Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 64
Found at i:9423118 original size:14 final size:12
Alignment explanation
Indices: 9422831--9423122 Score: 214
Period size: 12 Copynumber: 22.8 Consensus size: 12
9422821 ATTCATAATC
9422831 AAGAACAAAAAAA
1 AAGAA-AAAAAAA
9422844 AGAGAAAAATAGAAA
1 A-AGAAAAA-A-AAA
*
9422859 AAG-AAAAAAGA
1 AAGAAAAAAAAA
*
9422870 AAGAAAAGAAAA
1 AAGAAAAAAAAA
9422882 AAGAAAAGAGAAAA
1 AAGAAAA-A-AAAA
*
9422896 GAGAAAAGAGAAAA
1 AAGAAAA-A-AAAA
9422910 AAGAGAGAAAAGAGAA
1 AAGA-A-AAAA-A-AA
*
9422926 AAGAGAAAAGAGAA
1 AAGA-AAAA-AAAA
* * *
9422940 AACACACAGAAAA
1 AAGA-AAAAAAAA
* *
9422953 TAGAAACAAAAA
1 AAGAAAAAAAAA
*
9422965 CAGAAAAAAAAAA
1 AAG-AAAAAAAAA
*
9422978 AAAAAAAAAAAA
1 AAGAAAAAAAAA
*
9422990 AAAAAAAAAAAA
1 AAGAAAAAAAAA
9423002 AAGAAAAAAAAA
1 AAGAAAAAAAAA
9423014 AA-AAAAGAAAAA
1 AAGAAAA-AAAAA
9423026 AAGAAAAAAGAAAA
1 AAG-AAAAA-AAAA
9423040 AAGAAAAAAGAAAA
1 AAG-AAAAA-AAAA
9423054 AAGAAAAAAAAA
1 AAGAAAAAAAAA
9423066 AA-AAAAAAAAA
1 AAGAAAAAAAAA
*
9423077 AAAAAAAAAAAA
1 AAGAAAAAAAAA
* *
9423089 AAG-AGAAATAA
1 AAGAAAAAAAAA
9423100 AAGAAAGAAAAAA
1 AAGAAA-AAAAAA
9423113 ATAGAAAAAA
1 A-AGAAAAAA
9423123 GAGAATAAAT
Statistics
Matches: 232, Mismatches: 27, Indels: 40
0.78 0.09 0.13
Matches are distributed among these distances:
11 29 0.12
12 80 0.34
13 37 0.16
14 65 0.28
15 10 0.04
16 11 0.05
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.01
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:9423122 original size:1 final size:1
Alignment explanation
Indices: 9422968--9423113 Score: 184
Period size: 1 Copynumber: 146.0 Consensus size: 1
9422958 ACAAAAACAG
* * *
9422968 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAGAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
9423033 AAGAAAAAAGAAAAAAGAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAGAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
9423098 AAAAGAAAGAAAAAAA
1 AAAAAAAAAAAAAAAA
9423114 TAGAAAAAAG
Statistics
Matches: 121, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 121 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.01
Consensus pattern (1 bp):
A
Found at i:9424398 original size:19 final size:20
Alignment explanation
Indices: 9424374--9424413 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
9424364 TACTTGAATT
9424374 TTCATCATTGCAT-CATACA
1 TTCATCATTGCATACATACA
*
9424393 TTCATCATTTCATACATACA
1 TTCATCATTGCATACATACA
9424413 T
1 T
9424414 GATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.40
Consensus pattern (20 bp):
TTCATCATTGCATACATACA
Found at i:9424551 original size:37 final size:37
Alignment explanation
Indices: 9424510--9424590 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
9424500 AAACCTCAGC
* *
9424510 TAGTCCTTTTTAGGAT-GATTTCTCTAGAAATTTGATA
1 TAGTCCTTCTTAGGATCG-TTTCTCTAAAAATTTGATA
* *
9424547 TAGTCCTTCTTAGGATCGTTTCTCTAAAAATTTGTTT
1 TAGTCCTTCTTAGGATCGTTTCTCTAAAAATTTGATA
9424584 TAGTCCT
1 TAGTCCT
9424591 ATCAGGATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 38 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (37 bp):
TAGTCCTTCTTAGGATCGTTTCTCTAAAAATTTGATA
Found at i:9424683 original size:45 final size:45
Alignment explanation
Indices: 9424619--9425564 Score: 644
Period size: 45 Copynumber: 21.0 Consensus size: 45
9424609 GAAATGTCAA
* * *
9424619 CTTGACTTTCT-TGTGAAGAAGAGTCAATCTTTTATTTATGTCATT
1 CTTGACTTTCTCT-AGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * *
9424664 CTTGACTTTCTCTATAAGAAGAGTCATTCTTTTAGTGTTGTCATT
1 CTTGACTTTCTCTAGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * * * * *
9424709 ATTGAATTTCT-TGTGAAGAGGAGTCAAT-ATTTAGTGTTGTCATT
1 CTTGACTTTCTCT-AGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * * *
9424753 CTTGGA-TTTCTCGT-GAAGAGGGGTCAATGTTTTAGTGTTGTCATT
1 CTT-GACTTTCTC-TAGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * * * *
9424798 CTCGACTTTCTCGT-GAAG-AGAAGTTAATCTTTTAATGTTTTCATT
1 CTTGACTTTCTC-TAGAAGAAG-AGTCAATCTTTTAGTGATGTCATT
* * *
9424843 CTCGACTTTCTCGT-GAAGATA-AGTCAATCTTTTAGT-ATTGCCCTT
1 CTTGACTTTCTC-TAGAAGA-AGAGTCAATCTTTTAGTGA-TGTCATT
* * *
9424888 CTTGACTTTCTC-ATGAAGATGAGTCAACCTTTTAGTGATGTTATT
1 CTTGACTTTCTCTA-GAAGAAGAGTCAATCTTTTAGTGATGTCATT
** * * * *
9424933 CTTGACTTTCTCGCGAAGAGGAG-CTAATCTTTTAGTGTTTTCCTT
1 CTTGACTTTCTCTAGAAGAAGAGTC-AATCTTTTAGTGATGTCATT
* * * *
9424978 CTTGACTTTCTCGT-GAAG-AGAGTAAATATTTTAGTGTTGTCCTT
1 CTTGACTTTCTC-TAGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* ** * * *
9425022 ATTGACTTTCTCGCGAAGAGGAGTCGATCTTTTAGTGGTGTCATT
1 CTTGACTTTCTCTAGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * *
9425067 AC-TGACTTTCTCGTA-AAGAGGAGTCAACCTTTTAGTGATGTTATT
1 -CTTGACTTTCTC-TAGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* *
9425112 CTTGACTTTCTC-ATGAAGAAGAGTCAAACTTTTAGTGATGTCAAT
1 CTTGACTTTCTCTA-GAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * * * * *
9425157 CTTGACTTTCTTGTA-AAGAATAATCAACCTTTTAATGATGTGATT
1 CTTGACTTTC-TCTAGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * * * * *
9425202 GTTGACTTTCTC-ACGAAGAGGAGTCAACCTTTTAGTTATATGATT
1 CTTGACTTTCTCTA-GAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * *
9425247 CTTGACTTTCT-TGTGAATAAGAGTCAACCTTTTTAGTGATGTCATT
1 CTTGACTTTCTCT-AGAAGAAGAGTCAATC-TTTTAGTGATGTCATT
* * * * *
9425293 CTTAACTTTCTC-ACGAAGATGAGTCAACCTCTTAGTGATGCCATT
1 CTTGACTTTCTCTA-GAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * * *
9425338 CTTGACTTTTTATCGAAGAAGAGTCGATCTTTTAGTGATGTCATT
1 CTTGACTTTCTCTAGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * * * * ** *
9425383 CTTAACTTTCT-TGCGAAGATGAGTAAACCTTTTAGCAATATCATT
1 CTTGACTTTCTCT-AGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* *** * * *
9425428 CTTAACTTTCTGGCGAAGAAGTGTCAACCTTTTAGTGATGTGATT
1 CTTGACTTTCTCTAGAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * * * *
9425473 CTTAACTTTCTC-ATGAAGAGGAGTCAAACTTTTAGTGATATGATT
1 CTTGACTTTCTCTA-GAAGAAGAGTCAATCTTTTAGTGATGTCATT
* * * * *
9425518 CTTGACTTTGTCGAGAATATGAGTCAA-CATTTTAGTAATGTCATT
1 CTTGACTTTCTCTAGAAGAAGAGTCAATC-TTTTAGTGATGTCATT
9425563 CT
1 CT
9425565 CAACTTGACT
Statistics
Matches: 727, Mismatches: 133, Indels: 82
0.77 0.14 0.09
Matches are distributed among these distances:
43 2 0.00
44 80 0.11
45 602 0.83
46 41 0.06
47 2 0.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (45 bp):
CTTGACTTTCTCTAGAAGAAGAGTCAATCTTTTAGTGATGTCATT
Found at i:9424934 original size:135 final size:134
Alignment explanation
Indices: 9424619--9425564 Score: 764
Period size: 135 Copynumber: 7.0 Consensus size: 134
9424609 GAAATGTCAA
* * * * *
9424619 CTTGACTTTCTTGTGAAGAAGAGTCAATCTTTTATTTATGTCATTCTTGACTTTCTCTAT-AAGA
1 CTTGACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTC-ATGAAGA
* * * * * * * * *
9424683 AGAGTCATTCTTTTAGTGTTGTCATTATTGAATTTCTTGTGAAGAGGAGTCAAT-ATTTAGTGTT
65 GGAGTCAATCTTTTAGTGTTTTCATTCTTGACTTTCTCGTGAAGA-AAGTCAATCTTTTAGTATT
9424747 GTCATT
129 GTCATT
* * ** * * *
9424753 CTTGGA-TTTCTCGTGAAGAGGGGTCAATGTTTTAGTGTTGTCATTCTCGACTTTCTCGTGAAGA
1 CTT-GACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCATGAAGA
* * * *
9424817 GAAGTTAATCTTTTAATGTTTTCATTCTCGACTTTCTCGTGAAGATAAGTCAATCTTTTAGTATT
65 GGAGTCAATCTTTTAGTGTTTTCATTCTTGACTTTCTCGTGAAGA-AAGTCAATCTTTTAGTATT
* *
9424882 GCCCTT
129 GTCATT
* * **
9424888 CTTGACTTTCTCATGAAGATGAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGCGAAGAG
1 CTTGACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCATGAAGAG
* * * * *
9424953 GAG-CTAATCTTTTAGTGTTTTCCTTCTTGACTTTCTCGTGAAGAGAGTAAATATTTTAGTGTTG
66 GAGTC-AATCTTTTAGTGTTTTCATTCTTGACTTTCTCGTGAAGAAAGTCAATCTTTTAGTATTG
*
9425017 TCCTT
130 TCATT
* * * * * * * *
9425022 ATTGACTTTCTCGCGAAGAGGAGTCGATCTTTTAGTGGTGTCATTAC-TGACTTTCTCGTAAAGA
1 CTTGACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGTCATT-CTTGACTTTCTCATGAAGA
* * * *
9425086 GGAGTCAACCTTTTAGTGATGTT-ATTCTTGACTTTCTCATGAAGAAGAGTCAAACTTTTAGTGA
65 GGAGTCAATCTTTTAGTG-TTTTCATTCTTGACTTTCTCGTGAAGAA-AGTCAATCTTTTAGT-A
*
9425150 -TGTCAAT
127 TTGTCATT
* * * * * * *
9425157 CTTGACTTTCTTGTAAAGAAT-AATCAACCTTTTAATGATGTGATTGTTGACTTTCTCACGAAGA
1 CTTGACTTTCTCGTGAAG-ATGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCATGAAGA
* * * * * *
9425221 GGAGTCAACCTTTTAGT-TATATGATTCTTGACTTTCTTGTGAATAAGAGTCAACCTTTTTAGTG
65 GGAGTCAATCTTTTAGTGT-TTTCATTCTTGACTTTCTCGTGAAGAA-AGTCAATC-TTTTAGT-
9425285 A-TGTCATT
126 ATTGTCATT
* ** * * *
9425293 CTTAACTTTCTCACGAAGATGAGTCAACCTCTTAGTGATGCCATTCTTGACTTT-TTATCGAAGA
1 CTTGACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCAT-GAAGA
* * * * * * * * * * * *
9425357 AGAGTCGATCTTTTAGTGATGTCATTCTTAACTTTCTTGCGAAGATGAGTAAACCTTTTAGCAAT
