Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 113 of 203
Found at i:35713759 original size:44 final size:44
Alignment explanation
Indices: 35713700--35713906 Score: 187
Period size: 45 Copynumber: 4.6 Consensus size: 44
35713690 TCCCATCTAG
35713700 CCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA-A
1 CCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAGA
* * *
35713743 GTCTTATCCTCCTGAAGTTGCAAT-GAGGCAGACTGAAGATTGCAGA
1 -CCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACTGAAGATAGCAGA
* *
35713789 CCTTAACTCCCTGAAGTTGTAGTGGAGCAGACT-AAG-TAAGCA-A
1 CCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAGA
* * *
35713832 GTCTTATCGTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATTGCAGA
1 -CCTTATC-TCCTGAAGTTGCAGTGGA-GCAGACTGAAGATAGCAGA
35713878 CCTTATCTCTCTGAAGTTGCAGTGGAGCA
1 CCTTATCTC-CTGAAGTTGCAGTGGAGCA
35713907 AGTTAAAGCC
Statistics
Matches: 132, Mismatches: 15, Indels: 31
0.74 0.08 0.17
Matches are distributed among these distances:
43 6 0.05
44 57 0.43
45 61 0.46
46 8 0.06
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
CCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
Found at i:35713813 original size:89 final size:89
Alignment explanation
Indices: 35713700--35713906 Score: 351
Period size: 89 Copynumber: 2.3 Consensus size: 89
35713690 TCCCATCTAG
* *
35713700 CCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
35713765 ATGAGGCAGACTGAAGATTGCAGA
66 ATGAGGCAGACTGAAGATTGCAGA
* * *
35713789 CCTTAACTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCGTCCTAAAGTTGCA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
*
35713854 GTGAGGCAGACTGAAGATTGCAGA
66 ATGAGGCAGACTGAAGATTGCAGA
*
35713878 CCTTATCTCTCTGAAGTTGCAGTGGAGCA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCA
35713907 AGTTAAAGCC
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 109 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (89 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
ATGAGGCAGACTGAAGATTGCAGA
Found at i:35714036 original size:217 final size:217
Alignment explanation
Indices: 35713790--35714470 Score: 1056
Period size: 217 Copynumber: 3.1 Consensus size: 217
35713780 GATTGCAGAC
* * * * *
35713790 CTTAACTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCGTCCTAAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAG
*
35713855 TGAGGCAGACTGAAGATTGCAGACCTTATCTCTCTGAAGTTGCAGTGGAGCAAGTTAAAGCCGAT
66 TGAGGCAGACTGAAGATTGCAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGCCGAT
** **
35713920 AATCCTATCTCCCTGAAGTTATAGTGGAACGGATTAAAACCTTGGATCTTATTTCTCTGAAGTCA
131 AATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCTTGGATCTTATTTCTCTGAAGTTG
* *
35713985 CAGAGAGCAGATCCCATCTAAT
196 CAGAGAGAAGATCACATCTAAT
*
35714007 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCTTATCCTCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAG
* * * *
35714072 TGGGGCAGATTGAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGCCGAT
66 TGAGGCAGACTGAAGATTGCAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGCCGAT
*
35714137 AATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCTTGGATCTTATTTCTCTAAAGTTG
131 AATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCTTGGATCTTATTTCTCTGAAGTTG
* *
35714202 CAGAGAGTAGATCACATCTAGT
196 CAGAGAGAAGATCACATCTAAT
* *
35714224 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAG
* * *
35714289 TGAGGCAAACTGAAGATTGCAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCTGAT
66 TGAGGCAGACTGAAGATTGCAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGCCGAT
* * *
35714354 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGCAGTTG
131 AATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCTTGGATCTTATTTCTCTGAAGTTG
* *
35714419 CAGAGAGAAGATCGCATCTACT
196 CAGAGAGAAGATCACATCTAAT
** * *
35714441 CTTATCTTTCTAAAATTGCAGTGGAACAGA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGA
35714471 TTAATGGAGT
Statistics
Matches: 422, Mismatches: 42, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
217 422 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAG
TGAGGCAGACTGAAGATTGCAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGCCGAT
AATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCTTGGATCTTATTTCTCTGAAGTTG
CAGAGAGAAGATCACATCTAAT
Found at i:35714114 original size:45 final size:44
Alignment explanation
Indices: 35713700--35714383 Score: 221
Period size: 44 Copynumber: 15.6 Consensus size: 44
35713690 TCCCATCTAG
* *
35713700 CCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * * *
35713744 TCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGACTGAAG-ATTGCAGA
1 CCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
* * *
35713789 CCTTAACTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * * *
35713833 TCTTATCGT-CCTAAAGTTGCAGT-GAGGCAGACTGAAG-ATTGCAGA
1 CCTTATC-TCCCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
* * *
35713878 CCTTATCTCTCTGAAGTTGCAGTGGAGCA-AGTTA--AAGCCGATAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-AA
** * * * * **
35713922 TCC-TATCTCCCTGAAGTTATAGTGGAACGGATTAA--AACCTTGGA
1 -CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAA
* * * ** * ** *
35713966 TCTTATTTCTCTGAAGTCACAG-AGAGCAGATCCCA-T---CTAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAA
* * * *
35714006 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGTAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * *
35714050 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGATTGAAG-ATAGCAAA
1 CCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGTA-AGCAAA
* *
35714095 CCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTA--AAGCCGATAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-AA
* * * * **
35714139 TCC-TATCTCCCTGAAGTTGCAGTGGAACGGATTAA--AACCTTGGA
1 -CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAA
* * * * * * * * * * *
35714183 TCTTATTTCTCTAAAGTTGCAG-AGAGTAGA-TCA--CATCTAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * *
35714223 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * * *
35714267 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAAACTGAAG-ATTGCAGA
1 CCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
** * * *
35714312 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCTGA-TAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAA
35714357 CC-TATCTCCCTGAAGTTGCAGTGGAGC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGC
35714384 GGATTAAAAC
Statistics
Matches: 474, Mismatches: 116, Indels: 100
0.69 0.17 0.14
Matches are distributed among these distances:
40 39 0.08
41 18 0.04
42 11 0.02
43 24 0.05
44 232 0.49
45 141 0.30
46 9 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
Found at i:35714407 original size:44 final size:43
Alignment explanation
Indices: 35713619--35714421 Score: 217
Period size: 44 Copynumber: 18.4 Consensus size: 43
35713609 GCAATAAGCC
* ** *
35713619 TATCTCGCTGAAGTTGCAGTGGAGTGGATTAAAACATTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC-CTGGATCT
* * *** * * *
35713663 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCCCATCTAG-CCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTGGATCT
* * * **
35713703 TATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTGGATCT
* * * * *
35713747 TATC-CTCCTGAAGTTGCAAT-GAGGCAGACTGAAGA-TTGCAGACCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCTG--GATCT
* * * * **
35713792 TAACTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTGGATCT
* * * * *
35713836 TATCGT-CCTAAAGTTGCAGT-GAGGCAGACTGAAGA-TTGCAGACCT
1 TATC-TCCCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCTG--GATCT
* * * *
35713881 TATCTCTCTGAAGTTGCAGTGGAGCA-AGTTAAAGCC-GATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAACCTG--GATCT
** * *
35713925 TATCTCCCTGAAGTTATAGTGGAACGGATTAAAACCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TGGATCT
* * ** * *** * *
35713969 TATTTCTCTGAAGTCACAG-AGAGCAGA-TCCCATCT-AATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTGGATCT
* * * *
35714009 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAA-GT-AAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTGGA-TCT
* * ** *
35714053 TATC-CTCCTGAAGTTGCAGTGGGGCAGATTGAAGATAGC-AAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATT-AA-A-ACCTGGATCT
* * *
35714098 TATCTCCCTGAAGTTGCAGTGGAGCA-AGTTAAAGCC-GATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAACCTG--GATCT
* *
35714142 TATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TGGATCT
* * * * * * * * *
35714186 TATTTCTCTAAAGTTGCAG-AGAGTAGA-TCACATCTAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTGGATCT
* * * **
35714226 TATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTGGATCT
* * * * *
35714270 TATC-CTCCTGAAGTTGCAGT-GAGGCAAACTGAAGA-TTGCAGACCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCTG--GATCT
* * * *
35714315 TATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAAGCTGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTG--GATCT
*
35714359 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TGGATCT
* *
35714403 TATCTCTCTGCAGTTGCAG
1 TATCTCCCTGAAGTTGCAG
35714422 AGAGAAGATC
Statistics
Matches: 547, Mismatches: 153, Indels: 118
0.67 0.19 0.14
Matches are distributed among these distances:
40 56 0.10
41 26 0.05
42 14 0.03
43 32 0.06
44 293 0.54
45 110 0.20
46 16 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTGGATCT
Found at i:35716507 original size:16 final size:16
Alignment explanation
Indices: 35716486--35716534 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
35716476 TTTGGTTCGC
35716486 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
35716502 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
35716518 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
35716534 T
1 T
35716535 ATAATGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:35716539 original size:16 final size:16
Alignment explanation
Indices: 35716486--35716543 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
35716476 TTTGGTTCGC
* *
35716486 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
35716502 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
35716518 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
35716534 TATAATGGAA
1 TGTAATGGAA
35716544 AAGCTGTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.34, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:35716587 original size:45 final size:44
Alignment explanation
Indices: 35716536--35716628 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
35716526 AATAGAGGTA
**
35716536 TAATGGAAAAGCTGTGTAATAGCAAATCAACTGTTTGGTTGAATG
1 TAATGGAAAAGAGGTGTAATAG-AAATCAACTGTTTGGTTGAATG
* * *** *
35716581 TAATGGAATAGAGGTGTAATAGTAATCCTGTGTTTGGTTGAGTG
1 TAATGGAAAAGAGGTGTAATAGAAATCAACTGTTTGGTTGAATG
35716625 TAAT
1 TAAT
35716629 AGAGGTGTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 21 0.52
45 19 0.47
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TAATGGAAAAGAGGTGTAATAGAAATCAACTGTTTGGTTGAATG
Found at i:35716810 original size:18 final size:17
Alignment explanation
Indices: 35716789--35716823 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35716779 TTATTATTAA
*
35716789 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
35716807 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35716824 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:35716960 original size:16 final size:16
Alignment explanation
Indices: 35716923--35716964 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35716913 TTAATCATAT
*
35716923 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
35716939 TT-AAATATATTATAA
1 TTAAAATATATTATAA
35716954 TTAAAATATAT
1 TTAAAATATAT
35716965 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:35716971 original size:14 final size:15
Alignment explanation
Indices: 35716932--35716973 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35716922 TTTAAACATA
*
35716932 ATTATTATTAAATAT
1 ATTATAATTAAATAT
35716947 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
35716961 A-TATAATTTAATA
