Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 326 of 378
Found at i:99073859 original size:15 final size:15
Alignment explanation
Indices: 99073839--99073875 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
99073829 GATTACTTCT
99073839 TAGGGTTGTCAAGCC
1 TAGGGTTGTCAAGCC
99073854 TAGGGTTGTCAAGCC
1 TAGGGTTGTCAAGCC
99073869 TAGGGTT
1 TAGGGTT
99073876 TAGGAACGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (15 bp):
TAGGGTTGTCAAGCC
Found at i:99075676 original size:44 final size:45
Alignment explanation
Indices: 99075586--99075714 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
99075576 GACAGAACGA
*
99075586 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
99075632 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
99075676 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
99075715 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:99083082 original size:44 final size:45
Alignment explanation
Indices: 99082992--99083120 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
99082982 GACAGAACGA
*
99082992 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
99083038 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
99083082 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
99083121 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:99088591 original size:35 final size:35
Alignment explanation
Indices: 99088449--99088573 Score: 214
Period size: 35 Copynumber: 3.6 Consensus size: 35
99088439 CGGGAAATGT
**
99088449 CATACCTACGTTTCTTAACTCAGTATGGATAATAC
1 CATACCTACGTTTCACAACTCAGTATGGATAATAC
*
99088484 CATACCTACGTTTCACAACTCAGTATGGTTAATAC
1 CATACCTACGTTTCACAACTCAGTATGGATAATAC
*
99088519 CATACCTACGTTTCACAACTCAGTATGGATGATAC
1 CATACCTACGTTTCACAACTCAGTATGGATAATAC
99088554 CATACCTACGTTTCACAACT
1 CATACCTACGTTTCACAACT
99088574 TTGTCATGGA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 85 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (35 bp):
CATACCTACGTTTCACAACTCAGTATGGATAATAC
Found at i:99095874 original size:35 final size:35
Alignment explanation
Indices: 99095795--99095959 Score: 179
Period size: 35 Copynumber: 4.7 Consensus size: 35
99095785 TCCTCATTGA
*** * *
99095795 AATACCATACCTGTATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-AGAT
** **
99095830 AATGTCATACCTACGTTTCTTAACTCAGTATAGAT
1 AATACCATACCTACGTTTCACAACTCAGTATAGAT
* * *
99095865 AATACCATACCTACATTTCACAACTCAGTACAGTT
1 AATACCATACCTACGTTTCACAACTCAGTATAGAT
*
99095900 AATACCATACCTACGTTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATAGAT
* *
99095935 GATACCATACTTACGTTTCACAACT
1 AATACCATACCTACGTTTCACAACT
99095960 TTTCCATGGA
Statistics
Matches: 107, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
34 2 0.02
35 105 0.98
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATAGAT
Found at i:99099060 original size:2 final size:2
Alignment explanation
Indices: 99099053--99099079 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
99099043 CAAAATAACA
99099053 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
99099080 AATTTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99102504 original size:35 final size:35
Alignment explanation
Indices: 99102456--99102597 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
99102446 ATAATCTTCA
* * *
99102456 ATGATATGTAATCTTAGATATGATACAATCATAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
99102492 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
99102527 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
99102562 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
99102598 AGATATGATT
Statistics
Matches: 101, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 83 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:99102511 original size:18 final size:18
Alignment explanation
Indices: 99102465--99102597 Score: 191
Period size: 18 Copynumber: 7.5 Consensus size: 18
99102455 AATGATATGT
99102465 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* * *
99102482 AATCATAAATATGATTGC
1 AATCTTAGATATGATTAC
99102500 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
99102517 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
99102535 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
99102552 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
99102570 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
99102589 AATCTTAGA
1 AATCTTAGA
99102598 AGATATGATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 44 0.43
18 47 0.46
19 11 0.11
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:99103105 original size:18 final size:17
Alignment explanation
Indices: 99103081--99103140 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
99103071 CCAATATATT
99103081 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
99103098 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
99103114 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
99103132 TTATATTTT
1 TTATATTTT
99103141 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:99103125 original size:15 final size:16
Alignment explanation
Indices: 99103082--99103140 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
99103072 CAATATATTT
99103082 TATATTTTTTATATAA
1 TATATTTTTTATATAA
99103098 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
99103114 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
99103132 TTATATTTT
1 -TATATTTT
99103141 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:99103165 original size:26 final size:26
Alignment explanation
Indices: 99103117--99103166 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
99103107 TTATAAATAT
* * * *
99103117 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
99103143 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
99103167 TTATATGCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:99108926 original size:13 final size:13
Alignment explanation
Indices: 99108908--99108946 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
99108898 TCTATTTCAA
99108908 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
99108921 AAAAAAAAAAGAG
1 AAAAAAAAAAAAG
99108934 AAAAAAGAAAAAA
1 AAAAAA-AAAAAA
99108947 ATGGAGAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:99108954 original size:21 final size:20
Alignment explanation
Indices: 99108906--99108947 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
99108896 CTTCTATTTC
99108906 AAAAAAA-A-AAAAAAGAAA
1 AAAAAAAGAGAAAAAAGAAA
99108924 AAAAAAAGAGAAAAAAGAAA
1 AAAAAAAGAGAAAAAAGAAA
99108944 AAAA
1 AAAA
99108948 TGGAGAGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.32
19 1 0.05
20 14 0.64
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAGAAAAAAGAAA
Found at i:99110265 original size:237 final size:238
Alignment explanation
Indices: 99109848--99110552 Score: 1121
Period size: 237 Copynumber: 3.0 Consensus size: 238
99109838 AAATAAATTG
* ** *
99109848 AAGACAGCAGATCTAGA-CTTCAGACATTTATGA-TGAAGCAGATCCAAGATGATTTGGCATTAT
1 AAGATAGCAGATCTA-ACCTTCAGATGTTTAT-ACTGAAGCAGATCCAAGATGATTTGGCATTCT
* * * *
99109911 TGTGTTTAC-AGGAACAAGTTGA--AGATAGCAGATTTGA-TC-C---CGTTCTCAAAGATAGCA
64 TGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGCA
99109968 GATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAA
129 GATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAA
99110033 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
194 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
99110078 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
99110143 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGCAGA
66 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGCAGA
*
99110208 T-TAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGG
131 TCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
99110272 AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
196 AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
* * *
99110315 AATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
*
99110380 TGTTTACAAGAAACAAATCGAGGACATAGCA-ATTTGACTCTCAGACGTTCTCAAATATAGCAGA
66 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGCAGA
* * *
99110444 TCTAA-CTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGG
131 TCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
* * * *
99110508 AACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCA
196 AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
99110551 AA
1 AA
99110553 AGACTCAAGA
Statistics
Matches: 443, Mismatches: 21, Indels: 16
0.92 0.04 0.03
Matches are distributed among these distances:
229 2 0.00
230 64 0.14
231 11 0.02
233 14 0.03
234 2 0.00
235 1 0.00
236 130 0.29
237 200 0.45
238 19 0.04
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (238 bp):
AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGCAGA
TCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
Found at i:99110299 original size:118 final size:119
Alignment explanation
Indices: 99109853--99110552 Score: 1120
Period size: 119 Copynumber: 6.0 Consensus size: 119
99109843 AATTGAAGAC
** *
99109853 AGCAGATCTAGA-CTTCAGACATTTATGA-TGAAGCAGATCCAAGATGATTTGGCATTATTGTGT
1 AGCAGATCTA-ACCTTCAGATGTTTAT-ACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
99109916 TTAC-AGGAACAAGTTGA--AGATAGCAGATTTGA-TC-C---CGTTCTCAAAGAT
64 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
99109964 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT
*