65 GGAGTCAATCTTTTAGTGTTTTCATTCTTGACTTTCTCGTGAAGA-AAGTCAATCTTTTAGTATT
*
9425422 ATCATT
129 GTCATT
* * * * * * *
9425428 CTTAACTTTCTGGCGAAGAAGTGTCAACCTTTTAGTGATGTGATTCTTAACTTTCTCATGAAGAG
1 CTTGACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCATGAAGAG
* * * * * * * * *
9425493 GAGTCAAACTTTTAGTGATATGATTCTTGACTTTGTCGAGAATATGAGTCAA-CATTTTAGTAAT
66 GAGTCAATCTTTTAGTGTTTTCATTCTTGACTTTCTCGTGAAGA-AAGTCAATC-TTTTAGTATT
9425557 GTCATT
129 GTCATT
9425563 CT
1 CT
9425565 CAACTTGACT
Statistics
Matches: 655, Mismatches: 135, Indels: 43
0.79 0.16 0.05
Matches are distributed among these distances:
133 2 0.00
134 204 0.31
135 343 0.52
136 106 0.16
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (134 bp):
CTTGACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCATGAAGAG
GAGTCAATCTTTTAGTGTTTTCATTCTTGACTTTCTCGTGAAGAAAGTCAATCTTTTAGTATTGT
CATT
Found at i:9425012 original size:224 final size:223
Alignment explanation
Indices: 9424621--9425167 Score: 640
Period size: 224 Copynumber: 2.4 Consensus size: 223
9424611 AATGTCAACT
* *
9424621 TGACTTTCTTGTGAAGAAGAGTCAATCTTTTA-TTTATGTCATTCTTGACTTTCTCTAT-AAGAA
1 TGACTTTCTCGTGAAGAA-AGTCAATCTTTTAGTAT-TGTCATTCTTGACTTTCTC-ATGAAGAA
** * * * * *
9424684 GAGTCATTCTTTTAGTGTTGTCATTATTGAATTTCTTGTGAAGAGGAGTCAATATTTAGTGTTGT
63 GAGTCAAACTTTTAGTGATGTCATTCTTGACTTTCTCGCGAAGAGGAGTCAATATTTAGTGTTGT
* * * * *
9424749 CATTCTTGGATTTCTCGTGAAGAGGGGTCAATGTTTTAGTGTTGTCATTCTCGACTTTCTCGTGA
128 CATTCTTGGATTTCTCGTGAAGAGGAGTAAATATTTTAGTGTTGTCATTATCGACTTTCTCGCGA
* * *
9424814 AGAGAAGTTAATCTTTTAATGTTTTCATT-C
193 AGAGAAGTCAATCTTTTAATGGTGTCATTAC
* * *
9424844 TCGACTTTCTCGTGAAGATAAGTCAATCTTTTAGTATTGCCCTTCTTGACTTTCTCATGAAGATG
1 T-GACTTTCTCGTGAAGA-AAGTCAATCTTTTAGTATTGTCATTCTTGACTTTCTCATGAAGAAG
* * * *
9424909 AGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGCGAAGAGGAG-CTAATCTTTTAGTGTTT
64 AGTCAAACTTTTAGTGATGTCATTCTTGACTTTCTCGCGAAGAGGAGTC-AAT-ATTTAGTGTTG
* * *
9424973 TCCTTCTT-GACTTTCTCGTGAAGA-GAGTAAATATTTTAGTGTTGTCCTTATTGACTTTCTCGC
127 TCATTCTTGGA-TTTCTCGTGAAGAGGAGTAAATATTTTAGTGTTGTCATTATCGACTTTCTCGC
* * *
9425036 GAAGAGGAGTCGATCTTTTAGTGGTGTCATTAC
191 GAAGAGAAGTCAATCTTTTAATGGTGTCATTAC
* * * *
9425069 TGACTTTCTCGTAAAGAGGAGTCAACCTTTTAGTGA-TGTTATTCTTGACTTTCTCATGAAGAAG
1 TGACTTTCTCGTGAAGA-AAGTCAATCTTTTAGT-ATTGTCATTCTTGACTTTCTCATGAAGAAG
*
9425133 AGTCAAACTTTTAGTGATGTCAATCTTGACTTTCT
64 AGTCAAACTTTTAGTGATGTCATTCTTGACTTTCT
9425168 TGTAAAGAAT
Statistics
Matches: 275, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
223 4 0.01
224 236 0.86
225 35 0.13
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (223 bp):
TGACTTTCTCGTGAAGAAAGTCAATCTTTTAGTATTGTCATTCTTGACTTTCTCATGAAGAAGAG
TCAAACTTTTAGTGATGTCATTCTTGACTTTCTCGCGAAGAGGAGTCAATATTTAGTGTTGTCAT
TCTTGGATTTCTCGTGAAGAGGAGTAAATATTTTAGTGTTGTCATTATCGACTTTCTCGCGAAGA
GAAGTCAATCTTTTAATGGTGTCATTAC
Found at i:9425173 original size:90 final size:90
Alignment explanation
Indices: 9424619--9425564 Score: 832
Period size: 90 Copynumber: 10.5 Consensus size: 90
9424609 GAAATGTCAA
* * * *
9424619 CTTGACTTTCTTGTGAAGAAGAGTCAATCTTTTATTTATGTCATTCTTGACTTTCTCTA-TAAGA
1 CTTGACTTTCTTGTGAAGAAGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTC-ACGAAGA
* * *
9424683 AGAGTCATTCTTTTAGTGTTGTCATT
65 GGAGTCAATCTTTTAGTGATGTCATT
* * * * **
9424709 ATTGAATTTCTTGTGAAGAGGAGTCAA--TATTTAGTGTTGTCATTCTTGGA-TTTCTCGTGAAG
1 CTTGACTTTCTTGTGAAGAAGAGTCAACCT-TTTAGTGATGTCATTCTT-GACTTTCTCACGAAG
* * *
9424771 AGGGGTCAATGTTTTAGTGTTGTCATT
64 AGGAGTCAATCTTTTAGTGATGTCATT
* * * * * * * * **
9424798 CTCGACTTTCTCGTGAAG-AGAAGTTAATCTTTTAATGTTTTCATTCTCGACTTTCTCGTGAAGA
1 CTTGACTTTCTTGTGAAGAAG-AGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCACGAAGA
** * *
9424862 TAAGTCAATCTTTTAGT-ATTGCCCTT
65 GGAGTCAATCTTTTAGTGA-TGTCATT
** * * *
9424888 CTTGACTTTCTCATGAAGATGAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGCGAAGAG
1 CTTGACTTTCTTGTGAAGAAGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCACGAAGAG
* * *
9424953 GAG-CTAATCTTTTAGTGTTTTCCTT
66 GAGTC-AATCTTTTAGTGATGTCATT
* * ** * * * *
9424978 CTTGACTTTCTCGTGAAG-AGAGTAAATATTTTAGTGTTGTCCTTATTGACTTTCTCGCGAAGAG
1 CTTGACTTTCTTGTGAAGAAGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCACGAAGAG
* *
9425042 GAGTCGATCTTTTAGTGGTGTCATT
66 GAGTCAATCTTTTAGTGATGTCATT
* * * * *
9425067 AC-TGACTTTCTCGTAAAGAGGAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCATGAAGA
1 -CTTGACTTTCTTGTGAAGAAGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCACGAAGA
* * *
9425131 AGAGTCAAACTTTTAGTGATGTCAAT
65 GGAGTCAATCTTTTAGTGATGTCATT
* * * * * *
9425157 CTTGACTTTCTTGTAAAGAATAATCAACCTTTTAATGATGTGATTGTTGACTTTCTCACGAAGAG
1 CTTGACTTTCTTGTGAAGAAGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCACGAAGAG
* * * *
9425222 GAGTCAACCTTTTAGTTATATGATT
66 GAGTCAATCTTTTAGTGATGTCATT
* *
9425247 CTTGACTTTCTTGTGAATAAGAGTCAACCTTTTTAGTGATGTCATTCTTAACTTTCTCACGAAGA
1 CTTGACTTTCTTGTGAAGAAGAGTCAACC-TTTTAGTGATGTCATTCTTGACTTTCTCACGAAGA
* * * *
9425312 TGAGTCAACCTCTTAGTGATGCCATT
65 GGAGTCAATCTTTTAGTGATGTCATT
* * * * **
9425338 CTTGACTTT-TTATCGAAGAAGAGTCGATCTTTTAGTGATGTCATTCTTAACTTTCTTGCGAAGA
1 CTTGACTTTCTTGT-GAAGAAGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCACGAAGA
* * * ** *
9425402 TGAGTAAACCTTTTAGCAATATCATT
65 GGAGTCAATCTTTTAGTGATGTCATT
* * * * * * *
9425428 CTTAACTTTCTGGCGAAGAAGTGTCAACCTTTTAGTGATGTGATTCTTAACTTTCTCATGAAGAG
1 CTTGACTTTCTTGTGAAGAAGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCACGAAGAG
* * *
9425493 GAGTCAAACTTTTAGTGATATGATT
66 GAGTCAATCTTTTAGTGATGTCATT
* * * * * * *
9425518 CTTGACTTTGTCGAGAATATGAGTCAACATTTTAGTAATGTCATTCT
1 CTTGACTTTCTTGTGAAGAAGAGTCAACCTTTTAGTGATGTCATTCT
9425565 CAACTTGACT
Statistics
Matches: 698, Mismatches: 140, Indels: 36
0.80 0.16 0.04
Matches are distributed among these distances:
88 2 0.00
89 142 0.20
90 479 0.69
91 75 0.11
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (90 bp):
CTTGACTTTCTTGTGAAGAAGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCACGAAGAG
GAGTCAATCTTTTAGTGATGTCATT
Found at i:9425846 original size:3 final size:3
Alignment explanation
Indices: 9425838--9425883 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
9425828 ATTTCCAAGA
9425838 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9425884 TGAATGAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9426958 original size:129 final size:129
Alignment explanation
Indices: 9426693--9426960 Score: 274
Period size: 129 Copynumber: 2.1 Consensus size: 129
9426683 CATTTTCCTC
* * * *
9426693 CATATTTGATCTTTCCTAATGAACAGTGGAACAAATCTTCCCCGATTCAATCTTCCCTGAAAAGT
1 CATATTTGATCATCCCTAATGAACAGTGGAACAAATCTTCCCCGATTCAATCTTCCATGAAAAGC
* * * * * * *
9426758 AGTGAAGTGAATAAAACTTTCCATATATGATCCACCCTGGAACGCAATGGAGCATATCCCTTTT
66 AGTGAAGTGAATAAAACTTTCCAGATATGATACACCCTGAAAAGCAACGGAACAAATCCCTTTT
* * ** *
9426822 TAGATTTGATCATCCCTGAA-GAACAGTGGTGCAAATCTTCCCCGATTCAATCTTCCATGAAGAG
1 CATATTTGATCATCCCT-AATGAACAGTGGAACAAATCTTCCCCGATTCAATCTTCCATGAAAAG
* * * * * *
9426886 CAGTGAATTGAAT-CAACATTTCCAGATCTGATATACCCT-AAAGAGTAGCGGAACAAAT-CCTT
65 CAGTGAAGTGAATAAAAC-TTTCCAGATATGATACACCCTGAAA-AGCAACGGAACAAATCCCTT
9426948 GTT
128 -TT
9426951 CATATTTGAT
1 CATATTTGAT
9426961 ATTCAAAAAT
Statistics
Matches: 111, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
128 9 0.08
129 100 0.90
130 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (129 bp):
CATATTTGATCATCCCTAATGAACAGTGGAACAAATCTTCCCCGATTCAATCTTCCATGAAAAGC
AGTGAAGTGAATAAAACTTTCCAGATATGATACACCCTGAAAAGCAACGGAACAAATCCCTTTT
Found at i:9427159 original size:3 final size:3
Alignment explanation
Indices: 9427151--9427182 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
9427141 ACATTTTATG
9427151 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9427183 ATTTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9430326 original size:15 final size:15
Alignment explanation
Indices: 9430306--9430334 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9430296 CGCATGATTC
9430306 CCCTTTTTCTCTTTT
1 CCCTTTTTCTCTTTT
9430321 CCCTTTTTCTCTTT
1 CCCTTTTTCTCTTT
9430335 GCAGCAGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
CCCTTTTTCTCTTTT
Found at i:9434126 original size:2 final size:2
Alignment explanation
Indices: 9434119--9434161 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9434109 TCAATCTACA
9434119 AT AT AT 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 AT AT AT
9434161 A
1 A
9434162 AAAATTTACG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9434332 original size:85 final size:85
Alignment explanation
Indices: 9434184--9434356 Score: 190
