
*
16593688 CAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGGTAACAGAAT
*
16593713 CAAAATCAGAAT
1 CAGAATCAGAAT
16593725 GTGAATGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGGTAACAGAAT
Found at i:16593906 original size:2 final size:2
Alignment explanation
Indices: 16593899--16593926 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16593889 ACCAGAACAG
16593899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16593927 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16594425 original size:27 final size:27
Alignment explanation
Indices: 16594267--16594424 Score: 178
Period size: 27 Copynumber: 5.9 Consensus size: 27
16594257 TAAAATGATA
*
16594267 ATTT-TACCCCACAAGGGTATCTT-AGT
1 ATTTCTACCCTACAAGGGTAT-TTCAGT
* * *
16594293 AATTCTACCTTACAAGAGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* * *
16594320 AATTCTACCCTACAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* *
16594347 -TATTCTACCCTACAGGGGTATTTCGGT
1 AT-TTCTACCCTACAAGGGTATTTCAGT
* *
16594374 ATTTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
16594401 ATTTCTACCCTACAAGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
16594425 GATAATTTTG
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.04
27 110 0.95
28 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCAGT
Found at i:16594481 original size:27 final size:27
Alignment explanation
Indices: 16594451--16594703 Score: 220
Period size: 27 Copynumber: 9.3 Consensus size: 27
16594441 GAGGGTAAAA
* * *
16594451 TGGTAATTCTATAAATCAAGGGTACTT
1 TGGTAATTTTACAAATCAAGGGTATTT
* *
16594478 TGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAAATCAAGGGTATTT
*** * ** *
16594505 CAATAATTTTAGAGGTCGAGGGTATTT
1 TGGTAATTTTACAAATCAAGGGTATTT
** * *
16594532 CAGTAATTTCACAAATCAGGGGTATTT
1 TGGTAATTTTACAAATCAAGGGTATTT
* *
16594559 TGGTAATTTTACAAACCATGGGTATTT
1 TGGTAATTTTACAAATCAAGGGTATTT
* * *
16594586 TGATAAATTTTACAAACCAGGGGTATTT
1 TGGT-AATTTTACAAATCAAGGGTATTT
*
16594614 TGGTAATTTTAC-AATCTAGGGGTATTT
1 TGGTAATTTTACAAATC-AAGGGTATTT
* *
16594641 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAAATCAAGGGTATTT
* * * * *
16594668 TAGTAATTCTAAAAACCAGGGGTATTT
1 TGGTAATTTTACAAATCAAGGGTATTT
16594695 TGGTAATTT
1 TGGTAATTT
16594704 GGTAAACTAA
Statistics
Matches: 188, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.02
27 157 0.84
28 28 0.15
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
TGGTAATTTTACAAATCAAGGGTATTT
Found at i:16602667 original size:22 final size:21
Alignment explanation
Indices: 16602614--16602667 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
16602604 TGGCTTATAG
**
16602614 CATGGGCGTGTCCTAGGGTCA
1 CATGGGCGTGTCCTAGGACCA
* * *
16602635 CACGGGAGTGTCCCTTGGACCA
1 CATGGGCGTGT-CCTAGGACCA
16602657 CATGGGCGTGT
1 CATGGGCGTGT
16602668 GAGCCCTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (21 bp):
CATGGGCGTGTCCTAGGACCA
Found at i:16603183 original size:13 final size:13
Alignment explanation
Indices: 16603160--16603192 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
16603150 AATGTTTTAC
16603160 AATGA-ACATGTT
1 AATGATACATGTT
16603172 AATGATACATGTT
1 AATGATACATGTT
16603185 AAGTGATA
1 AA-TGATA
16603193 TGTGTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 9 0.47
14 5 0.26
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (13 bp):
AATGATACATGTT
Found at i:16609193 original size:80 final size:79
Alignment explanation
Indices: 16609047--16609195 Score: 185
Period size: 80 Copynumber: 1.8 Consensus size: 79
16609037 GATATTCGGG
* * * *
16609047 CTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAATTGGGCTTATGCCTAGCAGGCTTATTGCC
1 CTTTGAGCCTAGCAAGCCTTGTGCCGGT--ATTAAATTAGGCTTACGCATAGCAGGCTTATTGCC
16609112 GGTGTATAAAATCAAA
64 GGTGTATAAAATCAAA
* *
16609128 CTTTGAGTCTAGCAGGCCTTGTGCCGGT-TTGAAATTCAGGCTTACGCATAGCAGGCTT-TATGC
1 CTTTGAGCCTAGCAAGCCTTGTGCCGGTATT-AAATT-AGGCTTACGCATAGCAGGCTTAT-TGC
16609191 CGGTG
63 CGGTG
16609196 AATTATTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
78 2 0.03
79 6 0.10
80 26 0.44
81 25 0.42
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (79 bp):
CTTTGAGCCTAGCAAGCCTTGTGCCGGTATTAAATTAGGCTTACGCATAGCAGGCTTATTGCCGG
TGTATAAAATCAAA
Found at i:16618106 original size:28 final size:28
Alignment explanation
Indices: 16618069--16618158 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
16618059 AAGTCTACAT
*
16618069 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACT-GGCCCAAATC
* *
16618097 TCATTCATATGGCCCATTGGCCCAAATC
1 ACATTCATATGGCCCACTGGCCCAAATC
* *
16618125 ACATTCATATAGCCCATCTGGCCCGAATC
1 ACATTCATATGGCCCA-CTGGCCCAAATC
16618154 A-ATTC
1 ACATTC
16618159 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 5 0.09
28 37 0.70
29 11 0.21
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCACTGGCCCAAATC
Found at i:16624121 original size:143 final size:143
Alignment explanation
Indices: 16623913--16624209 Score: 585
Period size: 143 Copynumber: 2.1 Consensus size: 143
16623903 TGAGTTAAAT
*
16623913 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
16623978 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
16624043 GTGTGCATGAGTA
131 GTGTGCATGAGTA
16624056 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
16624121 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
16624186 GTGTGCATGAGTA
131 GTGTGCATGAGTA
16624199 TTCGGCCATGC
1 TTCGGCCATGC
16624210 TATAGAATTT
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 153 1.00
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.39
Consensus pattern (143 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGTGCATGAGTA
Found at i:16625044 original size:29 final size:29
Alignment explanation
Indices: 16624852--16625040 Score: 272
Period size: 29 Copynumber: 6.6 Consensus size: 29
16624842 GTGACGAGAT
16624852 TGGCACT-AGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
16624880 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
16624909 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
16624938 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
16624967 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
16624996 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
16625025 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
16625041 AGCTCGAAGG
Statistics
Matches: 148, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 7 0.05
29 141 0.95
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:16632127 original size:143 final size:143
Alignment explanation
Indices: 16631919--16632215 Score: 576
Period size: 143 Copynumber: 2.1 Consensus size: 143
16631909 TGAGTTAAAT
* *
16631919 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTATTTTGATGTTGTTGTGATGAAAGCATGGAGAT
16631984 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
16632049 GTGTGCATGAGTA
131 GTGTGCATGAGTA
16632062 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTATTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTATTTTGATGTTGTTGTGATGAAAGCATGGAGAT
16632127 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
16632192 GTGTGCATGAGTA
131 GTGTGCATGAGTA
16632205 TTCGGCCATGC
1 TTCGGCCATGC
16632216 TATAGAATTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 152 1.00
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (143 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTATTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGTGCATGAGTA
Found at i:16632909 original size:29 final size:29
Alignment explanation
Indices: 16632867--16633032 Score: 237
Period size: 29 Copynumber: 5.8 Consensus size: 29
16632857 TTGGCACTAA
16632867 GCGTGCTGGAAATATATGGCACTAAGTGT
1 GCGTGCTGGAAATATATGGCACTAAGTGT
16632896 GCGTGCTGGAAATATATGGCACTAAGTGT
1 GCGTGCTGGAAATATATGGCACTAAGTGT
16632925 GCGTGCTGGAAATATA-GGCA-TAAGTGT
1 GCGTGCTGGAAATATATGGCACTAAGTGT
*
16632952 GCGTGCTGGAAATATAAGGCACTAAGTGT
1 GCGTGCTGGAAATATATGGCACTAAGTGT
* * * *
16632981 GCATGCTGGAAAAATATGACACTATGTGT
1 GCGTGCTGGAAATATATGGCACTAAGTGT
** * *
16633010 GCAAGCTGGAAAAATACGGCACT
1 GCGTGCTGGAAATATATGGCACT
16633033 GGGTGTGCAG
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 23 0.18
28 8 0.06
29 96 0.76
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (29 bp):
GCGTGCTGGAAATATATGGCACTAAGTGT
Found at i:16632960 original size:56 final size:58
Alignment explanation
Indices: 16632867--16633032 Score: 237
Period size: 56 Copynumber: 2.9 Consensus size: 58
16632857 TTGGCACTAA
*
16632867 GCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGT
1 GCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAAGGCACTAAGTGT
16632925 GCGTGCTGGAAATATA-GGCA-TAAGTGTGCGTGCTGGAAATATAAGGCACTAAGTGT
1 GCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAAGGCACTAAGTGT
* * * * ** * *
16632981 GCATGCTGGAAAAATATGACACTATGTGTGCAAGCTGGAAAAATACGGCACT
1 GCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAAGGCACT
16633033 GGGTGTGCAG
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
56 49 0.51
57 7 0.07
58 41 0.42
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (58 bp):
GCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAAGGCACTAAGTGT
Found at i:16633010 original size:85 final size:86
Alignment explanation
Indices: 16632867--16633030 Score: 249
Period size: 85 Copynumber: 1.9 Consensus size: 86
16632857 TTGGCACTAA
* * * * **
16632867 GCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCT
1 GCGTGCTGGAAATATAAGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCT
*
16632932 GGAAATATA-GGCATAAGTGT
66 GGAAAAATACGGCATAAGTGT
*
16632952 GCGTGCTGGAAATATAAGGCACTAAGTGTGCATGCTGGAAAAATATGACACTATGTGTGCAAGCT
1 GCGTGCTGGAAATATAAGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCT
16633017 GGAAAAATACGGCA
66 GGAAAAATACGGCA
16633031 CTGGGTGTGC
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 66 0.94
86 4 0.06
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (86 bp):
GCGTGCTGGAAATATAAGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCT
GGAAAAATACGGCATAAGTGT
Found at i:16646423 original size:43 final size:43
Alignment explanation
Indices: 16646355--16646513 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
16646345 AAATCTCGTA
*
16646355 CAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
*
16646398 CAATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATAT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATAT
* * * * *
16646441 -GATGCCAACATCCCAGACCTGGTCTTACACGTAAATCATAA-GT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATAT
* *
16646484 CGATGCCAATGTCCCAGACGTGGTCTTACA
1 CAATGCCAACGTCCCAGACGTGGTCTTACA
16646514 CGATAACACA
Statistics
Matches: 98, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
42 25 0.26
43 44 0.45
44 29 0.30
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
Found at i:16646509 original size:86 final size:85
Alignment explanation
Indices: 16646357--16646513 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 85
16646347 ATCTCGTACA
* * * * *
16646357 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
1 ATGCCAACATCCCAGACCTGGTCTTACACGTAATCAAATATCAATGCCAATGTCCCAGACAGGGT
16646422 CTTACATGAAATCAAATATG
66 CTTACATGAAATCAAATATG
* *
16646442 ATGCCAACATCCCAGACCTGGTCTTACACGTAAATCATAA-GTCGATGCCAATGTCCCAGAC-GT
1 ATGCCAACATCCCAGACCTGGTCTTACACGT-AATCA-AATATCAATGCCAATGTCCCAGACAG-
16646505 GGTCTTACA
63 GGTCTTACA
16646514 CGATAACACA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 28 0.45
86 32 0.52
87 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAACATCCCAGACCTGGTCTTACACGTAATCAAATATCAATGCCAATGTCCCAGACAGGGT
CTTACATGAAATCAAATATG
Found at i:16657044 original size:40 final size:39
Alignment explanation
Indices: 16656879--16657062 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
16656869 AAATTGAATG
* * *
16656879 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
16656919 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
16656959 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
16656999 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
16657038 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
16657063 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:16657087 original size:80 final size:81
Alignment explanation
Indices: 16656919--16657107 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
16656909 GCTGGAAATT
* * * *
16656919 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
16656984 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
16657000 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
16657063 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
16657079 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
16657108 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:16665156 original size:40 final size:39
Alignment explanation
Indices: 16664991--16665174 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
16664981 AAATTGAATG
* * *
16664991 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
16665031 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
16665071 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
16665111 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
16665150 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
16665175 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:16665157 original size:80 final size:80
Alignment explanation
Indices: 16665035--16665183 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
16665025 GAAATTATAA
* * * *
16665035 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
16665100 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
16665115 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
16665179 GTGCG
65 GTGCG
16665184 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:16665199 original size:80 final size:81
Alignment explanation
Indices: 16665031--16665202 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
16665021 GCTGGAAATT
* * * *
16665031 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
16665096 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
16665112 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
16665175 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
16665191 ATAACCGGGCTA
1 ATAACCGGGCTA
16665203 TGTCCGAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:16671382 original size:66 final size:68
Alignment explanation
Indices: 16671306--16671492 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
16671296 TAGTACCACT
*
16671306 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
16671368 CACG
65 CACG
16671372 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
16671437 ATCACG
63 ATCACG
16671443 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
16671493 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:16671417 original size:71 final size:71
Alignment explanation
Indices: 16671329--16671492 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
16671319 CGATTTGTCT
16671329 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
16671394 CTTTCA
66 CTTTCA
16671400 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
16671465 CTTTCA
66 CTTTCA
16671471 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
16671493 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:16671530 original size:71 final size:70
Alignment explanation
Indices: 16671329--16671526 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
16671319 CGATTTGTCT
* * *
16671329 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
16671394 CTTTCA
65 CTTTCA
* * *
16671400 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
16671465 CTTTCA
65 CTTTCA
* *
16671471 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
16671527 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:16673396 original size:15 final size:15
Alignment explanation
Indices: 16673376--16673444 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
16673366 GTATCTTGGG
16673376 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
16673391 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
16673406 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
16673421 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
16673436 TTTCTTTAT
1 TTTCTTTAT
16673445 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:16673445 original size:30 final size:30
Alignment explanation
Indices: 16673367--16673454 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
16673357 CATAGTATCG
* * * *
16673367 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
16673397 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
16673427 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
16673455 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:16675893 original size:46 final size:46
Alignment explanation
Indices: 16675840--16676108 Score: 298
Period size: 46 Copynumber: 5.8 Consensus size: 46
16675830 TATTTGGGCA
16675840 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
16675886 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
16675932 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * * * * *
16675979 TTCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
16676026 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
16676072 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16676109 GCGGGTTACA
Statistics
Matches: 199, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
43 4 0.02
45 2 0.01
46 112 0.56
47 75 0.38
48 2 0.01
50 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:16676000 original size:47 final size:47
Alignment explanation
Indices: 16675936--16676054 Score: 211
Period size: 47 Copynumber: 2.5 Consensus size: 47
16675926 CGAGCGTCCG
* *