99110029 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGAT
66 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
99110083 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT
99110148 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
*
99110202 AGCAGAT-TAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT
99110266 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
* *
99110320 AGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT
*
99110385 ACAAGAAACAAATCGAGGACATAGCA-ATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
* * *
99110438 AGCAGATCTAA-CTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT
* * * *
99110502 ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
99110553 AGACTCAAGA
Statistics
Matches: 557, Mismatches: 20, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
110 2 0.00
111 60 0.11
112 11 0.02
114 14 0.03
115 2 0.00
116 1 0.00
117 72 0.13
118 176 0.32
119 219 0.39
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (119 bp):
AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT
ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
Found at i:99110692 original size:83 final size:83
Alignment explanation
Indices: 99110476--99110826 Score: 616
Period size: 83 Copynumber: 4.2 Consensus size: 83
99110466 GAAGCAGATC
99110476 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
99110541 AATGTTCTCAAA-AGACT
66 AATGTTCTCAAACAGACT
99110558 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
99110623 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
99110641 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
99110706 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
99110724 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTC-AGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
99110788 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
99110807 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
99110827 ACAAATCGAA
Statistics
Matches: 260, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
82 85 0.33
83 147 0.57
84 28 0.11
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:99111258 original size:18 final size:18
Alignment explanation
Indices: 99111219--99111316 Score: 155
Period size: 18 Copynumber: 5.5 Consensus size: 18
99111209 AATGATATGT
99111219 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
99111236 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
99111254 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
99111271 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
99111289 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
99111308 AATCTTAGA
1 AATCTTAGA
99111317 AGATATGATT
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
17 30 0.41
18 33 0.45
19 11 0.15
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:99111259 original size:35 final size:35
Alignment explanation
Indices: 99111210--99111316 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
99111200 ATAATCTTCA
*
99111210 ATGATATGTAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
99111246 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
99111281 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
99111317 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 50 0.74
36 5 0.07
37 13 0.19
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:99111813 original size:17 final size:16
Alignment explanation
Indices: 99111800--99111857 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
99111790 CCAATATATT
99111800 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
99111816 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
99111832 -TATATTTTTATTATATA
1 TTATATTTTTA-TATA-A
99111849 TTATATTTT
1 TTATATTTT
99111858 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 7 0.20
15 4 0.11
16 6 0.17
17 10 0.29
18 8 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:99111858 original size:17 final size:17
Alignment explanation
Indices: 99111793--99111858 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
99111783 TTCTAAACCA
*
99111793 ATATATTTTATATTT-TT
1 ATATATTATAT-TTTATT
99111810 ATATAATTATTATTCTTA-T
1 ATAT-ATTA-TATT-TTATT
*
99111829 AAATA-TAT-TTTTATT
1 ATATATTATATTTTATT
99111844 ATATATTATATTTTA
1 ATATATTATATTTTA
99111859 AATTTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 4 0.10
17 11 0.28
18 5 0.13
19 9 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATATTTTATT
Found at i:99111882 original size:26 final size:25
Alignment explanation
Indices: 99111835--99111883 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
99111825 TTATAAATAT
* * *
99111835 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
99111860 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
99111884 TTATATGCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:99116591 original size:35 final size:37
Alignment explanation
Indices: 99116520--99116617 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
99116510 ATAATCTTCA
99116520 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
99116558 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
99116593 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
99116618 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:99116617 original size:17 final size:19
Alignment explanation
Indices: 99116520--99116610 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
99116510 ATAATCTTCA
99116520 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99116539 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99116558 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99116575 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99116593 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
99116611 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:99116636 original size:22 final size:22
Alignment explanation
Indices: 99116520--99116633 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
99116510 ATAATCTTCA
99116520 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99116539 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99116558 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99116575 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99116593 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
99116615 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
99116634 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:99118684 original size:2 final size:2
Alignment explanation
Indices: 99118679--99118714 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
99118669 AGGTAAGTTA
99118679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99118715 TTACATGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99120626 original size:15 final size:15
Alignment explanation
Indices: 99120608--99120637 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99120598 AAATTTTAAT
*
99120608 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
99120623 TTTTTATAATTTATA
1 TTTTTATAATTTATA
99120638 AAGGATTAAA
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:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:99121198 original size:18 final size:18
Alignment explanation
Indices: 99121172--99121209 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
99121162 ATAAATAAGT
99121172 ATTAAAAATTATAAAAAA
1 ATTAAAAATTATAAAAAA
*
99121190 ATTAGAAATTATAAAAAA
1 ATTAAAAATTATAAAAAA
99121208 AT
1 AT
99121210 ATAATTGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATTAAAAATTATAAAAAA
Found at i:99125638 original size:46 final size:46
Alignment explanation
Indices: 99125568--99125835 Score: 221
Period size: 46 Copynumber: 5.8 Consensus size: 46
99125558 TGTAACCCGC
* *
99125568 CCATAAGCGAACTCGAACTTAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGACGTT-GCAT
* * *
99125614 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAG--GAC--GTTGCAT
* *
99125664 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGAC-GTTGCAT
* * *
99125707 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAG--GAC--GTTGCAT
** ** *
99125757 -C-T-CCCGAACTCAAACTCAACTCAACGAGCTC-GGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGACGTT-GCAT
* *
99125800 CCATAAGTGAACTCGGATTCAACTCAACGAGCTCAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAG
99125836 ATGCCCAAAT
Statistics
Matches: 177, Mismatches: 28, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.01
43 9 0.05
44 6 0.03
45 3 0.02
46 84 0.47
47 52 0.29
48 4 0.02
49 5 0.03
50 9 0.05
51 3 0.02
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGACGTTGCAT
Found at i:99125684 original size:47 final size:47
Alignment explanation
Indices: 99125622--99125787 Score: 205
Period size: 47 Copynumber: 3.6 Consensus size: 47
99125612 ATCCATAAGT
99125622 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
* * * * *
99125669 GAACTCGGACTCAACTCAACGAGCTC-G--GAC-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT-C-TCA-C
*
99125715 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCCC
1 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
**
99125762 GAACTCAAACTCAACTCAACGAGCTC
1 GAACTCGGACTCAACTCAACGAGCTC
99125788 GGACATTCGC
Statistics
Matches: 99, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 2 0.02
46 27 0.27
47 51 0.52
48 1 0.01
49 3 0.03
50 6 0.06
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:99125688 original size:93 final size:93
Alignment explanation
Indices: 99125575--99125840 Score: 453