Period size: 85 Copynumber: 2.0 Consensus size: 85
9434174 ATACAATCAC
* * *
9434184 GACACAAGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAACGACACGCAATGTAAGTCATA
1 GACACAAGAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAACGACACGCAATGTAAGTCATA
* * * * *
9434249 CATGTGTGTCGTATATTTAT
66 AATGCGCGTCATAAATTTAT
* * * *
9434269 GACACACA-AATGTGTGTCATCTTAATTT-ATGATGGGGGCTTCAATGACGCTCAATG-AACGTC
1 GACACA-AGAATGTGTGTCATCTT-ATTTAATGACGGGGGCTTCAACGACACGCAATGTAA-GTC
9434331 ATAAATGCGCGTCATAAATTTAT
63 ATAAATGCGCGTCATAAATTTAT
9434354 GAC
1 GAC
9434357 GCATAGTTGC
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
84 2 0.03
85 67 0.92
86 4 0.05
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (85 bp):
GACACAAGAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAACGACACGCAATGTAAGTCATA
AATGCGCGTCATAAATTTAT
Found at i:9434567 original size:59 final size:59
Alignment explanation
Indices: 9434475--9434793 Score: 306
Period size: 59 Copynumber: 5.4 Consensus size: 59
9434465 TCTACTAGTG
* * *
9434475 TATGGAGCACTATATATTCTTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCA
1 TATGGAGCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCA
*
9434534 TATGGAGCACTATATGTGCTAAAATGATAAGGAAATCATAATGAGTGTATGGATTTCCA
1 TATGGAGCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCA
* * * * * *
9434593 TATGGAGCACTGA-GTGTGCTAAAATGATAAGAAAATCATATTGAATATATGGATTTCTA
1 TATGGAGCACT-ATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCA
* * * * * *
9434652 GATAGG-GCATTATATGTGCTAAAATGGTATGGGAATCATACTGAGTGAATGGATTTCCA
1 TAT-GGAGCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCA
* *** * * * * *** *
9434711 AAAAAAGCACTA-AGGGTGCTACAAGGATAAGGAAATCATACTAACAATATGGATTTTCA
1 TATGGAGCACTATA-TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCA
9434770 TATAGG-GCACT-TCATGTGCTAAAA
1 TAT-GGAGCACTAT-ATGTGCTAAAA
9434794 ATGGTAAAGG
Statistics
Matches: 207, Mismatches: 45, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
58 2 0.01
59 201 0.97
60 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (59 bp):
TATGGAGCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCA
Found at i:9434689 original size:118 final size:118
Alignment explanation
Indices: 9434496--9434800 Score: 339
Period size: 118 Copynumber: 2.6 Consensus size: 118
9434486 ATATATTCTT
* * * *
9434496 AAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATAT-GGAGCACTATATGTGCTAAAATG
1 AAATGATAAGGAAATCATACTGAATATATGGATTTCTATATAGG-GCATTATATGTGCTAAAATG
* * * *** * *
9434560 ATAAGGAAATCATAATGAGTGTATGGATTTCCATATGGAGCACTGAGTGTGCTA
65 GTAAGGAAATCATAATGAGTGAATGGATTTCCAAAAAAAGCACTAAGGGTGCTA
* * *
9434614 AAATGATAAGAAAATCATATTGAATATATGGATTTCTAGATAGGGCATTATATGTGCTAAAATGG
1 AAATGATAAGGAAATCATACTGAATATATGGATTTCTATATAGGGCATTATATGTGCTAAAATGG
* * *
9434679 TATGGGAATCATACTGAGTGAATGGATTTCCAAAAAAAGCACTAAGGGTGCTA
66 TAAGGAAATCATAATGAGTGAATGGATTTCCAAAAAAAGCACTAAGGGTGCTA
* * * *
9434732 CAAGGATAAGGAAATCATACT-AACAATATGGATTT-TCATATAGGGCACTT-CATGTGCTAAAA
1 AAATGATAAGGAAATCATACTGAA-TATATGGATTTCT-ATATAGGGCA-TTATATGTGCT-AAA
9434794 ATGGTAA
62 ATGGTAA
9434801 AGGGATCATA
Statistics
Matches: 156, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
117 3 0.02
118 140 0.90
119 13 0.08
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (118 bp):
AAATGATAAGGAAATCATACTGAATATATGGATTTCTATATAGGGCATTATATGTGCTAAAATGG
TAAGGAAATCATAATGAGTGAATGGATTTCCAAAAAAAGCACTAAGGGTGCTA
Found at i:9434825 original size:60 final size:60
Alignment explanation
Indices: 9434739--9434911 Score: 217
Period size: 58 Copynumber: 2.9 Consensus size: 60
9434729 CTACAAGGAT
*** *
9434739 AAGGAAATCATACTAACAATATGGATTTTC-ATATAGGGCACTTCATGTGCTAAAAATGGTA
1 AAGG-AATCATACTAATGGTATGGATTCTCGA-ATAGGGCACTTCATGTGCTAAAAATGGTA
* *
9434800 AAGGGATCATACTAATGGTATGGATTCTCGAATAAGGCA-TTCA-GTGCTAAAAATGGTA
1 AAGGAATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
* * * *
9434858 AAGGAATCGTATTAATGGTATCGATTCTCGAATAGGGCACTTCGTGTGCTAAAA
1 AAGGAATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAA
9434912 TAAGAAGGAA
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
58 49 0.51
59 7 0.07
60 36 0.37
61 5 0.05
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (60 bp):
AAGGAATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
Found at i:9435124 original size:44 final size:44
Alignment explanation
Indices: 9435041--9435371 Score: 423
Period size: 44 Copynumber: 7.4 Consensus size: 44
9435031 CAGTGATGCA
* *
9435041 AATTATAGTAAGTATATTGGT-AAATAAGCTTACGAGCTTATGA
1 AATTATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * * *
9435084 AATTATAGTAACTATATTGATAAAATAAGCTTACGAGCTTAGGG
1 AATTATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
9435128 ATTTAATGGTAAGTATATTGGTAAAATAAGCTTACGAGTTTATGG
1 AATT-ATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
9435173 AATAATGGTAAGTATATGGGTAAAATAAGCTTACGAGAGCTTATGG
1 AATTATGGTAAGTATATTGGTAAAATAAGCTTAC--GAGCTTATGG
* * *
9435219 AATAATGGTAAGTATATTGGTAAAATAAACTTAGGAGCTTATGG
1 AATTATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
9435263 AATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGG
1 AATTATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * *
9435307 ATTTAATGGTAAATATATTGATAAAATAAGCTTACGAGCTTATGG
1 AATT-ATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
*
9435352 -ATTAAATGGTATGTATATTG
1 AATT--ATGGTAAGTATATTG
9435372 ATAAGAAATT
Statistics
Matches: 254, Mismatches: 28, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
43 19 0.07
44 107 0.42
45 88 0.35
46 40 0.16
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (44 bp):
AATTATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
Found at i:9435261 original size:90 final size:89
Alignment explanation
Indices: 9435048--9435371 Score: 472
Period size: 89 Copynumber: 3.6 Consensus size: 89
9435038 GCAAATTATA
* * * * *
9435048 GTAAGTATATTGGT-AAATAAGCTTACGAGCTTATGAAATTATAGTAACTATATTGATAAAATAA
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAA
9435112 GCTTACGAGCTTAGGGATTTAATG
66 GCTTACGAGCTTAGGGATTTAATG
* *
9435136 GTAAGTATATTGGTAAAATAAGCTTACGAGTTTATGGAATAATGGTAAGTATATGGGTAAAATAA
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAA
* *
9435201 GCTTACGAGAGCTTATGGA-ATAATG
66 GCTTAC--GAGCTTAGGGATTTAATG
* *
9435226 GTAAGTATATTGGTAAAATAAACTTAGGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAA
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAA
9435291 GCTTACGAGCTTAGGGATTTAATG
66 GCTTACGAGCTTAGGGATTTAATG
* * * *
9435315 GTAAATATATTGATAAAATAAGCTTACGAGCTTATGGATTAAATGGTATGTATATTG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTG
9435372 ATAAGAAATT
Statistics
Matches: 210, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
88 24 0.11
89 89 0.42
90 87 0.41
91 10 0.05
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (89 bp):
GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAA
GCTTACGAGCTTAGGGATTTAATG
Found at i:9438648 original size:36 final size:37
Alignment explanation
Indices: 9438568--9438745 Score: 93
Period size: 37 Copynumber: 4.9 Consensus size: 37
9438558 ATTTCTCTTG
*
9438568 AAACAAAATTTTTATCTCACTTGAGATAGTTTCCCTTA
1 AAAC-AAATTTTTATCTCACTTGAGATAGTTTCCCTCA
* * ***
9438606 ACACAAA-TTTTGTCTCACTTGAGATAGTTTTTGTCA
1 AAACAAATTTTTATCTCACTTGAGATAGTTTCCCTCA
* * ** **
9438642 AAACAAA-----ATCTCAATTAAGAT-GATTTCATTTG
1 AAACAAATTTTTATCTCACTTGAGATAG-TTTCCCTCA
* ** * **
9438674 AAACAAAATTTCGTCTCACTTGAGACT-CTTTTTCTCA
1 AAACAAATTTTTATCTCACTTGAGA-TAGTTTCCCTCA
* *
9438711 AAACAAAATTTTATCTCACTTGAGATTGTTTCCCT
1 AAACAAATTTTTATCTCACTTGAGATAGTTTCCCT
9438746 TGAATCTATC
Statistics
Matches: 103, Mismatches: 29, Indels: 17
0.69 0.19 0.11
Matches are distributed among these distances:
31 1 0.01
32 22 0.21
36 31 0.30
37 45 0.44
38 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.39
Consensus pattern (37 bp):
AAACAAATTTTTATCTCACTTGAGATAGTTTCCCTCA
Found at i:9438863 original size:52 final size:52
Alignment explanation
Indices: 9438720--9438905 Score: 173
Period size: 52 Copynumber: 3.6 Consensus size: 52
9438710 AAAACAAAAT
* *
9438720 TTTATCTCACTTGAGATTGTTTCCCTTGAATCTATCTCTCTTGAAACA-CAAG
1 TTTATCTCACTTGAGATTGTTTCCCTTGAATATGT-TCTCTTGAAACACCAAG
* * * * * *
9438772 TTTATATC-CATTAAGATAGTCTCCCTT-AAGTTTGTTTCTCTTGAAACACCAAA
1 TTTATCTCAC-TTGAGATTGTTTCCCTTGAA-TATG-TTCTCTTGAAACACCAAG
* *
9438825 TTTATCTCACTTGAGATTGTTTTCCTTGAATATGTTCTCTTGAAATACC-AG
1 TTTATCTCACTTGAGATTGTTTCCCTTGAATATGTTCTCTTGAAACACCAAG
* * ***
9438876 TTTGTCTCACTTAAGACAATTTCCCTTGAA
1 TTTATCTCACTTGAGATTGTTTCCCTTGAA
9438906 ACACCAGTTT
Statistics
Matches: 107, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