1 ATTATAATTAAATA
35716974 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:35716977 original size:154 final size:157
Alignment explanation
Indices: 35716675--35716989 Score: 564
Period size: 154 Copynumber: 2.0 Consensus size: 157
35716665 TAGAATACCC
35716675 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
35716740 TTATCAATAATAAATAATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAA
65 TTATCAATAATAAATAATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
*
35716805 ATATATAATTTAATAAAATTCTTAATAA
130 ATATATAATTTAATAAAATTCTTAAAAA
* *
35716833 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
35716896 TATCAATAATAAATAA-TTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 TATCAATAATAAATAATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
35716960 TATATAATTTAATAAAATTCTTAAAAA
131 TATATAATTTAATAAAATTCTTAAAAA
35716987 TTA
1 TTA
35716990 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
154 76 0.50
155 16 0.10
156 1 0.01
158 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAAAAA
Found at i:35717060 original size:120 final size:121
Alignment explanation
Indices: 35716921--35717217 Score: 462
Period size: 120 Copynumber: 2.5 Consensus size: 121
35716911 ATTTAATCAT
*
35716921 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
35716985 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 AA-TAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
35717043 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
35717106 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
35717162 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
35717218 TAAAATTATT
Statistics
Matches: 165, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
119 24 0.15
120 130 0.79
121 10 0.06
122 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (121 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:35717091 original size:14 final size:15
Alignment explanation
Indices: 35717042--35717093 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35717032 GTAAAATATA
35717042 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
35717057 TATTAAATATATTAT
1 AATTAAATATATTAT
35717072 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
35717085 AATTTAATA
1 AATTAAATA
35717094 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:35717108 original size:44 final size:43
Alignment explanation
Indices: 35717019--35717109 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
35717009 CTCAAATCAT
* * *
35717019 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
35717062 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
35717106 AATA
1 AATA
35717110 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:35717144 original size:59 final size:59
Alignment explanation
Indices: 35716961--35717144 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
35716951 TAATTAAAAT
35716961 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
35717020 ATAT-ATGATACTGTAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGA-ATT-TACTCAAATCA
35717080 T-
58 TA
* *
35717081 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
35717140 ATATA
1 ATATA
35717145 TGATACTATA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 8 0.09
61 11 0.12
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:35717198 original size:15 final size:15
Alignment explanation
Indices: 35717178--35717216 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
35717168 AATAATTAAT
35717178 ATTAAATATGATTTA
1 ATTAAATATGATTTA
35717193 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
35717210 ATAAAAT
1 ATTAAAT
35717217 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:35717203 original size:17 final size:17
Alignment explanation
Indices: 35717183--35717216 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35717173 TTAATATTAA
*
35717183 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
35717200 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
35717217 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:35717359 original size:93 final size:92
Alignment explanation
Indices: 35717249--35717443 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
35717239 GATTATAGTT
* * *
35717249 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
35717312 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
35717342 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
35717407 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
35717434 TATGAATTTA
1 TATGAATTTA
35717444 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:35718858 original size:11 final size:11
Alignment explanation
Indices: 35718844--35718870 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
35718834 AAAAATCAAT
35718844 ACAAAAGTTTC
1 ACAAAAGTTTC
35718855 ACAAAAGTTTC
1 ACAAAAGTTTC
35718866 ACAAA
1 ACAAA
35718871 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:35725308 original size:15 final size:15
Alignment explanation
Indices: 35725281--35725324 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
35725271 TTATTTTATT
35725281 AATTTATAAATA-TATA
1 AATTTA-AAATATTA-A
35725297 AATTTAAAATATTAA
1 AATTTAAAATATTAA
*
35725312 AAATTAAAATATT
1 AATTTAAAATATT
35725325 TTATAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTAAAATATTAA
Found at i:35727840 original size:15 final size:15
Alignment explanation
Indices: 35727820--35727849 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35727810 GGTGTGTTTT
*
35727820 AGTGTTTCGTCATTG
1 AGTGTTTCATCATTG
35727835 AGTGTTTCATCATTG
1 AGTGTTTCATCATTG
35727850 TTAATCCTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (15 bp):
AGTGTTTCATCATTG
Found at i:35731774 original size:27 final size:26
Alignment explanation
Indices: 35731701--35731781 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 26
35731691 TTACATGTAC
35731701 ATATATAAAAAAT-AAAT-ATATACAT
1 ATATATAAAAAATAAAATAAT-TACAT
*
35731726 ATATATAAATTATAAAAAAATAATTACAT
1 ATATATAAA--A-AATAAAATAATTACAT
35731755 ATATATAAAAAATAATAATAATTACAT
1 ATATATAAAAAATAA-AATAATTACAT
35731782 TATTGAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
25 9 0.19
26 4 0.08
27 13 0.27
28 2 0.04
29 18 0.38
30 2 0.04
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
ATATATAAAAAATAAAATAATTACAT
Found at i:35733509 original size:41 final size:43
Alignment explanation
Indices: 35733451--35733558 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 43
35733441 AATTTGCTCT
* * *
35733451 CTGTAACTTTAGAGAGATAAGAT-CT-GTTTTAATCCACTCCA
1 CTGTAACTTCAGGGAGATAAGATACTGGCTTTAATCCACTCCA
* * **
35733492 CTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCA
1 CTGTAACTTCAGGGAGATAAGA-TACTGGCTTTAATCCACTCCA
* *
35733536 CTGCAACTTGAGGGAGATAAGAT
1 CTGTAACTTCAGGGAGATAAGAT
35733559 TTTCCATCTT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 19 0.35
42 1 0.02
43 2 0.04
44 32 0.59
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (43 bp):
CTGTAACTTCAGGGAGATAAGATACTGGCTTTAATCCACTCCA
Found at i:35733538 original size:44 final size:43
Alignment explanation
Indices: 35733478--35733772 Score: 210
Period size: 44 Copynumber: 6.8 Consensus size: 43
35733468 TAAGATCTGT
** * *
35733478 TTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATTATTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATT-GC
* *
35733522 TTTAATCTGCTCCACTGCAACTTGAGGGAGATAAGATT-TTCC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGC
* * * * * *
35733564 ATCTTCAGTCTGCCCCATTGCAACTTTA-AGAGGATAAGA--CTTGC
1 -T-TT-AATCTGCTCCACTGCAACTTCAGGGA-GATAAGATTATTGC
* * * * * *
35733608 TTACTCAGTCTGCTCCCCTACAACTTCAGAGAGATAAGACTA--GA
1 TT--T-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGC
* * * **
35733652 TATGATCTGCT--ATCTGCAACTTCAGAGAGATAAGATCTATCAC
1 TTTAATCTGCTCCA-CTGCAACTTCAGGGAGATAAGAT-TATTGC
* *
35733695 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATT-GC
35733739 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
35733773 AATTTTCCAT
Statistics
Matches: 198, Mismatches: 36, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
40 21 0.11
41 8 0.04
42 3 0.02
43 15 0.08
44 122 0.62
45 29 0.15
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGC
Found at i:35733863 original size:50 final size:50
Alignment explanation
Indices: 35733809--35734070 Score: 181
Period size: 50 Copynumber: 5.3 Consensus size: 50
35733799 TGGAATGTCG
* *
35733809 GGGAAACAAGATTCATCGTCGTAGCTTCATTCTGTTCCACTACAACGCCA
1 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACAACGCCA
** * * * ** * * * **
35733859 GGGAAGTAAGATTCACCGTTGCT-GCTTCAATATTTTTAATTGCAATG-TT
1 GGGAAACAAGATTCACCGTCG-TAGCTTCAATCTGTTCCACTACAACGCCA
* *
35733908 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTA-TACTGCCA
1 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACAAC-GCCA
** * * * * ** * * * **
35733958 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATG-TT
1 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACAACGCCA
* *
35734007 GGGAAACAAGATTCACCGTCGTAGCTTTAATCTGTTCCACTACACCGCCA
1 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACAACGCCA
**
35734057 GGGAATTAAGATTC
1 GGGAAACAAGATTC
35734071 GTCGTTGCGG
Statistics
Matches: 148, Mismatches: 58, Indels: 12
0.68 0.27 0.06
Matches are distributed among these distances:
48 2 0.01
49 66 0.45
50 78 0.53
51 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (50 bp):
GGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACAACGCCA
Found at i:35733923 original size:49 final size:49
Alignment explanation
Indices: 35733866--35734120 Score: 170
Period size: 50 Copynumber: 5.1 Consensus size: 49
35733856 CCAGGGAAGT
*
35733866 AAGATTCACCGTTGCT-GCTTCAATATTTTTAATTGCAATGTTGGGAAAC
1 AAGATTCACCGTTG-TAGCTTCAATCTTTTTAATTGCAATGTTGGGAAAC
* * ** * ** * ** **
35733915 AAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACTGCCAGGGAAGT
1 AAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATG-TTGGGAAAC
* *
35733965 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTGGGAAAC
1 AAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATGTTGGGAAAC
* * * ** * * ** ** **
35734014 AAGATTCACCGTCGTAGCTTTAATCTGTTCCACTACACCGCCAGGGAATT
1 AAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATG-TTGGGAAAC
** ** *
35734064 AAGATTCGTCGTTGCGGCCTCAATCTTTTTAATTGCAATGTTGGGGAAAC
1 AAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATGTT-GGGAAAC
35734114 AAGATTC
1 AAGATTC
35734121 GCCATCGTAG
Statistics
Matches: 142, Mismatches: 60, Indels: 7
0.68 0.29 0.03
Matches are distributed among these distances:
48 1 0.01
49 63 0.44
50 78 0.55
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (49 bp):
AAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATGTTGGGAAAC
Found at i:35733928 original size:99 final size:99
Alignment explanation
Indices: 35733783--35734188 Score: 553
Period size: 99 Copynumber: 4.1 Consensus size: 99
35733773 AATTTTCCAT
* * * * * *
35733783 CTTCAATCTGTTTAACTGGAATGTCGGGGAAACAAGATTCATCGTCGTAGCTTCATTCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGT-TGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
* *
35733848 CTACAACGCCAGGGAAGTAAGATTCACCGTTGCTG
65 CTACAACGCCAGGGAAGTAAGATTCGCCGTTGCGG
* *
35733883 CTTCAATATTTTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCAC
1 CTTCAATCTTTTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCAC
* *
35733948 TA-TACTGCCAGGGAAGTAAGATTCGCCGTTGTGG
66 TACAAC-GCCAGGGAAGTAAGATTCGCCGTTGCGG
*
35733982 CTTCAATCTTTTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGCTTTAATCTGTTCCAC
1 CTTCAATCTTTTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCAC
* * *
35734047 TACACCGCCAGGGAATTAAGATTCGTCGTTGCGG
66 TACAACGCCAGGGAAGTAAGATTCGCCGTTGCGG
* * * * *
35734081 CCTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCATCGTAGCTTTAATATGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTT-GGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
* * *
35734146 CTACACCGCCGGGGGAGTAAGATTCGCCGTTGCGG
65 CTACAACGCCAGGGAAGTAAGATTCGCCGTTGCGG
*
35734181 CTTTAATC
1 CTTCAATC
35734189 CGCTCCACTT
Statistics