Period size: 93 Copynumber: 2.9 Consensus size: 93
99125565 CGCCCATAAG
* *
99125575 CGAACTCGAACTTAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGAACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
99125639 AACGAGCTCAGATGCCTAGTTACATCTCA
65 AACGAGCTCAGATGCCTAGTTACATCTCA
* *
99125668 CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
99125733 ACGAGCTCAGATGCCTAGTTACATCTCC
66 ACGAGCTCAGATGCCTAGTTACATCTCA
* *
99125761 CGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGATTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
99125826 ACGAGCTCAGATGCC
66 ACGAGCTCAGATGCC
99125841 CAAATATCCT
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
92 2 0.01
93 161 0.99
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:99129114 original size:46 final size:44
Alignment explanation
Indices: 99129010--99129117 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
99129000 TGTCTTTGAC
** * * *
99129010 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
99129054 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
99129100 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
99129118 TTTTGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:99136325 original size:46 final size:44
Alignment explanation
Indices: 99136220--99136327 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
99136210 TGTCTTTGAC
** * * *
99136220 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
99136264 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
*
99136310 ATGGGCTTACATGGCTCA
1 ATGGACTTACATGGCTCA
99136328 TTTTGTTCTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.60
46 22 0.40
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:99142007 original size:21 final size:21
Alignment explanation
Indices: 99141981--99142021 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99141971 ACTAAAAGAA
99141981 TAATTTCAACAGAAGACAAGG
1 TAATTTCAACAGAAGACAAGG
* *
99142002 TAATTTCAATAGGAGACAAG
1 TAATTTCAACAGAAGACAAG
99142022 AGTGAGCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (21 bp):
TAATTTCAACAGAAGACAAGG
Found at i:99143298 original size:18 final size:19
Alignment explanation
Indices: 99143275--99143321 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
99143265 TAATTATAAG
99143275 TATTTTTATTT-TTTCTTT-
1 TATTTTTATTTCTTT-TTTA
*
99143293 TATTTTTGTTTCTTTTTTAA
1 TATTTTTATTTCTTTTTT-A
99143313 TATTTTTAT
1 TATTTTTAT
99143322 GAAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 13 0.54
19 3 0.12
20 8 0.33
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (19 bp):
TATTTTTATTTCTTTTTTA
Found at i:99145252 original size:24 final size:24
Alignment explanation
Indices: 99145214--99145259 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
99145204 ATCTCAATAC
*
99145214 TCCTTTTGGTCAGGGACCATCATT
1 TCCTTTTGATCAGGGACCATCATT
* *
99145238 TCCTTTTGATTAGGGAGCATCA
1 TCCTTTTGATCAGGGACCATCA
99145260 CCACAACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (24 bp):
TCCTTTTGATCAGGGACCATCATT
Found at i:99160334 original size:19 final size:19
Alignment explanation
Indices: 99160305--99160353 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
99160295 ATTTTACTGT
99160305 ATTTATTATGAATATTTTAA
1 ATTTATTATGAA-ATTTTAA
99160325 ATTT-TTATGAAATTTT-A
1 ATTTATTATGAAATTTTAA
99160342 ATTATATTATGA
1 ATT-TATTATGA
99160354 GATAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 13 0.48
20 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (19 bp):
ATTTATTATGAAATTTTAA
Found at i:99160368 original size:19 final size:18
Alignment explanation
Indices: 99160341--99160377 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
99160331 ATGAAATTTT
*
99160341 AATTATATTATGAGATAA
1 AATTATATTATGAAATAA
99160359 AATTATTATTATGAAATAA
1 AATTA-TATTATGAAATAA
99160378 TTACTGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTATATTATGAAATAA
Found at i:99161650 original size:24 final size:24
Alignment explanation
Indices: 99161612--99161657 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
99161602 ATCTCAATAC
*
99161612 TCCTTTTGGTCAGGGACCATCATT
1 TCCTTTTGATCAGGGACCATCATT
* *
99161636 TCCTTTTGATTAGGGAGCATCA
1 TCCTTTTGATCAGGGACCATCA
99161658 CCACAACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (24 bp):
TCCTTTTGATCAGGGACCATCATT
Found at i:99189491 original size:42 final size:41
Alignment explanation
Indices: 99189391--99189542 Score: 144
Period size: 43 Copynumber: 3.6 Consensus size: 41
99189381 CAATGCCAAC
* * * *
99189391 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATTAAATA-CGATGCCA-T
* *
99189434 GTCCCAAACAGGGTCTTACACGAAATTAAATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATTAAATACGATGCC-AT
* *
99189476 GTCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAAT--TAAATACGATGCC-AT
**
99189520 GTCCCAGAGGTGGTCTTACACGA
1 GTCCCAGACATGGTCTTACACGA
99189543 TAACACATAT
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 28 0.30
43 32 0.35
44 28 0.30
45 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATTAAATACGATGCCAT
Found at i:99198189 original size:25 final size:25
Alignment explanation
Indices: 99198135--99198183 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
99198125 CAAATAAAAA
**
99198135 AAATAAAATTCAAATCATAAATTTG
1 AAATAAAAACCAAATCATAAATTTG
*
99198160 AAATAAAAACCAAATGATAAATTT
1 AAATAAAAACCAAATCATAAATTT
99198184 ATAATATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (25 bp):
AAATAAAAACCAAATCATAAATTTG
Found at i:99198607 original size:103 final size:103
Alignment explanation
Indices: 99198484--99198687 Score: 363
Period size: 103 Copynumber: 2.0 Consensus size: 103
99198474 TGAAGAAAAC
*
99198484 CTTTAAACTTATTTATGTTCCGTGTTAGTGAAGATACTATAGTCCATCTATGGAAACCAATCACT
1 CTTTAAACCTATTTATGTTCCGTGTTAGTGAAGATACTATAGTCCATCTATGGAAACCAATCACT
* *
99198549 GGCATTTGAAGGTTTAATTGGATTCAAGTGAATCAAAT
66 GGCATTTGAAGATTGAATTGGATTCAAGTGAATCAAAT
* *
99198587 CTTTAAACCTATTTATGTTCCGTGTTAGTGAAGATACTATAGTCCATCTATGGAAACCAGTCATT
1 CTTTAAACCTATTTATGTTCCGTGTTAGTGAAGATACTATAGTCCATCTATGGAAACCAATCACT
99198652 GGCATTTGAAGATTGAATTGGATTCAAGTGAATCAA
66 GGCATTTGAAGATTGAATTGGATTCAAGTGAATCAA
99198688 GTCAACCCTT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (103 bp):
CTTTAAACCTATTTATGTTCCGTGTTAGTGAAGATACTATAGTCCATCTATGGAAACCAATCACT
GGCATTTGAAGATTGAATTGGATTCAAGTGAATCAAAT
Found at i:99201206 original size:21 final size:21
Alignment explanation
Indices: 99201140--99201212 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
99201130 CAACACATGG
* *
99201140 CCGTGTAGCCTCCCCACACAC
1 CCGTGTGGCCTCCCCACACGC
*
99201161 TCGTGTGGCCTCCCCACACGC
1 CCGTGTGGCCTCCCCACACGC
* * *
99201182 CCGTGTGGCCTTCCCACATGT
1 CCGTGTGGCCTCCCCACACGC
99201203 CCGTGTGGCC
1 CCGTGTGGCC
99201213 AGACCGTGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.11, C:0.45, G:0.23, T:0.21
Consensus pattern (21 bp):
CCGTGTGGCCTCCCCACACGC
Found at i:99203668 original size:16 final size:17
Alignment explanation
Indices: 99203636--99203670 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
99203626 CATTTTCTAA
99203636 AATCACTTAACTTAACT
1 AATCACTTAACTTAACT
*
99203653 AATCATTTAA-TTAACT
1 AATCACTTAACTTAACT
99203669 AA
1 AA
99203671 AATTATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (17 bp):
AATCACTTAACTTAACT
Found at i:99211136 original size:20 final size:21
Alignment explanation
Indices: 99211111--99211152 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
99211101 CTACAAGCCG
99211111 AAACCCAATA-TATTATATAT
1 AAACCCAATAGTATTATATAT
99211131 AAACCCAATATGTATTATATAT
1 AAACCCAATA-GTATTATATAT
99211153 CTAAAATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (21 bp):
AAACCCAATAGTATTATATAT
Found at i:99211171 original size:22 final size:21
Alignment explanation
Indices: 99211111--99211173 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
99211101 CTACAAGCCG
99211111 AAACCCAATATAT-TATATAT
1 AAACCCAATATATATATATAT
*
99211131 AAACCCAATATGTATTATATATCT
1 AAACCCAATA--TA-TATATATAT
*
99211155 AAAATCCAATATATATATA
1 -AAACCCAATATATATATA
99211174 AACTAAATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 10 0.28
22 8 0.22
23 3 0.08
24 6 0.17
25 9 0.25
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (21 bp):
AAACCCAATATATATATATAT
Found at i:99211181 original size:22 final size:22
Alignment explanation
Indices: 99211115--99211181 Score: 57
Period size: 25 Copynumber: 3.0 Consensus size: 22
99211105 AAGCCGAAAC
* *
99211115 CCAATATAT-TATATA-TAAAC
1 CCAATATATATATAAACTAAAT
* *
99211135 CCAATATGTATTATATATCTAAAAT
1 CCAATATATA-TATA-AACT-AAAT
99211160 CCAATATATATATAAACTAAAT
1 CCAATATATATATAAACTAAAT
99211182 AGATTTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
20 8 0.22
22 8 0.22
23 3 0.08
24 5 0.14
25 12 0.33
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.36
Consensus pattern (22 bp):
CCAATATATATATAAACTAAAT
Found at i:99213967 original size:40 final size:39
Alignment explanation
Indices: 99213876--99213974 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 39
99213866 GCACACCAAC
* * * *
99213876 TCCATCCAACCCAACACACC-ATGTAGGGATGAAATTAA
1 TCCATCCAACCCTACACACCAATATAGGGATAAAATCAA
* * * *
99213914 CCCACCCATCCCTACACACCAAATATGGGGATAAAATCAA
1 TCCATCCAACCCTACACACC-AATATAGGGATAAAATCAA
99213954 TCCATCCAACCCTACACACCA
1 TCCATCCAACCCTACACACCA
99213975 TAGAGTACAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
38 16 0.33
39 1 0.02
40 31 0.65
ACGTcount: A:0.38, C:0.36, G:0.09, T:0.16