51 28 0.26
52 49 0.46
53 27 0.25
54 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.41
Consensus pattern (52 bp):
TTTATCTCACTTGAGATTGTTTCCCTTGAATATGTTCTCTTGAAACACCAAG
Found at i:9438991 original size:53 final size:52
Alignment explanation
Indices: 9438899--9439087 Score: 213
Period size: 53 Copynumber: 3.6 Consensus size: 52
9438889 AGACAATTTC
* * * * * *
9438899 CCTTGAAACACCAGTTTGTCTTCCTTGAG-GTAGTCTCCCTTGAGATTG-TTT
1 CCTTGAAACACCAATTTATCTCCCTTGAGATTA-TTTCCCTTGAAATTGTTTT
*
9438950 CTCTTGAAACACCAAATTTATCTCCCTTGAGATTATTTCCCTTGAAACTGTTTT
1 C-CTTGAAACACC-AATTTATCTCCCTTGAGATTATTTCCCTTGAAATTGTTTT
*
9439004 CCTTAAAACACCAAATTTATCTCCCTTGAGATTATTTCCCTT-AAAGTTGTTTT
1 CCTTGAAACACC-AATTTATCTCCCTTGAGATTATTTCCCTTGAAA-TTGTTTT
* * *
9439057 CCTTGAAACACCAACTTGTCTCTCTTGAGAT
1 CCTTGAAACACCAATTTATCTCCCTTGAGAT
9439088 AGTTTTCCTC
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
51 1 0.01
52 30 0.25
53 83 0.69
54 6 0.05
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (52 bp):
CCTTGAAACACCAATTTATCTCCCTTGAGATTATTTCCCTTGAAATTGTTTT
Found at i:9439103 original size:37 final size:38
Alignment explanation
Indices: 9439052--9439134 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
9439042 CCTTAAAGTT
** * * * *
9439052 GTTTTCCTTGAAACACCAACT-TGTCTCTCTTGAGATA
1 GTTTTCCTCAAAACACCAAATGTATCTATCTTGAAATA
9439089 GTTTTCCTCAAAACACCAAATGTATCTATCTTGAAATA
1 GTTTTCCTCAAAACACCAAATGTATCTATCTTGAAATA
9439127 GTTTTCCT
1 GTTTTCCT
9439135 TGAAATGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 18 0.46
38 21 0.54
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.39
Consensus pattern (38 bp):
GTTTTCCTCAAAACACCAAATGTATCTATCTTGAAATA
Found at i:9439331 original size:36 final size:35
Alignment explanation
Indices: 9439180--9439342 Score: 143
Period size: 35 Copynumber: 4.5 Consensus size: 35
9439170 GTAACAAATT
* * **
9439180 TTTTATCTCGCTTGAGATAGTTTTCTC-TTAAAAA
1 TTTTATCTCACTTGAGATAGTTTCCTCGAAAAAAA
* *
9439214 TTATCATCTCACTCT-AGACAGTTTCTCTCGAAACAAAAA
1 TT-TTATCTCACT-TGAGATAGTTTC-CTCG-AA-AAAAA
* * ** *
9439253 TTTTATCTCGCTTGAAATAGTTGT-CTCCTAATAAA
1 TTTTATCTCACTTGAGATAGTT-TCCTCGAAAAAAA
9439288 TTTTATCTCACTTGAGATAGTTTCCTCGAAACAAAA
1 TTTTATCTCACTTGAGATAGTTTCCTCGAAA-AAAA
9439324 TTTTATCTCACTTGAGATA
1 TTTTATCTCACTTGAGATA
9439343 TTTTTCACTT
Statistics
Matches: 101, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
34 3 0.03
35 45 0.45
36 27 0.27
37 4 0.04
38 14 0.14
39 8 0.08
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (35 bp):
TTTTATCTCACTTGAGATAGTTTCCTCGAAAAAAA
Found at i:9439369 original size:71 final size:72
Alignment explanation
Indices: 9439155--9439348 Score: 241
Period size: 73 Copynumber: 2.7 Consensus size: 72
9439145 TTTTATCTTT
* * **
9439155 TAGACAGTTTCTCTTGTAACAAATTTTTTATCTCGCTTGAGATAGTTTTCTCTTAAAAATTATCA
1 TAGACAGTTTCTCTCGAAACAAAAATTTTATCTCGCTTGAGATAGTTTTCTCTTAAAAATTAT-A
9439220 TCTCACTC
65 TCTCACTC
* * * *
9439228 TAGACAGTTTCTCTCGAAACAAAAATTTTATCTCGCTTGAAATAGTTGTCTCCTAATAAATTTTA
1 TAGACAGTTTCTCTCGAAACAAAAATTTTATCTCGCTTGAGATAGTTTTCTCTTAA-AAATTATA
9439293 TCTCACT-
65 TCTCACTC
* * *
9439300 TGAGATAGTTTC-CTCGAAAC-AAAATTTTATCTCACTTGAGATATTTTTC
1 T-AGACAGTTTCTCTCGAAACAAAAATTTTATCTCGCTTGAGATAGTTTTC
9439349 ACTTGAACAA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 25 0.24
72 9 0.08
73 66 0.62
74 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (72 bp):
TAGACAGTTTCTCTCGAAACAAAAATTTTATCTCGCTTGAGATAGTTTTCTCTTAAAAATTATAT
CTCACTC
Found at i:9441199 original size:3 final size:3
Alignment explanation
Indices: 9441191--9441220 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9441181 TATGAGTTGC
*
9441191 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9441221 TTGTTTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9442050 original size:15 final size:17
Alignment explanation
Indices: 9442019--9442053 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9442009 GTGATTCTGG
9442019 CCCTAGTATTCTCTCTC
1 CCCTAGTATTCTCTCTC
9442036 CCCTAGTATTCTCTCTC
1 CCCTAGTATTCTCTCTC
9442053 C
1 C
9442054 ACAGAGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.43, G:0.06, T:0.40
Consensus pattern (17 bp):
CCCTAGTATTCTCTCTC
Found at i:9442757 original size:183 final size:183
Alignment explanation
Indices: 9442469--9443128 Score: 819
Period size: 183 Copynumber: 3.6 Consensus size: 183
9442459 TTATCGATAT
* * * ** * *
9442469 GTATCAATACAATTA-AAATATGTATTGATACATAATAATATATTAGGTAAAAATATGAGAAAAT
1 GTATCAATAC-ATTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAAAT
* * * * *
9442533 CGGGTTT-AATATGAGAAAATCGATAAAGTGCTA-TCGGATATGTTGAAAGTATAGATTCCATTG
65 C-GGTTTCATTATGACAAAATCGGTAAAGCGCTACT-GGATATGTTGAAAGTATAGATTCCATTT
** *
9442596 AAATAAGTATCGACATTTTTAAAATTTAAAAGAAAAGTAGTAATAGCGCTTATAAA
128 AAATAAGTATCGACATTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCTTATAAA
* * ** *
9442652 GCATCAATACATTATAAACATGTATTAATACATAACAATATAACATGTAAAAATATGATAAAATC
1 GTATCAATACATTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAAATC
* * *
9442717 GGTGTCATAATGACAAAATCGGTAAAGCGCTACTGGATATGTTGAAAGTATTGATTCCATTTAAA
66 GGTTTCATTATGACAAAATCGGTAAAGCGCTACTGGATATGTTGAAAGTATAGATTCCATTTAAA
* * *
9442782 TAAGTATCGACATTTTTGGAATTTAAAATAAAAGCAGTAATATCGCCTATAAA
131 TAAGTATCGACATTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCTTATAAA
** * * * *
9442835 GTATTGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATAACGAAACC
1 GTATCAATACATTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAAATC
** * * * * *
9442900 AATTTCATTATGACAAAA-CTGGTAAAGAGGTACCGAATATGTTGAAAGTATCGAGTT-CATTTA
66 GGTTTCATTATGACAAAATC-GGTAAAGCGCTACTGGATATGTTGAAAGTATAGA-TTCCATTTA
*
9442963 AATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGCAGTAATAGCG-TCTATAAA
129 AATAAGTATCGACATTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCT-TATAAA
** *
9443018 GTATCAATATTTTATAAAAATGTATCGATACATAACAATATAGCATGTAAAAATATGACAAAATC
1 GTATCAATACATTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAAATC
* *
9443083 GGTTTCATTATGACAAAACCGGTAAAGCGCTACTAGATATGTTGAA
66 GGTTTCATTATGACAAAATCGGTAAAGCGCTACTGGATATGTTGAA
9443129 TATATCGATA
Statistics
Matches: 410, Mismatches: 60, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
182 9 0.02
183 397 0.97
184 4 0.01
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (183 bp):
GTATCAATACATTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAAATC
GGTTTCATTATGACAAAATCGGTAAAGCGCTACTGGATATGTTGAAAGTATAGATTCCATTTAAA
TAAGTATCGACATTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCTTATAAA
Found at i:9443793 original size:19 final size:19
Alignment explanation
Indices: 9443732--9443797 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
9443722 GACCGATTAT
9443732 ATAATATTATAGGTAGAAA
1 ATAATATTATAGGTAGAAA
** * *
9443751 ATAAATATGTATACAT-GTAT
1 AT-AATAT-TATAGGTAGAAA
9443771 ATAATATTATAGGTAGAAA
1 ATAATATTATAGGTAGAAA
9443790 ATAATATT
1 ATAATATT
9443798 GTAAGTTGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 5 0.14
19 17 0.47
20 9 0.25
21 5 0.14
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (19 bp):
ATAATATTATAGGTAGAAA
Found at i:9445463 original size:14 final size:15
Alignment explanation
Indices: 9445444--9445486 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9445434 AGGAAGAAGA
9445444 GATGATAGT-AGGGG
1 GATGATAGTGAGGGG
* *
9445458 GATGATGGTGCGGGG
1 GATGATAGTGAGGGG
*
9445473 GATCATAGTGAGGG
1 GATGATAGTGAGGG
9445487 AAAACAGAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.23, C:0.05, G:0.51, T:0.21
Consensus pattern (15 bp):
GATGATAGTGAGGGG
Found at i:9445736 original size:66 final size:66
Alignment explanation
Indices: 9445607--9445736 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
9445597 GGGGGAAGTA
* *
9445607 GGTGGAAAAATAGATAGAGTGGTGAAAGAAGTTGAGGAGTTGAGGGGTGAACTTAAGATGGTGAC
1 GGTGGAAAAATAGATAGAGTGGTGAAAGAAGTTGAGGAATTGAGGGGTGAACTTAAGAGGGTGAC
9445672 G
66 G
* * * * * *
9445673 GGTGGAAAAATTGATGGAGTGGTGAAAGAAGTTGTGGAATTGAGGTGTGAACTTACGGGGGTGA
1 GGTGGAAAAATAGATAGAGTGGTGAAAGAAGTTGAGGAATTGAGGGGTGAACTTAAGAGGGTGA
9445737 AGGGGGTGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.32, C:0.03, G:0.42, T:0.23
Consensus pattern (66 bp):
GGTGGAAAAATAGATAGAGTGGTGAAAGAAGTTGAGGAATTGAGGGGTGAACTTAAGAGGGTGAC
G
Found at i:9450481 original size:200 final size:200
Alignment explanation
Indices: 9450057--9451604 Score: 2101
Period size: 200 Copynumber: 7.8 Consensus size: 200
9450047 ACTTGAGGTA
* * *
9450057 TCGATAAATTTATTGTAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAAAGTAATAGGT
1 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* ** * * *