Matches: 273, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
98 2 0.01
99 177 0.65
100 94 0.34
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (99 bp):
CTTCAATCTTTTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCAC
TACAACGCCAGGGAAGTAAGATTCGCCGTTGCGG
Found at i:35742542 original size:22 final size:22
Alignment explanation
Indices: 35742483--35742524 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35742473 ATATATAAAT
*
35742483 TATA-AAAAAAATAATTACATA
1 TATATAAAATAATAATTACATA
35742504 TATATAAAATAATAATTACAT
1 TATATAAAATAATAATTACAT
35742525 TATTGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TATATAAAATAATAATTACATA
Found at i:35745347 original size:11 final size:11
Alignment explanation
Indices: 35745331--35745373 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
35745321 AATTTTTCTA
35745331 AATAAAATATT
1 AATAAAATATT
35745342 AAT-AAATATCT
1 AATAAAATAT-T
*
35745353 AAGCAAAATATT
1 AA-TAAAATATT
35745365 AATAAAATA
1 AATAAAATA
35745374 ATATTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.22
11 12 0.44
12 3 0.11
13 6 0.22
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:35749286 original size:87 final size:86
Alignment explanation
Indices: 35749128--35749288 Score: 241
Period size: 87 Copynumber: 1.9 Consensus size: 86
35749118 TGTATAAAAA
* *
35749128 TGAGTTTTTACTCTTAATGAATTCATAGCCCAAAATTTGGGTGGTCCTATTGAGATGGACTTGAT
1 TGAGTTTTTACTCTTAATGAATTCATAGCCCAAAATTTGGGTGATCATATTGAGATGGACTTGAT
*
35749193 GTATTCACCGACTAAAGAGGT
66 GAATTCACCGACTAAAGAGGT
* * * * *
35749214 TGAGTTTATTACTTTTAATGAGTTCATATCCCAGAGTTTGGGTGATCATATTGAGATGGACTTGA
1 TGAGTTT-TTACTCTTAATGAATTCATAGCCCAAAATTTGGGTGATCATATTGAGATGGACTTGA
35749279 TGAATTCACC
65 TGAATTCACC
35749289 AAACTTAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 7 0.11
87 59 0.89
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATAGCCCAAAATTTGGGTGATCATATTGAGATGGACTTGAT
GAATTCACCGACTAAAGAGGT
Found at i:35751613 original size:20 final size:20
Alignment explanation
Indices: 35751588--35751636 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
35751578 ATTTTACTCA
35751588 CACTTTAATCTATTTTTTTT
1 CACTTTAATCTATTTTTTTT
*
35751608 CACTTTAATCTTTTTTTTTT
1 CACTTTAATCTATTTTTTTT
35751628 CACTTTAAT
1 CACTTTAAT
35751637 ACCGTACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.63
Consensus pattern (20 bp):
CACTTTAATCTATTTTTTTT
Found at i:35752392 original size:16 final size:17
Alignment explanation
Indices: 35752359--35752404 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
35752349 TTGAATTATA
*
35752359 TTATATATTTATTTAAT
1 TTATATATTTAATTAAT
35752376 TTATATA-TTAATTAAT
1 TTATATATTTAATTAAT
*
35752392 TTA-AGATTTAATT
1 TTATATATTTAATT
35752405 GATAATCTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 2 0.08
16 17 0.65
17 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTATATATTTAATTAAT
Found at i:35768330 original size:16 final size:16
Alignment explanation
Indices: 35768309--35768339 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35768299 CAAATAATTT
*
35768309 AAAATTTAAAAAAATA
1 AAAATTCAAAAAAATA
35768325 AAAATTCAAAAAAAT
1 AAAATTCAAAAAAAT
35768340 TCAAAAAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTCAAAAAAATA
Found at i:35771009 original size:25 final size:25
Alignment explanation
Indices: 35770981--35771032 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
35770971 AAAATTGGTA
35770981 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
35771006 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
35771031 AG
1 AG
35771033 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:35779684 original size:22 final size:22
Alignment explanation
Indices: 35779647--35779703 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
35779637 TATTTCCTTT
35779647 CAATTCCTCTCAATTTCCTTCCA
1 CAATT-CTCTCAATTTCCTTCCA
*
35779670 CAATTCTTTCAATTTCCTTCCA
1 CAATTCTCTCAATTTCCTTCCA
*
35779692 AAATTCTCTCAA
1 CAATTCTCTCAA
35779704 ATCCATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.40
Consensus pattern (22 bp):
CAATTCTCTCAATTTCCTTCCA
Found at i:35780879 original size:7 final size:7
Alignment explanation
Indices: 35780869--35780893 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35780859 ATTCGATTGA
35780869 TATTTAG
1 TATTTAG
35780876 TATTTAG
1 TATTTAG
35780883 TATTTAG
1 TATTTAG
35780890 TATT
1 TATT
35780894 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:35782594 original size:116 final size:116
Alignment explanation
Indices: 35782390--35782607 Score: 418
Period size: 116 Copynumber: 1.9 Consensus size: 116
35782380 AACCTTAACG
35782390 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
35782455 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* *
35782506 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
35782571 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
35782608 CAATTTATCA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 100 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:35782624 original size:17 final size:18
Alignment explanation
Indices: 35782583--35782624 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
35782573 TTTACTAACC
* *
35782583 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
35782601 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
35782618 ATTAATA
1 ATTAATA
35782625 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:35788328 original size:41 final size:41
Alignment explanation
Indices: 35788268--35788377 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
35788258 ACCGAAGTGT
*
35788268 AAACA-GGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTAC
* * * **
35788308 AAACAGGGGCATATATGTGCAATTTATGGGTACTGAAGTAC
1 AAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTAC
* * *
35788349 AAACAGGGGCACGTGTCTGCAATTCAGGG
1 AAACAGGGGCACATATGTGCAATTCAGGG
35788378 AATAATTAAC
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
40 5 0.09
41 52 0.91
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (41 bp):
AAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTAC
Found at i:35791912 original size:30 final size:31
Alignment explanation
Indices: 35791844--35791902 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
35791834 CACTCTTAAA
**
35791844 ATATTTACACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAACCCTTCAAATTTTTC
35791875 ATATTTACACT-TTAACCCTTCAAATTTT
1 ATATTTACACTATTAACCCTTCAAATTTT
35791903 GAGTATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAAATTTTTC
Found at i:35792647 original size:25 final size:25
Alignment explanation
Indices: 35792613--35792660 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
35792603 AAGAACATAA
35792613 ATGTGCTAATAATCAGAGAGCACCG
1 ATGTGCTAATAATCAGAGAGCACCG
35792638 ATGTGCTAATAATCAGAGAGCAC
1 ATGTGCTAATAATCAGAGAGCAC
35792661 GCTAAACTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (25 bp):
ATGTGCTAATAATCAGAGAGCACCG
Found at i:35794011 original size:127 final size:126
Alignment explanation
Indices: 35793706--35794240 Score: 702
Period size: 127 Copynumber: 4.3 Consensus size: 126
35793696 GAAGGATTTT
* * * *
35793706 TGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGGCCCTGGAAAAATAATTTCGAGTTGA
1 TGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGA
* * *
35793771 CGTTTCTGAGTAAATAGTATAAAAAACA--CTTCAAGTAGGATGCT-TTATGAGAAGAAATTG
66 CGTTTCTGAGCAAATAGTTTAAAAAA-ATGCTTCAAGCAGGATGCTATT-TGAGAAGAAATTG
* * * *
35793831 TGAAATCGTGCCCTCATGGACGCACTTTTGCTACATTAGGTCCTGGAAGAAATAATTTCGAGTTG
1 TGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTG
35793896 ACGTTTCTGAGCAAATAGTTTAAAAAAAATGCTTCAAGCAGGATGCTATTTGAGAAGAAATT-
65 ACGTTTCTGAGCAAATAGTTT-AAAAAAATGCTTCAAGCAGGATGCTATTTGAGAAGAAATTG
* * * * * **
35793958 AGAAATTGCGCCATCGTGGACGCGCTTTTGTTACAGTAGGTCTTGGAAGAAATAATTTTAAGTTG
1 TGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTG
*
35794023 ACGTTTCTGAGCAAATTA-TTTAAAAAAATGCTTCAAGCAGGATGCTATTTGAGAAGAATTTG
65 ACGTTTCTGAGCAAA-TAGTTTAAAAAAATGCTTCAAGCAGGATGCTATTTGAGAAGAAATTG
*
35794085 TGAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGA
1 TGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGA
* * *
35794150 CGTTT-TGAGCAAATAGTTTTAAAAAACGCTTCTAGCAGGATGCTATTTGAGAAG-AATT-
66 CGTTTCTGAGCAAATAGTTTAAAAAAATGCTTCAAGCAGGATGCTATTTGAGAAGAAATTG
*
35794208 TG---T---GCCCTCGTGGTCGCGCTTTTGCTACAGTAG
1 TGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
35794241 CATGTTTGGG
Statistics
Matches: 365, Mismatches: 37, Indels: 24
0.86 0.09 0.06
Matches are distributed among these distances:
117 28 0.08
120 1 0.00
123 2 0.01
124 5 0.01
125 83 0.23
126 95 0.26
127 120 0.33
128 29 0.08
129 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (126 bp):
TGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGA
CGTTTCTGAGCAAATAGTTTAAAAAAATGCTTCAAGCAGGATGCTATTTGAGAAGAAATTG
Found at i:35797307 original size:53 final size:53
Alignment explanation
Indices: 35797250--35797428 Score: 155
Period size: 53 Copynumber: 3.2 Consensus size: 53
35797240 TATTTTTTTC
35797250 AATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCA
1 AATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCA
*** ** * * * * *
35797303 AATTATTAATTGTTAGTACCAGTCAAAACATT-TT-TTCAAATCTAACATTATGTGAATATAA
1 AATTATTAATTG--A-TAATTGT-ATTA-ATTGTTAGTAAAAT-TATCA-AAT-T--ATATCA
*
35797364 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCA
1 AATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCA
35797417 AATTATTAATTG
1 AATTATTAATTG
35797429 TTAGTACCAG
Statistics
Matches: 93, Mismatches: 21, Indels: 24
0.67 0.15 0.17
Matches are distributed among these distances:
53 29 0.31
55 2 0.02
56 13 0.14
57 16 0.17
58 14 0.15
59 2 0.02
61 17 0.18
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.43
Consensus pattern (53 bp):
AATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCA
Found at i:35797311 original size:37 final size:38
Alignment explanation
Indices: 35797269--35797434 Score: 105
Period size: 37 Copynumber: 4.4 Consensus size: 38
35797259 TTGATAATTG
35797269 TATTAATTGTTAGTAAAATTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
* * * * * *
35797306 TATTAATTGTTAGTACCAGTCA-AAACATTTTTTCAAATC
1 TATTAATTGTTAGTA-AAATTATCAA-ATTATATCAAATC
* * * * *
35797345 TAACATT-ATGTGAATA-TAAAATTAT-TAATT-GAT-AATTG
1 T---ATTAAT-TG-TTAGTAAAATTATCAAATTATATCAAATC
*
35797383 TATTAATGGTTAGTAAAATTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
35797420 TATTAATTGTTAGTA
1 TATTAATTGTTAGTA
35797435 CCAGTCAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 28
0.66 0.15 0.20
Matches are distributed among these distances:
34 2 0.02
35 13 0.14
36 6 0.06
37 33 0.35
38 20 0.21
39 2 0.02
40 3 0.03
41 6 0.06
42 7 0.07
43 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (38 bp):
TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
Found at i:35797450 original size:114 final size:114
Alignment explanation
Indices: 35797250--35797528 Score: 531
Period size: 114 Copynumber: 2.4 Consensus size: 114
35797240 TATTTTTTTC
*
35797250 AATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
35797315 TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATATAA
66 TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATATAA
35797364 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
*
35797429 TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATTTAA
66 TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATATAA
*
35797478 AATCATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATAT
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATAT
35797529 TTAAGTTAAG
Statistics
Matches: 162, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 162 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (114 bp):
AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATATAA
Found at i:35797582 original size:22 final size:21
Alignment explanation
Indices: 35797528--35798110 Score: 574
Period size: 21 Copynumber: 26.7 Consensus size: 21
35797518 TCAAATTATA
35797528 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
