Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 334 of 378
Found at i:101387928 original size:46 final size:46
Alignment explanation
Indices: 101387817--101388032 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
101387807 TGGCAACCTG
*
101387817 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
101387862 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
101387908 TGTGGAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
101387954 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
101388000 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
101388033 TCACGTCAAA
Statistics
Matches: 154, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
45 44 0.29
46 110 0.71
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:101394430 original size:2 final size:2
Alignment explanation
Indices: 101394425--101394462 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
101394415 TTTCTCTCTT
101394425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101394463 TTAATAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101397985 original size:3 final size:3
Alignment explanation
Indices: 101397979--101398020 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
101397969 ACACTACTAT
101397979 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
101398021 GAAATACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:101398076 original size:20 final size:20
Alignment explanation
Indices: 101398039--101398077 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
101398029 AAGAGCAAAT
* *
101398039 AACAATATTAAATTTAAAAA
1 AACAATACTAAATATAAAAA
*
101398059 AACAATACTATATATAAAA
1 AACAATACTAAATATAAAA
101398078 GTATATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (20 bp):
AACAATACTAAATATAAAAA
Found at i:101398127 original size:3 final size:3
Alignment explanation
Indices: 101398113--101398169 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
101398103 AAATATACAC
*
101398113 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
101398161 TAA TAA TAA
1 TAA TAA TAA
101398170 AATGCAGAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:101399945 original size:44 final size:44
Alignment explanation
Indices: 101399874--101400630 Score: 374
Period size: 44 Copynumber: 17.6 Consensus size: 44
101399864 AATTTTCAGC
* * * * * *
101399874 CTGTTACCCTATTACTTTGGGGTTTAAGGCCCATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * * * * ** *
101399918 TTATTTCCCTACTGCTTAGGGGGTTAAGAT-CTTGTAAATTC-AG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCAT-CACCTTCGAT
* * * *
101399961 CATGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGAT
1 C-TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * ** ** * *
101400006 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCCAC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * * *
101400049 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * * ** * *
101400093 CTGATTCCCTACTGCTTAGGGGGTTAAGTTCCGT-AAATTCTAC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * * *
101400136 CTGTTACCCTAATGCTTAGGGGTTTAAGGTCCATCGCCTAT-GAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCT-TCGAT
* ** ** * * *
101400180 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATCCAAC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * * * *
101400223 CTGTTACCCTACTGCTTAGGGGTTTGAGGTTCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * ** ** * *
101400267 TTGTTTCCCTACTGCTTAGGGGGTTAAGTTCTGT-AAATTCTAAC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTC-GAT
* * * * *
101400311 CTGTTACCCTACTACTTAGGGGTTTAAGGTTCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * ** *
101400355 TTGTTTCCCTATTGCTTAGGGGGTTAAGAG-CTGTAAACC-T--A-
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-GTCCAT-CACCTTCGAT
* * * *
101400396 ---TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * * ** * *
101400437 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTTAG-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * * * * ** * *
101400480 CTGTTACCCTACTACTTAGGGAGTTAAGGCCCGTTGCTTTCAAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
* * * *
101400524 ATGTTTCCCTATTGCTTAGGGGGTTAAGAG-CTATAAACC-T--A-
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-GTCCAT-CACCTTCGAT
* * *
101400565 ---TTACCCTACTGCTTAGGGGTTTAAGGTTCATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
*
101400606 CTATTTCCCTACTGCTTAGGGGGTT
1 CTGTTTCCCTACTGCTTAGGGGGTT
101400631 TAGCCTGTTA
Statistics
Matches: 499, Mismatches: 182, Indels: 64
0.67 0.24 0.09
Matches are distributed among these distances:
37 7 0.01
38 49 0.10
40 2 0.00
42 2 0.00
43 128 0.26
44 298 0.60
45 13 0.03
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (44 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
Found at i:101400084 original size:87 final size:86
Alignment explanation
Indices: 101399868--101400630 Score: 979
Period size: 87 Copynumber: 8.9 Consensus size: 86
101399858 ATCTATAATT
* * * ** * * *
101399868 TTCAGCCTGTTACCCTATTACTTTGGGGTTTAAGGCCCATCACCTTCGATTTATTTCCCTACTGC
1 TTCA-CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGC
101399933 TTAGGGGGTTAAGATCTTGTAAA
65 TTAGGGGGTTAAGATC-TGTAAA
* *
101399956 TTCAGCATGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGC
1 TTCA-CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGC
101400021 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * *
101400043 TTCCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGATTCCCTACTGC
1 TT-CACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGC
* *
101400108 TTAGGGGGTTAAGTTCCGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* *
101400130 TTCTACCTGTTACCCTAATGCTTAGGGGTTTAAGGTCCATCGCCTAT-GATCTGTTTCCCTACTG
1 TTC-ACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCT-TCGATCTGTTTCCCTACTG
101400194 CTTAGGGGGTTAAGATCTGTAAA
64 CTTAGGGGGTTAAGATCTGTAAA
* * *
101400217 TCCAACCTGTTACCCTACTGCTTAGGGGTTTGAGGTTCATCGCCTTCGATTTGTTTCCCTACTGC
1 TTC-ACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGC
*
101400282 TTAGGGGGTTAAGTTCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * *
101400304 TTCTAACCTGTTACCCTACTACTTAGGGGTTTAAGGTTCATCGCCTTCGATTTGTTTCCCTATTG
1 TTC--ACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTG
*
101400369 CTTAGGGGGTTAAGAGCTGT-AA
64 CTTAGGGGGTTAAGATCTGTAAA
*
101400391 ---ACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCT
1 TTCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCT
*
101400453 TAGGGGGTTAAGATCTATAAA
66 TAGGGGGTTAAGATCTGTAAA
* * ** * * * * * *
101400474 TTTAGCCTGTTACCCTACTACTTAGGGAG-TTAAGGCCCGTTGCTTTCAATATGTTTCCCTATTG
1 TTCA-CCTGTTACCCTACTGCTTAGGG-GTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTG
* *
101400538 CTTAGGGGGTTAAGAGCTAT-AA
64 CTTAGGGGGTTAAGATCTGTAAA
* * *
101400560 ---ACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCACCTTCGATCTATTTCCCTACTGCT
1 TTCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCT
101400622 TAGGGGGTT
66 TAGGGGGTT
101400631 TAGCCTGTTA
Statistics
Matches: 602, Mismatches: 61, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
81 1 0.00
82 130 0.22
83 3 0.00
86 5 0.01
87 310 0.51
88 153 0.25
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
TTCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCT
TAGGGGGTTAAGATCTGTAAA
Found at i:101400653 original size:73 final size:73
Alignment explanation
Indices: 101400565--101400702 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 73
101400555 TATAAACCTA
* *
101400565 TTACCCTACTGCTTAGGG-GTTTAAGGTTCATCACCTTCGATCTATTTCCCTACTGCTTAGGGGG
1 TTACCCTACTACTTAGGGAG-TTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTAGGGGG
101400629 TTTAGCCTG
65 TTTAGCCTG
* * * * *
101400638 TTACCCTACTACTTAGGGAGTTAAGGTCCGTCGCTTTCGATCTGTTTCCCTATTGCTTAGGGGGT
1 TTACCCTACTACTTAGGGAGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTAGGGGGT
101400703 CAAATCTGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 56 0.98
74 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (73 bp):
TTACCCTACTACTTAGGGAGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTAGGGGGT
TTAGCCTG
Found at i:101400859 original size:44 final size:44
Alignment explanation
Indices: 101400703--101401111 Score: 197
Period size: 44 Copynumber: 9.5 Consensus size: 44
101400693 CTTAGGGGGT
*
101400703 CAAATCTGCTATCTTTAA-CTTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGC
** * * * *** *
101400747 C--ATGCTGAAATCTTCAATCTGCTTCACTGTAAGCACAATAATGT
1 CAAAT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGC
* * *
101400791 CAGATCTGCTATCTTCGATCTGTTCCCTATAAATACAGGGATGC
1 CAAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGC
* *
101400835 CAAATCTGCTATTTTCAA-CTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGC
** * * * * * *
101400879 C--ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGT
1 CAAAT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGC
* * * *
101400923 TAGATTTGCTATCTTCGATCTG-----T-T---CACAGGGATGC
1 CAAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGC
* * **
101400958 CAAATCTGTTATTTTCAA-CTTGTTCCCTATAAGGACAGGGATGC
1 CAAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGC
** * * * * * * *
101401002 C--ATGCTGAAATCTTCGATTTGCTTCACTGTAAGCACAGGAATGT
1 CAAAT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGC
* ** *
101401046 CAAATATGCTATCTTTGATCTGTTCCCTATAAACATAGGGATGC
1 CAAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGC
* *
101401090 CAAATCTGCAATCTTCGATCTG
1 CAAATCTGCTATCTTCAATCTG
101401112 CTCTCCGCCG
Statistics
Matches: 268, Mismatches: 71, Indels: 52
0.69 0.18 0.13
Matches are distributed among these distances:
34 1 0.00
35 23 0.09
38 1 0.00
39 1 0.00
40 1 0.00
41 1 0.00
42 6 0.02
43 35 0.13
44 153 0.57
45 40 0.15
46 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (44 bp):
CAAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGC
Found at i:101400940 original size:132 final size:131
Alignment explanation
Indices: 101400703--101401098 Score: 585
Period size: 132 Copynumber: 3.1 Consensus size: 131
101400693 CTTAGGGGGT
* *
101400703 CAAATCTGCTATCTTT-AACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCT
1 CAAATCTGCTAT-TTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCT
** *
101400767 GCTTCACTGTAAGCACAATAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAATACAGGGA
65 GCTTCACTGTAAGCACAGGAATGTCAGATATGCTATCTTCGATCTGTTCCCTATAAA-ACAGGGA
101400832 TGC
129 TGC
101400835 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
101400900 CTTCACTGTAAGCACAGGAATGTTAGATTTGCTATCTTCGATCTGTT--C------ACAGGGATG