9450122 AAATTTA-AATTATAACCAATAAAAATATACCGATTTTATGAGAGAATATGTCAACAT-A--T-T
66 AAATTTACAA-TGTAACCGGTAAAAATATACCGATTTTATTAGAAAATAGGTCAACATAATGTAT
* * * * *
9450182 -GATACTTTTTAAGATTGTGTCGATACTTTTGATCCAGAATGAATGCCCAACGAGGTGTACACAT
130 CAATACTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCAT
9450246 AAAGTG
195 AAAGTG
* * * *
9450252 TCGATACATTTATTGTTAGTATTGATCCCAAAAATATCGAAACCGATAATTATAAAGTAATAGGT
1 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* * * * * * *
9450317 AAATTTACAATGTTACCGGTAAAAATATATCGGTTCTATGAGAGAATATGTCAACATAATGTATC
66 AAATTTACAATGTAACCGGTAAAAATATACCGATTTTATTAGAAAATAGGTCAACATAATGTATC
*
9450382 AATACTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGTCCAACGAGGTGCACGCATA
131 AATACTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATA
*
9450447 AAGTT
196 AAGTG
* * * *
9450452 TCGATACTTTTATTGTATGTATCGATCCCAAAAACATTGAAACCGATAATTATAAAGTAATAGG-
1 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* *
9450516 -------CAGTGTAACCGGTAAAAATATACCGGTTTTATTAGAAAATAGGTCAACATAATGTATC
66 AAATTTACAATGTAACCGGTAAAAATATACCGATTTTATTAGAAAATAGGTCAACATAATGTATC
* * * *
9450574 GATACCTTTTAAAATTGTGTCGATACTTTTGGTCTAGAATGAATACCCAACGAGGTGCACGCATA
131 AATACTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATA
9450639 AAGTG
196 AAGTG
* * *
9450644 TCGATACTTTTTTTATAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAAAGTAATAGGT
1 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* *
9450709 AAATTTACATTGTAACCGGTAAAAATATACCGATTTTATTATAAAATAGGTCAACATAATGTATC
66 AAATTTACAATGTAACCGGTAAAAATATACCGATTTTATTAGAAAATAGGTCAACATAATGTATC
* * * *
9450774 AATACCTTTTT-AAATTGTGTTGATACTTTTGGTCTATAATGAATGCCCAACGAGGTACACGCAT
131 AATA-CTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCAT
9450838 AAAGTG
195 AAAGTG
*
9450844 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* * * * *
9450909 AAATTTACAATGTAATCGGTAAAAATATACCGGTTTAATTAGAAAATAGGTCAACATAATATATT
66 AAATTTACAATGTAACCGGTAAAAATATACCGATTTTATTAGAAAATAGGTCAACATAATGTATC
* * * * * *
9450974 GATACCTTTTAAAATTGTGTCGATACTTTTAGTCCAAAATGAATGTCCAATGAGGTGCACGCATA
131 AATACTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATA
9451039 AAGTG
196 AAGTG
*
9451044 TCGATACTTTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
1 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* * *
9451109 AAATTTACAATGTAAACC-GTAAAAATATATC-AGTTTAATTAGAAAATATGTCAACATAATGTA
66 AAATTTACAATGT-AACCGGTAAAAATATACCGA-TTTTATTAGAAAATAGGTCAACATAATGTA
* * * * * *
9451172 TCGATACCTTTTAAATTTATATCGATACTTTTGGTACAGAATGAATGCCCAACGAGGTGCACGCA
129 TCAATACTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCA
9451237 TAAAGTG
194 TAAAGTG
*
9451244 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGAT-ATATATAATGTAATAGG
1 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAAT-TATAAAGTAATAGG
* * * *
9451308 TAAATTTACAATGTAACCGGTAAAAATATACTGATTTAATTAGAAAATATGTCAACTTAATGTAT
65 TAAATTTACAATGTAACCGGTAAAAATATACCGATTTTATTAGAAAATAGGTCAACATAATGTAT
*
9451373 CGAA-ACCATTTT-AAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGC
130 C-AATA-CTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGC
*
9451436 ATAAAGTT
193 ATAAAGTG
* * * * *
9451444 TTGATACATTTATTGTATGTATCGATCCCAAAAAAATCGAAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* * * * *
9451509 AAATTTACAATGTAATCGGTAAAAATATATCGATTTTATGAGAGAATAGGTAAACATAATGTATC
66 AAATTTACAATGTAACCGGTAAAAATATACCGATTTTATTAGAAAATAGGTCAACATAATGTATC
* *
9451574 AATAGTTTTTAAAATTGTATCGATACGTTTT
131 AATACTTTTTAAAATTGTGTCGATAC-TTTT
9451605 TTAAATTACT
Statistics
Matches: 1210, Mismatches: 116, Indels: 48
0.88 0.08 0.03
Matches are distributed among these distances:
192 174 0.14
195 107 0.09
196 3 0.00
198 1 0.00
199 18 0.01
200 886 0.73
201 21 0.02
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (200 bp):
TCGATACATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
AAATTTACAATGTAACCGGTAAAAATATACCGATTTTATTAGAAAATAGGTCAACATAATGTATC
AATACTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATA
AAGTG
Found at i:9451592 original size:21 final size:22
Alignment explanation
Indices: 9451568--9451611 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9451558 GTAAACATAA
9451568 TGTATCAATA-GTTTTTAAAAT
1 TGTATCAATACGTTTTTAAAAT
* *
9451589 TGTATCGATACGTTTTTTAAAT
1 TGTATCAATACGTTTTTAAAAT
9451611 T
1 T
9451612 ACTCATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (22 bp):
TGTATCAATACGTTTTTAAAAT
Found at i:9454499 original size:24 final size:25
Alignment explanation
Indices: 9454472--9454527 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
9454462 TTTCATGTTT
*
9454472 ATTTCATATTT-AATTGGAGTTTGA
1 ATTTCAAATTTCAATTGGAGTTTGA
*
9454496 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTCAAATTTCAATTGGAGTTTGA
9454520 ATTTCAAA
1 ATTTCAAA
9454528 ATAAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 20 0.71
25 3 0.11
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.48
Consensus pattern (25 bp):
ATTTCAAATTTCAATTGGAGTTTGA
Found at i:9454512 original size:18 final size:18
Alignment explanation
Indices: 9454491--9454526 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9454481 TTAATTGGAG
9454491 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
9454509 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
9454527 AATAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:9454534 original size:24 final size:24
Alignment explanation
Indices: 9454483--9454535 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
9454473 TTTCATATTT
* * *
9454483 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
9454507 AATTTGAGTTTGAATTTCAAA-ATA
1 AATTTGAGTTTGAATTT-AAATATA
9454531 AATTT
1 AATTT
9454536 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:9456266 original size:20 final size:22
Alignment explanation
Indices: 9456210--9456284 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
9456200 TTTATATAAA
* * *
9456210 GTATCGTTACTTTTTG-TACAT
1 GTATCGATACGTTTTGACACAT
* *
9456231 GTATCGATA-ATTGTTTACACAT
1 GTATCGATACGTT-TTGACACAT
9456253 GTATCGATACGTTTTGACACAT
1 GTATCGATACGTTTTGACACAT
9456275 GTATCGATAC
1 GTATCGATAC
9456285 CAATGACAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.04
21 10 0.22
22 31 0.69
23 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (22 bp):
GTATCGATACGTTTTGACACAT
Found at i:9461664 original size:6 final size:7
Alignment explanation
Indices: 9461653--9461696 Score: 51
Period size: 6 Copynumber: 6.7 Consensus size: 7
9461643 TCAGTCATTC
9461653 ATTAT-T
1 ATTATAT
9461659 ATTAT-T
1 ATTATAT
9461665 ATTATAT
1 ATTATAT
9461672 A-TATAT
1 ATTATAT
9461678 A-TATAT
1 ATTATAT
9461684 ATATATAT
1 AT-TATAT
9461692 ATTAT
1 ATTAT
9461697 TTTACAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 23 0.66
7 5 0.14
8 7 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:9461674 original size:2 final size:2
Alignment explanation
Indices: 9461667--9461693 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9461657 TTATTATTAT
9461667 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9461694 TATTTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9461819 original size:13 final size:14
Alignment explanation
Indices: 9461801--9461861 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
9461791 TTTTTATTAG
*
9461801 TTTTTTACTTTTAT
1 TTTTTTACATTTAT
9461815 TTTTTTACATTTAT
1 TTTTTTACATTTAT
**
9461829 TTAATT-CATTTAT
1 TTTTTTACATTTAT
*
9461842 TTAATTTA-ATTTAGT
1 TT-TTTTACATTTA-T
9461857 TTTTT
1 TTTTT
9461862 CTTTTTCTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 9 0.23
14 27 0.69
15 3 0.08
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTTTTACATTTAT
Found at i:9461877 original size:16 final size:17
Alignment explanation
Indices: 9461856--9461891 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
9461846 TTTAATTTAG
9461856 TTTTTTC-TTTTTCTTT
1 TTTTTTCTTTTTTCTTT
9461872 TTTTTTCTTTTTTCTTT
1 TTTTTTCTTTTTTCTTT
9461889 TTT
1 TTT
9461892 CATTCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTCTTTTTTCTTT
Found at i:9461902 original size:17 final size:16
Alignment explanation
Indices: 9461856--9461903 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
9461846 TTTAATTTAG
9461856 TTTT-TTCTTTTTCTT
1 TTTTATTCTTTTTCTT
*
9461871 TTTTTTTCTTTTTTCTT
1 TTTTATTC-TTTTTCTT
*
9461888 TTTTCATTCTATTTCT
1 TTTT-ATTCTTTTTCT
9461904 CTTCTTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.14
16 3 0.11
17 18 0.64
18 3 0.11
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTCTTTTTCTT
Found at i:9475415 original size:2 final size:2
Alignment explanation