35797549 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
35797570 TTTAAGTTAAAGGTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTT
35797591 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* **
35797613 TTTAGGTTAAGGGTTTATAGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
35797635 TTTAAGTTAAAGGTTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
* * *
35797657 TTAAAGTTAAAGGTTAGGGTG
1 TTTAAGTTAAGGGTTAGGGTT
*
35797678 TTTAAGTTTAGGGTTTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTT
*
35797699 TTTAAGCTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
**
35797720 TTTAAGTTAAGGGTTTAGAATT
1 TTTAAGTTAAGGG-TTAGGGTT
* * *
35797742 TTAAAGTTAAAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
35797763 TTAAAGTTAAGGGTTAGGGGT
1 TTTAAGTTAAGGGTTAGGGTT
*
35797784 TTTAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
35797805 TTTAAGTTAAAAGTTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
* *
35797827 TTAAAGTCAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
35797848 TTTAAGGTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* * *
35797870 TTAAAGTCAAGGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
35797891 TTTAGGTTAAGAGTTTATGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
* *
35797913 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
35797935 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
35797957 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
35797978 TTTAAGTTTAGGGCTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
35798000 TTTAAGTTAAGGGTTACGGTTAGGGTT
1 TTTAAGTTAA--G----GGTTAGGGTT
*
35798027 TTTAAGTCAAGGGTTACGGTTAGGATT
1 TTTAAGTTAAGGGTTA--G---GG-TT
*
35798054 TTTAAGTTAAGGATTTAGGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
* * * *
35798076 TTAAAATCAAGGGTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTT
35798097 TTTAAGTTAAGGGT
1 TTTAAGTTAAGGGT
35798111 CTTTAAGATC
Statistics
Matches: 467, Mismatches: 72, Indels: 46
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.01
21 225 0.48
22 189 0.40
23 7 0.01
24 1 0.00
25 1 0.00
26 3 0.01
27 30 0.06
28 5 0.01
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.42
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:35797683 original size:43 final size:43
Alignment explanation
Indices: 35797531--35798020 Score: 610
Period size: 43 Copynumber: 11.4 Consensus size: 43
35797521 AATTATATTT
*
35797531 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * *
35797573 AAGTTAAAGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* ** *
35797616 AGGTTAAGGGTTTATAGTTTTTAAGTTAAAGGTTTAGGGTTTTA
1 AAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * *
35797660 AAGTTAAAGGTTAGGGTGTTTAAGTTTAGGGTTTAGGGTTTT-
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* **
35797702 AAGCTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGAATTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * *
35797745 AAGTTAAAGTTTAGGGTTTTAAAGTTAAGGG-TTAGGGGTTTT-
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGGTTTTA
* **
35797787 AAGTTAAGGGTTAAGGTTTTTAAGTTAAAAGTTTAGGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * *
35797830 AAGTCAAGGGTTAGGGTTTTTAAGGTAAGGGTTTAAGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * * * * *
35797873 AAGTCAAGGGTTATGGTTTTTAGGTTAAGAGTTTATGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* *
35797916 AGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
1 AAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * *
35797960 AAGTTAAGGGTTAGGGTTTTTAAGTTTAGGGCTTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
*
35798003 AAGTTAAGGGTTACGGTT
1 AAGTTAAGGGTTAGGGTT
35798021 AGGGTTTTTA
Statistics
Matches: 385, Mismatches: 56, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
42 100 0.26
43 209 0.54
44 76 0.20
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.42
Consensus pattern (43 bp):
AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
Found at i:35797768 original size:15 final size:15
Alignment explanation
Indices: 35797748--35797777 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35797738 AATTTTAAAG
*
35797748 TTAAAGTTTAGGGTT
1 TTAAAGTTAAGGGTT
35797763 TTAAAGTTAAGGGTT
1 TTAAAGTTAAGGGTT
35797778 AGGGGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (15 bp):
TTAAAGTTAAGGGTT
Found at i:35798022 original size:27 final size:27
Alignment explanation
Indices: 35797968--35798065 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
35797958 TAAAGTTAAG
*
35797968 GGTTAGGGTTTTTAAGTTTAGGG---C
1 GGTTAGGGTTTTTAAGTTAAGGGTTAC
35797992 --TTAGGGTTTTTAAGTTAAGGGTTAC
1 GGTTAGGGTTTTTAAGTTAAGGGTTAC
*
35798017 GGTTAGGGTTTTTAAGTCAAGGGTTAC
1 GGTTAGGGTTTTTAAGTTAAGGGTTAC
*
35798044 GGTTAGGATTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAAGTTAAGG
35798066 ATTTAGGGTT
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
22 20 0.31
25 1 0.02
27 44 0.68
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.41
Consensus pattern (27 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTAC
Found at i:35798105 original size:43 final size:42
Alignment explanation
Indices: 35797528--35798110 Score: 574
Period size: 43 Copynumber: 13.3 Consensus size: 42
35797518 TCAAATTATA
35797528 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
35797570 TTTAAGTTAAAGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* ** *
35797613 TTTAGGTTAAGGGTTTATAGTTTTTAAGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTT-AAGGGTTAGGGTT
* * * *
35797657 TTAAAGTTAAAGGTTAGGGTGTTTAAGTTTAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* **
35797699 TTTAAGCTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGAATT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * * * *
35797742 TTAAAGTTAAAGTTTAGGGTTTTAAAGTTAAGGGTTAGGGGT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * *
35797784 TTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAAAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTT-AAGGGTTAGGGTT
* * * *
35797827 TTAAAGTCAAGGGTTAGGGTTTTTAAGGTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * * * * *
35797870 TTAAAGTCAAGGGTTATGGTTTTTAGGTTAAGAGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GGTTAGGGTT
* *
35797913 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* *
35797957 TTAAAGTTAAGGGTTAGGGTTTTTAAGTTTAGGGCTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
*
35798000 TTTAAGTTAAGGGTTACGGTTAGGGTTTTTAAGTCAAGGGTTACGGTTAGGATT
1 TTTAAGTTAA--G----GGTTAGGGTTTTTAAGTTAAGGGTTA--G---GG-TT
* * * * *
35798054 TTTAAGTTAAGGATTTAGGGTTTTAAAATCAAGGGTTAGAGTT
1 TTTAAGTTAAGG-GTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
35798097 TTTAAGTTAAGGGT
1 TTTAAGTTAAGGGT
35798111 CTTTAAGATC
Statistics
Matches: 450, Mismatches: 68, Indels: 46
0.80 0.12 0.08
Matches are distributed among these distances:
42 103 0.23
43 207 0.46
44 71 0.16
45 5 0.01
47 1 0.00
48 4 0.01
49 43 0.10
50 1 0.00
52 1 0.00
53 2 0.00
54 12 0.03
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.42
Consensus pattern (42 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:35800392 original size:25 final size:25
Alignment explanation
Indices: 35800336--35800392 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
35800326 GACAAATATC
*
35800336 TTGATTTGATTTGATTTGATTCCAA
1 TTGATTTGATTTGATTTGATTCAAA
*** * *
35800361 GCAATTTGATTTTATTTTATTCAAA
1 TTGATTTGATTTGATTTGATTCAAA
35800386 TTGATTT
1 TTGATTT
35800393 AAAGGCCCCA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.54
Consensus pattern (25 bp):
TTGATTTGATTTGATTTGATTCAAA
Found at i:35802126 original size:2 final size:2
Alignment explanation
Indices: 35802121--35802184 Score: 51
Period size: 2 Copynumber: 33.0 Consensus size: 2
35802111 TGTAAGTATG
* * * * *
35802121 TA TA TA TA CA TA TA TA TG TA TA TA AA T- TA -A AA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
35802161 TA TA TA TG TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
35802185 AAAATTATGA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:35802143 original size:10 final size:10
Alignment explanation
Indices: 35802117--35802184 Score: 63
Period size: 10 Copynumber: 7.0 Consensus size: 10
35802107 TATATGTAAG
35802117 TATGTATATA
1 TATGTATATA
*
35802127 TA--CATATA
1 TATGTATATA
35802135 TATGTATATA
1 TATGTATATA
* *
35802145 AAT-TA-AAA
1 TATGTATATA
35802153 TATGTATATATA
1 TATG--TATATA
35802165 TATGTATATA
1 TATGTATATA
35802175 TATGTATATA
1 TATGTATATA
35802185 AAAATTATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
8 11 0.24
9 2 0.04
10 25 0.54
11 2 0.04
12 6 0.13
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (10 bp):
TATGTATATA
Found at i:35802155 original size:18 final size:20
Alignment explanation
Indices: 35802134--35802186 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
35802124 ATATACATAT
35802134 ATATGTATATAAAT-TA-AA
1 ATATGTATATAAATGTATAA
*
35802152 ATATGTATATATATATGTATAT
1 ATATGTATATA-A-ATGTATAA
35802174 ATATGTATATAAA
1 ATATGTATATAAA
35802187 AATTATGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 11 0.37
19 1 0.03
20 3 0.10
21 3 0.10
22 12 0.40
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (20 bp):
ATATGTATATAAATGTATAA
Found at i:35802184 original size:12 final size:12
Alignment explanation
Indices: 35802106--35802177 Score: 57
Period size: 12 Copynumber: 6.3 Consensus size: 12
35802096 AAATATAAAA
35802106 ATATATGTAAGTAT
1 ATATATGT-A-TAT
* * *
35802120 GTATATATACAT
1 ATATATGTATAT
35802132 ATATATGTATAT
1 ATATATGTATAT
35802144 A-A-AT-TA-A-
1 ATATATGTATAT
35802151 A-ATATGTATAT
1 ATATATGTATAT
35802162 ATATATGTATAT
1 ATATATGTATAT
35802174 ATAT
1 ATAT
35802178 GTATATAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
7 2 0.04
8 3 0.06
9 4 0.09
10 3 0.06
11 2 0.04
12 26 0.55
13 1 0.02
14 6 0.13
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.44
Consensus pattern (12 bp):
ATATATGTATAT
Found at i:35802292 original size:25 final size:25
Alignment explanation
Indices: 35802242--35802300 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
35802232 TATATATCAA
* *
35802242 AATTAAAAAATATGTATGTATATAT
1 AATTATAAAATATGTATGCATATAT
*
35802267 ATATTATAAAA-ATGTATGCATGTAT
1 A-ATTATAAAATATGTATGCATATAT
*
35802292 AAATATAAA
1 AATTATAAA
35802301 TTTGAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.24
25 14 0.48
26 8 0.28
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (25 bp):
AATTATAAAATATGTATGCATATAT
Found at i:35802959 original size:89 final size:89
Alignment explanation
Indices: 35802847--35803158 Score: 260
Period size: 89 Copynumber: 3.5 Consensus size: 89
35802837 CAATTTATAG
* *
35802847 CTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCA
35802912 ACTTTAGGAAGATAAGGCTGGTAA
66 ACTTTAGGAAGATAAGGCTGGTAA
* * * * * * * * *
35802936 CTTCAA-CTTGCTCCACTGGAACTTCAGGGAGATAAGGTTTG--AT-ATGA-TCTGCTCTACTGT
1 CTTCAATC-TGCTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGC
* * * **
35802996 AACTTCA-AAGAGATAAGATCCGTAATTTATA
65 AACTTTAGGA-AGATAAG--GC-T--GGTA-A
* * * *
35803027 GCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCACTCTCTTCAGTCTGCTCCACTGC
1 -CTTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGC
* **
35803092 AACTTTAGGGAGATAAGGCTGGTGG
65 AACTTTAGGAAGATAAGGCTGGTAA
* *
35803117 CTTCAATCTACTCCACTGTAACTTCAG-GAAGATAAGATTCGC
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAA-ATAAGATTCGC
35803159 CATAATTTGT
Statistics
Matches: 165, Mismatches: 42, Indels: 32
0.69 0.18 0.13
Matches are distributed among these distances:
84 1 0.01
85 23 0.14
86 2 0.01
87 3 0.02
88 5 0.03
89 66 0.40
90 2 0.01
91 2 0.01
92 31 0.19
93 2 0.01
94 2 0.01
95 2 0.01
96 24 0.15
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCA
ACTTTAGGAAGATAAGGCTGGTAA
Found at i:35803079 original size:181 final size:181
Alignment explanation
Indices: 35802765--35803153 Score: 584
Period size: 181 Copynumber: 2.2 Consensus size: 181
35802755 GCTTCGATGC
* * * *
35802765 ACTCCACT-GCACTTCAGAGAGATACGACTTGATATGATCTGCTCTATTGCAACTTCAAAGAGAT