16675936 AACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCATTCA
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCA
*
16675983 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCA
16676030 AACTCGTTGAGTTGAGTCCGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTC
16676055 ACTTATGGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCA
Found at i:16681568 original size:45 final size:45
Alignment explanation
Indices: 16681467--16681593 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 45
16681457 TTTTCTCAAA
* *
16681467 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
*
16681509 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * * *
16681553 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCTGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
16681594 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 10 0.14
43 14 0.20
44 8 0.11
45 38 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:16681970 original size:43 final size:43
Alignment explanation
Indices: 16681909--16682033 Score: 223
Period size: 43 Copynumber: 2.9 Consensus size: 43
16681899 ACATATCATG
* *
16681909 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
16681952 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
16681995 TCACCGGCACTAAGCCTACTAGGCACGAAGGCCCGAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
16682034 TAATACCAGC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:16682111 original size:38 final size:38
Alignment explanation
Indices: 16682030--16682111 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
16682020 CGAAGGCCCG
* * * * * *
16682030 AATATAATACCAGCACTAGGCCTACGGGATTTATCTCG
1 AATACAATACCAGCACGAAGCCTACGGGATTTAACCCA
* *
16682068 GATACAATACCAGCACGAAGCCTGCGGGATTTAACCCA
1 AATACAATACCAGCACGAAGCCTACGGGATTTAACCCA
16682106 AATACA
1 AATACA
16682112 CATCAAATAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (38 bp):
AATACAATACCAGCACGAAGCCTACGGGATTTAACCCA
Found at i:16685917 original size:43 final size:43
Alignment explanation
Indices: 16685852--16685975 Score: 123
Period size: 44 Copynumber: 2.9 Consensus size: 43
16685842 TTTTCTCAAA
* *
16685852 TCACC-GCATT-TCGCCTGTTAGGCTCGAGGCCCGATATCAG-T-
1 TCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGA-AT-AGATC
16685893 TCACCGGCATTATAGCCTGCTAGGCTCGAAGG-CCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCG-AGGCCCGAATAG-ATC
** * *
16685937 TCACCGGCATTATAGTTTGCTAAGCTCAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGAATA
16685976 ATCAAGTCAA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
41 7 0.10
42 7 0.10
43 22 0.31
44 34 0.49
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGAATAGATC
Found at i:16686402 original size:43 final size:42
Alignment explanation
Indices: 16686289--16686449 Score: 250
Period size: 43 Copynumber: 3.8 Consensus size: 42
16686279 TAACATCATT
* *
16686289 TCACGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
16686331 TCACCGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
16686373 TCACTGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCAC-GGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
16686416 TCACCGGCACTAAGCCTGCTAGGCACAAAGGCCC
1 TCA-CGGCACTAAGCCTGCTAGGCACGAAGGCCC
16686450 AAAAATAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
42 42 0.39
43 65 0.60
44 1 0.01
ACGTcount: A:0.29, C:0.34, G:0.24, T:0.13
Consensus pattern (42 bp):
TCACGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:16704967 original size:16 final size:15
Alignment explanation
Indices: 16704931--16704968 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
16704921 CAAACTTTTG
16704931 GCTTTTCAGCATTTC
1 GCTTTTCAGCATTTC
16704946 GACTTTTCAGCATTTC
1 G-CTTTTCAGCATTTC
16704962 AGCTTTT
1 -GCTTTT
16704969 GCCGATCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.16, C:0.24, G:0.13, T:0.47
Consensus pattern (15 bp):
GCTTTTCAGCATTTC
Found at i:16712377 original size:28 final size:28
Alignment explanation
Indices: 16712327--16712441 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
16712317 TTCACATACT
* * * * *
16712327 TGTATCTGGACCATTAAGCCCAATTATA
1 TGTATATGGCCCATTAGGCCCAATCACA
*
16712355 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCC-AATCACA
16712384 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCC-AATCACA
* *** *
16712413 TTTATATGGCATGTTAGGCCCAGTCACA
1 TGTATATGGCCCATTAGGCCCAATCACA
16712441 T
1 T
16712442 TCATATTCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.01
28 23 0.32
29 47 0.65
30 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (28 bp):
TGTATATGGCCCATTAGGCCCAATCACA
Found at i:16712398 original size:29 final size:29
Alignment explanation
Indices: 16712358--16712422 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
16712348 AATTATATTC
*
16712358 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
16712387 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
16712416 ATATGGC
1 ATATGGC
16712423 ATGTTAGGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:16712429 original size:29 final size:29
Alignment explanation
Indices: 16712358--16712447 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
16712348 AATTATATTC
* * *
16712358 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCACATTAGGCCCAAATCACATTT
*
16712387 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCACATTAGGCCCAAATCACATTT
** * *
16712416 ATATGGCATGTTAGGCCC-AGTCACATTC
1 ATATGGCACATTAGGCCCAAATCACATTT
16712444 ATAT
1 ATAT
16712448 TCATGCTCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 12 0.22
29 42 0.78
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (29 bp):
ATATGGCACATTAGGCCCAAATCACATTT
Found at i:16713992 original size:40 final size:40
Alignment explanation
Indices: 16713947--16714114 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16713937 CGGAATATAA
16713947 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
16713987 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
16714027 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
16714067 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16714107 CCGGATAT
1 CCGGATAT
16714115 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16721456 original size:40 final size:40
Alignment explanation
Indices: 16721411--16721577 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16721401 CGGAATATAA
16721411 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
16721451 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
16721491 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16721531 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16721570 CCGGATAT
1 CCGGATAT
16721578 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16728923 original size:40 final size:40
Alignment explanation
Indices: 16728878--16729044 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16728868 CGGAATATAA
16728878 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
16728918 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
16728958 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16728998 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16729037 CCGGATAT
1 CCGGATAT
16729045 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16731047 original size:26 final size:26
Alignment explanation
Indices: 16731011--16731063 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
16731001 CCTTCATCAC
16731011 ATACTCCCCAGATCTGCATTAATCTT
1 ATACTCCCCAGATCTGCATTAATCTT
16731037 ATACTCCCCAGATCTGCATTAATCTT
1 ATACTCCCCAGATCTGCATTAATCTT
16731063 A
1 A
16731064 CTCATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (26 bp):
ATACTCCCCAGATCTGCATTAATCTT
Found at i:16732517 original size:19 final size:21
Alignment explanation
Indices: 16732493--16732532 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
16732483 CTTGAATAAA
16732493 GGATGA-TATGC-ATGATTTT
1 GGATGACTATGCAATGATTTT
16732512 GGATGACGTATGCAATGATTT
1 GGATGAC-TATGCAATGATTT
16732533 ATGAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (21 bp):
GGATGACTATGCAATGATTTT
Found at i:16732764 original size:41 final size:41
Alignment explanation
Indices: 16732705--16732917 Score: 207
Period size: 41 Copynumber: 5.2 Consensus size: 41
16732695 ATAATATTGT
*
16732705 TGAATTGCACTTACGTGCCCTTAATTCTACTTCGGTACCCC
1 TGAATTGCACTTACGTGCCCTTAATTGTACTTCGGTACCCC
* * * * *
16732746 TGAATTGCA-TATATGTG-CCTTGATTGTATTTCAGTACCTC
1 TGAATTGCACT-TACGTGCCCTTAATTGTACTTCGGTACCCC
* * * * **
16732786 TGAATTGTACTGACGTGCCCCTAGTTGTACTTAAGTACCCC
1 TGAATTGCACTTACGTGCCCTTAATTGTACTTCGGTACCCC
* * *
16732827 TGAATTACACTTACGTGCCCCTT-ATTGTACTTCGATACCTC
1 TGAATTGCACTTACGTG-CCCTTAATTGTACTTCGGTACCCC
* * * *
16732868 TAAATTGCACTTATGTGCCCCTAATTGTACTTTGGTACCCC
1 TGAATTGCACTTACGTGCCCTTAATTGTACTTCGGTACCCC
*
16732909 TCAATTGCA
1 TGAATTGCA
16732918 TGTGCGTGCC
Statistics