66 CTTCACTGTAAGCACAGGAATGTCAGATATGCTATCTTCGATCTGTTCCCTATAAAACAGGGATG
101400957 C
131 C
* * *
101400958 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGGACAGGGATGCCATGCTGAAATCTTCGATTTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
101401023 CTTCACTGTAAGCACAGGAATGTCAAATATGCTATCTTTGATCTGTTCCCTATAAACATAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATATGCTATCTTCGATCTGTTCCCTATAAA-ACAGGGAT
101401088 GC
130 GC
101401090 CAAATCTGC
1 CAAATCTGC
101401099 AATCTTCGAT
Statistics
Matches: 239, Mismatches: 15, Indels: 20
0.87 0.05 0.07
Matches are distributed among these distances:
123 115 0.48
125 1 0.00
130 1 0.00
131 3 0.01
132 119 0.50
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (131 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATATGCTATCTTCGATCTGTTCCCTATAAAACAGGGATG
C
Found at i:101401044 original size:123 final size:123
Alignment explanation
Indices: 101400825--101401070 Score: 429
Period size: 123 Copynumber: 2.0 Consensus size: 123
101400815 CCCTATAAAT
101400825 ACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAAT
* * *
101400890 CTTCGATCTGCTTCACTGTAAGCACAGGAATGTTAGATTTGCTATCTTCGATCTGTTC
66 CTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAAATATGCTATCTTCGATCTGTTC
* *
101400948 ACAGGGATGCCAAATCTGTTATTTTCAACTTGTTCCCTATAAGGACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAAT
* *
101401013 CTTCGATTTGCTTCACTGTAAGCACAGGAATGTCAAATATGCTATCTTTGATCTGTTC
66 CTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAAATATGCTATCTTCGATCTGTTC
101401071 CCTATAAACA
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 116 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (123 bp):
ACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAAT
CTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAAATATGCTATCTTCGATCTGTTC
Found at i:101401225 original size:88 final size:88
Alignment explanation
Indices: 101401101--101401420 Score: 500
Period size: 88 Copynumber: 3.6 Consensus size: 88
101401091 AAATCTGCAA
* * *
101401101 TCTTCGATCTGCTCTCCGCC-GCTACAGAGACT-CCAAATCATCTTGGATTTGCTTCAACGTAAA
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGA-TGCCAAATCATCTTGGATCTGCTTCAACGTAAA
101401164 CACGTGAAAGCCAAATCAGCTATG
65 CACGTGAAAGCCAAATCAGCTATG
* *
101401188 TCTTTGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
*
101401253 ACATGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
* * * *
101401276 TCTTCGATTTGCTCCCCGCCTGATACAGAGATGCCAAATTATCTTGGATCTTCTTCAACATAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
* *
101401341 ACGTGAAAGCCAAATCAGTTATA
66 ACGTGAAAGCCAAATCAGCTATG
*
101401364 TCTTCGATCTGCTCCCCGCCTGATACAGAGATTCCAAATCATCTTGGATCTGCTTCA
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
101401421 GGGAAGGTCA
Statistics
Matches: 212, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
87 19 0.09
88 193 0.91
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
ACGTGAAAGCCAAATCAGCTATG
Found at i:101403313 original size:11 final size:11
Alignment explanation
Indices: 101403291--101403368 Score: 75
Period size: 11 Copynumber: 6.8 Consensus size: 11
101403281 CTTTTTGGCA
*
101403291 TTTTTGTTTTTT
1 TTTTT-TTTTTG
101403303 TTTTTTGTTTTG
1 TTTTTT-TTTTG
*
101403315 TTTTTGTTTTG
1 TTTTTTTTTTG
* * *
101403326 TTTTCTTCTTC
1 TTTTTTTTTTG
101403337 TTCTTTTTTTTG
1 TT-TTTTTTTTG
*
101403349 TGTTTTTTTTG
1 TTTTTTTTTTG
101403360 TTTTTTTTT
1 TTTTTTTTT
101403369 AATTTGATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
11 32 0.60
12 21 0.40
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:101405736 original size:33 final size:33
Alignment explanation
Indices: 101405699--101405765 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
101405689 TTCTTATGAC
101405699 AAACTGTTCTATTTAGCAATCAAATATGAATCA
1 AAACTGTTCTATTTAGCAATCAAATATGAATCA
101405732 AAACTGTTCTATTTAGCAATCAAATATGAATCA
1 AAACTGTTCTATTTAGCAATCAAATATGAATCA
101405765 A
1 A
101405766 CACCTCCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (33 bp):
AAACTGTTCTATTTAGCAATCAAATATGAATCA
Found at i:101407503 original size:3 final size:3
Alignment explanation
Indices: 101407497--101407702 Score: 164
Period size: 3 Copynumber: 68.3 Consensus size: 3
101407487 ATATAACAAC
101407497 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
101407545 AAT -AT AGA- AAT ACA- AAG AGCA- AAT AAA AAT ATT AA- ATTT AA-
1 AAT AAT A-AT AAT A-AT AAT A--AT AAT AAT AAT AAT AAT A-AT AAT
* * *
101407586 AA- AAC AAT ACT -AT ATAT AA- AAGT ATAT ATAT ACAT -AT ATGT ACAT
1 AAT AAT AAT AAT AAT A-AT AAT AA-T A-AT A-AT A-AT AAT A-AT A-AT
101407631 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
101407679 AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
101407703 CAGAAAGTAA
Statistics
Matches: 171, Mismatches: 13, Indels: 38
0.77 0.06 0.17
Matches are distributed among these distances:
2 17 0.10
3 132 0.77
4 20 0.12
5 2 0.01
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:101410107 original size:13 final size:13
Alignment explanation
Indices: 101410089--101410114 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101410079 GGGATTTGCT
101410089 TTAACTAAACTAA
1 TTAACTAAACTAA
101410102 TTAACTAAACTAA
1 TTAACTAAACTAA
101410115 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:101422452 original size:97 final size:97
Alignment explanation
Indices: 101422307--101422528 Score: 273
Period size: 97 Copynumber: 2.3 Consensus size: 97
101422297 AAAAGTTGTT
* * *
101422307 AATACGTTGTGGATGAACCACTAGTCATTGTAGATAAACTACCAACTAAAACATGTTGCGGATGA
1 AATAAGTTGTGGATGAACCACTGGTCATTGGAGATAAACTACCAACTAAAACATGTTGCGGATGA
* * *
101422372 ACTACTGGTTGTGCAGATAAATTGTTGACTAA
66 ACTACTAGTTGTGCAGATAAACTGTCGACTAA
* * * *** * * * *
101422404 AATATGTTGTGGATGAACCATTGGTCGTTGGAGATAAACTATTGACTAAAATATTTTGTGGGTGA
1 AATAAGTTGTGGATGAACCACTGGTCATTGGAGATAAACTACCAACTAAAACATGTTGCGGATGA
*
101422469 ACTACTAGTTGTGCAGGTAAACTGTCGACTAA
66 ACTACTAGTTGTGCAGATAAACTGTCGACTAA
* *
101422501 AATAAATTATGGATGAACCACTGGTCAT
1 AATAAGTTGTGGATGAACCACTGGTCAT
101422529 GCAAATAAAT
Statistics
Matches: 104, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
97 104 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (97 bp):
AATAAGTTGTGGATGAACCACTGGTCATTGGAGATAAACTACCAACTAAAACATGTTGCGGATGA
ACTACTAGTTGTGCAGATAAACTGTCGACTAA
Found at i:101422453 original size:49 final size:49
Alignment explanation
Indices: 101422307--101422545 Score: 196
Period size: 48 Copynumber: 4.9 Consensus size: 49
101422297 AAAAGTTGTT
* * * * ***
101422307 AATACGTTGTGGATGAACCACTAGTCATTGTAGATAAACTACCAACTAA
1 AATATGTTGTGGATGAACCACTGGTCGTTGCAGATAAACTATTGACTAA
* * * * * *
101422356 AACATGTTGCGGATGAACTACTGGTTG-TGCAGATAAATTGTTGACTAA
1 AATATGTTGTGGATGAACCACTGGTCGTTGCAGATAAACTATTGACTAA
* *
101422404 AATATGTTGTGGATGAACCATTGGTCGTTGGAGATAAACTATTGACTAA
1 AATATGTTGTGGATGAACCACTGGTCGTTGCAGATAAACTATTGACTAA
* * * * * * * *
101422453 AATATTTTGTGGGTGAACTACTAGTTG-TGCAGGTAAACTGTCGACTAA
1 AATATGTTGTGGATGAACCACTGGTCGTTGCAGATAAACTATTGACTAA
** * * * *
101422501 AATAAATTATGGATGAACCACTGGTC-ATGCAAATAAATTATTGAC
1 AATATGTTGTGGATGAACCACTGGTCGTTGCAGATAAACTATTGAC
101422546 ACTTCTTTTG
Statistics
Matches: 145, Mismatches: 43, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
48 86 0.59
49 59 0.41
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (49 bp):
AATATGTTGTGGATGAACCACTGGTCGTTGCAGATAAACTATTGACTAA
Found at i:101422595 original size:17 final size:17
Alignment explanation
Indices: 101422573--101422611 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
101422563 CATCCCACCC
101422573 CATGCAATGTAACATAA
1 CATGCAATGTAACATAA
101422590 CATGCAATGTAACATAA
1 CATGCAATGTAACATAA
101422607 CATGC
1 CATGC
101422612 TTATAGCAGA
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:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (17 bp):
CATGCAATGTAACATAA
Found at i:101427116 original size:40 final size:39
Alignment explanation
Indices: 101427037--101427257 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 39
101427027 ATGATGTCCA
* * *
101427037 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG
1 GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCG
*
101427077 GACTAAGATCCGAAGGCATTTGT-CTGAGTTACTAAATCCG
1 GGCTAAG-TCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
*
101427117 GACTAAGATCCGAAGGCATTTGTGCGAGTTACT-AATCCCG
1 GGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAAT-CCG
* * *
101427157 GGCTAAGCCCGAAAGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
101427196 GGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCG
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
101427236 GGCTATGTCTCGAAGGCATTTG
1 GGCTAAGTC-CGAAGGCATTTG
101427258 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
39 35 0.22
40 114 0.72
41 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:101427188 original size:79 final size:80
Alignment explanation
Indices: 101427039--101427236 Score: 235
Period size: 79 Copynumber: 2.5 Consensus size: 80
101427029 GATGTCCAGG
* * * * *
101427039 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTCTG
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGACTAAGACCCGAAAGCATTGGTCTG
101427103 AGTTACTAAATCCGGA
65 AGTTACTAAATCCGGA
*
101427119 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCCGGGCTAAG-CCCGAAAGCATTGGTGC
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAT-CCGGACTAAGACCCGAAAGCATTGGT-C
*
101427181 -GAGTTACTAAATCCGGG
63 TGAGTTACTAAATCCGGA
* * *
101427198 TTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
101427237 GCTATGTCTC
Statistics
Matches: 102, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 62 0.61
80 31 0.30
81 8 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGACCCGAAAGCATTGGTCTGA
GTTACTAAATCCGGA
Found at i:101427279 original size:79 final size:76
Alignment explanation
Indices: 101427040--101427290 Score: 224
Period size: 79 Copynumber: 3.2 Consensus size: 76
101427030 ATGTCCAGGC
* * * *
101427040 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTCTGA
1 TAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAACCGGGCTAAG-TCCGAAGGCATTTGAC-GA
*
101427104 GTTACTAAATCCGGAC
62 GTTACTAAATCCGG-T
* * *
101427120 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCCGGGCTAAGCCCGAAAGCATTGGTG-CG
1 TAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-ACCGGGCTAAGTCCGAAGGCATT--TGACG
101427182 AGTTACTAAATCCGGGT
61 AGTTACTAAATCC-GGT
*
101427199 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTCTCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAG-TACTATAACCGGGCTAAGTC-CGAAGGCATTTG-ACGAG
*