1 ACTCCACTGGAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACTTCAAAGAGAT
* *
35802829 AAGATCTGCAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCT
66 AAGATCCGCAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCACTATCT
*
35802894 TCAGTCTGCTCCGCTGCAACTTTAGGAAGATAAGGCTGGTAACTTCAA-CTT
131 TCAGTCTGCTCCACTGCAACTTTAGGAAGATAAGGCTGGTAACTTCAATC-T
* ** *
35802945 GCTCCACTGGAACTTCAGGGAGATAAGGTTTGATATGATCTGCTCTACTGTAACTTCAAAGAGAT
1 ACTCCACTGGAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACTTCAAAGAGAT
* * *
35803010 AAGATCCGTAATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCACTCTCT
66 AAGATCCGCAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCACTATCT
* **
35803075 TCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCT
131 TCAGTCTGCTCCACTGCAACTTTAGGAAGATAAGGCTGGTAACTTCAATCT
* *
35803126 ACTCCACTGTAACTTCAGGAAGATAAGA
1 ACTCCACTGGAACTTCAGGGAGATAAGA
35803154 TTCGCCATAA
Statistics
Matches: 186, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
180 7 0.04
181 178 0.96
182 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (181 bp):
ACTCCACTGGAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACTTCAAAGAGAT
AAGATCCGCAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCACTATCT
TCAGTCTGCTCCACTGCAACTTTAGGAAGATAAGGCTGGTAACTTCAATCT
Found at i:35803203 original size:143 final size:143
Alignment explanation
Indices: 35803006--35803363 Score: 528
Period size: 143 Copynumber: 2.5 Consensus size: 143
35802996 AACTTCAAAG
* * *
35803006 AGATAAGATCCG---TAATTTATAGCTTTAATCTGTTCCACTGCAAC-TTCAGAGAAATAAGATT
1 AGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCATTGCAACGTT-AGGGAAATAAGATT
* *
35803067 CACTCTCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCA
65 CACTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCA
**
35803132 CTGTAACTTCAGGA
130 CTAAAACTTCAGGA
* *
35803146 AGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCATTGCAACGTTAGGGAAATAAGTTTC
1 AGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCATTGCAACGTTAGGGAAATAAGATTC
* * * *
35803211 GCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCCAC
66 ACTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCAC
*
35803276 TAAAACTTTAGGA
131 TAAAACTTCAGGA
* *
35803289 AGATAAGATCCGCCATAATTTGTAGCTTTAATTTGTT-CATTGCAACGCTAGGGAAATAAGATTC
1 AGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCATTGCAACGTTAGGGAAATAAGATTC
35803353 ACTGTCTTCAG
66 ACTGTCTTCAG
35803364 CTTTAACGCC
Statistics
Matches: 195, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
140 11 0.06
142 35 0.18
143 147 0.75
144 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (143 bp):
AGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCATTGCAACGTTAGGGAAATAAGATTC
ACTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCAC
TAAAACTTCAGGA
Found at i:35803251 original size:45 final size:44
Alignment explanation
Indices: 35803187--35803273 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
35803177 TCTGTTCCAT
* * *
35803187 TGCAACGTTAGGGAAATAAGTTTCGCTGTCTTCAGTCTGCTCCGC
1 TGCAACGTTAGGGAAATAAGGTT-GCTGGCTTCAATCTGCTCCGC
* *
35803232 TGCAAC-TTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCC
1 TGCAACGTT-AGGGAAATAAGGTTGCTGGCTTCAATCTGCTCC
35803274 ACTAAAACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 18 0.50
45 18 0.50
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (44 bp):
TGCAACGTTAGGGAAATAAGGTTGCTGGCTTCAATCTGCTCCGC
Found at i:35803384 original size:36 final size:36
Alignment explanation
Indices: 35803332--35803405 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
35803322 TGTTCATTGC
* * *
35803332 AACGCTAGGGAAATAAGATTCACTGTCTTCAGCTTT
1 AACGCCAGGGAAATAAGATGCACTGCCTTCAGCTTT
*
35803368 AACGCCAGGGAGATAAGATGCACTGCCTTCAGCTTT
1 AACGCCAGGGAAATAAGATGCACTGCCTTCAGCTTT
35803404 AA
1 AA
35803406 TCTACTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (36 bp):
AACGCCAGGGAAATAAGATGCACTGCCTTCAGCTTT
Found at i:35803517 original size:51 final size:51
Alignment explanation
Indices: 35803367--35803518 Score: 162
Period size: 51 Copynumber: 3.0 Consensus size: 51
35803357 TCTTCAGCTT
* * * *
35803367 TAACGCCAGGGAGATAAGATGCACTGCCTTCAGCTTTAATCTACTCCGCTA
1 TAACGCCAAGGAGATAAGATTCACTGCCTTCAGCTTTAATCTGCTCCACTA
* * * * * * * * *
35803418 CAACGCCAACGAAATAAGATTCGCTACCTTTAACTTTAATCTGTTCCACTG
1 TAACGCCAAGGAGATAAGATTCACTGCCTTCAGCTTTAATCTGCTCCACTA
*
35803469 TAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAAT-TCGCTCCACT
1 TAACGCCAAGGAGATAAGATTCACTGCCTTCAGCTTTAATCT-GCTCCACT
35803519 TCAGCTTTAA
Statistics
Matches: 78, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
50 1 0.01
51 77 0.99
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (51 bp):
TAACGCCAAGGAGATAAGATTCACTGCCTTCAGCTTTAATCTGCTCCACTA
Found at i:35803539 original size:21 final size:21
Alignment explanation
Indices: 35803487--35803529 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
35803477 AGGAGATAGG
*
35803487 ATTCACTGC-CTTCAGCTTTA
1 ATTCACTCCACTTCAGCTTTA
*
35803507 ATTCGCTCCACTTCAGCTTTA
1 ATTCACTCCACTTCAGCTTTA
35803528 AT
1 AT
35803530 CTATTCCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (21 bp):
ATTCACTCCACTTCAGCTTTA
Found at i:35803613 original size:123 final size:123
Alignment explanation
Indices: 35803394--35803892 Score: 412
Period size: 123 Copynumber: 3.9 Consensus size: 123
35803384 GATGCACTGC
* * ** *
35803394 CTTCAGCTTTAATCTACTCCGCTACAACGCCAACGAAATAAGATTCGCTACCTTTAACTTTAATC
1 CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAACTTTAATC
* * * * * *
35803459 TGTTCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAATTCGCTCCA
66 TGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATTCGCTCCA
* * * * *
35803517 CTTCAGCTTTAATCTATTCCACTGTAATGCCAGGGAAACAAGATTCGCTACTTTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAACTTTAATC
* *
35803582 TGTTCCACTGCAAAGCTAGGGAAATAAGATTCGCTGTCTTCAGCTTTAACGCCAGGGAGATAAGA
66 TGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTGCCTTCAGC-TT-------------T-A-A
* *
35803647 TTCGTTGC-
115 TTCGCTCCA
* * * * * * **
35803655 TTTCAGCTTTAATCTGCTCCACTGCAATGGCAGGGAAACAAGATTCACAAATTTTAACTTTAATC
1 CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAACTTTAATC
* * * * ** *
35803720 TATTCCATTGTAAAGCCA-AGAAGATGGGATTCGCTGCCTTTAGCTTTAA-TCTGCTCCA
66 TGTTCCACTGCAAAGCCAGGGAA-ATAAGATTCGCTGCCTTCAGCTTTAATTC-GCTCCA
* * * *
35803778 CTTCAGCTTTAATCTATTCCACTGCAACGCCATGGAAACAAGATTCGCTACCTTTAGCCTTAATC
1 CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAACTTTAATC
* * * *
35803843 TGTTCCACTGCAACA-CCAGGGAAACAAGATTCGTTACCTTTAGCTTTAAT
66 TGTTCCACTGCAA-AGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAAT
35803893 CTGTTCCACT
Statistics
Matches: 293, Mismatches: 61, Indels: 43
0.74 0.15 0.11
Matches are distributed among these distances:
121 2 0.01
122 4 0.01
123 179 0.61
124 7 0.02
137 6 0.02
138 88 0.30
139 7 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (123 bp):
CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAACTTTAATC
TGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATTCGCTCCA
Found at i:35803627 original size:51 final size:50
Alignment explanation
Indices: 35803507--35803630 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 50
35803497 TTCAGCTTTA
* *
35803507 ATTCGCTCCACTTCAGCTTTAATCTATTCCACTGTAATGCCAGGGAAACAAG
1 ATTCGCT--ACTTCAGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAG
* * * *
35803559 ATTCGCTACTTTTAGCTTTAATCTGTTCCACTGCAAAGCTAGGGAAATAAG
1 ATTCGCTAC-TTCAGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAG
*
35803610 ATTCGCTGTCTTCAGCTTTAA
1 ATTCGCT-ACTTCAGCTTTAA
35803631 CGCCAGGGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
50 2 0.03
51 52 0.84
52 8 0.13
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (50 bp):
ATTCGCTACTTCAGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAG
Found at i:35803716 original size:87 final size:87
Alignment explanation
Indices: 35803545--35803717 Score: 197
Period size: 87 Copynumber: 2.0 Consensus size: 87
35803535 CCACTGTAAT
* * *
35803545 GCCAGGGAAACAAGATTCGCTACTTTTAGCTTTAATCTGTTCCACTGCAAAGCTAGGGAAATAAG
1 GCCAGGGAAACAAGATTCGCTACTTTCAGCTTTAATCTGCTCCACTGCAAAGCTAGGGAAACAAG
* ** *
35803610 ATTCGCTGTCTTCAGCTTTAAC
66 ATTCACAATCTTCAACTTTAAC
* * * * *
35803632 GCCAGGGAGATAAGATTCGTTGCTTTCAGCTTTAATCTGCTCCACTGCAATGGC-AGGGAAACAA
1 GCCAGGGAAACAAGATTCGCTACTTTCAGCTTTAATCTGCTCCACTGCAA-AGCTAGGGAAACAA
*
35803696 GATTCACAAAT-TTTAACTTTAA
65 GATTCAC-AATCTTCAACTTTAA
35803718 TCTATTCCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
87 68 0.96
88 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (87 bp):
GCCAGGGAAACAAGATTCGCTACTTTCAGCTTTAATCTGCTCCACTGCAAAGCTAGGGAAACAAG
ATTCACAATCTTCAACTTTAAC
Found at i:35803766 original size:138 final size:138
Alignment explanation
Indices: 35803518--35803768 Score: 333
Period size: 138 Copynumber: 1.8 Consensus size: 138
35803508 TTCGCTCCAC
* * * * * *
35803518 TTCAGCTTTAATCTATTCCACTGTAATGCCAGGGAAACAAGATTCGCTACTTTTAGCTTTAATCT
1 TTCAGCTTTAATCTACTCCACTGCAATGCCAGGGAAACAAGATTCACAAATTTTAACTTTAATCT
* * * *
35803583 GTTCCACTGCAAAGCTAGGGAAATAAGATTCGCTGTCTTCAGCTTTAACGCCAGGGAGATAAGAT
66 ATTCCACTGCAAAGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAACGCCAGGGAGATAAGAT
35803648 TCGTTGCT
131 TCGTTGCT
* *
35803656 TTCAGCTTTAATCTGCTCCACTGCAATGGCAGGGAAACAAGATTCACAAATTTTAACTTTAATCT
1 TTCAGCTTTAATCTACTCCACTGCAATGCCAGGGAAACAAGATTCACAAATTTTAACTTTAATCT
* * ** *
35803721 ATTCCATTGTAAAGCCA-AGAAGATGGGATTCGCTGCCTTTAGCTTTAA
66 ATTCCACTGCAAAGCCAGAGAA-ATAAGATTCGCTGCCTTCAGCTTTAA
35803769 TCTGCTCCAC
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
137 3 0.03
138 92 0.97
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (138 bp):
TTCAGCTTTAATCTACTCCACTGCAATGCCAGGGAAACAAGATTCACAAATTTTAACTTTAATCT
ATTCCACTGCAAAGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAACGCCAGGGAGATAAGAT
TCGTTGCT
Found at i:35803798 original size:21 final size:21
Alignment explanation
Indices: 35803761--35803800 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35803751 CGCTGCCTTT
*
35803761 AGCTTTAATCTGCTCCACTTC
1 AGCTTTAATCTACTCCACTTC
*
35803782 AGCTTTAATCTATTCCACT
1 AGCTTTAATCTACTCCACT
35803801 GCAACGCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (21 bp):
AGCTTTAATCTACTCCACTTC
Found at i:35803799 original size:261 final size:261
Alignment explanation
Indices: 35803311--35803875 Score: 785
Period size: 261 Copynumber: 2.2 Consensus size: 261
35803301 CCATAATTTG
* * * *
35803311 TAGCTTTAATTTGTT-CATTGCAACGCTAGGGAAATAAGATTCACTGTCTTCAGCTTTAACGCCA
1 TAGCTTTAATCTGTTCCACTGCAAAGCTAGGGAAATAAGATTCGCTGTCTTCAGCTTTAACGCCA
* *
35803375 GGGAGATAAGATGCACTGCCTTCAGCTTTAATCTACTCCGCTACAACGCCAACGAAATAAGATTC
66 GGGAGATAAGATGCACTGCCTTCAGCTTTAATCTACTCCACTACAACGCCAACGAAACAAGATTC
* * * * * *
35803440 GCTACCTTTAACTTTAATCTGTTCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTT
131 ACAAACTTTAACTTTAATCTATTCCACTGTAAAGCCAAGAAGATAGGATTCACTGCCTTCAGCTT
* * *
35803505 TAATTCGCTCCACTTCAGCTTTAATCTATTCCACTGTAATGCCAGGGAAACAAGATTCGCTACTT
196 TAATTCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCT
35803570 T
261 T
35803571 TAGCTTTAATCTGTTCCACTGCAAAGCTAGGGAAATAAGATTCGCTGTCTTCAGCTTTAACGCCA
1 TAGCTTTAATCTGTTCCACTGCAAAGCTAGGGAAATAAGATTCGCTGTCTTCAGCTTTAACGCCA
* ** * * * * * **
35803636 GGGAGATAAGATTCGTTGCTTTCAGCTTTAATCTGCTCCACTGCAATGGCAGGGAAACAAGATTC
66 GGGAGATAAGATGCACTGCCTTCAGCTTTAATCTACTCCACTACAACGCCAACGAAACAAGATTC
* * * * *
35803701 ACAAATTTTAACTTTAATCTATTCCATTGTAAAGCCAAGAAGATGGGATTCGCTGCCTTTAGCTT
131 ACAAACTTTAACTTTAATCTATTCCACTGTAAAGCCAAGAAGATAGGATTCACTGCCTTCAGCTT
*
35803766 TAA-TCTGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCATGGAAACAAGATTCGCTACC
196 TAATTC-GCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACC
35803830 TT
260 TT
* * *
35803832 TAGCCTTAATCTGTTCCACTGCAACA-CCAGGGAAACAAGATTCG
1 TAGCTTTAATCTGTTCCACTGCAA-AGCTAGGGAAATAAGATTCG
35803876 TTACCTTTAG
Statistics
Matches: 268, Mismatches: 34, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
260 16 0.06
261 251 0.94