Indices: 9475408--9475434 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9475398 CCTTCATTAT
9475408 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9475435 TATTTTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9475489 original size:2 final size:2
Alignment explanation
Indices: 9475482--9475515 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9475472 ATTTAATCTA
9475482 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
9475516 TTCTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9475566 original size:17 final size:15
Alignment explanation
Indices: 9475533--9475582 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
9475523 TTTGCTTCTG
9475533 TTTTTATGTTTATGTT
1 TTTTTAT-TTTATGTT
9475549 TTTTTATTTTAT-TCGT
1 TTTTTATTTTATGT--T
*
9475565 TTTTTAATTTA-GTT
1 TTTTTATTTTATGTT
9475579 TTTT
1 TTTT
9475583 CTTTTGCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 6 0.20
15 5 0.17
16 19 0.63
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (15 bp):
TTTTTATTTTATGTT
Found at i:9476607 original size:23 final size:23
Alignment explanation
Indices: 9476565--9476631 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 23
9476555 CGATAGTTTT
**
9476565 TTGCTTTATTTTTACCTTATTATC-
1 TTGCTTTA-TTTTATTTTATT-TCG
9476589 TTGCTTTATTTTATTTTATTTCG
1 TTGCTTTATTTTATTTTATTTCG
9476612 TT-CTATTA-TTTATTTTATTT
1 TTGCT-TTATTTTATTTTATTT
9476632 TATTTTTGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 16 0.41
23 15 0.38
24 8 0.21
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.69
Consensus pattern (23 bp):
TTGCTTTATTTTATTTTATTTCG
Found at i:9478094 original size:19 final size:17
Alignment explanation
Indices: 9478070--9478113 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
9478060 ACTCTTTCTA
9478070 TAAAAAAATATGATATTTG
1 TAAAAAAATAT-AT-TTTG
* *
9478089 TAAAAACATATATTTTT
1 TAAAAAAATATATTTTG
9478106 TAAAAAAA
1 TAAAAAAA
9478114 AATCTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
18 2 0.09
19 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (17 bp):
TAAAAAAATATATTTTG
Found at i:9480332 original size:16 final size:16
Alignment explanation
Indices: 9480304--9480338 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9480294 TTCAAATTGT
*
9480304 TTTCAATTCGAGTTGC
1 TTTCAATTCGAGTTAC
*
9480320 TTTCAATTTGAGTTAC
1 TTTCAATTCGAGTTAC
9480336 TTT
1 TTT
9480339 TAGTTGGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAATTCGAGTTAC
Found at i:9480502 original size:2 final size:2
Alignment explanation
Indices: 9480495--9480540 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
9480485 TAGAGCGATA
9480495 AT AT AT 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 AT AT AT
9480537 AT AT
1 AT AT
9480541 TAGTCTTGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9481134 original size:19 final size:19
Alignment explanation
Indices: 9481110--9481160 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
9481100 ACCAACTAAA
*
9481110 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
9481129 TCGCAACGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
9481148 TCGCAACGCGATC
1 TCGCAACGCGATC
9481161 TCCGTATCGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (19 bp):
TCGCAACGCGATCGATAAT
Found at i:9481249 original size:22 final size:21
Alignment explanation
Indices: 9481207--9481259 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
9481197 ATTCTGACTA
9481207 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
9481228 TCGCGTTGCGATTTTCCTAAA-
1 TCGCATTGCGA-TTTCCCAAAT
*
9481249 TCGCAATGCGA
1 TCGCATTGCGA
9481260 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:9481270 original size:20 final size:20
Alignment explanation
Indices: 9481245--9481445 Score: 118
Period size: 20 Copynumber: 9.5 Consensus size: 20
9481235 GCGATTTTCC
9481245 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
9481265 TAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
*
9481285 TAAATCGCAATGTGAATTA-G
1 TAAATCGCAATGCGAA-TACG
* *
9481305 TAAATCGCCAGATTCGCAACACG
1 TAAATCG-CA-ATGCG-AATACG
* * * * *
9481328 ATTCTGACTATCGCATTGCGATTTCC
1 ----T-A-AATCGCAATGCGAATACG
* ** * * *
9481354 CAAATTCGCGTTGCGATTTTCC
1 TAAA-TCGCAATGCGA-ATACG
9481376 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
9481396 TAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
*
9481416 TAAATCGCAATGTGAATTA-G
1 TAAATCGCAATGCGAA-TACG
9481436 TAAATCGCAA
1 TAAATCGCAA
9481446 CGAGATTCTG
Statistics
Matches: 142, Mismatches: 25, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
20 88 0.62
21 26 0.18
22 12 0.08
23 3 0.02
26 2 0.01
27 4 0.03
28 3 0.02
29 4 0.03
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:9481295 original size:40 final size:40
Alignment explanation
Indices: 9481245--9481445 Score: 136
Period size: 40 Copynumber: 4.8 Consensus size: 40
9481235 GCGATTTTCC
9481245 TAAATCGCAATGCGAATACGTAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACGTAAATCGCAATGCGATTACG
* * **
9481285 TAAATCGCAATGTGAATTA-GTAAATCGCCAGATTCGCAACACG
1 TAAATCGCAATGCGAA-TACGTAAATCG-CA-ATGCG-ATTACG
* * * * ** ** * *
9481328 ATTCTGACTATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCC
1 ----T-A-AATCGCAATGCGAATACGTAAA-TCGCAATGCGA-TTACG
9481376 TAAATCGCAATGCGAATACGTAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACGTAAATCGCAATGCGATTACG
*
9481416 TAAATCGCAATGTGAATTA-GTAAATCGCAA
1 TAAATCGCAATGCGAA-TACGTAAATCGCAA
9481446 CGAGATTCTG
Statistics
Matches: 118, Mismatches: 29, Indels: 28
0.67 0.17 0.16
Matches are distributed among these distances:
40 52 0.44
41 15 0.13
42 20 0.17
43 5 0.04
44 1 0.01
47 2 0.02
48 6 0.05
49 14 0.12
50 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (40 bp):
TAAATCGCAATGCGAATACGTAAATCGCAATGCGATTACG
Found at i:9481347 original size:131 final size:131
Alignment explanation
Indices: 9481181--9481443 Score: 526
Period size: 131 Copynumber: 2.0 Consensus size: 131
9481171 AAATCAGTTT
9481181 CCAGATTCGCAACACGATTCTGACTATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCT
1 CCAGATTCGCAACACGATTCTGACTATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCT
9481246 AAATCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGTGAATTAGTAAATC
66 AAATCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGTGAATTAGTAAATC
9481311 G
131 G
9481312 CCAGATTCGCAACACGATTCTGACTATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCT
1 CCAGATTCGCAACACGATTCTGACTATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCT
9481377 AAATCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGTGAATTAGTAAATC
66 AAATCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGTGAATTAGTAAATC
9481442 G
131 G
9481443 C
1 C
9481444 AACGAGATTC
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (131 bp):
CCAGATTCGCAACACGATTCTGACTATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCT
AAATCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGTGAATTAGTAAATC
G
Found at i:9481380 original size:22 final size:21
Alignment explanation
Indices: 9481338--9481390 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
9481328 ATTCTGACTA
9481338 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
9481359 TCGCGTTGCGATTTTCCTAAA-
1 TCGCATTGCGA-TTTCCCAAAT
*
9481380 TCGCAATGCGA
1 TCGCATTGCGA
9481391 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:9482334 original size:24 final size:24
Alignment explanation
Indices: 9482307--9482360 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
9482297 GTATTCGAAA
9482307 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
9482331 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
9482355 TTTGAT
1 TTTGAT
9482361 GATTTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:9484912 original size:19 final size:18
Alignment explanation
Indices: 9484890--9484987 Score: 77
Period size: 19 Copynumber: 5.7 Consensus size: 18
9484880 GAAAATTACT
9484890 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
9484909 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
9484923 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
9484942 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
9484956 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
9484975 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
9484988 TTTAGTTTCG
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
14 17 0.27
15 4 0.06
16 4 0.06
17 4 0.06
18 4 0.06
19 29 0.47
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:9484932 original size:33 final size:33
Alignment explanation
Indices: 9484890--9484983 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
9484880 GAAAATTACT
9484890 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