101427264 -TAGCTATATCCGGT
63 TTA-CTAAATCCGGT
* *
101427278 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
101427291 TATGTGATTC
Statistics
Matches: 144, Mismatches: 14, Indels: 27
0.78 0.08 0.15
Matches are distributed among these distances:
78 3 0.02
79 79 0.55
80 51 0.35
81 11 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (76 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTACTATAACCGGGCTAAGTCCGAAGGCATTTGACGAGTTA
CTAAATCCGGT
Found at i:101430251 original size:19 final size:20
Alignment explanation
Indices: 101430214--101430253 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
101430204 CCATTCCATA
*
101430214 ACTCAATATAACATAAAAAG
1 ACTCAATATAAAATAAAAAG
101430234 ACTCAA-ATAAAATCAAAAAG
1 ACTCAATATAAAAT-AAAAAG
101430254 CATACTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.17
Consensus pattern (20 bp):
ACTCAATATAAAATAAAAAG
Found at i:101433297 original size:77 final size:81
Alignment explanation
Indices: 101433208--101433392 Score: 207
Period size: 77 Copynumber: 2.3 Consensus size: 81
101433198 TTGACGACAA
* ** * ** *
101433208 TTCGGCTATGTATGGCACTCAATGTTTGATTTGAGATAGCTTCGGCTATGTATGGCACTT-G-GT
1 TTCGGCTATGTATGGCACTTAATGTGAGATTCGAGATAGCTTCGGCTACATATGGAACTTAGTGT
* *
101433271 GTGCGATT-CAAGAT-
66 GTGAGATTAAAAGATC
* * *
101433285 TTCGGCTATGTATAGCACTTAGTATGAGATTCGAGATAGCTTCGGCTACATATGGAACTTAGTGT
1 TTCGGCTATGTATGGCACTTAATGTGAGATTCGAGATAGCTTCGGCTACATATGGAACTTAGTGT
*
101433350 GTGAGATTAAAATATC
66 GTGAGATTAAAAGATC
*
101433366 TTCGACTATGTATTGGCACTTAATGTG
1 TTCGGCTATGTA-TGGCACTTAATGTG
101433393 TGAGAATTTG
Statistics
Matches: 86, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
77 50 0.58
78 1 0.01
79 9 0.10
80 4 0.05
81 11 0.13
82 11 0.13
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (81 bp):
TTCGGCTATGTATGGCACTTAATGTGAGATTCGAGATAGCTTCGGCTACATATGGAACTTAGTGT
GTGAGATTAAAAGATC
Found at i:101433316 original size:37 final size:37
Alignment explanation
Indices: 101433248--101433321 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
101433238 TTGAGATAGC
* * * *
101433248 TTCGGCTATGTATGGCACTTGGTGTGCGATTCAAGAT
1 TTCGGCTATGTATAGCACTTAGTATGAGATTCAAGAT
*
101433285 TTCGGCTATGTATAGCACTTAGTATGAGATTCGAGAT
1 TTCGGCTATGTATAGCACTTAGTATGAGATTCAAGAT
101433322 AGCTTCGGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (37 bp):
TTCGGCTATGTATAGCACTTAGTATGAGATTCAAGAT
Found at i:101433345 original size:40 final size:40
Alignment explanation
Indices: 101433208--101433387 Score: 134
Period size: 40 Copynumber: 4.5 Consensus size: 40
101433198 TTGACGACAA
* * * ** *
101433208 TTCGGCTATGTATGGCACTCAATGTTTGATTTGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTATGAGATTCGAGATAGC
* * * *
101433248 TTCGGCTATGTATGGCACTTGGTGTGCGATTCAAGAT---
1 TTCGGCTATGTATGGCACTTAGTATGAGATTCGAGATAGC
*
101433285 TTCGGCTATGTATAGCACTTAGTATGAGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTATGAGATTCGAGATAGC
** * * * * *
101433325 TTCGGCTACATATGGAACTTAGTGTGTGAGATT-AAAATATC
1 TTCGGCTATGTATGGCACTTA--GTATGAGATTCGAGATAGC
*
101433366 TTCGACTATGTATTGGCACTTA
1 TTCGGCTATGTA-TGGCACTTA
101433388 ATGTGTGAGA
Statistics
Matches: 110, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 32 0.29
40 47 0.43
41 14 0.13
42 17 0.15
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTATGAGATTCGAGATAGC
Found at i:101438745 original size:15 final size:15
Alignment explanation
Indices: 101438725--101438799 Score: 73
Period size: 15 Copynumber: 5.0 Consensus size: 15
101438715 CATAATATCG
*
101438725 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
101438740 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
*
101438755 TAT-TCTAGATTTCTT
1 TATCT-TGGATTTCTT
* *
101438770 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTT
101438785 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
101438800 GTTATCTTTG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
14 1 0.02
15 47 0.96
16 1 0.02
ACGTcount: A:0.12, C:0.16, G:0.15, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:101442896 original size:60 final size:60
Alignment explanation
Indices: 101442823--101442941 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
101442813 TGATGTTATG
101442823 TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATCTTCTT
1 TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATCTTCTT
* *
101442883 TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCTTTAACCATGTTCT
1 TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATCTTCT
101442942 AGCATTGAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (60 bp):
TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATCTTCTT
Found at i:101443497 original size:6 final size:6
Alignment explanation
Indices: 101443466--101443522 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
101443456 AAACATAAAC
* * * * * *
101443466 AAATAA GAATAA CATTAA CAAT-A AAATAA AAATGA AAGTAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
101443513 AAATAA AAAT
1 AAATAA AAAT
101443523 TTTGAAGTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 4 0.10
6 37 0.90
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:101454940 original size:14 final size:13
Alignment explanation
Indices: 101454917--101454949 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
101454907 AGGATATCAA
101454917 AACAAGAATTAAG
1 AACAAGAATTAAG
101454930 AACACAGAATTAAG
1 AACA-AGAATTAAG
101454944 AACAAG
1 AACAAG
101454950 TTAAACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:101468696 original size:14 final size:14
Alignment explanation
Indices: 101468677--101468708 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
101468667 ATACTTAGCA
101468677 TATTTATGGATGTT
1 TATTTATGGATGTT
101468691 TATTTATGGATGTT
1 TATTTATGGATGTT
101468705 TATT
1 TATT
101468709 ACTAGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (14 bp):
TATTTATGGATGTT
Found at i:101469863 original size:13 final size:13
Alignment explanation
Indices: 101469845--101469873 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
101469835 TTTAGTTTAA
101469845 TTAGTTAATTAGT
1 TTAGTTAATTAGT
101469858 TTAGTTAATTAGT
1 TTAGTTAATTAGT
101469871 TTA
1 TTA
101469874 ATAAAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:101473789 original size:13 final size:13
Alignment explanation
Indices: 101473771--101473799 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
101473761 TTTAGTTTAA
101473771 TTAGTTAATTAGT
1 TTAGTTAATTAGT
101473784 TTAGTTAATTAGT
1 TTAGTTAATTAGT
101473797 TTA
1 TTA
101473800 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:101485837 original size:46 final size:44
Alignment explanation
Indices: 101485783--101485959 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 44
101485773 ATATTTGGGC
101485783 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *** * *
101485827 ATGTCCGAACTCGTTGGGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
*
101485876 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *
101485920 ACACCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 A-TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101485960 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 3 0.03
46 65 0.60
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:101485941 original size:93 final size:93
Alignment explanation
Indices: 101485780--101485951 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
101485770 AGGATATTTG
** *
101485780 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAG
*
101485845 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
101485873 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CACCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACC-GAACTCGTTGA
101485937 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
101485952 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:101495208 original size:49 final size:49
Alignment explanation
Indices: 101495152--101495281 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 49
101495142 TATTGTGTGT
* *
101495152 CAGTGTAAGACCTATCTGGGACATGACATCGACACT-GATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGACATCGAC-CTCAATAGATGAAAGC
* * * * * *
101495201 CAGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCAATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGACATCGACCTCAATAGATGAAAGC
* *
101495250 CAGTGTAAGACCTTTCTGGGACACGACATCGA
1 CAGTGTAAGACCTATCTGGGACATGACATCGA
101495282 TTTTAATGTA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 2 0.03
49 65 0.97
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGACATCGACCTCAATAGATGAAAGC
Found at i:101495213 original size:93 final size:94
Alignment explanation
Indices: 101495109--101495327 Score: 225
Period size: 98 Copynumber: 2.3 Consensus size: 94
101495099 TATACAAGCT
***
101495109 AGTGTAAGACCTTTCTGGGACATGGCGTCAG-CT-TAT-TGTGTGTCAGTGTAAGACCTATCTGG
1 AGTGTAAGACCTTTCTGGGACATGGCGTCAGCCTATATATGAAAGTCAGTGTAAGACCTATCTGG
*
101495171 GACATGACATCGACACTGATAGATG-A-GAGCC
66 GACACGACATCG--A-TGATA-ATGTACGAGCC
* * *
101495202 AGTGTAAGACCTGTT-TGGGACATGGCATCGGCCTCAATATATGAAAGTCAGTGTAAGACCTTTC
1 AGTGTAAGACCT-TTCTGGGACATGGCGTCAGCCT--ATATATGAAAGTCAGTGTAAGACCTATC
** *
101495266 TGGGACACGACATCGATTTTAATGTACTAGCC
63 TGGGACACGACATCGATGATAATGTACGAGCC
*
101495298 AGTGTAAGACCATGTCTGGGACATGGCGTC
1 AGTGTAAGACC-TTTCTGGGACATGGCGTC
101495328 GGCATTTTAT
Statistics
Matches: 104, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
93 26 0.25
94 7 0.07
95 4 0.04
96 17 0.16
97 17 0.16
98 33 0.32
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (94 bp):
AGTGTAAGACCTTTCTGGGACATGGCGTCAGCCTATATATGAAAGTCAGTGTAAGACCTATCTGG
GACACGACATCGATGATAATGTACGAGCC
Found at i:101495264 original size:142 final size:138
Alignment explanation
Indices: 101495007--101495272 Score: 338
Period size: 142 Copynumber: 1.9 Consensus size: 138
101494997 TTGGGTGGTA
* * * *
101495007 TGTGAGTCAGTGTAAGACATGTCTGGGACGTGCACCGACATTGAGACAAGAGCTAGTGTAAGACA
1 TGTGAGTCAGTGTAAGACATATCTGGGACATGCACCGACACTGAGACAAGAGCCAGTGTAAGACA
* **
101495072 TGTTTGGGCCATGCATCGGCCTCGGGATATACAAGCTAGTGTAAGACCTTTCTGGGACATGGCGT
66 TGTTTGGGACATGCATCGGCCTCAAGATATACAAGCTAGTGTAAGACCTTTCTGGGACATGGCGT
101495137 CAGCTTAT
131 CAGCTTAT
* * * **
101495145 TGTGTGTCAGTGTAAGACCTATCTGGGACATGACATCGACACTGATAGATGAGAGCCAGTGTAAG
1 TGTGAGTCAGTGTAAGACATATCTGGGACATG-CACCGACACTG--AGACAAGAGCCAGTGTAAG
* *
101495210 ACCTGTTTGGGACATGGCATCGGCCTCAATATATGA-AAG-TCAGTGTAAGACCTTTCTGGGACA
63 ACATGTTTGGGACAT-GCATCGGCCTCAAGATAT-ACAAGCT-AGTGTAAGACCTTTCTGGGACA
101495273 CGACATCGAT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
138 28 0.26