Consensus pattern (39 bp):
TCCATCCAACCCTACACACCAATATAGGGATAAAATCAA
Found at i:99221214 original size:40 final size:40
Alignment explanation
Indices: 99221170--99221245 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
99221160 ACACATTATG
* ** * *
99221170 TGGGGATCAAATTGACCCACCCATCCCTACACACCAAATA
1 TGGGGATAAAATCAACCAACCCAACCCTACACACCAAATA
*
99221210 TGGGGATAAAATCAACCAATCCAACCCTACACACCA
1 TGGGGATAAAATCAACCAACCCAACCCTACACACCA
99221246 TAGAGTACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.38, C:0.34, G:0.12, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCAACCAACCCAACCCTACACACCAAATA
Found at i:99222892 original size:20 final size:20
Alignment explanation
Indices: 99222869--99222922 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
99222859 TGCTTAGTCC
99222869 TGTTCTGTTCTGTTCCATTA
1 TGTTCTGTTCTGTTCCATTA
* *
99222889 TGTTCTGTTCTGCTCTATTA
1 TGTTCTGTTCTGTTCCATTA
*
99222909 AGTTCTGTTCTGTT
1 TGTTCTGTTCTGTT
99222923 TTACTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.09, C:0.19, G:0.17, T:0.56
Consensus pattern (20 bp):
TGTTCTGTTCTGTTCCATTA
Found at i:99225029 original size:40 final size:40
Alignment explanation
Indices: 99224947--99225098 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
99224937 AAATTGAATG
* * ** ** *
99224947 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCACT
* * **
99224986 ATATTCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCACT
* *
99225026 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTCACT
* *
99225066 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
99225099 CATGGTTATA
Statistics
Matches: 91, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 15 0.16
40 74 0.81
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCACT
Found at i:99225111 original size:40 final size:39
Alignment explanation
Indices: 99224984--99225113 Score: 152
Period size: 40 Copynumber: 3.3 Consensus size: 39
99224974 ATGCTGGAAA
* * *
99224984 TTATATTCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
99225024 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
99225064 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
99225104 TTATATCCGG
1 TTATATCCGG
99225114 TTATATTCCG
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 71 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:99227846 original size:22 final size:22
Alignment explanation
Indices: 99227820--99227862 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
99227810 TTACAATTCT
*
99227820 TGAATATATATTAATAATCAAC
1 TGAATATATATTAACAATCAAC
*
99227842 TGAATATATTTTAACAATCAA
1 TGAATATATATTAACAATCAA
99227863 TAGATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (22 bp):
TGAATATATATTAACAATCAAC
Found at i:99233481 original size:27 final size:25
Alignment explanation
Indices: 99233441--99233552 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 25
99233431 AGCATGGCTG
* *
99233441 CCAGAACAAATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAAAG-CA
99233467 CCAGATACAGATAATCGTGGCAAAGCTA
1 CCAGA-ACAGATAAT-GTGGCAAAGC-A
* *
99233495 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAAAG-CA
* *
99233522 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAAAG-CA
99233549 CCAG
1 CCAG
99233553 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 17 0.23
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.16
Consensus pattern (25 bp):
CCAGAACAGATAATGTGGCAAAGCA
Found at i:99241411 original size:26 final size:26
Alignment explanation
Indices: 99241339--99241416 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
99241329 ACATCTTTTC
*
99241339 TCAAAATTTTACCA-TGGGTAAAATAA
1 TCAAAATTTTA-CAGGGGGTAAAATAA
* ** * *
99241365 TAAAAAAAATTA-TGGGTGTAAAATAA
1 T-CAAAATTTTACAGGGGGTAAAATAA
99241391 TCAAAATTTTACAGGGGGTAAAATAA
1 TCAAAATTTTACAGGGGGTAAAATAA
99241417 GGATGAGAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
25 7 0.18
26 24 0.63
27 7 0.18
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.28
Consensus pattern (26 bp):
TCAAAATTTTACAGGGGGTAAAATAA
Found at i:99242286 original size:19 final size:19
Alignment explanation
Indices: 99242233--99242291 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
99242223 CGAGCAAAAA
99242233 AAAAAACATTGTGAAG-G-T
1 AAAAAACATTGTG-AGTGAT
* * * *
99242251 TAAAAGCATGGTTAGTGAT
1 AAAAAACATTGTGAGTGAT
99242270 AAAAAACATTGTGAGTGA-
1 AAAAAACATTGTGAGTGAT
99242288 AAAA
1 AAAA
99242292 GAGAAAATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
17 2 0.06
18 14 0.45
19 15 0.48
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.24
Consensus pattern (19 bp):
AAAAAACATTGTGAGTGAT
Found at i:99242291 original size:18 final size:18
Alignment explanation
Indices: 99242232--99242291 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
99242222 GCGAGCAAAA
99242232 AAAAAAACATTGTGAAG-G
1 AAAAAAACATTGTG-AGTG
** * * *
99242250 TTAAAAGCATGGTTAGTG
1 AAAAAAACATTGTGAGTG
99242268 ATAAAAAACATTGTGAGTG
1 A-AAAAAACATTGTGAGTG
99242287 AAAAA
1 AAAAA
99242292 GAGAAAATTT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
17 2 0.07
18 14 0.47
19 14 0.47
ACGTcount: A:0.50, C:0.05, G:0.22, T:0.23
Consensus pattern (18 bp):
AAAAAAACATTGTGAGTG
Found at i:99243206 original size:18 final size:17
Alignment explanation
Indices: 99243183--99243216 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
99243173 TGGCCCATTA
99243183 CAGTAACAGTAAACAGTG
1 CAGTAACAGT-AACAGTG
99243201 CAGTAACAGTAACAGT
1 CAGTAACAGTAACAGT
99243217 ACATATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (17 bp):
CAGTAACAGTAACAGTG
Found at i:99243574 original size:27 final size:27
Alignment explanation
Indices: 99243545--99243738 Score: 262
Period size: 27 Copynumber: 7.1 Consensus size: 27
99243535 AATATAAACA
* * *
99243545 TTTATCACATAGGGGCAAAACAGTCAA
1 TTTACCACATAAGGGCAAAACAGTCAT
* * *
99243572 TTTACCATATAAGGGCGAAACAATCAT
1 TTTACCACATAAGGGCAAAACAGTCAT
*
99243599 TTTACAACATAAGGGCAAAACAGTCAT
1 TTTACCACATAAGGGCAAAACAGTCAT
99243626 TTTACCACATAAGGGCAAAACAGTCAT
1 TTTACCACATAAGGGCAAAACAGTCAT
* *
99243653 TTTACCACAAAAGGGCAAAACAGGCAT
1 TTTACCACATAAGGGCAAAACAGTCAT
*
99243680 TTTACCATATAAGGGCAAAACAGTCAT
1 TTTACCACATAAGGGCAAAACAGTCAT
** *
99243707 TTTACCACATAAAGGAAAAAATAGTCAT
1 TTTACCACAT-AAGGGCAAAACAGTCAT
99243735 TTTA
1 TTTA
99243739 TCAATTAGGG
Statistics
Matches: 146, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 128 0.88
28 18 0.12
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
TTTACCACATAAGGGCAAAACAGTCAT
Found at i:99246293 original size:20 final size:20
Alignment explanation
Indices: 99246270--99246308 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99246260 TATCAATACT
*
99246270 TTTCTTAAAGTATCGATATA
1 TTTCCTAAAGTATCGATATA
*
99246290 TTTCCTAAGGTATCGATAT
1 TTTCCTAAAGTATCGATAT
99246309 TCTTGTTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAAGTATCGATATA
Found at i:99249757 original size:17 final size:17
Alignment explanation
Indices: 99249731--99249774 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
99249721 ACCCAGGCAC
*
99249731 ATAAAACAAACTATTTT
1 ATAAAGCAAACTATTTT
99249748 ATAAAGCAAACTATTTT
1 ATAAAGCAAACTATTTT
99249765 ATAAAGCAAA
1 ATAAAGCAAA
99249775 TTTAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (17 bp):
ATAAAGCAAACTATTTT
Found at i:99249843 original size:7 final size:7
Alignment explanation
Indices: 99249833--99249872 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
99249823 AAACAAACTA
99249833 TAAACCC
1 TAAACCC
99249840 TAAACCC
1 TAAACCC
*
99249847 TAAACTC
1 TAAACCC
99249854 TAAACCC
1 TAAACCC
99249861 TAAACCC
1 TAAACCC
*
99249868 AAAAC
1 TAAAC
99249873 ATTATCAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:99249851 original size:21 final size:21
Alignment explanation
Indices: 99249827--99249872 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
99249817 CACATAAAAC
*
99249827 AAACTATAAACCCTAAACCCT
1 AAACTATAAACCCTAAACCCA
*
99249848 AAACTCTAAACCCTAAACCCA
1 AAACTATAAACCCTAAACCCA
99249869 AAAC
1 AAAC
99249873 ATTATCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACTATAAACCCTAAACCCA
Found at i:99251411 original size:2 final size:2
Alignment explanation
Indices: 99251399--99251478 Score: 153
Period size: 2 Copynumber: 40.5 Consensus size: 2
99251389 TTCACAATGT
99251399 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
99251440 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
99251479 TTAATGTACT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:99266139 original size:30 final size:30
Alignment explanation
Indices: 99266066--99266139 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
99266056 ACATAATATA
**
99266066 TACAT-ATATATATATATGAAAAATGTATG
1 TACATGATATATAGGTATGAAAAATGTATG
99266095 TACATGATATATAGGTATGAAAAATGTATG
1 TACATGATATATAGGTATGAAAAATGTATG
99266125 TACATGATATATAGG
1 TACATGATATATAGG
99266140 AAAAGTACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 5 0.12
30 37 0.88
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (30 bp):
TACATGATATATAGGTATGAAAAATGTATG
Found at i:99266856 original size:22 final size:21
Alignment explanation
Indices: 99266815--99266869 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
99266805 AAATGATGAT
**
99266815 ATAAATAAT-AATATGTTAAAA
1 ATAAATAATAAATATAAT-AAA
99266836 ATAAATAATAAATATAATAAA
1 ATAAATAATAAATATAATAAA
*
99266857 GTAAAATAATAAA
1 AT-AAATAATAAA
99266870 AAAGGTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