262 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (261 bp):
TAGCTTTAATCTGTTCCACTGCAAAGCTAGGGAAATAAGATTCGCTGTCTTCAGCTTTAACGCCA
GGGAGATAAGATGCACTGCCTTCAGCTTTAATCTACTCCACTACAACGCCAACGAAACAAGATTC
ACAAACTTTAACTTTAATCTATTCCACTGTAAAGCCAAGAAGATAGGATTCACTGCCTTCAGCTT
TAATTCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCT
T
Found at i:35803866 original size:51 final size:51
Alignment explanation
Indices: 35803782--35803953 Score: 227
Period size: 51 Copynumber: 3.4 Consensus size: 51
35803772 GCTCCACTTC
* * *
35803782 AGCTTTAATCTATTCCACTGCAACGCCATGGAAACAAGATTCGCTACCTTT
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAACAAGATTCGTTACCTTT
* * *
35803833 AGCCTTAATCTGTTCCACTGCAACACCAGGGAAACAAGATTCGTTACCTTT
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAACAAGATTCGTTACCTTT
* * * * *
35803884 AGCTTTAATCTGTTCCACTGTAACGCCAAGGAGATAGGATTCGTTGCCTTT
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAACAAGATTCGTTACCTTT
* *
35803935 AGCTTTAATCCGATCCACT
1 AGCTTTAATCTGTTCCACT
35803954 TCAGCTTTAA
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 106 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAACAAGATTCGTTACCTTT
Found at i:35804040 original size:174 final size:174
Alignment explanation
Indices: 35803654--35804050 Score: 539
Period size: 174 Copynumber: 2.3 Consensus size: 174
35803644 AGATTCGTTG
* * * * *
35803654 CTTTCAGCTTTAATCTGCTCCACTGCAATGGCAGGGAAACAAGATTCACAAATTTTAACTTTAAT
1 CTTT-AGCTTTAATCTGTTCCACTGCAAAGCCAGGGAAACAAGATTCGCAAACTTTAACTTTAAT
* * * *
35803719 CTATTCCATTGTAAAGCCAAGAAGATGGGATTCGCTGCCTTTAGCTTTAATCTGCTCCACTTCAG
65 CTATTCCACTGTAAAGCCAAGAAGATAGGATTCGCTGCCTTTAGCTTTAATCCGATCCACTTCAG
35803784 CTTTAATCTATTCCACTGCAACGCCATGGAAACAAGATTCGCTAC
130 CTTTAATCTATTCCACTGCAACGCCATGGAAACAAGATTCGCTAC
* ** * *
35803829 CTTTAGCCTTAATCTGTTCCACTGCAACA-CCAGGGAAACAAGATTCGTTACCTTTAGCTTTAAT
1 CTTTAGCTTTAATCTGTTCCACTGCAA-AGCCAGGGAAACAAGATTCGCAAACTTTAACTTTAAT
* * * *
35803893 CTGTTCCACTGTAACGCCAAGGAGATAGGATTCGTTGCCTTTAGCTTTAATCCGATCCACTTCAG
65 CTATTCCACTGTAAAGCCAAGAAGATAGGATTCGCTGCCTTTAGCTTTAATCCGATCCACTTCAG
*
35803958 CTTTAATCTATTCCATTGC-ACTGCCA-GAGAAACAAGATTCGCTAC
130 CTTTAATCTATTCCACTGCAAC-GCCATG-GAAACAAGATTCGCTAC
** *
35804003 CTTTAGCTTTAATCTGTTCCACTGCAAAGTTAGGGAAATAAGATTCGC
1 CTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGGGAAACAAGATTCGC
35804051 TGTCTTCAGT
Statistics
Matches: 194, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
173 4 0.02
174 186 0.96
175 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (174 bp):
CTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGGGAAACAAGATTCGCAAACTTTAACTTTAATC
TATTCCACTGTAAAGCCAAGAAGATAGGATTCGCTGCCTTTAGCTTTAATCCGATCCACTTCAGC
TTTAATCTATTCCACTGCAACGCCATGGAAACAAGATTCGCTAC
Found at i:35805417 original size:17 final size:19
Alignment explanation
Indices: 35805397--35805437 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
35805387 TTTCTTCTTG
*
35805397 TTTTTCTTC-TCTTTTTC-
1 TTTTTCTTCATCATTTTCA
*
35805414 TTTTTTTTCATCATTTTCA
1 TTTTTCTTCATCATTTTCA
35805433 TTTTT
1 TTTTT
35805438 TTGAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 8 0.40
18 7 0.35
19 5 0.25
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTCTTCATCATTTTCA
Found at i:35805454 original size:25 final size:26
Alignment explanation
Indices: 35805426--35805476 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
35805416 TTTTTTCATC
35805426 ATTTTCA-TTTTTTTGAAATATTTTT
1 ATTTTCATTTTTTTTGAAATATTTTT
*
35805451 ATTTTGATTTTTTTTGAAATATTTTT
1 ATTTTCATTTTTTTTGAAATATTTTT
35805477 TGATTGGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69
Consensus pattern (26 bp):
ATTTTCATTTTTTTTGAAATATTTTT
Found at i:35808975 original size:10 final size:10
Alignment explanation
Indices: 35808949--35809004 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 10
35808939 TATATGTAAG
35808949 TATGTATATA
1 TATGTATATA
*
35808959 TA--CATATA
1 TATGTATATA
35808967 TATGTATATA
1 TATGTATATA
* *
35808977 AAT-TA-AAA
1 TATGTATATA
35808985 TATGTATATA
1 TATGTATATA
35808995 TATGTATATA
1 TATGTATATA
35809005 AAAATTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
8 11 0.31
9 4 0.11
10 21 0.58
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (10 bp):
TATGTATATA
Found at i:35808993 original size:28 final size:29
Alignment explanation
Indices: 35808962--35809039 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 29
35808952 GTATATATAC
35808962 ATATATATGTATATAAATT-AAAATATGT
1 ATATATATGTATATAAATTAAAAATATGT
35808990 ATATATATGTATATAAAAATTAAAAAATATGT
1 ATATATATGTATAT--AAATT-AAAAATATGT
* *
35809022 ATGTATATATATTATAAA
1 ATATATATGTA-TATAAA
35809040 AATGTATTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 14 0.33
30 5 0.12
31 3 0.07
32 18 0.42
33 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (29 bp):
ATATATATGTATATAAATTAAAAATATGT
Found at i:35809104 original size:3 final size:3
Alignment explanation
Indices: 35809096--35809123 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
35809086 TAAATGACTA
35809096 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
35809124 CAAGATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35810137 original size:34 final size:34
Alignment explanation
Indices: 35810094--35810165 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
35810084 GTGAAGCAAG
* *
35810094 TGCGGCGGTGGCAGAGGGCAGGTTGGCAGAGGCA
1 TGCGGCGGTGGCAGAAGGCAGGTGGGCAGAGGCA
*
35810128 TGCGGCGGTGGCAGAAGGTAGGTGGGCAGAGGCA
1 TGCGGCGGTGGCAGAAGGCAGGTGGGCAGAGGCA
35810162 TGCG
1 TGCG
35810166 ACAGTGGAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.18, C:0.17, G:0.53, T:0.12
Consensus pattern (34 bp):
TGCGGCGGTGGCAGAAGGCAGGTGGGCAGAGGCA
Found at i:35810787 original size:82 final size:82
Alignment explanation
Indices: 35810435--35810772 Score: 478
Period size: 82 Copynumber: 4.1 Consensus size: 82
35810425 TAAAACCTAA
* * * * * * *
35810435 TTCGGGATTTATTCCTGTCGTTCAGCAGATTTTAATCCATTTTGATTTTGTTTCTAAGCAAGAAT
1 TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
*
35810500 TAATTGAATAGTTCTGT
66 TAATTGAATAATTCTGT
* * * * *
35810517 TTCGGGATTTATTCCCGTCGCTTAACAGATTTTATTCGATTTTAATTTTGTTTCCAAACGAGAAT
1 TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
*
35810582 TAATTGAATAATTATGT
66 TAATTGAATAATTCTGT
* *
35810599 TTCGGGATTTATTCCCGCCGTTTCACAGATTTTATTCGATTTTGATTTTGTTTCTAAACGAGAAT
1 TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
35810664 TAATTGAATAATTCTGT
66 TAATTGAATAATTCTGT
* * * *
35810681 TTCGAGATTTATTCCCCCCGTTTAACAGATTTTATTCAATTTTGATTTTGTTTCTAAACAAGATT
1 TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
* *
35810746 TAATTAAATAATTTTGT
66 TAATTGAATAATTCTGT
35810763 TTCGGGATTT
1 TTCGGGATTT
35810773 CATCTTTTCG
Statistics
Matches: 229, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 229 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.46
Consensus pattern (82 bp):
TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
TAATTGAATAATTCTGT
Found at i:35811268 original size:82 final size:81
Alignment explanation
Indices: 35811125--35811324 Score: 222
Period size: 82 Copynumber: 2.4 Consensus size: 81
35811115 AATTTAATAA
*
35811125 AATTTGTTTCGGGATTTATTCCTGCAATTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAAA
1 AATTTGTTTCGGGATTTATTCCTGCAATTCAACAGATTTTATTCCATTTTGATTTTATTTCCAAA
* * *
35811190 CGATAATTAATTGAAT
66 CAAGAATTAATTAAAT
** * * * *
35811206 AATTCTGTTTCGGGATTTATTCCCT-CCTTTGAATATATTTTATTCGATTTTGATTTTATTTCCA
1 AATT-TGTTTCGGGATTTATT-CCTGCAATTCAACAGATTTTATTCCATTTTGATTTTATTTCCA
*
35811270 AACAAGATTTAATTAAAT
64 AACAAGAATTAATTAAAT
* * * **
35811288 GATTTTGTTTCGAGATTTAGTCCTGCCGTTCAACAGA
1 -AATTTGTTTCGGGATTTATTCCTGCAATTCAACAGA
35811325 ATTGATTTTG
Statistics
Matches: 97, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
81 7 0.07
82 84 0.87
83 6 0.06
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (81 bp):
AATTTGTTTCGGGATTTATTCCTGCAATTCAACAGATTTTATTCCATTTTGATTTTATTTCCAAA
CAAGAATTAATTAAAT
Found at i:35821951 original size:18 final size:19
Alignment explanation
Indices: 35821915--35821951 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
35821905 AATTATCAGA
35821915 ATAGTGTCTTTACACACCAC
1 ATAGTGTCTTTA-ACACCAC
35821935 ATAGTGTCTTT-ACACCA
1 ATAGTGTCTTTAACACCA
35821952 TGTGGGGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (19 bp):
ATAGTGTCTTTAACACCAC
Found at i:35823670 original size:24 final size:24
Alignment explanation
Indices: 35823624--35823671 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35823614 GTGGAGAGTT
* * *
35823624 GAATTATAAAATTATGGTATTATA
1 GAATCATAAAATCATGATATTATA
*
35823648 GAATCATAAAATCATGATTTTATA
1 GAATCATAAAATCATGATATTATA
35823672 TTCTACTCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (24 bp):
GAATCATAAAATCATGATATTATA
Found at i:35824872 original size:81 final size:81
Alignment explanation
Indices: 35824777--35825151 Score: 446
Period size: 82 Copynumber: 4.6 Consensus size: 81
35824767 TCAATAAAAC
* * * * * * *
35824777 CTGTTTCGGGATTTATTCCTACCGTTCAGCAGATTTT-TTCCATTTTTATTTTGTCTCCAAGCGA
1 CTGTTTCGGGATTTATT-CTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGA
35824841 GAATTAATTGAATAATT
65 GAATTAATTGAATAATT
* ** * * *
35824858 CTGTTTCGGGATTTATTCCCAATATTTAACATATTTTATTCAAATTTGATTTTGTTTCCAAACGA
1 CTGTTTCGGGATTTATT-CTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGA
35824923 GAATTAATTGAATAATT
65 GAATTAATTGAATAATT
* *
35824940 ATGTTTCGGGATTTATTCTCACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAATGA
1 CTGTTTCGGGATTTATTCT-ACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGA
35825005 GAATTAATTGAATAATT
65 GAATTAATTGAATAATT
* ** *
35825022 CTTTTTCTAGATTTATTCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAG
1 CTGTTTCGGGATTTATTCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAG
** *
35825087 TTTTAATTAAATAATT
66 AATTAATTGAATAATT
* * * * * *
35825103 TTGTTTCGGGATTTAATCTTATCGTTTAACAGAATTGATTTCGATTTTG
1 CTGTTTCGGGATTTATTC-TACCATTTAACAGATTTTA-TTCGATTTTG
35825152 GTTCAGAATT
Statistics
Matches: 252, Mismatches: 38, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
81 101 0.40
82 141 0.56
83 10 0.04
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (81 bp):
CTGTTTCGGGATTTATTCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAG
AATTAATTGAATAATT
Found at i:35825059 original size:163 final size:164
Alignment explanation
Indices: 35824778--35825151 Score: 466
Period size: 163 Copynumber: 2.3 Consensus size: 164
35824768 CAATAAAACC
* * * * *
35824778 TGTTTCGGGATTTATTC-CTACCGTTCAGCAGATTTT-TTCCATTTTTATTTTGTCTCCAAGCGA
1 TGTTTCGGGATTTATTCTC-ACCGTTTAACAGATTTTATTCGATTTTGATTTTGTCTCCAAACGA
* * *
35824841 GAATTAATTGAATAATTCTGTTTCGGGATTTATTCCCAATATTTAACATATTTTATTCAAATTTG
65 GAATTAATTGAATAATTCTGTTTCGAGATTTATTCCCAACATTTAACAGATTTTATTCAAATTTG
* *
35824906 ATTTTGTTTCCAAACGAGAATTAATTGAATAATTA
130 ATTTTGTTTCCAAACAAGAATTAATTAAATAATTA
* * *
35824941 TGTTTCGGGATTTATTCTCACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAATGAG
1 TGTTTCGGGATTTATTCTCACCGTTTAACAGATTTTATTCGATTTTGATTTTGTCTCCAAACGAG
* * * * * *
35825006 AATTAATTGAATAATTCTTTTTCTAGATTTATT-CTACCATTTAACAGATTTTATTCGATTTTGA
66 AATTAATTGAATAATTCTGTTTCGAGATTTATTCCCAACATTTAACAGATTTTATTCAAATTTGA
** *
35825070 TTTTGTTTCCAAACAAGTTTTAATTAAATAATTT
131 TTTTGTTTCCAAACAAGAATTAATTAAATAATTA
* * * * *
35825104 TGTTTCGGGATTTAATCTTATCGTTTAACAGAATTGATTTCGATTTTG
1 TGTTTCGGGATTTATTCTCACCGTTTAACAGATTTTA-TTCGATTTTG
35825152 GTTCAGAATT
Statistics
Matches: 180, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
163 116 0.64
164 64 0.36
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (164 bp):
TGTTTCGGGATTTATTCTCACCGTTTAACAGATTTTATTCGATTTTGATTTTGTCTCCAAACGAG
AATTAATTGAATAATTCTGTTTCGAGATTTATTCCCAACATTTAACAGATTTTATTCAAATTTGA
TTTTGTTTCCAAACAAGAATTAATTAAATAATTA
Found at i:35840655 original size:82 final size:82
Alignment explanation
Indices: 35840540--35840879 Score: 457
Period size: 82 Copynumber: 4.1 Consensus size: 82
35840530 ATAAAACCTT
* * * * *
35840540 TTTCGGGATTTATTCCTGTC-TTTCAATAGATTTTATTCTATTTTGATTTTGTTTCCAAGCGAGA