139 9 0.08
141 30 0.28
142 40 0.37
143 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (138 bp):
TGTGAGTCAGTGTAAGACATATCTGGGACATGCACCGACACTGAGACAAGAGCCAGTGTAAGACA
TGTTTGGGACATGCATCGGCCTCAAGATATACAAGCTAGTGTAAGACCTTTCTGGGACATGGCGT
CAGCTTAT
Found at i:101499250 original size:20 final size:20
Alignment explanation
Indices: 101499225--101499276 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
101499215 GAGACAATGC
101499225 ACACGCCCGTGTGCTTTGGA
1 ACACGCCCGTGTGCTTTGGA
101499245 ACACGCCCGTGTGCTTTGGA
1 ACACGCCCGTGTGCTTTGGA
101499265 ACACGCCCGTGT
1 ACACGCCCGTGT
101499277 TCCTAACCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.15, C:0.33, G:0.29, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGGA
Found at i:101508421 original size:21 final size:20
Alignment explanation
Indices: 101508397--101508435 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
101508387 TATTGAAACT
*
101508397 AAAACTAATACTAATAATAGC
1 AAAACTAATA-AAATAATAGC
101508418 AAAACTAATAAAATAATA
1 AAAACTAATAAAATAATA
101508436 TAGTACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAATAATAGC
Found at i:101508510 original size:22 final size:20
Alignment explanation
Indices: 101508482--101508521 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
101508472 ATACGTACAT
101508482 ATAATATAATATTAAAATATAC
1 ATAATAT-ATA-TAAAATATAC
101508504 ATAATATATATAAAATAT
1 ATAATATATATAAAATAT
101508522 GTATTAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAATATATATAAAATATAC
Found at i:101508969 original size:3 final size:3
Alignment explanation
Indices: 101508963--101508997 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
101508953 TTAGAAGTAG
101508963 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
101508998 TTAAAGTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:101509468 original size:11 final size:11
Alignment explanation
Indices: 101509434--101509475 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
101509424 AAATCATTTT
101509434 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
101509445 GAA-AAAAAAA
1 GAAGAGAGAAA
*
101509455 GAAGGGAGAAA
1 GAAGAGAGAAA
101509466 GAAGAGAGAA
1 GAAGAGAGAA
101509476 GGCAGGGGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:101509610 original size:15 final size:16
Alignment explanation
Indices: 101509584--101509623 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
101509574 AAGGTAAATT
*
101509584 TTTTTATATATTTTTTA
1 TTTTTATAT-TTTTCTA
101509601 TTTTTATATTTTTCTA
1 TTTTTATATTTTTCTA
101509617 TGTTTTA
1 T-TTTTA
101509624 AAATATATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTTATATTTTTCTA
Found at i:101511248 original size:76 final size:76
Alignment explanation
Indices: 101510962--101511907 Score: 737
Period size: 74 Copynumber: 12.4 Consensus size: 76
101510952 AATGTGATTC
* * * * *
101510962 GAGGCTCCACTCACCTCTCGCAATATGAGTTG-A--TTTTCGAAA-ACGGAGA-TCAAAATTACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAA-TACC
101511022 TCAGCGTGTCCT
65 TCAGCGTGTCCT
* *
101511034 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTATTTTGAAAGACAGAAATTGAAATTACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
*
101511098 CAGCGTGTCTT
66 CAGCGTGTCCT
101511109 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTGAAAGACAGAAATTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
* *
101511172 CAACGTGTCTT
66 CAGCGTGTCCT
* * * * *
101511183 AAGGCTCAAATCACTTCTTGCAGTATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
* *
101511248 CAACGTGTCTT
66 CAGCGTGTCCT
* * * * *
101511259 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAA---TTTTG-AA-ACAGAAA-TAAAAATTATC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAA-TACC
*
101511318 TCAGCGTGTCCC
65 TCAGCGTGTCCT
* * * * *
101511330 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAGATAGAAATTGAAATTACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
101511395 CAGCGTGTCCT
66 CAGCGTGTCCT
* ** * * *
101511406 GAGGCTCAACTCACCTCTCGTAATATGAGTTG-ATTTAAAAAAATAGACATAAAAATAGAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT-----TTTTG----AAAGACAGAAATTG
* * *
101511470 AAAGTGA-CTCAACACGTGAGCC-
57 AAAAT-ACCTC-A-GCGTG-TCCT
* * * *
101511492 AAGGCTCAGCTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAG-TAGAATTTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
* * *
101511555 CGGCGTGCCCC
66 CAGCGTGTCCT
* * * *
101511566 GAGGCTCAACTCACCTCCCACAACATGAGTTG-A--TTTTTGAGAA-ACAGCAATTGAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGA-AAGACAGAAATTGAAAATACC
* *
101511627 TCAGTGTGACCT
65 TCAGCGTGTCCT
** * *
101511639 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTAAAAAAACTGACATAAAAACGGAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT------TTTG----AAAGACAGAAATT
* * *
101511703 GAAAGTGA-CTCAACACGTGAGCC-
56 GAAAAT-ACCTC-A-GCGTG-TCCT
* * * * *
101511726 AAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTTGAAAG-TAGAATTTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
* * * *
101511790 CGGCATGCCCC
66 CAGCGTGTCCT
* * *
101511801 GAGGCTCAACTCACCTCCCGCAACATGAGTTG-A-TTTTTTGACAA-ACAGCAATTGAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGA-AAGACAGAAATTGAAAATACC
* * *
101511863 TCAGCATGCCCC
65 TCAGCGTGTCCT
* *
101511875 GAGGCTCAACTCACCTCCCGCAAAATGAGTTGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA
101511908 TTTAAAAAAC
Statistics
Matches: 717, Mismatches: 104, Indels: 103
0.78 0.11 0.11
Matches are distributed among these distances:
70 5 0.01
71 47 0.07
72 41 0.06
73 69 0.10
74 169 0.24
75 93 0.13
76 142 0.20
77 20 0.03
78 3 0.00
80 2 0.00
81 4 0.01
82 2 0.00
84 22 0.03
85 18 0.03
86 39 0.05
87 35 0.05
88 6 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (76 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
CAGCGTGTCCT
Found at i:101511394 original size:147 final size:147
Alignment explanation
Indices: 101510962--101511675 Score: 722
Period size: 147 Copynumber: 4.7 Consensus size: 147
101510952 AATGTGATTC
* * * *
101510962 GAGGCTCCACTCACCTCTCGCAATATGAGTTG-ATTTTCGAAAACGGAGATCAAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT-GAAAACAGAAATAAAAATTACCTCAG
* *
101511026 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAA
65 CGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
101511091 ATTACCTCAGCGTGTCTT
130 ATTACCTCAGCGTGTCTT
* *
101511109 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAA-TACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGAAA-ACAGAAA-TAAAAATTACCTC
* * * * * *
101511173 AACGTGTCTTAAGGCTCAAATCACTTCTTGCAGTATGAGTTGAATTTTTTTGAAAGACAGAAATT
63 AGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAGACAGAAATT
* *
101511238 GAAAATACCTCAACGTGTCTT
127 GAAATTACCTCAGCGTGTCTT
* * * *
101511259 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTG-AAACAGAAATAAAAATTATCTCAGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATAAAAATTACCTCAGC
* * *
101511323 GTGTCCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAGATAGAAATTGAA
66 GTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAA
*
101511388 ATTACCTCAGCGTGTCCT
130 ATTACCTCAGCGTGTCTT
* ** * *
101511406 GAGGCTCAACTCACCTCTCGTAATATGAGTTG-ATTTAAAAAAATAGACATAAAAATAGAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT---TGAA-A-AC--AGAAATAAAAATT-
* * * *
101511470 AAAGTGACTCAACACGTGAGCC-AAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTTTGA
58 --A---CCTC-A-GCGTG-TCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * * * * **
101511534 AAG-TAGAATTTGAAAATACCTCGGCGTGCCCC
115 AAGACAGAAATTGAAATTACCTCAGCGTGTCTT
* * * * * *
101511566 GAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTGAGAAACAGCAATTGAAAA-TACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA-AAACAG-AAATAAAAATTACCTCA
* * *
101511630 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
64 GCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
101511676 AAAAAAACTG
Statistics
Matches: 471, Mismatches: 68, Indels: 56
0.79 0.11 0.09
Matches are distributed among these distances:
146 12 0.03
147 181 0.38
148 7 0.01
149 58 0.12
150 76 0.16
151 1 0.00
152 3 0.01
154 11 0.02
155 2 0.00
156 6 0.01
157 3 0.01
158 2 0.00
159 1 0.00
160 55 0.12
161 16 0.03
162 35 0.07
163 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (147 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATAAAAATTACCTCAGC
GTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAA
TTACCTCAGCGTGTCTT
Found at i:101511751 original size:234 final size:233
Alignment explanation
Indices: 101511035--101512009 Score: 1126
Period size: 234 Copynumber: 4.2 Consensus size: 233
101511025 GCGTGTCCTG
* * *
101511035 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG-CAGAATTTGAAAATACCTCA
* ** * * *
101511100 GCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAA
65 GCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTTGAAAGACAGAAATTGAA
* * * * * * * ***
101511165 AATACCTCAACGTGTCTTAAGGCTCAAATCACTTCTTGCAGTATGAGTTGAATTT----TTTTG-
130 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTAAAAAACTGA
* * * **
101511225 ---AAAGACAGAAATTGAAAAT-ACCTC-A-ACGTG-TCTTG
194 CATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGC-CA
* * * * * * *
101511260 AGGCTCAACTCACTTCTTGCAGTATGAGTTGA--ATTTTGAAA-CAGAA-ATAAAAATTATCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGCAGAATTTGAAAA-TACCTCA
* * * * *
101511321 GCGTGTCCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAGATAGAAATTG
65 GCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGA--TTTTTTGAAAGACAGAAATTG
* * *
101511386 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTAAAAAAATA
128 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAACT-
*
101511451 GACATAAAAATAGAAATTGAAAGTGACTCAACACGTGAGCCA
192 GACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
* * *
101511493 AGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGCAGAATTTGAAAATACCTCAG
*
101511558 CGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGA-TTTTTGAGAA-ACAGCAATTGAA
66 CGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTTGA-AAGACAGAAATTGAA
* *
101511621 AATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAACTG
130 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-AAAAAACTG
*
101511686 ACATAAAAACGGAAATTGAAAGTGACTCAACACGTGAGCCA
193 ACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
* * *
101511727 AGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGCAGAATTTGAAAATACCTCA
* * *
101511792 GCATGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTTGACAA-ACAGCAATTGA
65 GCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTTGA-AAGACAGAAATTGA