ATAAATAATAAATATAATAAA
Found at i:99266861 original size:21 final size:20
Alignment explanation
Indices: 99266715--99266869 Score: 60
Period size: 21 Copynumber: 7.6 Consensus size: 20
99266705 ATATATATAC
*
99266715 ATAAATAAT-AATAAGTAAAGA
1 ATAAATAATAAATGA-TAAA-A
99266736 ATAAAT-AT-AATGA-AAATA
1 ATAAATAATAAATGATAAA-A
*
99266754 ATAAAT-ATAAAAG-TAAAA
1 ATAAATAATAAATGATAAAA
*
99266772 AGAGAA-AATATAATGTATAAACA
1 ATA-AATAATA-AATG-ATAAA-A
* * *
99266795 A-AATTAAGTAAAATGAT-GAT
1 ATAAATAA-T-AAATGATAAAA
*
99266815 ATAAATAATAATATGTTAAAA
1 ATAAATAATAA-ATGATAAAA
99266836 ATAAATAATAAAT-ATAATAA
1 ATAAATAATAAATGATAA-AA
99266856 AGTAAAATAATAAA
1 A-T-AAATAATAAA
99266870 AAAGGTATAT
Statistics
Matches: 104, Mismatches: 13, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
18 15 0.14
19 16 0.15
20 20 0.19
21 26 0.25
22 19 0.18
23 7 0.07
24 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (20 bp):
ATAAATAATAAATGATAAAA
Found at i:99267095 original size:17 final size:17
Alignment explanation
Indices: 99267044--99267095 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
99267034 ATATAACGTA
* *
99267044 TAAAAACATATATATAA
1 TAAATACATATATATAT
99267061 TATAATACATA-AGTATAT
1 TA-AATACATATA-TATAT
*
99267079 TAAATACATATACATAT
1 TAAATACATATATATAT
99267096 ATATAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAATACATATATATAT
Found at i:99268439 original size:15 final size:15
Alignment explanation
Indices: 99268421--99268450 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99268411 TTTTAGGTGG
*
99268421 GTTTGGGTTGGTTTA
1 GTTTGGGTTAGTTTA
99268436 GTTTGGGTTAGTTTA
1 GTTTGGGTTAGTTTA
99268451 TATTAGATGT
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:0.10, C:0.00, G:0.37, T:0.53
Consensus pattern (15 bp):
GTTTGGGTTAGTTTA
Found at i:99272333 original size:22 final size:22
Alignment explanation
Indices: 99272307--99272352 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
99272297 ATATATATTA
*
99272307 ATATAA-ACAACATTTTAAATTG
1 ATATAATACAA-ATATTAAATTG
*
99272329 ATATAATAGAAATATTAAATTG
1 ATATAATACAAATATTAAATTG
99272351 AT
1 AT
99272353 TCAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (22 bp):
ATATAATACAAATATTAAATTG
Found at i:99277153 original size:7 final size:7
Alignment explanation
Indices: 99277141--99277175 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
99277131 AAAAAGAAGT
99277141 TGAAGGG
1 TGAAGGG
99277148 TGAAGGG
1 TGAAGGG
99277155 TGAAGGG
1 TGAAGGG
99277162 TGAAGGG
1 TGAAGGG
99277169 TGAAGGG
1 TGAAGGG
99277176 AGATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.57, T:0.14
Consensus pattern (7 bp):
TGAAGGG
Found at i:99279702 original size:29 final size:29
Alignment explanation
Indices: 99279660--99279717 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
99279650 GAAAAAAAGA
99279660 AAGACTATCTGATAAAAGTTGCTAACAGT
1 AAGACTATCTGATAAAAGTTGCTAACAGT
*
99279689 AAGACTATCTGATAAAAGTTTCTAACAGT
1 AAGACTATCTGATAAAAGTTGCTAACAGT
99279718 TAGAAGATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (29 bp):
AAGACTATCTGATAAAAGTTGCTAACAGT
Found at i:99287354 original size:16 final size:16
Alignment explanation
Indices: 99287335--99287386 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
99287325 AACAGGGTTA
99287335 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
* *
99287351 TAATGTAATAGAACTG
1 TAATGGAATAGAGCTG
*
99287367 TAATGGAATAAAGCTG
1 TAATGGAATAGAGCTG
99287383 TAAT
1 TAAT
99287387 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:99287451 original size:44 final size:44
Alignment explanation
Indices: 99287368--99287504 Score: 161
Period size: 44 Copynumber: 3.1 Consensus size: 44
99287358 ATAGAACTGT
* * *
99287368 AATGGAATAAAGCTGTAATCAGTAATTC-AGTTGTTTGGTTGAATGG
1 AATGGAATAGAGCTATAAT-AGT-ATTCTTG-TGTTTGGTTGAATGG
*
99287414 AATGGAATAGAGCTATAATAGTATTCTTGTGTTTGGTTGAATGC
1 AATGGAATAGAGCTATAATAGTATTCTTGTGTTTGGTTGAATGG
* * *
99287458 AATGGAATAGATCTATATTAGTA-TCATTGTATTTGGTTGAATGG
1 AATGGAATAGAGCTATAATAGTATTC-TTGTGTTTGGTTGAATGG
99287502 AAT
1 AAT
99287505 AGATGTTGTA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
43 2 0.02
44 58 0.72
45 4 0.05
46 17 0.21
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAGCTATAATAGTATTCTTGTGTTTGGTTGAATGG
Found at i:99287683 original size:39 final size:40
Alignment explanation
Indices: 99287609--99287701 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 40
99287599 TTTTAATAAG
* *
99287609 ATTATTATT-AAATATAATTTAATAACATTCTTAATATA-
1 ATTATTATTAAAATATAATTTAATAACAATCATAATATAT
99287647 ATTATTATTAAAATATGAA-TTAATAGA-AATCATAATATAT
1 ATTATTATTAAAATAT-AATTTAATA-ACAATCATAATATAT
* *
99287687 AATATTATAAAAATA
1 ATTATTATTAAAATA
99287702 ATATATAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 9 0.19
39 22 0.47
40 16 0.34
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (40 bp):
ATTATTATTAAAATATAATTTAATAACAATCATAATATAT
Found at i:99291983 original size:26 final size:26
Alignment explanation
Indices: 99291952--99292059 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
99291942 TGAAATGCCC
99291952 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
99291978 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
99292004 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
99292030 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
99292056 ATCA
1 ATCA
99292060 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:99294960 original size:23 final size:22
Alignment explanation
Indices: 99294933--99294981 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
99294923 GAAATTTAAT
99294933 ATTTAGTAATTTTATTTATAAGA
1 ATTTAGTAATTTTATTTATAA-A
** *
99294956 ATTTAGTTGTTTTATTTTTAAA
1 ATTTAGTAATTTTATTTATAAA
99294978 ATTT
1 ATTT
99294982 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (22 bp):
ATTTAGTAATTTTATTTATAAA
Found at i:99300762 original size:30 final size:30
Alignment explanation
Indices: 99300718--99300806 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
99300708 CAAAGATAAC
99300718 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
99300747 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
99300777 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
99300807 TGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:99300766 original size:15 final size:15
Alignment explanation
Indices: 99300718--99300797 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
99300708 CAAAGATAAC
*
99300718 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
99300732 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
99300747 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
99300762 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
99300777 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
99300792 AAGAAA
1 AAGAAA
99300798 CCCAAGATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:99300806 original size:15 final size:15
Alignment explanation
Indices: 99300729--99300806 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
99300719 AGAAAACCGA
99300729 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
99300744 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
99300758 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
99300773 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
99300789 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
99300804 ATA
1 ATA
99300807 TGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:99303832 original size:47 final size:49
Alignment explanation
Indices: 99303712--99303889 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 49
99303702 ATGTAACCCG
* * *
99303712 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-GGC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
*
99303758 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * *
99303807 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
99303850 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
99303890 TCAACCATCC
Statistics
Matches: 111, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 29 0.26
46 33 0.30
47 31 0.28
48 4 0.04
49 3 0.03
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:99303887 original size:93 final size:92
Alignment explanation
Indices: 99303719--99303889 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 92
99303709 CCGCCATAAG
*
99303719 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAGTGAACTCGGACTCAACTCAA
99303784 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
* *
99303811 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCAT-AGTGAACTCGGACTCAACTC
99303875 AACGAGTTCGGATGC
64 AACGAGTTCGGATGC
99303890 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
91 2 0.03
92 37 0.50
93 35 0.47
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:99312298 original size:20 final size:19
Alignment explanation
Indices: 99312253--99312304 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
99312243 AGAAAAAGCC
* * *
99312253 AAATTTTTAACGTGATTCA
1 AAATTTTTAATGTAATACA
99312272 AATATTTTTAATGTAATACGA
1 AA-ATTTTTAATGTAATAC-A
*
99312293 AAATTTCTAATG
1 AAATTTTTAATG
99312305 GATTCTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (19 bp):
AAATTTTTAATGTAATACA
Found at i:99312861 original size:24 final size:25
Alignment explanation
Indices: 99312821--99312881 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 25
99312811 GCATAAATAT
*
99312821 AATA-AATATTGTATTATATTA-AA
1 AATATAATATTTTATTATATTATAA
* * *