Matches: 135, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
40 35 0.26
41 96 0.71
42 4 0.03
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.36
Consensus pattern (41 bp):
TGAATTGCACTTACGTGCCCTTAATTGTACTTCGGTACCCC
Found at i:16732891 original size:21 final size:20
Alignment explanation
Indices: 16732820--16732917 Score: 54
Period size: 20 Copynumber: 4.8 Consensus size: 20
16732810 TTGTACTTAA
* **
16732820 GTACCCCTGAATTACACTTAC
1 GTACCCCT-AATTGCACTTTG
* * * *
16732841 GTGCCCCTTATTGTACTTCG
1 GTACCCCTAATTGCACTTTG
* *
16732861 ATACCTCTAAATTGCACTTAT-
1 GTACCCCT-AATTGCACTT-TG
* *
16732882 GTGCCCCTAATTGTACTTTG
1 GTACCCCTAATTGCACTTTG
16732902 GTACCCCTCAATTGCA
1 GTACCCCT-AATTGCA
16732918 TGTGCGTGCC
Statistics
Matches: 55, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
19 1 0.02
20 28 0.51
21 26 0.47
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (20 bp):
GTACCCCTAATTGCACTTTG
Found at i:16732899 original size:20 final size:20
Alignment explanation
Indices: 16732788--16732899 Score: 91
Period size: 20 Copynumber: 5.5 Consensus size: 20
16732778 AGTACCTCTG
*
16732788 AATTGTACTGACGTGCCCCT
1 AATTGTACTTACGTGCCCCT
* * *
16732808 AGTTGTACTTAAGTACCCCT
1 AATTGTACTTACGTGCCCCT
**
16732828 GAATTACACTTACGTGCCCCT
1 -AATTGTACTTACGTGCCCCT
* * *
16732849 TATTGTACTT-CGATACCTCT
1 AATTGTACTTACG-TGCCCCT
* *
16732869 AAATTGCACTTATGTGCCCCT
1 -AATTGTACTTACGTGCCCCT
16732890 AATTGTACTT
1 AATTGTACTT
16732900 TGGTACCCCT
Statistics
Matches: 68, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.03
20 37 0.54
21 28 0.41
22 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (20 bp):
AATTGTACTTACGTGCCCCT
Found at i:16732926 original size:82 final size:80
Alignment explanation
Indices: 16732707--16732947 Score: 245
Period size: 82 Copynumber: 3.0 Consensus size: 80
16732697 AATATTGTTG
* * * *
16732707 AATTGCACTTACGTGCCCTTAATTCTACTTCGGTACCCCTGAATTGCATATATGTG--CCTTGAT
1 AATTGCACTTACGTGCCCCTAATTGTACTTAGGTACCCCTGAATTGCAT-TACGTGCCCCTT-AT
* *
16732770 TGTATTTCAGTACCTCTG
64 TGTACTTCA-TACCTCTA
* * * * *
16732788 AATTGTACTGACGTGCCCCTAGTTGTACTTAAGTACCCCTGAATTACACTTACGTGCCCCTTATT
1 AATTGCACTTACGTGCCCCTAATTGTACTTAGGTACCCCTGAATTGCA-TTACGTGCCCCTTATT
16732853 GTACTTCGATACCTCTA
65 GTACTTC-ATACCTCTA
* * * *
16732870 AATTGCACTTATGTGCCCCTAATTGTACTTTGGTACCCCTCAATTGCATGTGCGTGCCCC-TATT
1 AATTGCACTTACGTGCCCCTAATTGTACTTAGGTACCCCTGAATTGCAT-TACGTGCCCCTTA-T
*
16732934 TGTACATCAATACC
64 TGTACTTC-ATACC
16732948 CTTGAATGTA
Statistics
Matches: 132, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
81 48 0.36
82 79 0.60
83 5 0.04
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (80 bp):
AATTGCACTTACGTGCCCCTAATTGTACTTAGGTACCCCTGAATTGCATTACGTGCCCCTTATTG
TACTTCATACCTCTA
Found at i:16732948 original size:41 final size:41
Alignment explanation
Indices: 16732707--16732948 Score: 154
Period size: 41 Copynumber: 5.9 Consensus size: 41
16732697 AATATTGTTG
* * * ** *
16732707 AATTGCACTTACGTGCCCTTAATTCTACTTCGGTACCCCTG
1 AATTGCACTTACGTGCCCCTATTTGTACTTCAATACCCCTA
* * * * * *
16732748 AATTGCA-TATATGTG-CCTTGA-TTGTATTTCAGTACCTCTG
1 AATTGCACT-TACGTGCCCCT-ATTTGTACTTCAATACCCCTA
* * * *
16732788 AATTGTACTGACGTGCCCCTAGTTGTACTT-AAGTACCCCTG
1 AATTGCACTTACGTGCCCCTATTTGTACTTCAA-TACCCCTA
* * *
16732829 AATTACACTTACGTGCCCCT-TATTGTACTTCGATACCTCTA
1 AATTGCACTTACGTGCCCCTAT-TTGTACTTCAATACCCCTA
* * *** *
16732870 AATTGCACTTATGTGCCCCTAATTGTACTTTGGTACCCCTC
1 AATTGCACTTACGTGCCCCTATTTGTACTTCAATACCCCTA
* *
16732911 AATTGCA-TGTGCGTGCCCCTATTTGTACATCAATACCC
1 AATTGCACT-TACGTGCCCCTATTTGTACTTCAATACCC
16732949 TTGAATGTAC
Statistics
Matches: 158, Mismatches: 33, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
40 33 0.21
41 124 0.78
42 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (41 bp):
AATTGCACTTACGTGCCCCTATTTGTACTTCAATACCCCTA
Found at i:16739542 original size:2 final size:2
Alignment explanation
Indices: 16739535--16739561 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16739525 TCATGACATG
16739535 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
16739562 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16740390 original size:57 final size:57
Alignment explanation
Indices: 16740299--16740466 Score: 273
Period size: 57 Copynumber: 2.9 Consensus size: 57
16740289 GTAATTGTAC
* *
16740299 TAGGTCTCACTTTCCAATTTCGTAGCTTCCTGAAAATAGCATAGGCATTAGATTTAA
1 TAGGTCTCACTTTCCAAATTCCTAGCTTCCTGAAAATAGCATAGGCATTAGATTTAA
* *
16740356 TATGTCTCACTTTCCAAATTCCTAGCTTCCTGAAAATAGCATAGGCATTAGATTTAG
1 TAGGTCTCACTTTCCAAATTCCTAGCTTCCTGAAAATAGCATAGGCATTAGATTTAA
* * *
16740413 TAGGTATCGCTTTCCAAATTCCTAGCTTCCTGAAAATAGCATATGCATTAGATT
1 TAGGTCTCACTTTCCAAATTCCTAGCTTCCTGAAAATAGCATAGGCATTAGATT
16740467 GATACTCGCT
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 103 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (57 bp):
TAGGTCTCACTTTCCAAATTCCTAGCTTCCTGAAAATAGCATAGGCATTAGATTTAA
Found at i:16740725 original size:12 final size:12
Alignment explanation
Indices: 16740694--16740726 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
16740684 TTGGCATGAA
16740694 AATATTTATTTT
1 AATATTTATTTT
*
16740706 ATTA-TTATTTT
1 AATATTTATTTT
16740717 AATATTTATT
1 AATATTTATT
16740727 GTATGTTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
AATATTTATTTT
Found at i:16743508 original size:47 final size:47
Alignment explanation
Indices: 16743438--16743922 Score: 745
Period size: 47 Copynumber: 10.3 Consensus size: 47
16743428 ATGATATACA
* *
16743438 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
16743485 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
16743532 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
16743579 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
16743626 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
16743673 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
16743720 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
16743767 CATATGTGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
16743814 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
16743861 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
16743908 TATAAATGTGATAAG
1 TATATATGTGATAAG
16743923 TCCCGAAGGG
Statistics
Matches: 394, Mismatches: 44, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 394 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:16743599 original size:94 final size:94
Alignment explanation
Indices: 16743438--16743922 Score: 889
Period size: 94 Copynumber: 5.2 Consensus size: 94
16743428 ATGATATACA
*
16743438 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
1 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
16743503 GAATGGCCAATGTGATGAATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
16743532 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
1 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
16743597 GAATGGCCAATGTGATGAATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
16743626 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
1 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
16743691 GAATGGCCAATGTGATGAATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
*
16743720 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGCGATAAGGCC
1 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
16743785 GAATGGCCAATGTGATGAATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
* * *
16743814 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
* *
16743879 GAGTGGCCAATGTGATGGATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
* *
16743908 TATAAATGTGATAAG
1 TATATATGGGATAAG
16743923 TCCCGAAGGG
Statistics
Matches: 382, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 382 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.27
Consensus pattern (94 bp):
TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:16751191 original size:18 final size:18
Alignment explanation
Indices: 16751167--16751209 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16751157 AAACCTATAA
16751167 AAAATAAATAC-ACTAAGT
1 AAAATAAA-ACTACTAAGT
*
16751185 TAAATAAAACTACTAAGT
1 AAAATAAAACTACTAAGT
16751203 AAAATAA
1 AAAATAA
16751210 CCAAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAATAAAACTACTAAGT
Found at i:16755429 original size:40 final size:40
Alignment explanation
Indices: 16755381--16755568 Score: 297
Period size: 40 Copynumber: 4.7 Consensus size: 40
16755371 GCTACTCACT
*
16755381 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
16755421 CAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
16755461 CAATTGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
16755501 GAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
16755541 CAAATGCCTTC-GGTCTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
16755569 CAATCCGAAT
Statistics