* * * * *
101511856 AAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCCCGCAAAATGAGTTGATTTAAAAAACAT-
129 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAC-TG
* *
101511920 ACATAAAAACCGAAATTGAAAGTGACTCAATACGTGAGCCA
193 ACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
* *
101511961 AGGCTCAACTCACCTCTCGGAATATGAGTTGATTTTTTTGAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGCAGAA
101512010 GTGAGACATC
Statistics
Matches: 654, Mismatches: 70, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
220 4 0.01
221 49 0.07
222 4 0.01
223 72 0.11
225 29 0.04
226 1 0.00
227 1 0.00
231 19 0.03
232 2 0.00
233 112 0.17
234 152 0.23
235 91 0.14
236 113 0.17
237 5 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (233 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGCAGAATTTGAAAATACCTCAG
CGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTTGAAAGACAGAAATTGAAA
ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAACTGACA
TAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
Found at i:101524243 original size:21 final size:20
Alignment explanation
Indices: 101524219--101524257 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
101524209 TATTGAAACT
*
101524219 AAAACTAATACTAATAATAGC
1 AAAACTAATA-AAATAATAGC
101524240 AAAACTAATAAAATAATA
1 AAAACTAATAAAATAATA
101524258 TAGTACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAATAATAGC
Found at i:101524791 original size:3 final size:3
Alignment explanation
Indices: 101524783--101524864 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
101524773 ACATTAGAAG
101524783 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
101524831 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
101524865 TAAAGTAGAG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:101525330 original size:11 final size:11
Alignment explanation
Indices: 101525296--101525337 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
101525286 AAATCATTTT
101525296 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
101525307 GAA-AAAAAAA
1 GAAGAGAGAAA
*
101525317 GAAGGGAGAAA
1 GAAGAGAGAAA
101525328 GAAGAGAGAA
1 GAAGAGAGAA
101525338 GGAGGGCGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:101525525 original size:13 final size:13
Alignment explanation
Indices: 101525509--101525547 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
101525499 AAAATAAGCT
*
101525509 TAAAAAATGAAAA
1 TAAAAAAGGAAAA
*
101525522 TAAAATAGGAAAA
1 TAAAAAAGGAAAA
*
101525535 AAAAAAAGGAAAA
1 TAAAAAAGGAAAA
101525548 CACCTTCGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (13 bp):
TAAAAAAGGAAAA
Found at i:101550707 original size:46 final size:46
Alignment explanation
Indices: 101550645--101550780 Score: 236
Period size: 46 Copynumber: 3.0 Consensus size: 46
101550635 TACAATAGAG
*
101550645 AATATGGAATTAAAGAAATAAACCAGTCACCAAGTACTCAAAGAAT
1 AATATGGAATTAAAGAAATAAACCAGTCACCAAGTATTCAAAGAAT
101550691 AATATGGAATTAAAGAAATAAACCAGTCACCAAGTATTCAAAGAAT
1 AATATGGAATTAAAGAAATAAACCAGTCACCAAGTATTCAAAGAAT
** *
101550737 AATATGGAATTAAAGAAATAAATTAATCACCAAGTATTCAAAGA
1 AATATGGAATTAAAGAAATAAACCAGTCACCAAGTATTCAAAGA
101550781 TTAAAATATT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.22
Consensus pattern (46 bp):
AATATGGAATTAAAGAAATAAACCAGTCACCAAGTATTCAAAGAAT
Found at i:101551542 original size:67 final size:67
Alignment explanation
Indices: 101551434--101551568 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
101551424 CGTCTTTGGA
101551434 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
1 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
101551499 GC
66 GC
101551501 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
1 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
101551566 GC
66 GC
101551568 C
1 C
101551569 ATTCATCATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.19
Consensus pattern (67 bp):
CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
GC
Found at i:101559712 original size:20 final size:20
Alignment explanation
Indices: 101559687--101559725 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
101559677 ATTTAGATCA
101559687 AGAAACAAACTAGTCTGTTT
1 AGAAACAAACTAGTCTGTTT
**
101559707 AGAAACGGACTAGTCTGTT
1 AGAAACAAACTAGTCTGTT
101559726 GATAAACGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (20 bp):
AGAAACAAACTAGTCTGTTT
Found at i:101559732 original size:20 final size:20
Alignment explanation
Indices: 101559695--101559734 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
101559685 CAAGAAACAA
*
101559695 ACTAGTCTGTTTAGAAACGG
1 ACTAGTCTGTTGAGAAACGG
*
101559715 ACTAGTCTGTTGATAAACGG
1 ACTAGTCTGTTGAGAAACGG
101559735 GAAAAAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
ACTAGTCTGTTGAGAAACGG
Found at i:101562793 original size:50 final size:50
Alignment explanation
Indices: 101562718--101562818 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
101562708 AACCAGCTCG
* *
101562718 ACGTGTCCCAAAAAAACCAACCTGAAAAGTGGAATAAAAAATATGTACTA
1 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATAAAAAAGATGTACTA
*
101562768 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
1 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATAAAAAAGATGTACTA
101562818 A
1 A
101562819 TGCGGGACAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.17
Consensus pattern (50 bp):
ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATAAAAAAGATGTACTA
Found at i:101575716 original size:101 final size:100
Alignment explanation
Indices: 101575528--101575727 Score: 251
Period size: 101 Copynumber: 2.0 Consensus size: 100
101575518 ACATGTGAAT
* * *
101575528 TCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATTTGTGATTCCTATATATGTGAGCGAGTA
1 TCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATATGTGATTCCAATATATGTGAGCAAGTA
* * * ***
101575593 AGACCACGTTTAATATTTTGGCATCGATATGTGAC
66 AAACCACGTCTAAGACAGTGGCATCGATATGTGAC
*
101575628 TCCGATATGTGATGTGCAAGTAAG-GCCATGGCATCGATATGTGATTCCAATATATGTGTGCAAG
1 TCCGATATGTGATGTGCAAGTAAGAG--ATGGCATCGATATGTGATTCCAATATATGTGAGCAAG
**
101575692 TAAAACC-CTGTCTGGGACAGTGGCATCGATATGTGA
64 TAAAACCAC-GTCTAAGACAGTGGCATCGATATGTGA
101575728 TTACATGTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
99 1 0.01
100 25 0.29
101 59 0.69
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (100 bp):
TCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATATGTGATTCCAATATATGTGAGCAAGTA
AAACCACGTCTAAGACAGTGGCATCGATATGTGAC
Found at i:101579797 original size:40 final size:40
Alignment explanation
Indices: 101579738--101579837 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
101579728 TGATTGTATA
101579738 TATATATGGCACTTAGTGTGCAATTC-GAGATAGCTTCGGCT
1 TATATATGGCACTTAGTGTGCAATTCAGA-ATAGCTTCGG-T
*
101579779 T-TTTATGGCACTTAGTGTGCAATTCAGAATAGCTTCGGT
1 TATATATGGCACTTAGTGTGCAATTCAGAATAGCTTCGGT
101579818 TATATATGGCACTTAGTGTG
1 TATATATGGCACTTAGTGTG
101579838 TGAGACTGAG
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
39 2 0.04
40 50 0.91
41 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCAATTCAGAATAGCTTCGGT
Found at i:101581260 original size:30 final size:31
Alignment explanation
Indices: 101581226--101581285 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
101581216 TTTCATATTT
101581226 CATATTTCATAACACTGGGCC-AAGCCTTTC
1 CATATTTCATAACACTGGGCCGAAGCCTTTC
**
101581256 CATATTTCATATTACTGGGCCGAAGCCTTT
1 CATATTTCATAACACTGGGCCGAAGCCTTT
101581286 ACTGTAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (31 bp):
CATATTTCATAACACTGGGCCGAAGCCTTTC
Found at i:101581527 original size:24 final size:24
Alignment explanation
Indices: 101581491--101581642 Score: 236
Period size: 24 Copynumber: 6.4 Consensus size: 24
101581481 CTGGAGGCCT
*
101581491 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
101581516 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
101581540 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
**
101581563 AGCCCTTTCGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
101581587 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
101581611 AGCCC-TTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
101581634 AGCCCTTTT
1 AGCCCTTTT
101581643 TCACTTCCTC
Statistics
Matches: 119, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
23 44 0.37
24 71 0.60
25 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:101581582 original size:71 final size:71
Alignment explanation
Indices: 101581502--101581641 Score: 253
Period size: 71 Copynumber: 2.0 Consensus size: 71
101581492 GCCTCTTTTA
*
101581502 ATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
101581567 CTTTCG
66 CTTTCG
* *
101581573 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
1 ATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
101581638 CTTT
66 CTTT
101581642 TTCACTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (71 bp):
ATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
CTTTCG
Found at i:101581642 original size:47 final size:47
Alignment explanation
Indices: 101581491--101581642 Score: 234
Period size: 47 Copynumber: 3.2 Consensus size: 47
101581481 CTGGAGGCCT
*
101581491 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATA
*
101581540 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTCGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTT-AATAACTGGGGCATA
* *
101581587 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
101581634 AGCCCTTTT
1 AGCCCTTTT
101581643 TCACTTCCTC
Statistics
Matches: 96, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
46 3 0.03
47 63 0.66
48 26 0.27
49 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
Found at i:101581717 original size:20 final size:20
Alignment explanation
Indices: 101581692--101581758 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
101581682 TTATGATTAC
101581692 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
101581712 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
101581732 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
101581752 ACCATGT
1 ATCATGT
101581759 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:101581723 original size:11 final size:11
Alignment explanation
Indices: 101581692--101581747 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
101581682 TTATGATTAC
101581692 ATCATGTGCAT
1 ATCATGTGCAT
*
101581703 ATCA--TACAT
1 ATCATGTGCAT
101581712 ATCATGTGCAT
1 ATCATGTGCAT
*
101581723 ATCA--TACAT
1 ATCATGTGCAT
*
101581732 GTCATGTGCAT
1 ATCATGTGCAT
101581743 ATCAT
1 ATCAT
101581748 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:101581827 original size:25 final size:25