99312844 AATATAATATTTTTTTATTTTATTA
1 AATATAATATTTTATTATATTATAA
99312869 AATATAAT-TTTTA
1 AATATAATATTTTA
99312882 AAATTTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 4 0.13
24 18 0.58
25 9 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
AATATAATATTTTATTATATTATAA
Found at i:99318927 original size:26 final size:26
Alignment explanation
Indices: 99318898--99319005 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
99318888 TGGTACAAAT
99318898 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
99318924 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99318950 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99318976 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99319002 TGAT
1 TGAT
99319006 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99321387 original size:24 final size:24
Alignment explanation
Indices: 99321360--99321408 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
99321350 CCTAAAAAGG
99321360 ACTTAATCAAATCGGTTTCCTAGA
1 ACTTAATCAAATCGGTTTCCTAGA
99321384 ACTTAATCAAATCGGTTTCCTAGA
1 ACTTAATCAAATCGGTTTCCTAGA
99321408 A
1 A
99321409 ATATCCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (24 bp):
ACTTAATCAAATCGGTTTCCTAGA
Found at i:99325980 original size:26 final size:26
Alignment explanation
Indices: 99325951--99326058 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
99325941 TGGTACAAAT
99325951 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
99325977 TGATAATGGATTAGGCAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99326003 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99326029 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99326055 TGAT
1 TGAT
99326059 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99328812 original size:30 final size:30
Alignment explanation
Indices: 99328771--99328827 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
99328761 GAGTAACCTC
*
99328771 AATATACTGTCAGCTTGTGTGAGCAACCCT
1 AATATACTGTCAGCTTGTGTGAACAACCCT
*
99328801 AATATATTGTCAGCTTGTGTGAACAAC
1 AATATACTGTCAGCTTGTGTGAACAAC
99328828 TTATTCCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (30 bp):
AATATACTGTCAGCTTGTGTGAACAACCCT
Found at i:99330520 original size:92 final size:92
Alignment explanation
Indices: 99330294--99330532 Score: 352
Period size: 92 Copynumber: 2.6 Consensus size: 92
99330284 AGTGGTACAT
* *
99330294 AGCGTAGCTAACGTACATGCAGTACAGTGCAATACGGTAATCCGCTATATTGATAGGTTGCAATA
1 AGCGTAGCTAACGTACATGCAGTACAGTGCAATACGGTAATCTGCTATACTGATAGGTTGCAATA
* * *
99330359 AAACTGCCAGTTCAGTCAAAGATACGT
66 AAACTACCAGTTCAATCAAAGATACGC
* * *
99330386 AGCGTAGCTAACGTACATGCGGTACAGTGCAATGCGGTAATCTGCTATACTGATAGGTTGCAGTA
1 AGCGTAGCTAACGTACATGCAGTACAGTGCAATACGGTAATCTGCTATACTGATAGGTTGCAATA
* *
99330451 AAACTACCAGTTCAATGAAAGGTACGC
66 AAACTACCAGTTCAATCAAAGATACGC
* * * *
99330478 AGTGTAGCTAACGTACATGCAGTACAGTGCAATACGATAATCTGTTATACCGATA
1 AGCGTAGCTAACGTACATGCAGTACAGTGCAATACGGTAATCTGCTATACTGATA
99330533 TCGGTAAAGT
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 131 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (92 bp):
AGCGTAGCTAACGTACATGCAGTACAGTGCAATACGGTAATCTGCTATACTGATAGGTTGCAATA
AAACTACCAGTTCAATCAAAGATACGC
Found at i:99330654 original size:4 final size:4
Alignment explanation
Indices: 99330645--99330672 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
99330635 ATTTTATGCA
99330645 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
99330673 CAGTCAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:99334456 original size:22 final size:21
Alignment explanation
Indices: 99334426--99334472 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
99334416 TACAAATTAA
99334426 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
99334448 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
99334469 ATCT
1 ATCT
99334473 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:99334478 original size:19 final size:19
Alignment explanation
Indices: 99334443--99334521 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
99334433 AGATTACAAG
99334443 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
99334464 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
99334481 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
99334500 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
99334519 ATC
1 ATC
99334522 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:99334498 original size:36 final size:38
Alignment explanation
Indices: 99334443--99334515 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
99334433 AGATTACAAG
99334443 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
99334481 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
99334516 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:99334530 original size:36 final size:35
Alignment explanation
Indices: 99334444--99334531 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
99334434 GATTACAAGA
99334444 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
99334480 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
99334516 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
99334532 ATATTTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 32 0.68
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:99345190 original size:27 final size:27
Alignment explanation
Indices: 99345142--99345300 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
99345132 GCGAGGCTGC
* *
99345142 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
99345169 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
99345195 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
99345222 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
99345249 CAGATATATGTGGAAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
99345276 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
99345301 GATGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:99345235 original size:54 final size:54
Alignment explanation
Indices: 99345160--99345300 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
99345150 GTGACGAAGT
* *
99345160 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGC
*
99345214 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGC
99345268 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
99345301 GATGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGC
Found at i:99345794 original size:27 final size:27
Alignment explanation
Indices: 99345746--99345904 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
99345736 GCGAGGCTGC
* *
99345746 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
99345773 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
**
99345799 CAGATATATGTGGCAGAGTTACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
99345826 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
99345853 CAGATATATGTGGAAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
99345880 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
99345905 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:99345840 original size:54 final size:54
Alignment explanation
Indices: 99345764--99345904 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
99345754 GTGACGAAGT
* * *
99345764 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGT
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGC
* *
99345818 TACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGC
99345872 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
99345905 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGC
Found at i:99346399 original size:27 final size:27
Alignment explanation
Indices: 99346351--99346510 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
99346341 GCGAGGTTGC
* *
99346351 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
99346378 CAGATATTATGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
99346404 CAGATATATGTGGCAGAGCTACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
99346431 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
99346458 CAAATATATGTGGAAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
99346485 CAGATAATTGTGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGA
99346511 ACGCTTCCTC
Statistics
Matches: 110, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
26 10 0.09
27 95 0.86
28 5 0.05
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:99346451 original size:54 final size:54
Alignment explanation
Indices: 99346369--99346512 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
99346359 GTGACGAAGT
* * * *
99346369 CACCAGATACAGAT-ATTATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAAATATATGTGGAAGAGC
* *
99346423 TACCAGATCAGATAATCGTGGCATAGCCACCAGAACAAATATATGTGGAAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAAATATATGTGGAAGAGC
99346477 CACCAGATCAGATAATTGTGGCATAGCCACCAGAAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAAC
99346513 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAAATATATGTGGAAGAGC
Found at i:99346583 original size:605 final size:605
Alignment explanation
Indices: 99344950--99346766 Score: 3501
Period size: 604 Copynumber: 3.0 Consensus size: 605
99344940 AACAGAATAA
* *
99344950 GTTGGCCTTAGCCCAGAACAGAATTCAGAATAAAGCCCATAAGCCCATAAAAGAACAGAACAGAT
1 GTTGGCCTTAGCCCAGAACAGAATTCAGAATAAAGCCTATAGGCCCATAAAAGAACAGAACAGAT
*
99345015 ATTACATGTTTATGCAGAAACCCAACCCAGATTCATTCATAACACCCCCGTACCAGCCTTACACC
66 ATTACATGTTTATGCAGAAACCCAACCCAGACTCATTCATAACACCCCCGTACCAGCCTTACACC