9484923 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
9484956 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
9484984 CGAATTTAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:9485050 original size:14 final size:14
Alignment explanation
Indices: 9485031--9485085 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
9485021 TCATTTCGCA
9485031 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
9485045 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
9485062 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
9485078 TTGCGATT
1 TTGCGATT
9485086 TCATTTCGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:9485051 original size:33 final size:33
Alignment explanation
Indices: 9484993--9485102 Score: 181
Period size: 33 Copynumber: 3.4 Consensus size: 33
9484983 GCGAATTTAG
* *
9484993 TTTCGCGTTGCGA-T-TGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
9485024 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
9485057 TTTCGCATTGCGATTCTCTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
9485089 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
9485103 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
31 12 0.16
32 20 0.27
33 43 0.57
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
Found at i:9486645 original size:42 final size:42
Alignment explanation
Indices: 9486599--9486678 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
9486589 CGATGACAGT
* * *
9486599 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
9486641 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
9486679 CAGGCGATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:9487114 original size:19 final size:19
Alignment explanation
Indices: 9487074--9487199 Score: 136
Period size: 19 Copynumber: 6.8 Consensus size: 19
9487064 TCTGGAACTT
*
9487074 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
9487095 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
9487114 AAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAATG
9487133 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
9487152 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* * *
9487166 AGAATCGCAATGCGGAATG
1 AAAATCGCAACGCGAAATG
9487185 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
9487200 TTATAGTTTC
Statistics
Matches: 89, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 62 0.70
21 11 0.12
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:9487147 original size:38 final size:36
Alignment explanation
Indices: 9487098--9487199 Score: 138
Period size: 33 Copynumber: 2.9 Consensus size: 36
9487088 AAAAATGACT
9487098 ATCGCAACGCGAAATGAAAATCGCAACGCGAAACGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGCG-AA-GAAA
*
9487136 ATCGCAACGCGAAATGAAAATCGCAA--CG-AGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGCGAAGAAA
* *
9487169 ATCGCAATGCGGAATGAAAATCGCAACGCGA
1 ATCGCAACGCGAAATGAAAATCGCAACGCGA
9487200 TTATAGTTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
33 27 0.47
34 1 0.02
35 2 0.03
36 2 0.03
38 26 0.45
ACGTcount: A:0.44, C:0.23, G:0.24, T:0.10
Consensus pattern (36 bp):
ATCGCAACGCGAAATGAAAATCGCAACGCGAAGAAA
Found at i:9487230 original size:20 final size:20
Alignment explanation
Indices: 9487205--9487242 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9487195 CGCGATTATA
9487205 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
9487225 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
9487243 CATTTCGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.29, T:0.50
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:9487274 original size:33 final size:37
Alignment explanation
Indices: 9487231--9487320 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 37
9487221 TTTGGTTTCG
* *
9487231 CGTTGCGATTTTCATTTCGTGTTGTGA-TTC-TCT-T
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTCATCTCT
*
9487265 -GTTGCGATTTTCGTTTCGCGTTGCGATTTTCATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGA-TTTCA-TCTCT
9487303 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
9487321 AACCAAAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
33 23 0.50
35 3 0.07
37 3 0.07
38 1 0.02
39 16 0.35
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.51
Consensus pattern (37 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTTCATCTCT
Found at i:9487308 original size:20 final size:20
Alignment explanation
Indices: 9487257--9487318 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
9487247 TCGTGTTGTG
*
9487257 ATTCTCTTGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* *
9487277 GTT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
9487296 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
9487316 ATT
1 ATT
9487319 TCAACCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.10, C:0.21, G:0.18, T:0.52
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:9487311 original size:39 final size:38
Alignment explanation
Indices: 9487206--9487320 Score: 116
Period size: 39 Copynumber: 3.1 Consensus size: 38
9487196 GCGATTATAG
* *
9487206 TTTCGCGTTGCGATTTT-TGGTTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCT--TCTCTCGTTGCGATTTTCA
* * *
9487245 TTTCGTGTTGTGA--TTC-TCT-T-GTTGCGATTTTCG
1 TTTCGCGTTGCGATTTTCTTCTCTCGTTGCGATTTTCA
9487278 TTTCGCGTTGCGATTTTCATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTC-TTCTCTCGTTGCGATTTTCA
9487317 TTTC
1 TTTC
9487321 AACCAAAAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
33 23 0.38
35 5 0.08
37 5 0.08
38 1 0.02
39 27 0.44
ACGTcount: A:0.08, C:0.19, G:0.22, T:0.51
Consensus pattern (38 bp):
TTTCGCGTTGCGATTTTCTTCTCTCGTTGCGATTTTCA
Found at i:9487664 original size:94 final size:94
Alignment explanation
Indices: 9487413--9487871 Score: 720
Period size: 94 Copynumber: 5.0 Consensus size: 94
9487403 GATTGCATAC
* *
9487413 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGT-ATAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
*
9487477 AGAATTGGCAGCAAACGAACAAATTTACT
66 AGAATTGGCAGCAACCGAACAAATTTACT
*
9487506 TTCAA-CAAAGGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
9487570 AGAATTGGCAGCAACCGAACAAATTTACT
66 AGAATTGGCAGCAACCGAACAAATTTACT
*
9487599 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACATTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
*
9487664 AGAATTGGTAGCAACCGAACAAATTTACT
66 AGAATTGGCAGCAACCGAACAAATTTACT
9487693 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
* *
9487758 AGAATTAGCAGCAAACCGAATAAATTTAC-
66 AGAATTGGCAGC-AACCGAACAAATTTACT
* * *
9487787 TTCAACCAAAAGACAACA-AAAGACAAATACT-ACTTCACAATGTT----AATAAACAGTTTTAG
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG-TTTAG
* *
9487846 CAGTATTGGCAGCAACCGAATAAATT
65 CAGAATTGGCAGCAACCGAACAAATT
9487872 ACTAAGCAAT
Statistics
Matches: 346, Mismatches: 16, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
88 21 0.06
89 16 0.05
92 47 0.14
93 71 0.21
94 176 0.51
95 15 0.04
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (94 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
AGAATTGGCAGCAACCGAACAAATTTACT
Found at i:9489436 original size:16 final size:17
Alignment explanation
Indices: 9489402--9489489 Score: 67
Period size: 17 Copynumber: 5.1 Consensus size: 17
9489392 GGTTGAAATG
9489402 AAAATCGCAACGAGAGA
1 AAAATCGCAACGAGAGA
*
9489419 AAAATCGCAACGCG-GA
1 AAAATCGCAACGAGAGA
9489435 AATGACTATCGCAACGAGAG-
1 AA--A--ATCGCAACGAGAGA
* *
9489455 --AATCGCAACGCGAAA
1 AAAATCGCAACGAGAGA
9489470 TGAAAATCGCAACGAGAGA
1 --AAAATCGCAACGAGAGA
9489489 A
1 A
9489490 TCACAACGCT
Statistics
Matches: 55, Mismatches: 6, Indels: 20
0.68 0.07 0.25
Matches are distributed among these distances:
14 11 0.20
16 5 0.09
17 14 0.25
18 1 0.02
19 13 0.24
20 10 0.18
21 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.09
Consensus pattern (17 bp):
AAAATCGCAACGAGAGA
Found at i:9489479 original size:19 final size:19
Alignment explanation
Indices: 9489396--9489538 Score: 94
Period size: 19 Copynumber: 8.1 Consensus size: 19
9489386 TCTTTTGGTT
*
9489396 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
9489415 GAGA--AAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
9489432 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
9489450 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
9489466 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
9489483 G--A-GAGAATCACAACGC
1 GAAATGAAAATCGCAACGC
** *
9489499 TTAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
9489518 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
9489537 GA
1 GA
9489539 TTTTGGTTTC
Statistics