Alignment explanation
Indices: 101581795--101581842 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
101581785 ATCCACAAAC
* * *
101581795 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
101581820 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
101581843 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:101589626 original size:23 final size:24
Alignment explanation
Indices: 101589565--101589715 Score: 245
Period size: 23 Copynumber: 6.4 Consensus size: 24
101589555 CTGGAGGCCT
*
101589565 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
101589590 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
101589614 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
101589637 AGCCCTTTTGATAACT-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
101589660 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
101589684 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
101589707 AGCCCTTTT
1 AGCCCTTTT
101589716 TCACTTCCTC
Statistics
Matches: 120, Mismatches: 3, Indels: 7
0.92 0.02 0.05
Matches are distributed among these distances:
23 68 0.57
24 48 0.40
25 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:101589667 original size:70 final size:71
Alignment explanation
Indices: 101589565--101589715 Score: 259
Period size: 70 Copynumber: 2.1 Consensus size: 71
101589555 CTGGAGGCCT
101589565 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
1 AGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
101589630 GGGCATA
65 GGGCATA
* * *
101589637 AGCCCTTTTGATAACT-GGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGG
1 AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGG
101589701 GGCATA
66 GGCATA
101589707 AGCCCTTTT
1 AGCCCTTTT
101589716 TCACTTCCTC
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
70 61 0.80
71 11 0.14
72 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (71 bp):
AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGG
GGCATA
Found at i:101589715 original size:47 final size:48
Alignment explanation
Indices: 101589565--101589715 Score: 245
Period size: 47 Copynumber: 3.2 Consensus size: 48
101589555 CTGGAGGCCT
*
101589565 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
101589614 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
101589660 AGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
101589707 AGCCCTTTT
1 AGCCCTTTT
101589716 TCACTTCCTC
Statistics
Matches: 96, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
46 21 0.22
47 70 0.73
48 1 0.01
49 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:101589789 original size:20 final size:20
Alignment explanation
Indices: 101589764--101589830 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
101589754 TTATGATTAC
101589764 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
101589784 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
101589804 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
101589824 ACCATGT
1 ATCATGT
101589831 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:101589795 original size:11 final size:11
Alignment explanation
Indices: 101589764--101589819 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
101589754 TTATGATTAC
101589764 ATCATGTGCAT
1 ATCATGTGCAT
*
101589775 ATCA--TACAT
1 ATCATGTGCAT
101589784 ATCATGTGCAT
1 ATCATGTGCAT
*
101589795 ATCA--TACAT
1 ATCATGTGCAT
*
101589804 GTCATGTGCAT
1 ATCATGTGCAT
101589815 ATCAT
1 ATCAT
101589820 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:101589898 original size:25 final size:25
Alignment explanation
Indices: 101589866--101589913 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
101589856 CATCATAAAC
* *
101589866 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
101589891 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
101589914 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:101594326 original size:28 final size:26
Alignment explanation
Indices: 101594286--101594361 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 26
101594276 ATATATAAAT
* *
101594286 ATTATAAAATAATTATTTTGTACTTAA
1 ATTATAAAATAATTAATTT-TAATTAA
*
101594313 ATTATTAACATAATTAATTTTAATTAA
1 ATTA-TAAAATAATTAATTTTAATTAA
*
101594340 ATT-T---ATAATAAATTTTAATTAA
1 ATTATAAAATAATTAATTTTAATTAA
101594362 TTTTGATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 17 0.39
25 1 0.02
27 13 0.30
28 13 0.30
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTATAAAATAATTAATTTTAATTAA
Found at i:101594338 original size:10 final size:10
Alignment explanation
Indices: 101594323--101594374 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
101594313 ATTATTAACA
101594323 TAATTAATTT
1 TAATTAATTT
101594333 TAATTAAATTT
1 TAATT-AATTT
*
101594344 ATAATAAATTT
1 -TAATTAATTT
101594355 TAATTAATTT
1 TAATTAATTT
*
101594365 TGATT-ATTT
1 TAATTAATTT
101594374 T
1 T
101594375 CGACAGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 5 0.14
10 18 0.49
11 10 0.27
12 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TAATTAATTT
Found at i:101594339 original size:27 final size:27
Alignment explanation
Indices: 101594286--101594347 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
101594276 ATATATAAAT
* *
101594286 ATTATAAAATAATTATTTTGTACTTAA
1 ATTATAAAATAATTAATTTGTAATTAA
*
101594313 ATTATTAACATAATTAATTT-TAATTAA
1 ATTA-TAAAATAATTAATTTGTAATTAA
101594340 ATTTATAA
1 A-TTATAA
101594348 TAAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATAAAATAATTAATTTGTAATTAA
Found at i:101597256 original size:42 final size:40
Alignment explanation
Indices: 101597148--101597298 Score: 115
Period size: 43 Copynumber: 3.6 Consensus size: 40
101597138 GTCTAAGATA
* *
101597148 TCGTGTAAGACCGTGTCTGGGACACAGGCTTCG-ATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACAC-GGCATCGTATT--GATT
* *
101597190 TACGTATAAGAGCATGTCTGGGACATCGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACA-CGGCATCGTAT-TGATT
* * *
101597233 TCGTGTAAGACCCTGTCTTGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACA-CGGCATCG-TATTG-ATT
* * * *
101597276 ACATGTAAGACCACGTCCGGGAC
1 TCGTGTAAGACCATGTCTGGGAC
101597299 GTTGGCATTG
Statistics
Matches: 87, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
42 29 0.33
43 54 0.62
44 3 0.03
45 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCGTGTAAGACCATGTCTGGGACACGGCATCGTATTGATT
Found at i:101602663 original size:41 final size:41
Alignment explanation
Indices: 101602579--101602726 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
101602569 GATTCGGATA
* * *
101602579 TATATATGGCACTTAGTGTGTGA-TTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGC
* *
101602619 TATATATGGCACTTAGTGTGCGAGACCAAGATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGC
* * *
101602660 TATATAAGGCACTTAGTGTGCAAGATTATA-ATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATCA-AGATAGCTTCGGC
*
101602701 TATGTATTGGCACTTAGTGTGCGAGA
1 TATATA-TGGCACTTAGTGTGCGAGA
101602727 ATTTGAGTAT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 22 0.24
41 52 0.57
42 18 0.20
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGC
Found at i:101608062 original size:27 final size:26
Alignment explanation
Indices: 101608018--101608069 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
101608008 CTCGCTGCAA
*
101608018 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
101608045 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
101608070 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:101608134 original size:33 final size:32
Alignment explanation
Indices: 101608085--101608148 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
101608075 CTCGCTGCAA
* *
101608085 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
101608118 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
101608149 GTGACTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:101608162 original size:27 final size:26
Alignment explanation
Indices: 101608110--101608169 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
101608100 ACATATATAT
*
101608110 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
101608136 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
101608163 ATATCTG
1 ATATCTG
101608170 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:101617147 original size:12 final size:12
Alignment explanation
Indices: 101617130--101617154 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101617120 ACTTATAAGG
101617130 TTAAATATGTAA
1 TTAAATATGTAA
101617142 TTAAATATGTAA
1 TTAAATATGTAA
101617154 T
1 T
101617155 CAATTAATTA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAAATATGTAA
Found at i:101624857 original size:14 final size:13
Alignment explanation
Indices: 101624834--101624865 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
101624824 GGAATATCAA
101624834 AACAATAATTAAG
1 AACAATAATTAAG
101624847 AACACATAATTAAG
1 AACA-ATAATTAAG
101624861 AACAA
1 AACAA
101624866 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:101627047 original size:27 final size:27
Alignment explanation
Indices: 101627016--101627119 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
101627006 CCCCAAAATA
* *
101627016 GGTAAAATAATCATAATACCCCTATAG
1 GGTAAAATGACCATAATACCCCTATAG
* * ** *
101627043 GGTAAAATGACCGTAATGCCGTTGTAG
1 GGTAAAATGACCATAATACCCCTATAG
*
101627070 GGTAAAATGACCGTAA-AGCCCCTATAG
1 GGTAAAATGACCATAATA-CCCCTATAG
*
101627097 GGTAAAATGATCATAATACCCCT
1 GGTAAAATGACCATAATACCCCT
101627120 TTATGATAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
27 61 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCATAATACCCCTATAG
Found at i:101629562 original size:2 final size:2
Alignment explanation
Indices: 101629509--101629545 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
101629499 AAGTAACAAC
*
101629509 TA TA TA TG TA 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 TA TA TA TA TA T
101629546 CTATTTTCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101632840 original size:79 final size:82
Alignment explanation
Indices: 101632700--101632884 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
101632690 TCGAATGATG
* * *
101632700 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
101632764 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
101632780 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
101632842 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
101632860 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
101632885 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:101632892 original size:40 final size:40