99345080 ATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAGAAATCGCAGCGAGGCTGCCAG
131 ATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAGAAATCGCAGCGAGGCTGCCAG
99345145 ATATTGTGACGAAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCA
196 ATATTGTGACGAAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCA
*
99345210 GAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGCCACCAGA
261 GAGCTACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGCCACCAGA
*
99345275 TCAGATAATTGTGGCATAGCCACCAGGATGCTTCCTCCATAGTATAACCCAAGTCCCCATGCAAC
326 TCAGATAATTGTGGCATAGCCACCAGGACGCTTCCTCCATAGTATAACCCAAGTCCCCATGCAAC
99345340 AGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATGCTTTTCAGTCAAAAGTAACC
391 AGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATGCTTTTCAGTCAAAAGTAACC
99345405 CTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCAAGTAATTTAACTATTCTTAAGGTT
456 CTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCAAGTAATTTAACTATTCTTAAGGTT
99345470 TTCATACATAACATAGCCATTTACGTACGATCAGAAACACTTACCGCGTTTTCTTACCAATTTGG
521 TTCATACATAACATAGCCATTTACGTACGATCAGAAACACTTACCGCGTTTTCTTACCAATTTGG
99345535 GCTCGTTGGCCCATTATCCC
586 GCTCGTTGGCCCATTATCCC
99345555 GTTGGCCTTAGCCCAGAACAGAATTCAGAATAAAGCCTATAGGCCCATAAAAGAACAGAACAGAT
1 GTTGGCCTTAGCCCAGAACAGAATTCAGAATAAAGCCTATAGGCCCATAAAAGAACAGAACAGAT
99345620 ATTACATGTTTATGCAGAAACCCAACCCAGACTCATTCATAACA-CCCCGTACCAGCCTTACACC
66 ATTACATGTTTATGCAGAAACCCAACCCAGACTCATTCATAACACCCCCGTACCAGCCTTACACC
99345684 ATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAGAAATCGCAGCGAGGCTGCCAG
131 ATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAGAAATCGCAGCGAGGCTGCCAG
99345749 ATATTGTGACGAAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCA
196 ATATTGTGACGAAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCA
*
99345814 GAGTTACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGCCACCAGA
261 GAGCTACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGCCACCAGA
99345879 TCAGATAATTGTGGCATAGCCACCAGGACGCTTCCTCCATAGTATAACCCAAGTCCCCATGCAAC
326 TCAGATAATTGTGGCATAGCCACCAGGACGCTTCCTCCATAGTATAACCCAAGTCCCCATGCAAC
*
99345944 AGATATATAATCATGGCATACATTATACAGAATCAGATCGTCATGCTTTTCAGTCAAAAGTAACC
391 AGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATGCTTTTCAGTCAAAAGTAACC
99346009 CTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCAAGTAATTTAACTATTCTTAAGGTT
456 CTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCAAGTAATTTAACTATTCTTAAGGTT
99346074 TTCATACATAACATAGCCATTTACGTACGATCAGAAACACTTACCGCGTTTTCTTACCAATTTGG
521 TTCATACATAACATAGCCATTTACGTACGATCAGAAACACTTACCGCGTTTTCTTACCAATTTGG
99346139 GCTCGTTGGCCCATTATCCC
586 GCTCGTTGGCCCATTATCCC
99346159 GTTGGCCTTAGCCCAGAACAGAATTCAGAATAAAGCCTATAGGCCCATAAAAGAACAGAACAGAT
1 GTTGGCCTTAGCCCAGAACAGAATTCAGAATAAAGCCTATAGGCCCATAAAAGAACAGAACAGAT
99346224 ATTACATGTTTATGCAGAAACCCAACCCAGACTCATTCATAACACCCCCGTACCAGCCTTACACC
66 ATTACATGTTTATGCAGAAACCCAACCCAGACTCATTCATAACACCCCCGTACCAGCCTTACACC
*
99346289 ATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAGAAATCGCAGCGAGGTTGCCAG
131 ATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAGAAATCGCAGCGAGGCTGCCAG
*
99346354 ATATTGTGACGAAGTCACCAGATACAGATATTATGGCAGAGCCACCAGAACAGATATATGTGGCA
196 ATATTGTGACGAAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCA
*
99346419 GAGCTACCAGATCAGATAATCGTGGCATAGCCACCAGAACAAATATATGTGGAAGAGCCACCAGA
261 GAGCTACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGCCACCAGA
*
99346484 TCAGATAATTGTGGCATAGCCACCAGAACGCTTCCTCCATAGTATAACCCAAGTCCCCATGCAAC
326 TCAGATAATTGTGGCATAGCCACCAGGACGCTTCCTCCATAGTATAACCCAAGTCCCCATGCAAC
*
99346549 AGATATATAATCATGGCATACATCATATAGAATCAGATCGTCATGCTTTTCAGTCAAAAGTAACC
391 AGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATGCTTTTCAGTCAAAAGTAACC
*
99346614 CTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCAAGTAATTTAACCATTCTTAAGGTT
456 CTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCAAGTAATTTAACTATTCTTAAGGTT
*
99346679 TTCATACATAACATAGCCATTTACGTACGATCAGAAACACTTACCGCATTTTCTTACCAATTTGG
521 TTCATACATAACATAGCCATTTACGTACGATCAGAAACACTTACCGCGTTTTCTTACCAATTTGG
99346744 GCTCGTTGGCCCATTATCCC
586 GCTCGTTGGCCCATTATCCC
99346764 GTT
1 GTT
99346767 TTTGGCCCAT
Statistics
Matches: 1195, Mismatches: 16, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
604 600 0.50
605 595 0.50
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (605 bp):
GTTGGCCTTAGCCCAGAACAGAATTCAGAATAAAGCCTATAGGCCCATAAAAGAACAGAACAGAT
ATTACATGTTTATGCAGAAACCCAACCCAGACTCATTCATAACACCCCCGTACCAGCCTTACACC
ATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAGAAATCGCAGCGAGGCTGCCAG
ATATTGTGACGAAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCA
GAGCTACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGAAGAGCCACCAGA
TCAGATAATTGTGGCATAGCCACCAGGACGCTTCCTCCATAGTATAACCCAAGTCCCCATGCAAC
AGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATGCTTTTCAGTCAAAAGTAACC
CTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCAAGTAATTTAACTATTCTTAAGGTT
TTCATACATAACATAGCCATTTACGTACGATCAGAAACACTTACCGCGTTTTCTTACCAATTTGG
GCTCGTTGGCCCATTATCCC
Found at i:99346917 original size:8 final size:8
Alignment explanation
Indices: 99346902--99346936 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
99346892 AAAATACCGA
99346902 CTTTTCGG
1 CTTTTCGG
*
99346910 CATTTCGG
1 CTTTTCGG
99346918 CTTTTCGG
1 CTTTTCGG
99346926 CTTTTCGG
1 CTTTTCGG
99346934 CTT
1 CTT
99346937 GTGCCGATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.03, C:0.26, G:0.23, T:0.49
Consensus pattern (8 bp):
CTTTTCGG
Found at i:99352584 original size:7 final size:7
Alignment explanation
Indices: 99352574--99352604 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
99352564 TTATTCACCA
*
99352574 TCTCTTC
1 TCTCTTT
99352581 TCTCTTT
1 TCTCTTT
99352588 TCTCTTT
1 TCTCTTT
99352595 TCTCTTT
1 TCTCTTT
99352602 TCT
1 TCT
99352605 TTCACTCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (7 bp):
TCTCTTT
Found at i:99353972 original size:13 final size:13
Alignment explanation
Indices: 99353956--99354021 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
99353946 TTTAAACCAA
99353956 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
99353969 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
99353982 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
99353995 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
99354008 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
99354021 A
1 A
99354022 ATGAAGAACT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:99353995 original size:26 final size:26
Alignment explanation
Indices: 99353956--99354021 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
99353946 TTTAAACCAA
*
99353956 ACTTTTCAAAAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGC
* *
99353982 ACTTTTCCACAGCACTTCTCAAAAGC
1 ACTTTTCAAAAGCACTTCTCAAAAGC
99354008 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
99354022 ATGAAGAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.29
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGC
Found at i:99354139 original size:13 final size:13
Alignment explanation
Indices: 99354123--99354155 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
99354113 ACAAACAAAC
99354123 AAATAAATAAGAT
1 AAATAAATAAGAT
*
99354136 AAATAAATAGGAT
1 AAATAAATAAGAT
99354149 -AATAAAT
1 AAATAAAT
99354156 CAAAGATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (13 bp):
AAATAAATAAGAT
Found at i:99355435 original size:28 final size:28
Alignment explanation
Indices: 99355389--99355457 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
99355379 TTTAAAACCC
*
99355389 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
99355416 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
99355444 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
99355458 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:99360286 original size:23 final size:23
Alignment explanation
Indices: 99360260--99360421 Score: 132
Period size: 23 Copynumber: 6.9 Consensus size: 23
99360250 GGACTCACCA
* *
99360260 CAGCTCGTATGAGCTTACTGATT
1 CAGCTCATAAGAGCTTACTGATT
* *
99360283 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCATAAGAGCTTACTGATT
** *
99360306 CAGCTCATTGGAGCTTACAGATT
1 CAGCTCATAAGAGCTTACTGATT
*
99360329 CAGCTCAAAAGAGCTTACTG-TT
1 CAGCTCATAAGAGCTTACTGATT
* *
99360351 CAGCTCA-ATAGAGCTTACCGTTTT
1 CAGCTCATA-AGAGCTTACTG-ATT
*
99360375 CAGCTCA-ATAGAGCTTACTGTTTAT
1 CAGCTCATA-AGAGCTTACTG-AT-T
* *
99360400 CAGCTCAGGAGGAGCTTACTGA
1 CAGCTCA-TAAGAGCTTACTGA
99360422 CCATTACTCG
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.01
22 19 0.16
23 55 0.47
24 24 0.20
25 8 0.07
26 10 0.08
27 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (23 bp):
CAGCTCATAAGAGCTTACTGATT
Found at i:99360329 original size:46 final size:45
Alignment explanation
Indices: 99360270--99360406 Score: 159
Period size: 46 Copynumber: 2.9 Consensus size: 45
99360260 CAGCTCGTAT
* * * *
99360270 GAGCTTACTGATTCAGCTCGTAAGAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACAGATTCAGCTC-AAAGAGCTTACTGTTTCAGCTCAATA
99360316 GAGCTTACAGATTCAGCTCAAAAGAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACAGATTCAGCTC-AAAGAGCTTACTGTTTCAGCTCAATA
* *
99360361 GAGCTTACCGTTTTCAGCTCAATAGAGCTTACTGTTTATCAGCTCA
1 GAGCTTACAG-ATTCAGCTCAA-AGAGCTTACTG-TT-TCAGCTCA
99360407 GGAGGAGCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