1 TTTCGGGATTTATTCCCGCCGTTT-AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGA
*
35840604 ATTAATTGAATAATTTTA
65 ATTAATTGAATAATTCTA
* * * * * * * *
35840622 TTTCAGGATTTATTCTCGCCGTTTAACATATTTTATTCGGTTATGATTTTATTTCAAAATGAGAA
1 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGAA
*
35840687 TTAATTGAATAACTCTA
66 TTAATTGAATAATTCTA
*
35840704 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAATGAGAA
1 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGAA
35840769 TTAATTGAATAATTCTA
66 TTAATTGAATAATTCTA
* * * *
35840786 TTTCGGGATTTATTCCCGCCGTTTAAAAGATTTTATTCGATCTTGATTTTGTTTCCAAACAAGAT
1 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGAA
* * *
35840851 TTAATTAAATAATTTTG
66 TTAATTGAATAATTCTA
35840868 TTTCGGGATTTA
1 TTTCGGGATTTA
35840880 ATTCTATCGT
Statistics
Matches: 226, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
82 223 0.99
83 3 0.01
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.46
Consensus pattern (82 bp):
TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGAA
TTAATTGAATAATTCTA
Found at i:35844143 original size:15 final size:15
Alignment explanation
Indices: 35844119--35844152 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35844109 AACAATTACG
* *
35844119 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
35844134 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
35844149 ATAA
1 ATAA
35844153 CAAAAAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:35846621 original size:44 final size:44
Alignment explanation
Indices: 35846513--35846818 Score: 238
Period size: 44 Copynumber: 6.9 Consensus size: 44
35846503 GGGAGGTAAA
* * ** * **
35846513 ATCTGCCATCTTCGATCTGCTTCGCTGCCGAATACAGGAAGGTAAG
1 ATCTGCTATCTTCGATCTACTTC-CCACC-AATATAGGAAGACAAG
* * * *** *
35846559 ATCTGCAATATTCAATCTACTTTTTACCAATATAGGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* * *
35846603 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAG
* * * **
35846648 ATCTGC-ATCGTCGATCCACTTCCTACCAATATAGGAAGACCGG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* * ** * * * *
35846691 ACCTGTTATCTTTTATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* * *
35846735 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAG
* * *
35846780 ATCTGC-ATCTTTGATCCACTTCCTACCAATATAGGAAGA
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGA
35846819 TAGGATATGT
Statistics
Matches: 200, Mismatches: 57, Indels: 9
0.75 0.21 0.03
Matches are distributed among these distances:
43 35 0.17
44 100 0.50
45 47 0.23
46 18 0.09
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
Found at i:35866956 original size:18 final size:17
Alignment explanation
Indices: 35866923--35866973 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
35866913 AAGTATGTGT
*
35866923 ACCCTATTTATCATGCTA
1 ACCCTATATATCATGC-A
*
35866941 ACCCTATATATTATGCA
1 ACCCTATATATCATGCA
*
35866958 AGCCCCATATATCATG
1 A-CCCTATATATCATG
35866974 GAAACCCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (17 bp):
ACCCTATATATCATGCA
Found at i:35867228 original size:14 final size:15
Alignment explanation
Indices: 35867209--35867243 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
35867199 GCCCTAGGTA
35867209 CAAACCC-ATATATG
1 CAAACCCTATATATG
35867223 CAAACCCTATATATG
1 CAAACCCTATATATG
35867238 CAAACC
1 CAAACC
35867244 TTACATGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.43, C:0.31, G:0.06, T:0.20
Consensus pattern (15 bp):
CAAACCCTATATATG
Found at i:35867292 original size:85 final size:85
Alignment explanation
Indices: 35867185--35867373 Score: 245
Period size: 85 Copynumber: 2.2 Consensus size: 85
35867175 TACTATGTGG
** *
35867185 AACCC-TATGTGTGAGCCCTAGGTACAAACCCATATATGCAAACCCTATATATGCAAACCTTACA
1 AACCCATATGTGCAAGCCCTAGGTACAAACCCATATATGCAAACCCTATATATGCAAACCCTACA
* * *
35867249 TGTGCGAACCCCTAGGTGCA
66 TGTGCGAAACCCAAGGTACA
* * * * * *
35867269 AACCCATATGTGCAAGCCTTAGGTACGAACCCATATGTGCGAACCCTGTATGTGCAAACCCTACA
1 AACCCATATGTGCAAGCCCTAGGTACAAACCCATATATGCAAACCCTATATATGCAAACCCTACA
*
35867334 TGTGTGAAACCCAAGGTACA
66 TGTGCGAAACCCAAGGTACA
*
35867354 AACCCATATGTGCAAACCCT
1 AACCCATATGTGCAAGCCCT
35867374 TCTTGTGTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 5 0.06
85 84 0.94
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (85 bp):
AACCCATATGTGCAAGCCCTAGGTACAAACCCATATATGCAAACCCTATATATGCAAACCCTACA
TGTGCGAAACCCAAGGTACA
Found at i:35867336 original size:15 final size:15
Alignment explanation
Indices: 35867209--35867373 Score: 105
Period size: 14 Copynumber: 11.5 Consensus size: 15
35867199 GCCCTAGGTA
*
35867209 CAAACCC-ATATATG
1 CAAACCCTATATGTG
*
35867223 CAAACCCTATATATG
1 CAAACCCTATATGTG
* *
35867238 CAAACCTTACATGTG
1 CAAACCCTATATGTG
* * *
35867253 CGAACCC-CTAGGTG
1 CAAACCCTATATGTG
35867267 CAAACCC-ATATGTG
1 CAAACCCTATATGTG
* * *
35867281 C-AAGCCT-TAGGTA
1 CAAACCCTATATGTG
*
35867294 CGAACCC-ATATGTG
1 CAAACCCTATATGTG
* *
35867308 CGAACCCTGTATGTG
1 CAAACCCTATATGTG
*
35867323 CAAACCCTACATGTG
1 CAAACCCTATATGTG
* * *
35867338 TGAAACCC-A-AGGTA
1 -CAAACCCTATATGTG
35867352 CAAACCC-ATATGTG
1 CAAACCCTATATGTG
35867366 CAAACCCT
1 CAAACCCT
35867374 TCTTGTGTAT
Statistics
Matches: 116, Mismatches: 27, Indels: 15
0.73 0.17 0.09
Matches are distributed among these distances:
13 16 0.14
14 51 0.44
15 43 0.37
16 6 0.05
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.21
Consensus pattern (15 bp):
CAAACCCTATATGTG
Found at i:35867367 original size:43 final size:44
Alignment explanation
Indices: 35867221--35867373 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 44
35867211 AACCCATATA
* * * *
35867221 TGCAAACCCTATATATGCAAACCTTACATGTGCGAACCCCTAGG
1 TGCAAACCCTATATGTGCAAACCCTACATGTGCGAAACCCAAGG
* * * * *
35867265 TGCAAACCC-ATATGTGC-AAGCCT-TAGGTACG-AACCCATATG
1 TGCAAACCCTATATGTGCAAACCCTACATGTGCGAAACCCA-AGG
* * *
35867306 TGCGAACCCTGTATGTGCAAACCCTACATGTGTGAAACCCAAGG
1 TGCAAACCCTATATGTGCAAACCCTACATGTGCGAAACCCAAGG
*
35867350 TACAAACCC-ATATGTGCAAACCCT
1 TGCAAACCCTATATGTGCAAACCCT
35867374 TCTTGTGTAT
Statistics
Matches: 84, Mismatches: 20, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
40 4 0.05
41 15 0.18
42 11 0.13
43 26 0.31
44 22 0.26
45 6 0.07
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (44 bp):
TGCAAACCCTATATGTGCAAACCCTACATGTGCGAAACCCAAGG
Found at i:35869143 original size:12 final size:12
Alignment explanation
Indices: 35869126--35869150 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35869116 TTTAACTTTA
35869126 ATCTCAAAATTG
1 ATCTCAAAATTG
35869138 ATCTCAAAATTG
1 ATCTCAAAATTG
35869150 A
1 A
35869151 AATTGTGTTC
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATCTCAAAATTG
Found at i:35870595 original size:15 final size:15
Alignment explanation
Indices: 35870543--35870596 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
35870533 TAACGAACAC
* *
35870543 CCCCATATAGGTGAG
1 CCCCATGTAGGTGAA
**
35870558 CCCCATGTATATGAAA
1 CCCCATGTAGGTG-AA
*
35870574 CCGCATGTAGGTGAA
1 CCCCATGTAGGTGAA
35870589 CCCCATGT
1 CCCCATGT
35870597 GAACCCCTTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (15 bp):
CCCCATGTAGGTGAA
Found at i:35870644 original size:16 final size:15
Alignment explanation
Indices: 35870597--35870663 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
35870587 AACCCCATGT
* *
35870597 GAACCCCTTGCATAC
1 GAACCCCTTGTATGC
* **
35870612 AAACCCCTTACATGC
1 GAACCCCTTGTATGC
35870627 GAACCCTCTTGTATGC
1 GAACCC-CTTGTATGC
*
35870643 GAA-CCCTTGTATGT
1 GAACCCCTTGTATGC
35870657 GAACCCC
1 GAACCCC
35870664 GATAAGCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.26
15 22 0.51
16 10 0.23
ACGTcount: A:0.25, C:0.36, G:0.15, T:0.24
Consensus pattern (15 bp):
GAACCCCTTGTATGC
Found at i:35870651 original size:14 final size:14
Alignment explanation
Indices: 35870623--35870662 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
35870613 AACCCCTTAC
35870623 ATGCGAACCCTCTTGT
1 ATGCGAA-CC-CTTGT
35870639 ATGCGAACCCTTGT
1 ATGCGAACCCTTGT
*
35870653 ATGTGAACCC
1 ATGCGAACCC
35870663 CGATAAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.61
15 2 0.09
16 7 0.30
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (14 bp):
ATGCGAACCCTTGT
Found at i:35870732 original size:30 final size:30
Alignment explanation
Indices: 35870696--35870758 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
35870686 AACCCCTTGC
** *
35870696 ATGCAAACCTTCTTGCATGCGAACACCTAT
1 ATGCAAACCCCCTTGCATGCGAACACCCAT
* *
35870726 ATGCAAACCCCCTTTCATGCGAACCCCCAT
1 ATGCAAACCCCCTTGCATGCGAACACCCAT
35870756 ATG
1 ATG
35870759 TGAACCCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.24
Consensus pattern (30 bp):
ATGCAAACCCCCTTGCATGCGAACACCCAT
Found at i:35880211 original size:30 final size:30
Alignment explanation
Indices: 35880177--35880254 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
35880167 CATATGACAA
* *
35880177 AAGCCTATGACTACCGATTGTGTCCGATAG
1 AAGCCTATGACTGCCGATTGTGTCCAATAG
* *
35880207 AAGCCGATGACTGCCAATTGTGTCCAATAG
1 AAGCCTATGACTGCCGATTGTGTCCAATAG
35880237 AAG-CTGATGACTGCCGAT
1 AAGCCT-ATGACTGCCGAT
35880255 GCCGGTAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 1 0.02
30 40 0.98
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (30 bp):
AAGCCTATGACTGCCGATTGTGTCCAATAG
Found at i:35887643 original size:15 final size:15
Alignment explanation
Indices: 35887623--35887657 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
35887613 AATGAGACAT
35887623 GTGAGGGCAAATATG
1 GTGAGGGCAAATATG
35887638 GTGAGGGCAAATATG
1 GTGAGGGCAAATATG
35887653 GTGAG
1 GTGAG
35887658 TGCTAGCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.43, T:0.20
Consensus pattern (15 bp):
GTGAGGGCAAATATG
Found at i:35914195 original size:11 final size:11
Alignment explanation
Indices: 35914179--35914204 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35914169 TTTGTTTTTT
35914179 TATCATATTCA
1 TATCATATTCA
35914190 TATCATATTCA
1 TATCATATTCA
35914201 TATC
1 TATC
35914205 GAAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (11 bp):
TATCATATTCA
Found at i:35917354 original size:19 final size:19
Alignment explanation
Indices: 35917321--35917359 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35917311 GGTTAGAGTT
*
35917321 AGTTAATTATAATTAATTA
1 AGTTAATTAGAATTAATTA
* *
35917340 AGTTAATTAGGATTACTTA
1 AGTTAATTAGAATTAATTA
35917359 A
1 A
35917360 TTATTAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (19 bp):
AGTTAATTAGAATTAATTA
Found at i:35918882 original size:51 final size:52
Alignment explanation
Indices: 35918808--35918915 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 52
35918798 AAATGAATAG
* * **
35918808 AAATGGAGTAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCTTAATGA
1 AAATGGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGA
* * *
35918860 AAATTGAGAAATA-GAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGA
1 AAATGGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGA
35918911 AAATG
1 AAATG
35918916 AAAATGAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 37 0.77
52 11 0.23
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.32
Consensus pattern (52 bp):
AAATGGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGA
Found at i:35922276 original size:11 final size:11
Alignment explanation
Indices: 35922260--35922285 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35922250 TTTGTTTTTT
35922260 TATCATATTCA
1 TATCATATTCA
35922271 TATCATATTCA
1 TATCATATTCA
35922282 TATC
1 TATC
35922286 GAAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (11 bp):
TATCATATTCA
Found at i:35925435 original size:19 final size:19
Alignment explanation
Indices: 35925402--35925440 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35925392 GGTTAGAGTT
*
35925402 AGTTAATTATAATTAATTA
1 AGTTAATTAGAATTAATTA
* *
35925421 AGTTAATTAGGATTACTTA
1 AGTTAATTAGAATTAATTA
35925440 A
1 A
35925441 TTATTAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (19 bp):
AGTTAATTAGAATTAATTA
Found at i:35926963 original size:51 final size:52
Alignment explanation