Alignment explanation
Indices: 101632701--101632892 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
101632691 CGAATGATGT
* * * * *
101632701 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
101632741 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
101632781 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
101632820 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
101632860 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
101632893 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:101632915 original size:79 final size:79
Alignment explanation
Indices: 101632700--101632917 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
101632690 TCGAATGATG
* * * * ** *
101632700 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
101632763 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
101632780 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
101632845 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
101632860 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
101632918 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:101640429 original size:2 final size:2
Alignment explanation
Indices: 101640422--101640446 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
101640412 AAGTAACAAG
101640422 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 T
101640447 CTGTTTTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:101640976 original size:27 final size:27
Alignment explanation
Indices: 101640946--101641005 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
101640936 GGAAGTATTG
*
101640946 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGACTATGCCACATTCACTGT
* * * *
101640973 TACTAGTGGCTTTGCCACATTTACTGT
1 TACTGGTGACTATGCCACATTCACTGT
*
101641000 TTCTGG
1 TACTGG
101641006 CAGCTATGCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (27 bp):
TACTGGTGACTATGCCACATTCACTGT
Found at i:101642521 original size:45 final size:44
Alignment explanation
Indices: 101642470--101642573 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 44
101642460 CTAATTATGG
* ** *
101642470 GCACTTAATGTGTGAAATCGAGATAGCTTCGGATATATATATTTT
1 GCACTTAGTGTGCAAAATCGAGATAGCTTCGGATATATATA-TAT
* *
101642515 GCACTTAGCGTGCAAAATCGAGATAGCTTCGGCTATATATATAT
1 GCACTTAGTGTGCAAAATCGAGATAGCTTCGGATATATATATAT
101642559 GCACTTAGTGTGCAA
1 GCACTTAGTGTGCAA
101642574 GATTGATACA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
44 16 0.31
45 36 0.69
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (44 bp):
GCACTTAGTGTGCAAAATCGAGATAGCTTCGGATATATATATAT
Found at i:101642587 original size:44 final size:45
Alignment explanation
Indices: 101642484--101642594 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 45
101642474 TTAATGTGTG
* * *
101642484 AAATCGAGATAGCTTCGGATATATATATTTTGCACTTAGCGTGCA
1 AAATCGAGACAGCTTCGGCTATATATATTATGCACTTAGCGTGCA
* *
101642529 AAATCGAGATAGCTTCGGCTATATATA-TATGCACTTAGTGTGCA
1 AAATCGAGACAGCTTCGGCTATATATATTATGCACTTAGCGTGCA
* * * *
101642573 AGATTGATACAGCTTCGACTAT
1 AAATCGAGACAGCTTCGGCTAT
101642595 TTATTTGGCA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 32 0.55
45 26 0.45
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (45 bp):
AAATCGAGACAGCTTCGGCTATATATATTATGCACTTAGCGTGCA
Found at i:101651404 original size:22 final size:22
Alignment explanation
Indices: 101651376--101651420 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
101651366 AAGATTTGGA
101651376 AAACCAAATGGGTTAGTTAGCT
1 AAACCAAATGGGTTAGTTAGCT
101651398 AAACCAAATGGGTTAGTTAGCT
1 AAACCAAATGGGTTAGTTAGCT
101651420 A
1 A
101651421 CGGAGCTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (22 bp):
AAACCAAATGGGTTAGTTAGCT
Found at i:101652572 original size:42 final size:42
Alignment explanation
Indices: 101652525--101652608 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
101652515 AAGTATGACT
101652525 TAGAAAGGGGTGGCTCTCGTCTAGAATTTTCTGGAGAATAAA
1 TAGAAAGGGGTGGCTCTCGTCTAGAATTTTCTGGAGAATAAA
101652567 TAGAAAGGGGTGGCTCTCGTCTAGAATTTTCTGGAGAATAAA
1 TAGAAAGGGGTGGCTCTCGTCTAGAATTTTCTGGAGAATAAA
101652609 ACCACACGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (42 bp):
TAGAAAGGGGTGGCTCTCGTCTAGAATTTTCTGGAGAATAAA
Found at i:101653322 original size:13 final size:13
Alignment explanation
Indices: 101653300--101653330 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
101653290 TTACTTTAGT
101653300 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
101653312 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
101653325 TTAGTT
1 TTAGTT
101653331 AATAAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:101657077 original size:17 final size:18
Alignment explanation
Indices: 101657055--101657089 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
101657045 GTTTACCCGA
*
101657055 GTGGGGTCCACAT-GCTC
1 GTGGGGCCCACATAGCTC
101657072 GTGGGGCCCACATAGCTC
1 GTGGGGCCCACATAGCTC
101657090 AATTTGGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.14, C:0.31, G:0.34, T:0.20
Consensus pattern (18 bp):
GTGGGGCCCACATAGCTC
Found at i:101657934 original size:14 final size:15
Alignment explanation
Indices: 101657912--101657941 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
101657902 GAATATTAAA
101657912 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
101657927 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
101657941 A
1 A
101657942 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:101677366 original size:40 final size:40
Alignment explanation
Indices: 101677264--101677369 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
101677254 TGATAGTTGT
* * *
101677264 GGCTAAGTCCCGAAGAGCATTCATGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGATGTTACATCCG
*
101677304 AGCTAAGTCCCGAAGAGCATTCGTGCTGATGTTACATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGATGTTACATCCG
* * *
101677344 GGCTAAGTCCTGAAGGGTATTCGTGC
1 GGCTAAGTCCCGAAGAGCATTCGTGC
101677370 CGGTGATGTG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTGATGTTACATCCG
Found at i:101677576 original size:25 final size:25
Alignment explanation
Indices: 101677537--101677591 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
101677527 TGTGTAATAA
101677537 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
*
101677562 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGCACTATGTGTG
101677587 CGAAT
1 CGAAT
101677592 TCTTTAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:101682778 original size:28 final size:29
Alignment explanation
Indices: 101682711--101682811 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
101682701 ATAGTGAATC
*
101682711 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
101682740 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
101682768 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
101682798 CGCACACTTAGTGC
1 CGCACACTTAGTGC
101682812 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:101704700 original size:22 final size:22
Alignment explanation
Indices: 101704648--101704712 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
101704638 TTAAAGCATT
* *
101704648 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
101704670 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
101704692 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
101704713 ATGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:101704901 original size:27 final size:27
Alignment explanation
Indices: 101704871--101704999 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
101704861 ATTCTGTTAA
* * *
101704871 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
*
101704898 GTGGCTATGCCACAAATATCTGT-TCTG
1 GTGGCTCTGCCAC-AATATCTGTATCTG
101704925 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
*
101704952 ATGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * *
101704979 GTGACTCTGTCACAGTATCTG
1 GTGGCTCTGCCACAATATCTG
101705000 ATAACTGAAC
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.10
27 75 0.82
28 8 0.09
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:101705173 original size:6 final size:6
Alignment explanation
Indices: 101705136--101705285 Score: 94
Period size: 6 Copynumber: 24.3 Consensus size: 6
101705126 TTGCATTCAC
* * * *
101705136 ATTCTG ATTTTT ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
101705185 -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG -TTACTTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG
* * *
101705235 ATTCTG ATTCTG -TCACCTG ATTTTG ATTCTG ATTTTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
101705284 AT
1 AT
101705286 AATATTACTT
Statistics
Matches: 110, Mismatches: 20, Indels: 28
0.70 0.13 0.18
Matches are distributed among these distances:
5 8 0.07
6 85 0.77
7 13 0.12
8 4 0.04
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:101705199 original size:37 final size:31
Alignment explanation
Indices: 101705136--101705276 Score: 228
Period size: 31 Copynumber: 4.5 Consensus size: 31
101705126 TTGCATTCAC
*
101705136 ATTCTGATTTTTATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
101705167 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
101705198 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * **
101705229 ATTCTGATTCTGATTCTGTCACCTGATTTTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
101705260 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
101705277 AGTTCTGATA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 102 1.00
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:101705230 original size:19 final size:19
Alignment explanation
Indices: 101705177--101705234 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
101705167 ATTCTGATTT
*
101705177 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACTTGATAC
101705196 TGATTCTG--A-TT--T--
1 TGATTCTGTTACTTGATAC
101705208 TGATTCTGTTACTTGATAC
1 TGATTCTGTTACTTGATAC
101705227 TGATTCTG
1 TGATTCTG
101705235 ATTCTGATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
12 8 0.26
14 2 0.06
15 2 0.06
16 1 0.03
17 2 0.06
19 16 0.52
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (19 bp):
TGATTCTGTTACTTGATAC
Found at i:101707271 original size:27 final size:27
Alignment explanation
Indices: 101707241--101707406 Score: 188
Period size: 27 Copynumber: 6.1 Consensus size: 27
101707231 TTAGTTTACC
*
101707241 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * * *
101707268 AAATCACTAAAATACCCTTGGTATATA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
101707295 AAATCACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
101707322 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