45 21 0.27
46 49 0.62
48 1 0.01
49 8 0.10
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
GAGCTTACAGATTCAGCTCAAAGAGCTTACTGTTTCAGCTCAATA
Found at i:99363161 original size:7 final size:7
Alignment explanation
Indices: 99363149--99363249 Score: 112
Period size: 7 Copynumber: 14.0 Consensus size: 7
99363139 GGGCTCAAAT
99363149 GTTTAGG
1 GTTTAGG
99363156 GTTTAGG
1 GTTTAGG
*
99363163 ATTTAGG
1 GTTTAGG
99363170 GTTTTAGG
1 G-TTTAGG
*
99363178 CTTTAGG
1 GTTTAGG
*
99363185 GTTTAGT
1 GTTTAGG
*
99363192 ATTTAGG
1 GTTTAGG
99363199 GTTTTAGG
1 G-TTTAGG
*
99363207 CTTTAGG
1 GTTTAGG
**
99363214 GTTTATT
1 GTTTAGG
99363221 GTTTAGG
1 GTTTAGG
99363228 GTTTTAGG
1 G-TTTAGG
99363236 GTTTAGG
1 GTTTAGG
99363243 GTTTAGG
1 GTTTAGG
99363250 TAATAAAATC
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
7 58 0.75
8 19 0.25
ACGTcount: A:0.16, C:0.02, G:0.35, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:99363175 original size:22 final size:21
Alignment explanation
Indices: 99363149--99363249 Score: 103
Period size: 22 Copynumber: 4.7 Consensus size: 21
99363139 GGGCTCAAAT
99363149 GTTTAGGGTTTAGGATTTAGG
1 GTTTAGGGTTTAGGATTTAGG
* * *
99363170 GTTTTAGGCTTTAGGGTTTAGT
1 G-TTTAGGGTTTAGGATTTAGG
* *
99363192 ATTTAGGGTTTTAGGCTTTAGG
1 GTTTAGGG-TTTAGGATTTAGG
** *
99363214 GTTTATTGTTTAGGGTTTTAGG
1 GTTTAGGGTTTA-GGATTTAGG
99363236 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
99363250 TAATAAAATC
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
21 13 0.20
22 51 0.80
ACGTcount: A:0.16, C:0.02, G:0.35, T:0.48
Consensus pattern (21 bp):
GTTTAGGGTTTAGGATTTAGG
Found at i:99363182 original size:29 final size:29
Alignment explanation
Indices: 99363150--99363249 Score: 157
Period size: 29 Copynumber: 3.4 Consensus size: 29
99363140 GGCTCAAATG
99363150 TTTAGGGTTTAGGATTTAGGGTTTTAGGC
1 TTTAGGGTTTAGGATTTAGGGTTTTAGGC
*
99363179 TTTAGGGTTTAGTATTTAGGGTTTTAGGC
1 TTTAGGGTTTAGGATTTAGGGTTTTAGGC
* *
99363208 TTTAGGGTTTATTG-TTTAGGGTTTTAGGG
1 TTTAGGGTTTA-GGATTTAGGGTTTTAGGC
99363237 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
99363250 TAATAAAATC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
28 1 0.02
29 64 0.98
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (29 bp):
TTTAGGGTTTAGGATTTAGGGTTTTAGGC
Found at i:99366815 original size:46 final size:46
Alignment explanation
Indices: 99366458--99366823 Score: 464
Period size: 46 Copynumber: 8.0 Consensus size: 46
99366448 TTATTTTTGA
* * * * * *
99366458 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
** * **
99366504 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ***
99366550 CATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** * *
99366596 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
99366642 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
99366688 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
99366734 AATGTTGCCATGGTATCTTTAAACTATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
99366780 CATGTTGCTATGGTATCTTTCAACCATGATCTTACATATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
99366824 TTTAGAGAGC
Statistics
Matches: 287, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.01
46 283 0.99
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:99373511 original size:96 final size:93
Alignment explanation
Indices: 99373384--99373613 Score: 237
Period size: 96 Copynumber: 2.4 Consensus size: 93
99373374 ACACGATATG
* * * *
99373384 AGAGCCAGTATAAGATCATGTTTGGAACATGGCATCAACAATGTTATGAGAGCCAGTGTAAGACA
1 AGAGCTAGTGTAAGAACATGTCTGGAACATGGCATCAAC-A--TTATGAGAGCCAGTGTAAGACA
* * **
99373449 ATGTTCGAGATATGGCATCGGCGTTATTA-A
63 ATGTTCGAGACATGGCATCGGCATTAAGACA
* * * *
99373479 GTGCGCTAGTGTAAGAACATGTCTGGGACATGGCAATGGCCACATTATGAGAGCCAGTGTAAGAC
1 -AGAGCTAGTGTAAGAACATGTCTGGAACATGGC-AT--CAACATTATGAGAGCCAGTGTAAGAC
* * *
99373544 CATGTTTGGGACATGGCATCGGCATTAAGACA
62 AATGTTCGAGACATGGCATCGGCATTAAGACA
* *
99373576 AGAGCTAGTGTAATACCATGTCTGGAACATGGCATCAA
1 AGAGCTAGTGTAAGAACATGTCTGGAACATGGCATCAA
99373614 TCTCGACACG
Statistics
Matches: 109, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
93 2 0.02
95 2 0.02
96 98 0.90
97 3 0.03
98 1 0.01
99 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (93 bp):
AGAGCTAGTGTAAGAACATGTCTGGAACATGGCATCAACATTATGAGAGCCAGTGTAAGACAATG
TTCGAGACATGGCATCGGCATTAAGACA
Found at i:99373512 original size:48 final size:48
Alignment explanation
Indices: 99373340--99373611 Score: 167
Period size: 48 Copynumber: 5.7 Consensus size: 48
99373330 GATATGTGTA
* * * * ** *
99373340 CTAGTATAAGACCATGTCTCGGACATGGCGTCAGACACGA-TATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTATTAAGAGAG
* * * * * ** * * *
99373388 CCAGTATAAGATCATGTTTGGAACATGGCATCAACAATGTTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTAAGAGAG
* * * * * * *
99373436 CCAGTGTAAGACAATGT-TCGAGATATGGCATCGGCGTTATTAAGTGCG
1 CTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCATTATTAAGAGAG
* * *
99373484 CTAGTGTAAGAACATGTCTGGGACATGGCAAT-GGCCA-CATTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGC-ATCGG-CATTATTAAGAGAG
* * **
99373532 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAAGACA-AGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTA-AGAGAG
* *
99373580 CTAGTGTAATACCATGTCTGGAACATGGCATC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC
99373612 AATCTCGACA
Statistics
Matches: 171, Mismatches: 45, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
47 8 0.05
48 159 0.93
49 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTAAGAGAG
Found at i:99381127 original size:48 final size:48
Alignment explanation
Indices: 99380967--99381248 Score: 210
Period size: 48 Copynumber: 5.9 Consensus size: 48
99380957 ATTTGGGTGA
* * * * * *
99380967 TATGTGTGCTAGTGTAAGACTATGTCTAGGACATGGCGTCGGCCA-CGA
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGT
* * * * * * * *
99381015 TATGAGAGTCAGTATAAAACCATGTTTGGAACATGACATTGGCAAT-GT
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCGT
** * * *
99381063 TATAAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGT
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGT
* * * * * * * *
99381111 TAGGTGCGCTAGTGTAAGACAATGCCTGGGACATGACAACGGCCA-CAT
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGT
* * * * *
99381159 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCCTCGA
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGT
* *
99381207 CATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
99381249 TAAATTATCC
Statistics
Matches: 176, Mismatches: 53, Indels: 10
0.74 0.22 0.04
Matches are distributed among these distances:
47 4 0.02
48 170 0.97
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGT
Found at i:99381221 original size:96 final size:96
Alignment explanation
Indices: 99380977--99381241 Score: 262
Period size: 96 Copynumber: 2.8 Consensus size: 96
99380967 TATGTGTGCT
* * * * * * *
99380977 AGTGTAAGACTATGTCTAGGACATGGCGTCGGCCACGATATG-AGAGTCAGTATAAAACCATGTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATGTA-AGCCAGTGTAAGACCATGTC
* ** ** *
99381041 TGGAACATGACATTGGCAATGTTATAAGAGCT
65 TGGGACATGACAACGGCAACATTATAAGAGCC
* * * * * * ** * * *
99381073 AATGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTAGGTGCGCTAGTGTAAGACAATGCCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATGTAAGCCAGTGTAAGACCATGTCT
* *
99381138 GGGACATGACAACGGCCACATTATGAGAGCC
66 GGGACATGACAACGGCAACATTATAAGAGCC
* *
99381169 AGTGTAAGACCATGTCTAGGACATAGCATCGGCCTCGACATGTAAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATGTAAGCCAGTGTAAGACCATGTCT
99381234 GGGACATG
66 GGGACATG
99381242 GCATCGGTAA
Statistics
Matches: 129, Mismatches: 39, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
96 129 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATGTAAGCCAGTGTAAGACCATGTCT
GGGACATGACAACGGCAACATTATAAGAGCC
Found at i:99382898 original size:19 final size:20
Alignment explanation
Indices: 99382874--99382920 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
99382864 GGTATTTGGC
*
99382874 TAGAAATTTTGGTATC-TAT
1 TAGAAATTTTAGTATCGTAT
99382893 TAGAAATTTTAGTATCGTAT
1 TAGAAATTTTAGTATCGTAT
*
99382913 TAAAAATT
1 TAGAAATT
99382921 AGTACATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (20 bp):
TAGAAATTTTAGTATCGTAT
Found at i:99384857 original size:25 final size:25
Alignment explanation
Indices: 99384828--99384876 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
99384818 TATGCTTAGG
99384828 TTAGAATTAGTTTAGTGCTCACCTT
1 TTAGAATTAGTTTAGTGCTCACCTT
99384853 TTAGAATTAGTTTAGTGCTCACCT
1 TTAGAATTAGTTTAGTGCTCACCT
99384877 CCCTTGGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (25 bp):
TTAGAATTAGTTTAGTGCTCACCTT
Found at i:99390506 original size:2 final size:2
Alignment explanation
Indices: 99390499--99390549 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
99390489 TCAATCTATT
99390499 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99390541 TA TA TA TA T
1 TA TA TA TA T
99390550 GTTTTGTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:99391626 original size:20 final size:22
Alignment explanation
Indices: 99391603--99391644 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
99391593 ATTTACGTAG
99391603 AACAAAAT-TATT-TTAAGTGA
1 AACAAAATGTATTATTAAGTGA
*
99391623 AACAAAATGTTTTATTAAGTGA
1 AACAAAATGTATTATTAAGTGA
99391645 TCCAATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.36
Consensus pattern (22 bp):
AACAAAATGTATTATTAAGTGA
Done.