Indices: 35926889--35926996 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 52
35926879 AAATGAATAG
* * **
35926889 AAATGGAGTAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCTTAATGA
1 AAATGGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGA
* * *
35926941 AAATTGAGAAATA-GAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGA
1 AAATGGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGA
35926992 AAATG
1 AAATG
35926997 AAAATGAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 37 0.77
52 11 0.23
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.32
Consensus pattern (52 bp):
AAATGGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGA
Found at i:35929914 original size:250 final size:250
Alignment explanation
Indices: 35929473--35929980 Score: 910
Period size: 250 Copynumber: 2.0 Consensus size: 250
35929463 TGATGAGGCA
35929473 TGAGGATGAGTTAAGATTCGGCCTAGGTGGAGGTTGTGTTAATGCCATTGCAAGCAAAATATGAA
1 TGAGGATGAGTTAAGATTCGGCCTAGGTGGAGGTTGTGTTAATGCCATTGCAAGCAAAATATGAA
*
35929538 GCTTGTTAATGATGCATGTGATGATGGCTTGATGATTCTTGAACCTCCTTTTTAGCATTTTTGTG
66 GCTTGTTAATGATGCATGTGATGATGGCTTGATGATTCTTGAACCTCCTTTTTAGCATTTTTGAG
35929603 TGAGCACATATGTGCATTGGTTGCTAAATGGAGAAGAATCGGCTAGCAAGATGTGTGCTAAGGCC
131 TGAGCACATATGTGCATTGGTTGCTAAATGGAGAAGAATCGGCTAGCAAGATGTGTGCTAAGGCC
*
35929668 GAATGTAAC-TTTGCATGTTAATGAGCAATGCATGTGCTAAATTGATGAAAAGGGG
196 GAATATAACTTTTGCATGTTAATGAGCAATGCATGTGCTAAATTGATGAAAA-GGG
* * *
35929723 TGAGGATGAGTTAAGATTCGGCCTAGGTGGAGTTTGTGTTAATGCCATTGCATGCTAAATATGAA
1 TGAGGATGAGTTAAGATTCGGCCTAGGTGGAGGTTGTGTTAATGCCATTGCAAGCAAAATATGAA
*
35929788 GCTTGTTAATGATGCATGTGATGGTGGCTTGATGATTCTTGAACCTCCTTTTTAGCATTTTTGAG
66 GCTTGTTAATGATGCATGTGATGATGGCTTGATGATTCTTGAACCTCCTTTTTAGCATTTTTGAG
*
35929853 TGAGCACATATGTGCATTGGTTGCTAAATGGAGAAGAATCGGCTAGCAAGTTGTGTGCTAAGGCC
131 TGAGCACATATGTGCATTGGTTGCTAAATGGAGAAGAATCGGCTAGCAAGATGTGTGCTAAGGCC
* *
35929918 GAATATAACTTTTGCATGTTAATGAGCAATGCATGTGTTAAATTGATGGAAAGGG
196 GAATATAACTTTTGCATGTTAATGAGCAATGCATGTGCTAAATTGATGAAAAGGG
*
35929973 AGAGGATG
1 TGAGGATG
35929981 CTTTACTAGT
Statistics
Matches: 247, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
250 207 0.84
251 40 0.16
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (250 bp):
TGAGGATGAGTTAAGATTCGGCCTAGGTGGAGGTTGTGTTAATGCCATTGCAAGCAAAATATGAA
GCTTGTTAATGATGCATGTGATGATGGCTTGATGATTCTTGAACCTCCTTTTTAGCATTTTTGAG
TGAGCACATATGTGCATTGGTTGCTAAATGGAGAAGAATCGGCTAGCAAGATGTGTGCTAAGGCC
GAATATAACTTTTGCATGTTAATGAGCAATGCATGTGCTAAATTGATGAAAAGGG
Found at i:35930645 original size:40 final size:40
Alignment explanation
Indices: 35930549--35930693 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
35930539 TTGAATGCTG
* *
35930549 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
*
35930588 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35930628 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35930669 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35930694 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
39 19 0.21
40 63 0.68
41 10 0.11
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35930712 original size:80 final size:79
Alignment explanation
Indices: 35930549--35930726 Score: 175
Period size: 80 Copynumber: 2.3 Consensus size: 79
35930539 TTGAATGCTG
* * *
35930549 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTGTGCGAAGTGACAATAACCGGACTAAGATCCGAAGGCATTTG
** *
35930614 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* * * *
35930628 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC--TTGTGCGAAGTGACAATAACCGGACTAAGAT-CCGAAGGCAT
*
35930691 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
35930708 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35930727 TACGTGATTT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
79 36 0.44
80 38 0.46
81 8 0.10
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTGTGCGAAGTGACAATAACCGGACTAAGATCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:35930756 original size:48 final size:48
Alignment explanation
Indices: 35930695--35930790 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
35930685 AGGCATTTGA
*
35930695 ACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAAT
1 ACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGCGAAT
35930743 ACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGCGAAT
1 ACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGCGAAT
35930791 GAATGAACTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (48 bp):
ACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGCGAAT
Found at i:35931444 original size:59 final size:59
Alignment explanation
Indices: 35931352--35931469 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
35931342 GCTTGATAAG
*
35931352 GATTGGCCACGGGGATGGTTAATCACTTTCATAAATTGTGCTATTTATGCAAAAAGGGC
1 GATTGGCCACGAGGATGGTTAATCACTTTCATAAATTGTGCTATTTATGCAAAAAGGGC
35931411 GATTGGCCACGAGGATGGTTAATCACTTTCATAAATTGTGCTATTTATGCAAAAAGGGC
1 GATTGGCCACGAGGATGGTTAATCACTTTCATAAATTGTGCTATTTATGCAAAAAGGGC
35931470 TAGTTGAATC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (59 bp):
GATTGGCCACGAGGATGGTTAATCACTTTCATAAATTGTGCTATTTATGCAAAAAGGGC
Found at i:35932032 original size:100 final size:100
Alignment explanation
Indices: 35931859--35932058 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
35931849 ACGGCATCAG
35931859 TATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCCCT
1 TATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCCCT
*
35931924 GTAACATGGGAGACTTTTACTAATAAACTGTACTA
66 CTAACATGGGAGACTTTTACTAATAAACTGTACTA
35931959 TATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCCCT
1 TATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCCCT
35932024 CTAACATGGGAGACTTTTACTAATAAACTGTACTA
66 CTAACATGGGAGACTTTTACTAATAAACTGTACTA
35932059 ATTTCCCCGA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (100 bp):
TATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCCCT
CTAACATGGGAGACTTTTACTAATAAACTGTACTA
Found at i:35935280 original size:42 final size:42
Alignment explanation
Indices: 35935227--35935344 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
35935217 GGTTACTGAG
* *
35935227 ATTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAC
1 ATTACATGTAAGACCATATCTGGGATATGGCATCGATACGAC
* * * *
35935269 ACTT-CATGTAAGACCATAGCTGGGCTATTGGAATCGATACGAG
1 A-TTACATGTAAGACCATATCTGGGATA-TGGCATCGATACGAC
* *
35935312 ATTACATGTAAGATCATATTTGGGATATGGCAT
1 ATTACATGTAAGACCATATCTGGGATATGGCAT
35935345 TGGTACGGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
ATTACATGTAAGACCATATCTGGGATATGGCATCGATACGAC
Found at i:35939093 original size:41 final size:41
Alignment explanation
Indices: 35939044--35939127 Score: 143
Period size: 41 Copynumber: 2.0 Consensus size: 41
35939034 TCAATTGAAA
*
35939044 TTTCCCAAAAGTATTTTCCTTA-ATTTTCTTTCTGTGCATTC
1 TTTCCCAAAAGTATTTTCC-CAGATTTTCTTTCTGTGCATTC
35939085 TTTCCCAAAAGTATTTTCCCAGATTTTCTTTCTGTGCATTC
1 TTTCCCAAAAGTATTTTCCCAGATTTTCTTTCTGTGCATTC
35939126 TT
1 TT
35939128 AGTTTAGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 1 0.02
41 40 0.98
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (41 bp):
TTTCCCAAAAGTATTTTCCCAGATTTTCTTTCTGTGCATTC
Found at i:35951783 original size:27 final size:27
Alignment explanation
Indices: 35951752--35951929 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
35951742 TAAATTGTAC
35951752 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35951779 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35951805 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35951833 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
35951861 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35951888 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35951915 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35951930 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35951866 original size:82 final size:81
Alignment explanation
Indices: 35951753--35951908 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
35951743 AAATTGTACA
*
35951753 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
35951817 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35951834 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
35951899 TGCGAGTTGA
65 TGCGAATTGA
35951909 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35951920 original size:82 final size:81
Alignment explanation
Indices: 35951749--35951929 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
35951739 GATTAAATTG
*
35951749 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
35951814 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35951830 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
35951894 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35951912 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35951930 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35954450 original size:34 final size:35
Alignment explanation
Indices: 35954412--35954495 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 35
35954402 AACCCCATAT
*
35954412 CAGTAGCAATATCAGTGT-GGACCTTAGCCCATTA
1 CAGTAGCAATATCAGTGTAGGACCCTAGCCCATTA
* * * *
35954446 CAGTAGTAATAACAGTGTGAGGGCCCTAGCCCATTT
1 CAGTAGCAATATCAGTGT-AGGACCCTAGCCCATTA
35954482 CAGTA-CAATATCAG
1 CAGTAGCAATATCAG
35954496 CAATGCATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 16 0.39
35 7 0.17
36 18 0.44
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (35 bp):
CAGTAGCAATATCAGTGTAGGACCCTAGCCCATTA
Found at i:35954486 original size:36 final size:34
Alignment explanation
Indices: 35954405--35954491 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
35954395 CTAGCTTAAC
* * *
35954405 CCCATATCAGTAGCAATATCAGTGTGGACCTTAG
1 CCCATTTCAGTAGCAATAACAGTGTGGACCCTAG
* * *
35954439 CCCATTACAGTAGTAATAACAGTGTGAGGGCCCTAG
1 CCCATTTCAGTAGCAATAACAGTGT--GGACCCTAG
35954475 CCCATTTCAGTA-CAATA
1 CCCATTTCAGTAGCAATA
35954492 TCAGCAATGC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
34 21 0.49
35 4 0.09
36 18 0.42
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (34 bp):
CCCATTTCAGTAGCAATAACAGTGTGGACCCTAG
Found at i:35968546 original size:42 final size:42
Alignment explanation
Indices: 35968375--35968549 Score: 111
Period size: 42 Copynumber: 4.0 Consensus size: 42
35968365 GGGAGCCAAA
* * * * * *
35968375 GCCATGTCCTAGACATGGTCTTACAAGGAACTACACATCGAT
1 GCCATGTCCAAGACATGGTCTTATACGAAACCACATATCGAT
* * * * * *
35968417 GCCATATCCCAA-ATATGGTCTTATACGAAGTCTCGAATCGGTACCGAC
1 GCCATGT-CCAAGACATGGTCTTATACGAA-AC-C--A-C-ATATCGAT
* * *
35968465 GCCATGTCCTAGACATGGTCTTATACGAGACCTCATATCGAT
1 GCCATGTCCAAGACATGGTCTTATACGAAACCACATATCGAT
* *
35968507 GCCATGTCTCAAG-CATGGTCTTATACGAAATCACTTATCGAT
1 GCCATGTC-CAAGACATGGTCTTATACGAAACCACATATCGAT
35968549 G
1 G
35968550 TCGAAGCCAT
Statistics
Matches: 98, Mismatches: 26, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
42 58 0.59
43 8 0.08
46 2 0.02
47 5 0.05
48 25 0.26
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (42 bp):
GCCATGTCCAAGACATGGTCTTATACGAAACCACATATCGAT
Found at i:35968559 original size:90 final size:90
Alignment explanation
Indices: 35968373--35968591 Score: 226
Period size: 90 Copynumber: 2.4 Consensus size: 90
35968363 TAGGGAGCCA
* * *
35968373 AAGCCATGTCCTAGACATGGTCTTACAAG-GAACTACACATCGATGCCATATCCCAAATATGGTC
1 AAGCCATGTCCTAGACATGGTCTTACACGAGAACT-CATATCGATGCCATATCCCAAACATGGTC
* * *
35968437 TTATACGAAGTCTCGAATCGGTACCG
65 TTATACGAAATCACGAATCGATACCG
* * * * * *
35968463 ACGCCATGTCCTAGACATGGTCTTATACGAGACCTCATATCGATGCCATGTCTCAAGCATGGTCT
1 AAGCCATGTCCTAGACATGGTCTTACACGAGAACTCATATCGATGCCATATCCCAAACATGGTCT
** **
35968528 TATACGAAATCACTTATCGATGTCG
66 TATACGAAATCACGAATCGATACCG
* * * *
35968553 AAGCCATATCCCT-GATATGGTCATACACGAGATCTCATA
1 AAGCCATGT-CCTAGACATGGTCTTACACGAGAACTCATA
35968592 AATCATGGTT
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
90 98 0.93
91 7 0.07
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (90 bp):
AAGCCATGTCCTAGACATGGTCTTACACGAGAACTCATATCGATGCCATATCCCAAACATGGTCT
TATACGAAATCACGAATCGATACCG
Done.