Matches: 137, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 15 0.11
40 122 0.89
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:16755489 original size:80 final size:80
Alignment explanation
Indices: 16755348--16755568 Score: 304
Period size: 80 Copynumber: 2.8 Consensus size: 80
16755338 AAACCAAGTA
** * * *
16755348 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCACTCAAATGCCTTCGGGACTTAGCCCAGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
16755411 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * *
16755427 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
16755492 TAACTCGCAGAAATG
66 TAACTCGCACAAATG
* *
16755507 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC-GGTCTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
16755569 CAATCCGAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 28 0.22
80 97 0.78
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:16756580 original size:40 final size:40
Alignment explanation
Indices: 16756525--16756679 Score: 231
Period size: 40 Copynumber: 3.9 Consensus size: 40
16756515 AGATATAAAT
*
16756525 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
16756565 ACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
** *
16756605 ACTCGTGCAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
16756645 ACTCACACAAATGCCTTCGGG-CTTAGCCCAGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
16756680 CAATCCGAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 12 0.12
40 90 0.88
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:16760143 original size:93 final size:93
Alignment explanation
Indices: 16760031--16760202 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16760021 GCCCATAAGT
* *
16760031 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16760096 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
16760124 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16760189 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
16760203 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:16760198 original size:46 final size:46
Alignment explanation
Indices: 16760023--16760198 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
16760013 TGTAACCCGC
* * *
16760023 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16760069 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
16760119 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
16760162 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16760199 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16762622 original size:30 final size:30
Alignment explanation
Indices: 16762578--16762666 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
16762568 CAAAGATAAC
16762578 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
16762607 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
16762637 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
16762667 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:16762626 original size:15 final size:15
Alignment explanation
Indices: 16762578--16762657 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
16762568 CAAAGATAAC
*
16762578 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
16762592 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
16762607 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
16762622 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
16762637 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
16762652 AAGAAA
1 AAGAAA
16762658 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:16762666 original size:15 final size:15
Alignment explanation
Indices: 16762589--16762666 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
16762579 AGAAAACCGA
16762589 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
16762604 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
16762618 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
16762633 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
16762649 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
16762664 ATA
1 ATA
16762667 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:16765670 original size:46 final size:46
Alignment explanation
Indices: 16765603--16765775 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
16765593 TGTAACCCGC
*
16765603 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
16765649 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
16765699 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
16765740 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
16765776 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:16765768 original size:91 final size:92
Alignment explanation
Indices: 16765611--16765780 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
16765601 GCCCATAAGT
*
16765611 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
16765676 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
16765704 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
16765768 GAGTTCGGATGCC
66 GAGTTCGGATGCC
16765781 CAAATATCCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:16772989 original size:40 final size:40
Alignment explanation
Indices: 16772908--16773086 Score: 242
Period size: 40 Copynumber: 4.6 Consensus size: 40
16772898 AAACCAAGTA
** * *
16772908 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
16772947 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
16772987 CCTTCGGGACTTGGCCCGGTTATAGTAACTCG--CAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
16773025 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
16773065 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
16773087 CAATCCGAAT
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
38 34 0.27
39 26 0.21
40 65 0.52
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:16773038 original size:78 final size:77
Alignment explanation
Indices: 16772941--16773086 Score: 247
Period size: 78 Copynumber: 1.9 Consensus size: 77
16772931 GCTACTCGCT
* * * *
16772941 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGG-CTTAGCCCGG
16773006 TTATAGTAACTCG
65 TTATAGTAACTCG
16773019 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGCTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGCTTAGCCCGGT
16773084 TAT
66 TAT
16773087 CAATCCGAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
77 13 0.20
78 51 0.80
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGCTTAGCCCGGT
TATAGTAACTCG
Found at i:16779604 original size:36 final size:36
Alignment explanation
Indices: 16779564--16779636 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
16779554 AGGAGGGAGT
16779564 AAGCTTTACACTTAGTAAGTCCATATGAAAATAATA
1 AAGCTTTACACTTAGTAAGTCCATATGAAAATAATA
*
16779600 AAGCTTTACGCTTAGTAAGTCCATATGAAAATAATA
1 AAGCTTTACACTTAGTAAGTCCATATGAAAATAATA
16779636 A
1 A
16779637 GCAAATTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (36 bp):
AAGCTTTACACTTAGTAAGTCCATATGAAAATAATA
Found at i:16781015 original size:19 final size:19
Alignment explanation
Indices: 16780983--16781028 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
16780973 ACAACATGTA
* * *
16780983 ATAATGTCACATTATTTAC
1 ATAATATCAAATTATTCAC
16781002 ATAATATCAAATTATTCAC
1 ATAATATCAAATTATTCAC
16781021 ATATATAT
1 ATA-ATAT
16781029 ACTTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATATCAAATTATTCAC
Found at i:16789080 original size:32 final size:32
Alignment explanation
Indices: 16789039--16789101 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
16789029 AATTAAACAA
16789039 ACAAAAGGCAAGAAATCAAATAAGGAAGTATG
1 ACAAAAGGCAAGAAATCAAATAAGGAAGTATG
16789071 ACAAAAGGCAAGAAATCAAATAAGGAAGTAT
1 ACAAAAGGCAAGAAATCAAATAAGGAAGTAT
16789102 ATATCAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.57, C:0.10, G:0.21, T:0.13
Consensus pattern (32 bp):
ACAAAAGGCAAGAAATCAAATAAGGAAGTATG
Found at i:16794897 original size:23 final size:24
Alignment explanation
Indices: 16794868--16794916 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
16794858 ATTTTTATCA
16794868 AAAAATCACTTAATT-AACCTGAC
1 AAAAATCACTTAATTAAACCTGAC
*
16794891 AAAAATCACTTAATTAAACTTGAC
1 AAAAATCACTTAATTAAACCTGAC
16794915 AA
1 AA
16794917 TCTAACAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAATCACTTAATTAAACCTGAC
Found at i:16809231 original size:40 final size:40
Alignment explanation
Indices: 16809176--16809345 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
16809166 AACATTGGAA
16809176 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
16809216 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
16809256 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
16809295 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
16809336 CTATATCCGG
1 ATATATCCGG
16809346 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:16812746 original size:26 final size:26