101707349 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
101707376 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
101707403 AAAT
1 AAAT
101707407 ACCCCTGTAG
Statistics
Matches: 116, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:101707310 original size:54 final size:54
Alignment explanation
Indices: 101707231--101707406 Score: 253
Period size: 54 Copynumber: 3.3 Consensus size: 54
101707221 TTAGAATACT
** *
101707231 TTAGTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
* * * * *
101707285 TTGGTATATAAAATCACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
* *
101707339 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
*
101707393 TTTGTTTATAAAAT
1 TTAGTTTATAAAAT
101707407 ACCCCTGTAG
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (54 bp):
TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
Found at i:101707444 original size:27 final size:27
Alignment explanation
Indices: 101707403--101707797 Score: 481
Period size: 27 Copynumber: 15.0 Consensus size: 27
101707393 TTTGTTTATA
101707403 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
101707430 GAATACCTCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
101707457 AAATACCCCTATAGGGTAGAA-T----
1 AAATACCCCTGTAGGGTAGAATTACCG
101707479 ---TACCCCTGTAGGGTAGAATTACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
*
101707502 AGAATACCCCTGTAGGGTAGAATTATC-
1 A-AATACCCCTGTAGGGTAGAATTACCG
*
101707529 ACAATACCCCTGTAGGGTAAAATTACCG
1 A-AATACCCCTGTAGGGTAGAATTACCG
* * *
101707557 AAGTACCCCTATAGGGTAGAATTAACG
1 AAATACCCCTGTAGGGTAGAATTACCG
101707584 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
101707611 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
101707638 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
101707665 AAATACCCTTGTAGAGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
101707692 CAATACCCCTGCAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
101707719 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
101707746 AAATA-CCCTAGTAGGGTGGAATTACCG
1 AAATACCCCT-GTAGGGTAGAATTACCG
* * * *
101707773 AGATA-CCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
101707798 ATTTTGCCCT
Statistics
Matches: 320, Mismatches: 38, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
19 17 0.05
20 1 0.00
26 18 0.06
27 283 0.88
28 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:101707484 original size:19 final size:19
Alignment explanation
Indices: 101707460--101707501 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
101707450 ATTACTGAAA
101707460 TACCCCTATAGGGTAGAAT
1 TACCCCTATAGGGTAGAAT
*
101707479 TACCCCTGTAGGGTAGAAT
1 TACCCCTATAGGGTAGAAT
101707498 TACC
1 TACC
101707502 AGAATACCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (19 bp):
TACCCCTATAGGGTAGAAT
Found at i:101708275 original size:22 final size:22
Alignment explanation
Indices: 101708223--101708287 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
101708213 TTAAAGCCTT
* *
101708223 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
101708245 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
101708267 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
101708288 ACGTATTTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:101708476 original size:27 final size:27
Alignment explanation
Indices: 101708446--101708573 Score: 134
Period size: 27 Copynumber: 4.8 Consensus size: 27
101708436 ATTCTGTTAA
* * *
101708446 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
101708473 GTGGCTATGCCACAAATAT-TG-GTCTG
1 GTGGCTCTGCCAC-AATATCTGTATCTG
*
101708499 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
*
101708526 ATGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * * *
101708553 GTGACTTTGTCACAGTATCTG
1 GTGGCTCTGCCACAATATCTG
101708574 ATAACTGAGC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
25 5 0.06
26 17 0.20
27 59 0.69
28 4 0.05
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:101708750 original size:6 final size:6
Alignment explanation
Indices: 101708739--101708859 Score: 81
Period size: 6 Copynumber: 19.8 Consensus size: 6
101708729 TTACCTAATA
* * *
101708739 CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* * * *
101708788 CTG-TT ACTTGATA CTGATT CTGATT TTGATT CTG-TCAC CTGATT CTAATT
1 CTGATT -C-TGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
101708838 CTGATT -TGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
101708860 AATGTTTCTT
Statistics
Matches: 89, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 11 0.12
6 65 0.73
7 10 0.11
8 3 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
CTGATT
Found at i:101708761 original size:31 final size:31
Alignment explanation
Indices: 101708710--101708850 Score: 212
Period size: 31 Copynumber: 4.5 Consensus size: 31
101708700 TTGCATTCAC
* *
101708710 ATTCTGATTTTTTATTCTGTTACCTAATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
101708742 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
101708773 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
101708804 ATTCTGATTTTGATTCTGTCACCTGATTCTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
101708835 ATTCTGA-TTTGATTCT
1 ATTCTGATTTTGATTCT
101708851 AGTTCTGATA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
30 9 0.09
31 86 0.84
32 7 0.07
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:101708805 original size:19 final size:19
Alignment explanation
Indices: 101708752--101708809 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
101708742 ATTCTGATTT
*
101708752 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACTTGATAC
101708771 TGATTCTG--A-TT--T--
1 TGATTCTGTTACTTGATAC
101708783 TGATTCTGTTACTTGATAC
1 TGATTCTGTTACTTGATAC
101708802 TGATTCTG
1 TGATTCTG
101708810 ATTTTGATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
12 8 0.26
14 2 0.06
15 2 0.06
16 1 0.03
17 2 0.06
19 16 0.52
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (19 bp):
TGATTCTGTTACTTGATAC
Found at i:101708849 original size:17 final size:17
Alignment explanation
Indices: 101708827--101708859 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
101708817 TTCTGTCACC
101708827 TGATTCTAATTCTGATT
1 TGATTCTAATTCTGATT
*
101708844 TGATTCTAGTTCTGAT
1 TGATTCTAATTCTGAT
101708860 AATGTTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (17 bp):
TGATTCTAATTCTGATT
Found at i:101710780 original size:12 final size:13
Alignment explanation
Indices: 101710744--101710781 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
101710734 AAATATTTGA
101710744 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
101710757 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
101710771 CTTG-TCTTAAT
1 CTTGTTCTTAAT
101710782 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:101718674 original size:27 final size:28
Alignment explanation
Indices: 101718612--101718674 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
101718602 CAGTCACTTG
*
101718612 CCCACAA-GGGCAAAATAGTCATTTAAC
1 CCCACAAGGGGCAAAATAGTAATTTAAC
* * *
101718639 ACC-CTAGGGGCAAAAT-GTAATTTTAC
1 CCCACAAGGGGCAAAATAGTAATTTAAC
101718665 CCCACAAGGG
1 CCCACAAGGG
101718675 TATTTCAGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (28 bp):
CCCACAAGGGGCAAAATAGTAATTTAAC
Found at i:101718685 original size:27 final size:27
Alignment explanation
Indices: 101718655--101718716 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
101718645 GGGGCAAAAT
101718655 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
101718682 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
101718709 GTAATTTT
1 GTAATTTT
101718717 TCAAACCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:101718727 original size:54 final size:54
Alignment explanation
Indices: 101718669--101718797 Score: 152
Period size: 54 Copynumber: 2.4 Consensus size: 54
101718659 TTTTACCCCA
** *
101718669 CAAGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAAC
1 CAAGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAAC
** * *
101718723 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAAC
** *
101718777 TGAGGGTATTTCTGTAATTTT
1 CAAGGGTATTTCAGTAATTTT
101718798 GTAAATCGAG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.05
54 60 0.95
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAAC
Found at i:101718729 original size:27 final size:27
Alignment explanation
Indices: 101718699--101718797 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
101718689 TACCCTACAG
* * *
101718699 GGGTATTTTAGTAATTTTTCAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAA
*
101718726 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
101718753 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACTAA
101718780 GGGTATTTCT-GTAATTTT
1 GGGTATTT-TGGTAATTTT
101718798 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
27 63 0.98
28 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:101718803 original size:27 final size:27
Alignment explanation
Indices: 101718699--101718811 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 27
101718689 TACCCTACAG
* * * *
101718699 GGGTATTTTAGTAATTTTTCAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
101718726 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
101718752 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
**
101718780 GGGTATTTCT-GTAATTTTGTAAATCGA
1 GGGTATTT-TGGTAATTTTACAAATCGA
101718807 GGGTA
1 GGGTA
101718812 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.03
27 71 0.95
28 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:101718820 original size:27 final size:27
Alignment explanation
Indices: 101718790--101719037 Score: 320
Period size: 27 Copynumber: 9.2 Consensus size: 27
101718780 GGGTATTTCT
* *
101718790 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
101718817 GTAATTCTGTAAATCAAGAG-AAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
101718843 GTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
101718869 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* * *
101718897 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
101718924 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
101718951 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
101718978 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
101719005 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
101719032 GTAATT
1 GTAATT
101719038 TTACAAGTCA
Statistics
Matches: 191, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 23 0.12
27 167 0.87
28 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Done.