Alignment explanation
Indices: 16812710--16812762 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
16812700 TAACTACATA
16812710 TATTTTAAGTAGTTGATCAAATTATG
1 TATTTTAAGTAGTTGATCAAATTATG
16812736 TATTTTAAGTAGTTGATCAAATTATG
1 TATTTTAAGTAGTTGATCAAATTATG
16812762 T
1 T
16812763 CTAACATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (26 bp):
TATTTTAAGTAGTTGATCAAATTATG
Found at i:16812773 original size:26 final size:26
Alignment explanation
Indices: 16812716--16812773 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
16812706 CATATATTTT
***
16812716 AAGTAGTTGATCAAATTATGTATTTT
1 AAGTAGTTGATCAAATTATGTATAAC
*
16812742 AAGTAGTTGATCAAATTATGTCTAAC
1 AAGTAGTTGATCAAATTATGTATAAC
*
16812768 ATGTAG
1 AAGTAG
16812774 ACTAAACTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (26 bp):
AAGTAGTTGATCAAATTATGTATAAC
Found at i:16816746 original size:13 final size:13
Alignment explanation
Indices: 16816728--16816760 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
16816718 GCCATGTGTC
16816728 ACACACGGCCGAG
1 ACACACGGCCGAG
16816741 ACACACGGCCGAG
1 ACACACGGCCGAG
16816754 ACACACG
1 ACACACG
16816761 CCCGTGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.39, G:0.27, T:0.00
Consensus pattern (13 bp):
ACACACGGCCGAG
Found at i:16819190 original size:22 final size:22
Alignment explanation
Indices: 16819165--16819207 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16819155 CAAACTGTTT
* *
16819165 TTATCACTAAAATGGGCTAAGA
1 TTATAACTAAAATGGCCTAAGA
*
16819187 TTATAACTGAAATGGCCTAAG
1 TTATAACTAAAATGGCCTAAG
16819208 GCCCGGACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (22 bp):
TTATAACTAAAATGGCCTAAGA
Found at i:16825262 original size:28 final size:28
Alignment explanation
Indices: 16825230--16825285 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
16825220 TCATAGGAAG
16825230 AGAAGTGCCGAAATTGGTTTTGGGGTTT
1 AGAAGTGCCGAAATTGGTTTTGGGGTTT
16825258 AGAAGTGCCGAAATTGGTTTTGGGGTTT
1 AGAAGTGCCGAAATTGGTTTTGGGGTTT
16825286 TCCTCTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (28 bp):
AGAAGTGCCGAAATTGGTTTTGGGGTTT
Found at i:16826341 original size:18 final size:18
Alignment explanation
Indices: 16826320--16826354 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16826310 TGGGCCAAGC
16826320 TGGG-CTGTGTGGCCCCAA
1 TGGGTCTGT-TGGCCCCAA
16826338 TGGGTCTGTTGGCCCCA
1 TGGGTCTGTTGGCCCCA
16826355 CACGGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.09, C:0.29, G:0.37, T:0.26
Consensus pattern (18 bp):
TGGGTCTGTTGGCCCCAA
Found at i:16828256 original size:42 final size:42
Alignment explanation
Indices: 16828145--16828300 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
16828135 TACCATACGA
* **** * *
16828145 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATAG
* * * *
16828187 ATGCCAATAGCCCAGCTATAGTCTTACACAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAATCTCATATAG
* *
16828230 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATAG
16828272 ATGCCATATCCCAGATATGGTCTTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
16828301 TAGTGTTAGT
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATAG
Found at i:16828275 original size:85 final size:84
Alignment explanation
Indices: 16828145--16828300 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
16828135 TACCATACGA
* * * * * *
16828145 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCGTATTGATGCCAATAGCCCAGCTATAGTC
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATAGATGCC-ATAGCCCAGATATAGTC
16828210 TTACACAAAATCTCATATCG
65 TTACACAAAATCTCATATCG
* *
16828230 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCATATAGATGCCATATCCCAGATATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGAGA-TCTCATATAGATGCCATAGCCCAGATATAGTC
16828294 TTACACA
65 TTACACA
16828301 TAGTGTTAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 22 0.35
85 40 0.65
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATAGATGCCATAGCCCAGATATAGTCT
TACACAAAATCTCATATCG
Found at i:16833705 original size:27 final size:27
Alignment explanation
Indices: 16833653--16833732 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
16833643 GTGACAGAGT
*
16833653 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* *
16833682 CACCATAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
16833709 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
16833733 TAGCCACTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 23 0.51
28 16 0.36
29 6 0.13
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:16841639 original size:39 final size:39
Alignment explanation
Indices: 16841585--16841670 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
16841575 CGAGCCTCAG
16841585 CATTTCCAGCTCCCCTGCCAAGCGCCCCTCGACCTCGAC
1 CATTTCCAGCTCCCCTGCCAAGCGCCCCTCGACCTCGAC
*
16841624 CATTTCCAGCTCCCCTGCCAGGCGCCCCTCGACCTCGAC
1 CATTTCCAGCTCCCCTGCCAAGCGCCCCTCGACCTCGAC
16841663 CATTTCCA
1 CATTTCCA
16841671 TTCCCATTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.15, C:0.50, G:0.15, T:0.20
Consensus pattern (39 bp):
CATTTCCAGCTCCCCTGCCAAGCGCCCCTCGACCTCGAC
Found at i:16844087 original size:28 final size:27
Alignment explanation
Indices: 16844055--16844141 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
16844045 GTGACAGAGT
16844055 CACCAGATACA-ATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
16844083 CACC--AACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
16844108 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
16844136 CACCAG
1 CACCAG
16844142 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
25 18 0.36
26 4 0.08
27 7 0.14
28 21 0.42
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:16844291 original size:26 final size:26
Alignment explanation
Indices: 16844253--16844304 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
16844243 CCCTAGGGGT
*
16844253 ATAAAGGTCATTTTGCATACATAGGG
1 ATAAAGGTAATTTTGCATACATAGGG
*
16844279 ATAATGGTAATTTTGCATACATAGGG
1 ATAAAGGTAATTTTGCATACATAGGG
16844305 GTATTCTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (26 bp):
ATAAAGGTAATTTTGCATACATAGGG
Found at i:16846319 original size:40 final size:40
Alignment explanation
Indices: 16846245--16846364 Score: 172
Period size: 39 Copynumber: 3.0 Consensus size: 40
16846235 ATTTGATGTG
16846245 TATCCGGGCTTAAAGACCCG-AGGCTATATGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
*
16846284 TATCTGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
* * ** *
16846324 TACCCGGACTT-AAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
16846363 TA
1 TA
16846365 ACTGAACTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 46 0.63
40 27 0.37
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
Found at i:16846356 original size:39 final size:39
Alignment explanation
Indices: 16846265--16846388 Score: 158
Period size: 39 Copynumber: 3.2 Consensus size: 39
16846255 TAAAGACCCG
* * **
16846265 AGGCTATATGCTGGAATTATATCTGGGCTTAAAGACCCGC
1 AGGCTATATGCTGGAATTATAACTGGACTT-AAGGTCCGC
* *
16846305 AGGCTATATGCTGGAATTATACCCGGACTTAAGGTCCGC
1 AGGCTATATGCTGGAATTATAACTGGACTTAAGGTCCGC
* *
16846344 AGGCTATGTGCTGGAATTATAACTGAACTTAAGGTCCGC
1 AGGCTATATGCTGGAATTATAACTGGACTTAAGGTCCGC
*
16846383 AAGCTA
1 AGGCTA
16846389 CGCGCTGGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 47 0.64
40 27 0.36
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
AGGCTATATGCTGGAATTATAACTGGACTTAAGGTCCGC
Found at i:16846396 original size:39 final size:39
Alignment explanation
Indices: 16846314--16846398 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
16846304 CAGGCTATAT
* * * * *
16846314 GCTGGAATTATACCCGGACTTAAGGTCCGCAGGCTATGT
1 GCTGGAATTATAACCGAACTTAAGGTCCGCAAGCTACGC
*
16846353 GCTGGAATTATAACTGAACTTAAGGTCCGCAAGCTACGC
1 GCTGGAATTATAACCGAACTTAAGGTCCGCAAGCTACGC
16846392 GCTGGAA
1 GCTGGAA
16846399 ATATGTCAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
GCTGGAATTATAACCGAACTTAAGGTCCGCAAGCTACGC
Found at i:16852648 original size:28 final size:28
Alignment explanation
Indices: 16852579--16852679 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
16852569 GACAAGATTG
* * * *
16852579 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
16852609 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16852637 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
16852666 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16852680 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16852673 original size:29 final size:28
Alignment explanation
Indices: 16852608--16852679 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
16852598 AAAATTGTAC
*
16852608 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
16852636 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
16852665 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16852680 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:16868892 original size:16 final size:15
Alignment explanation
Indices: 16868867--16868912 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
16868857 ACAATTTCAC
16868867 CTATCATTTTATCAA
1 CTATCATTTTATCAA
*
16868882 CTATGCATTTT-TC-T
1 CTAT-CATTTTATCAA
16868896 C-ATCATTTTATCAA
1 CTATCATTTTATCAA
16868910 CTA
1 CTA
16868913 ATTCATGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 6 0.24
13 4 0.16
14 2 0.08
15 7 0.28
16 6 0.24
ACGTcount: A:0.28, C:0.22, G:0.02, T:0.48
Consensus pattern (15 bp):
CTATCATTTTATCAA
Found at i:16869790 original size:43 final size:43
Alignment explanation
Indices: 16869703--16869790 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
16869693 ACGAAATCAA
* * *
16869703 ATAATGATGCCAATGTCCTAAACATGGTTTTAATCGTAATCAC
1 ATAATGATGCCAATGTCCCAAACATGGTTTTAATCATAAACAC
* *
16869746 ATAATGATGCCATTGTCCCAGACATGGTTTTACA-CATAAACAC
1 ATAATGATGCCAATGTCCCAAACATGGTTTTA-ATCATAAACAC
16869789 AT
1 AT
16869791 CTCGTTGATC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (43 bp):
ATAATGATGCCAATGTCCCAAACATGGTTTTAATCATAAACAC
Found at i:16877241 original size:19 final size:19
Alignment explanation
Indices: 16877217--16877255 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16877207 TAAAACCCCC
16877217 ATAGGAACATCTCCTTACA
1 ATAGGAACATCTCCTTACA
16877236 ATAGGAACATCTCCTTACA
1 ATAGGAACATCTCCTTACA
16877255 A
1 A
16877256 ACTTGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (19 bp):
ATAGGAACATCTCCTTACA
Found at i:16878703 original size:8 final size:8
Alignment explanation
Indices: 16878692--16878720 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
16878682 TATTAGTTTA
16878692 TTTAGGTG
1 TTTAGGTG
16878700 TTTAGGTG
1 TTTAGGTG
16878708 TTTAGGTG
1 TTTAGGTG
16878716 TTTAG
1 TTTAG
16878721 TTTATTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (8 bp):
TTTAGGTG
Found at i:16880187 original size:6 final size:6
Alignment explanation
Indices: 16880178--16880218 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
16880168 TTGCTTTTCC
16880178 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
16880219 CAAGTTCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:16880530 original size:12 final size:12
Alignment explanation
Indices: 16880513--16880537 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16880503 TTTATAAATT
16880513 CGACCATAGCCA
1 CGACCATAGCCA
16880525 CGACCATAGCCA
1 CGACCATAGCCA
16880537 C
1 C
16880538 CACGACACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.44, G:0.16, T:0.08
Consensus pattern (12 bp):
CGACCATAGCCA
Found at i:16880555 original size:139 final size:139
Alignment explanation
Indices: 16880305--16880582 Score: 529
Period size: 139 Copynumber: 2.0 Consensus size: 139
16880295 AACCTCATCG
*
16880305 ATATAACTCCCTTGAACATTACTGGTGATATTACAGTTTCAAAAGGTTCAGTCGATTGGTTTATA
1 ATATAACTCCCTAGAACATTACTGGTGATATTACAGTTTCAAAAGGTTCAGTCGATTGGTTTATA
*
16880370 AATTCGACCATAGCCACAACCATAGCCACCACGACACTGACCACCACGATAACCTCTTCGCTTAG
66 AATTCGACCATAGCCACAACCATAGCCACCACGACACTAACCACCACGATAACCTCTTCGCTTAG
16880435 CGCTGCGAT
131 CGCTGCGAT
16880444 ATATAACTCCCTAGAACATTACTGGTGATATTACAGTTTCAAAAGGTTCAGTCGATTGGTTTATA
1 ATATAACTCCCTAGAACATTACTGGTGATATTACAGTTTCAAAAGGTTCAGTCGATTGGTTTATA
*
16880509 AATTCGACCATAGCCACGACCATAGCCACCACGACACTAACCACCACGATAACCTCTTCGCTTAG
66 AATTCGACCATAGCCACAACCATAGCCACCACGACACTAACCACCACGATAACCTCTTCGCTTAG
16880574 CGCTGCGAT
131 CGCTGCGAT
16880583 TGTGGAACCC
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 136 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (139 bp):
ATATAACTCCCTAGAACATTACTGGTGATATTACAGTTTCAAAAGGTTCAGTCGATTGGTTTATA
AATTCGACCATAGCCACAACCATAGCCACCACGACACTAACCACCACGATAACCTCTTCGCTTAG
CGCTGCGAT
Found at i:16890215 original size:30 final size:30
Alignment explanation
Indices: 16890170--16890229 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
16890160 CTTTTATACG
*
16890170 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
16890200 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
16890230 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:16899093 original size:37 final size:36
Alignment explanation
Indices: 16899043--16899129 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
16899033 TACGAAGTCT
16899043 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
16899079 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
16899116 TCACCCGGAACATA
1 T-ACCCGG-ACATA
16899130 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:16899269 original size:49 final size:49
Alignment explanation
Indices: 16899198--16899497 Score: 519
Period size: 49 Copynumber: 6.1 Consensus size: 49
16899188 TTTACCACAT
* * *
16899198 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
16899247 ATATATATACATTTTTACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
16899296 ATATATATACATTTTCACATTCATCACATCGACCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
16899345 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
16899394 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
* *
16899443 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
16899492 ATATAT
1 ATATAT
16899498 TATTATGTAC
Statistics
Matches: 241, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 241 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
Found at i:16909672 original size:48 final size:48
Alignment explanation
Indices: 16909596--16909826 Score: 233
Period size: 48 Copynumber: 4.9 Consensus size: 48
16909586 TAGGGTTAGG
*
16909596 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
16909644 TGTGATCTCATGTAAGACCATGTCTGGGACATGACATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * *
16909692 TTTGATCCAATGTAAGACTATATCTGGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * * * *
16909740 TGAGA-CATCGTGTAAGACCATAG-CTAGG-C-T---ATCGGCTTCGATC
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATA
* * *
16909783 TGTGATCCCATGTAAGACCATATCTTGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
16909827 TTACTATGTG
Statistics
Matches: 144, Mismatches: 30, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 110 0.76
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:16909816 original size:91 final size:94
Alignment explanation
Indices: 16909596--16909826 Score: 267
Period size: 96 Copynumber: 2.5 Consensus size: 94
16909586 TAGGGTTAGG
* * *
16909596 TGTGATCCCATGTAAGACCATGT-TTGGGACATGGCATTGGCATCGATATGTGATCTCATGTAAG
1 TGTGATCCCATGTAAGACCATATCTT-GGATATGGCATTGGCATCGATATGAGATCTCATGTAAG
* *
16909660 ACCATGTCTGGGACATGACATTGGCATCGATA
65 ACCATGTCTAGGACAT-A-ATCGGCATCGATA
* * * * *
16909692 TTTGATCCAATGTAAGACTATATCTGGGATATGGCATTGGCATCGATATGAGA-CATCGTGTAAG
1 TGTGATCCCATGTAAGACCATATCTTGGATATGGCATTGGCATCGATATGAGATC-TCATGTAAG
* *
16909756 ACCATAG-CTAGG-C-T-ATCGGCTTCGATC
65 ACCAT-GTCTAGGACATAATCGGCATCGATA
16909783 TGTGATCCCATGTAAGACCATATCTTGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATATCTTGGATATGGCATTGGCATC
16909827 TTACTATGTG
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
91 50 0.43
94 1 0.01
95 2 0.02
96 61 0.53
97 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (94 bp):
TGTGATCCCATGTAAGACCATATCTTGGATATGGCATTGGCATCGATATGAGATCTCATGTAAGA
CCATGTCTAGGACATAATCGGCATCGATA
Found at i:16921684 original size:17 final size:17
Alignment explanation
Indices: 16921662--16921700 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
16921652 CTAAGAAATA
16921662 AAAGTGTTGCACTTGTG
1 AAAGTGTTGCACTTGTG
16921679 AAAGTGTTGCACTTGTG
1 AAAGTGTTGCACTTGTG
16921696 AAAGT
1 AAAGT
16921701 ATTGTCGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.33
Consensus pattern (17 bp):
AAAGTGTTGCACTTGTG
Found at i:16925380 original size:25 final size:25
Alignment explanation
Indices: 16925352--16925430 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
16925342 ACTCAGCCCT
16925352 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
16925377 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
16925399 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
16925424 ATCACAT
1 ATCACAT
16925431 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:16925477 original size:49 final size:48
Alignment explanation
Indices: 16925302--16925501 Score: 291
Period size: 47 Copynumber: 4.2 Consensus size: 48
16925292 CCCTTCGAGA
* * * *
16925302 CTTATCACATT-TATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
16925349 CCTATCACA-TATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
16925396 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
16925443 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
16925492 CTTATCACAT
1 CTTATCACAT
16925502 ATACTATCAT
Statistics
Matches: 141, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
46 2 0.01
47 91 0.65
49 48 0.34
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16925499 original size:96 final size:94
Alignment explanation
Indices: 16925302--16925504 Score: 300
Period size: 96 Copynumber: 2.1 Consensus size: 94
16925292 CCCTTCGAGA
* * *
16925302 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCAGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTCAGCCCTATCACATATATACAC
* *
16925367 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
16925396 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATGTATATA
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTCA-GCCCTATCACA--TATATA
16925460 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACTTTCACATTCATCACATCGGCCATTAGGC
16925492 CTTATCACATATA
1 CTTATCACATATA
16925505 CTATCATGTA
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
93 2 0.02
94 47 0.48
96 49 0.50
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTCAGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:16938208 original size:25 final size:27
Alignment explanation
Indices: 16938149--16938209 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
16938139 TTTTTTTCCC
*
16938149 TTAA-ATTTTAAATTTTATTTAATCAT
1 TTAATATTTTAAATTTTATTGAATCAT
* *
16938175 TTAAT-TTTTCAA-TTTATTGAATTA-
1 TTAATATTTTAAATTTTATTGAATCAT
16938199 TTAATATTTTA
1 TTAATATTTTA
16938210 TATAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.17
25 14 0.48
26 10 0.34
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TTAATATTTTAAATTTTATTGAATCAT
Found at i:16944524 original size:30 final size:30
Alignment explanation
Indices: 16944452--16944615 Score: 188
Period size: 30 Copynumber: 5.5 Consensus size: 30
16944442 TCGGCTATCG
* *
16944452 ATTATGAAAAGGGAAGGTGATGACCATC-A
1 ATTATGAAAAGGGATGGTGACGACCATCAA
* *
16944481 ATTATGGAAAGGGATGGTGACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
* * * *
16944511 ACTATGAAAAGGGATGGCT-TCGGCTATCAA
1 ATTATGAAAAGGGATGG-TGACGACCATCAA
*
16944541 ATTATGAAAAGGGATGGTGACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
** * *
16944571 ACAATGAAAAGGGATAGTGACCACCATCAA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
16944601 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
16944616 AGTTTCAGGT
Statistics
Matches: 111, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
29 26 0.23
30 84 0.76
31 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.20
Consensus pattern (30 bp):
ATTATGAAAAGGGATGGTGACGACCATCAA
Found at i:16944600 original size:60 final size:60
Alignment explanation
Indices: 16944455--16944615 Score: 211
Period size: 60 Copynumber: 2.7 Consensus size: 60
16944445 GCTATCGATT
* * *
16944455 ATGAAAAGGGA-AGGTGATGACCATC-AATTATGGAAAGGGATGGTGACGACCATCGAACT
1 ATGAAAAGGGATA-GTGACGACCATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
* * * *
16944514 ATGAAAAGGGATGGCT-TCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
1 ATGAAAAGGGATAG-TGACGACCATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
*
16944574 ATGAAAAGGGATAGTGACCACCATCAAATTATGAAAAGGGAT
1 ATGAAAAGGGATAGTGACGACCATCAAATTATGAAAAGGGAT
16944616 AGTTTCAGGT
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
59 18 0.21
60 68 0.79
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (60 bp):
ATGAAAAGGGATAGTGACGACCATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
Found at i:16944609 original size:90 final size:89
Alignment explanation
Indices: 16944427--16944645 Score: 271
Period size: 90 Copynumber: 2.5 Consensus size: 89
16944417 CATTGATGGG
* * * * * ** *
16944427 TGAAATGGGATAGCATCGGCTATC-GATTATGAAAAGGGAAGGTGATGACCATCAATTATGGAAA
1 TGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAA
* * *
16944491 GGGATGGTGACGACCATCGAACTA
66 GGGATAGTGACCACCATCAAACTA
*
16944515 TGAAAAGGGATGGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACAATGAAA
1 TGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATC-AACAATGAAA
*
16944580 AGGGATAGTGACCACCATCAAATTA
65 AGGGATAGTGACCACCATCAAACTA
* *
16944605 TGAAAAGGGATAGTTTCAGG-TATCAAATTATGAAAATGGAT
1 TGAAAAGGGATAGCTTC-GGCTATCAAATTATGAAAAGGGAT
16944646 AGCCTCGGCT
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
88 21 0.19
89 26 0.23
90 63 0.56
91 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (89 bp):
TGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAA
GGGATAGTGACCACCATCAAACTA
Found at i:16944670 original size:90 final size:90
Alignment explanation
Indices: 16944427--16944675 Score: 218
Period size: 90 Copynumber: 2.8 Consensus size: 90
16944417 CATTGATGGG
* * * ** * ** * *
16944427 TGAAATGGGATAGCATCGGCTATC-GATTATGAAAAGGGA-AGGTGATGACCATC-AATTATGGA
1 TGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATA-GCCACGACCATCGAACAAAGAA
* * *
16944489 AAGGGATGGTGACGACCATCGAACTA
65 AAGGGATAGTGACCACCATCAAACTA
* * ** *
16944515 TGAAAAGGGATGGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACAATGAAA
1 TGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGCCACGACCATCGAACAAAGAAA
*
16944580 AGGGATAGTGACCACCATCAAATTA
66 AGGGATAGTGACCACCATCAAACTA
* * * * * * *
16944605 TGAAAAGGGATAGTTTCAGG-TATCAAATTATGAAAATGGATAGCCTCGGCTATCGGATAAAGAA
1 TGAAAAGGGATAGCTTC-GGCTATCAAATTATGAAAAGGGATAGCCACGACCATCGAACAAAGAA
16944669 AAGGGAT
65 AAGGGAT
16944676 GTGTCAACCA
Statistics
Matches: 132, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
88 21 0.16
89 25 0.19
90 84 0.64
91 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (90 bp):
TGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGCCACGACCATCGAACAAAGAAA
AGGGATAGTGACCACCATCAAACTA
Found at i:16949302 original size:27 final size:28
Alignment explanation
Indices: 16949272--16949341 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
16949262 ATAATAAGTC
*
16949272 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
16949299 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
16949327 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16949342 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16957222 original size:27 final size:28
Alignment explanation
Indices: 16957192--16957261 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
16957182 ATAATAAGTC
*
16957192 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
16957219 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
16957247 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16957262 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16963196 original size:29 final size:30
Alignment explanation
Indices: 16963158--16963227 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 30
16963148 TATTGATTAT
16963158 GAAAGGGATGGTGACAACCATT-AACTATG
1 GAAAGGGATGGTGACAACCATTGAACTATG
**
16963187 GAAAGGGATGGTGATGACCATTGAACTATG
1 GAAAGGGATGGTGACAACCATTGAACTATG
*
16963217 AAAAGGGATGG
1 GAAAGGGATGG
16963228 CTTCAGTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.37, C:0.10, G:0.33, T:0.20
Consensus pattern (30 bp):
GAAAGGGATGGTGACAACCATTGAACTATG
Found at i:16963240 original size:30 final size:30
Alignment explanation
Indices: 16963206--16963345 Score: 104
Period size: 30 Copynumber: 4.7 Consensus size: 30
16963196 GGTGATGACC
*
16963206 ATTGAACTATGAAAAGGGATGGCTTCAGTT
1 ATTGAACTATGAAAAGGGATGGCTTCAGCT
* *
16963236 ATTGATC-ATGAAATGGGATGGCTTCAGCT
1 ATTGAACTATGAAAAGGGATGGCTTCAGCT
** * * * *
16963265 ATCAAATTATGAAAAGGGATAGTTTCGGCT
1 ATTGAACTATGAAAAGGGATGGCTTCAGCT
** * * * *
16963295 ATCAAATTATGAAAAGGGATAGCCTCGGCT
1 ATTGAACTATGAAAAGGGATGGCTTCAGCT
* *
16963325 ATCGAA-TAAAGAAAAGGGATG
1 ATTGAACT-ATGAAAAGGGATG
16963346 TATCAACCAT
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
29 24 0.26
30 68 0.74
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (30 bp):
ATTGAACTATGAAAAGGGATGGCTTCAGCT
Found at i:16968233 original size:64 final size:64
Alignment explanation
Indices: 16968152--16968335 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
16968142 AGACATTATG
* *
16968152 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
16968216 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
16968281 AA
63 AA
* * *
16968283 ACTG--GCTAGGTCACATGGGTGATACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
16968336 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:16970258 original size:49 final size:49
Alignment explanation
Indices: 16970181--16970370 Score: 222
Period size: 49 Copynumber: 3.8 Consensus size: 49
16970171 TAGCCGAAGC
* *
16970181 TATCTGGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
16970230 AATCTGGTACACGTAGTAGCCTGAACTTAGTACTACACATGTGATCATAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCA-A-T
* * **
16970281 TTTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
16970330 TATCCGGTACA-AGTAGTA-CCTTGCACTTAGTACTACACATG
1 TATCTGGTACACA-TAGTAGCC-TGCACTTAGTACTACACATG
16970371 ACCTCACAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
48 3 0.03
49 73 0.62
50 2 0.02
51 39 0.33
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Done.