Matches: 93, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
14 18 0.19
15 2 0.02
16 3 0.03
17 15 0.16
18 6 0.06
19 41 0.44
20 8 0.09
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:9489479 original size:33 final size:33
Alignment explanation
Indices: 9489396--9489516 Score: 152
Period size: 33 Copynumber: 3.5 Consensus size: 33
9489386 TCTTTTGGTT
9489396 GAAATGAAAATCGCAACGAGAGAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAG---AATCGCAACGC
**
9489432 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
9489466 GAAATGAAAATCGCAACGAGAGAATCACAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
** *
9489499 TTAATTAAAATCGCAACG
1 GAAATGAAAATCGCAACG
9489517 CGAAATGAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
33 45 0.59
34 11 0.14
37 20 0.26
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:9489630 original size:20 final size:20
Alignment explanation
Indices: 9489565--9489655 Score: 114
Period size: 20 Copynumber: 4.5 Consensus size: 20
9489555 CGATTATATC
*
9489565 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
9489584 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCGT
**
9489604 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCGT
*
9489625 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCGT
9489645 GTTGCGATTTT
1 GTTGCGATTTT
9489656 AAGTTTAGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
19 13 0.21
20 32 0.52
21 17 0.27
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:9490023 original size:85 final size:86
Alignment explanation
Indices: 9489880--9490050 Score: 319
Period size: 85 Copynumber: 2.0 Consensus size: 86
9489870 TTTCTAAATA
9489880 AAAATAATTAAAAAAAATAACCCTCGGAGGTTGATTTTCCATTCTGAATGATTGTGAGGGATTTC
1 AAAATAATTAAAAAAAATAACCCTCGGAGGTTGATTTTCCATTCTGAATGATTGTGAGGGATTTC
9489945 TGACCGTGAATGG-TGTGAGG
66 TGACCGTGAATGGTTGTGAGG
9489965 AAAATAATT-AAAAAAATAACCCTCGGAGGTTGATTTTCCATTTCTGAATGATTGTGAGGGATTT
1 AAAATAATTAAAAAAAATAACCCTCGGAGGTTGATTTTCCA-TTCTGAATGATTGTGAGGGATTT
9490029 CTGACCGTGAATGGTTGTGAGG
65 CTGACCGTGAATGGTTGTGAGG
9490051 GATTTTGCCG
Statistics
Matches: 84, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
84 31 0.37
85 46 0.55
86 7 0.08
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (86 bp):
AAAATAATTAAAAAAAATAACCCTCGGAGGTTGATTTTCCATTCTGAATGATTGTGAGGGATTTC
TGACCGTGAATGGTTGTGAGG
Found at i:9490311 original size:20 final size:20
Alignment explanation
Indices: 9490265--9490345 Score: 117
Period size: 20 Copynumber: 4.0 Consensus size: 20
9490255 ATGGCGCTAT
*
9490265 GTAAATCGCAATGCGAATTAG
1 GTAAATCGCAATGCG-ATTAC
* **
9490286 GAAAATATCAATGCGATTAC
1 GTAAATCGCAATGCGATTAC
9490306 GTAAATCGCAATGCGATTAC
1 GTAAATCGCAATGCGATTAC
9490326 GTAAATCGCAATGCGATTAC
1 GTAAATCGCAATGCGATTAC
9490346 CAAAATTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 41 0.77
21 12 0.23
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (20 bp):
GTAAATCGCAATGCGATTAC
Found at i:9492598 original size:78 final size:79
Alignment explanation
Indices: 9492471--9492629 Score: 268
Period size: 78 Copynumber: 2.0 Consensus size: 79
9492461 GAACAAAACA
* * *
9492471 ATCCCACATGGGTAATAAACATAGAAGAGTATCCCAGATGACTTCTATAAATAATAGAGGTAATT
1 ATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAGATGACTTCTATAAATAATAGAGGTAATT
9492536 TGACATTCAAAATC
66 TGACATTCAAAATC
9492550 ATCCCACATGGCTAAGAAACATA-AAGAGCATCCCA-ACTGACTTCTATAAATAATAGAGGTAAT
1 ATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAGA-TGACTTCTATAAATAATAGAGGTAAT
9492613 TTGACATTCAAAATC
65 TTGACATTCAAAATC
9492628 AT
1 AT
9492630 GGAGTCTTTT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
77 1 0.01
78 54 0.71
79 21 0.28
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (79 bp):
ATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAGATGACTTCTATAAATAATAGAGGTAATT
TGACATTCAAAATC
Found at i:9493891 original size:56 final size:56
Alignment explanation
Indices: 9493805--9493917 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
9493795 TGATCCTTTC
9493805 GATTTGCGTGCATGCATAATTGTCTTTTAAAGCTATAACTCAATACATATTCAACT
1 GATTTGCGTGCATGCATAATTGTCTTTTAAAGCTATAACTCAATACATATTCAACT
9493861 GATTTGCGTGCATGCATAATTGTCTTTTAAAGCTATAACTCAATACATATTCAACT
1 GATTTGCGTGCATGCATAATTGTCTTTTAAAGCTATAACTCAATACATATTCAACT
9493917 G
1 G
9493918 TAAAATTTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (56 bp):
GATTTGCGTGCATGCATAATTGTCTTTTAAAGCTATAACTCAATACATATTCAACT
Found at i:9495382 original size:35 final size:34
Alignment explanation
Indices: 9495329--9495406 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 34
9495319 TTCTAAAATA
9495329 TTTT-AATTTAGGGTTAGAATGTAATTAAAGTAT
1 TTTTGAATTTAGGGTTAGAATGTAATTAAAGTAT
* * * *
9495362 TTTTGAATTTGAGGTTTAGAATGTACTTGAAGTGT
1 TTTTGAATTT-AGGGTTAGAATGTAATTAAAGTAT
*
9495397 TTTGGAATTT
1 TTTTGAATTT
9495407 TGAACATGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 4 0.11
34 5 0.13
35 29 0.76
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.47
Consensus pattern (34 bp):
TTTTGAATTTAGGGTTAGAATGTAATTAAAGTAT
Found at i:9499036 original size:3 final size:3
Alignment explanation
Indices: 9499028--9499071 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
9499018 ACAAATAGAG
*
9499028 ATA ATA ATA ATA ACA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9499072 TGAAACTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9499047 original size:23 final size:24
Alignment explanation
Indices: 9499015--9499063 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
9499005 AAAGCCTGAA
*
9499015 AACACAAATAGA-GATAATAATAAT
1 AACACAAATA-ATAATAATAATAAT
9499039 AACA-AAATAATAATAATAATAAT
1 AACACAAATAATAATAATAATAAT
9499062 AA
1 AA
9499064 TAATAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 18 0.78
24 4 0.17
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.22
Consensus pattern (24 bp):
AACACAAATAATAATAATAATAAT
Found at i:9502764 original size:16 final size:15
Alignment explanation
Indices: 9502739--9502769 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
9502729 AGAATATAGT
9502739 TAAAATTAAAATTTA
1 TAAAATTAAAATTTA
9502754 TAAACATTAAAATTTA
1 TAAA-ATTAAAATTTA
9502770 ACTTCCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAAATTAAAATTTA
Found at i:9505612 original size:41 final size:41
Alignment explanation
Indices: 9505567--9505701 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
9505557 GTGTTTGTCA
*
9505567 AAAAATGCCACTAAAGTACTAGGTTTTAGCGGCGCTTT-TCT
1 AAAAACGCCACTAAAGTACTAGGTTTTAGCGGCG-TTTATCT
* * *
9505608 AAAAACGCCACTAAAGTA-T-GAGTATTTAGCTGCGTTTGTCAA
1 AAAAACGCCACTAAAGTACTAG-GT-TTTAGCGGCGTTTATC-T
** *
9505650 AAAAATACCACTAAAGTACTAGGATTTAGCGGCGTTTATCT
1 AAAAACGCCACTAAAGTACTAGGTTTTAGCGGCGTTTATCT
9505691 AAAAACGCCAC
1 AAAAACGCCAC
9505702 GATATATTTA
Statistics
Matches: 77, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.01
40 6 0.08
41 37 0.48
42 30 0.39
43 2 0.03
44 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACTAGGTTTTAGCGGCGTTTATCT
Found at i:9505612 original size:42 final size:42
Alignment explanation
Indices: 9505566--9505695 Score: 151
Period size: 42 Copynumber: 3.1 Consensus size: 42
9505556 GGTGTTTGTC
9505566 AAAAAATGCCACTAAAGTACTAGGTTTTAGCGGCGCTTT-TCT
1 AAAAAATGCCACTAAAGTACTAGGTTTTAGCGGCG-TTTATCT
* * * *
9505608 -AAAAACGCCACTAAAGTA-T-GAGTATTTAGCTGCGTTTGTCA
1 AAAAAATGCCACTAAAGTACTAG-GT-TTTAGCGGCGTTTATCT
* *
9505649 AAAAAATACCACTAAAGTACTAGGATTTAGCGGCGTTTATCT
1 AAAAAATGCCACTAAAGTACTAGGTTTTAGCGGCGTTTATCT
9505691 AAAAA
1 AAAAA
9505696 CGCCACGATA
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
39 1 0.01
40 6 0.08
41 28 0.38
42 35 0.48
43 2 0.03
44 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (42 bp):
AAAAAATGCCACTAAAGTACTAGGTTTTAGCGGCGTTTATCT
Found at i:9505835 original size:42 final size:42
Alignment explanation
Indices: 9505772--9505871 Score: 175
Period size: 42 Copynumber: 2.4 Consensus size: 42
9505762 GGCGTTTGTA
**
9505772 AAACGCCACT-AAGTACTTATCTTTAGCGGTGTTTGTCAAAT
1 AAACGCCACTAAAGTACTTATCTTTAGCGACGTTTGTCAAAT
9505813 AAACGCCACTAAAGTACTTATCTTTAGCGACGTTTGTCAAAT
1 AAACGCCACTAAAGTACTTATCTTTAGCGACGTTTGTCAAAT
9505855 AAACGCCACTAAAGTAC
1 AAACGCCACTAAAGTAC
9505872 GAGTTTTAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
41 10 0.18
42 46 0.82
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (42 bp):
AAACGCCACTAAAGTACTTATCTTTAGCGACGTTTGTCAAAT
Found at i:9507084 original size:82 final size:81
Alignment explanation
Indices: 9506908--9507058 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 81
9506898 AAAATTAAAC
* * *
9506908 TTGCGGCGTTTGTCAAAAAATGCCACTAAAGTAATAGGTTTTAGAGGCATTTTTCTAAAAACGCC
1 TTGCGGCGTTTGTCAAAAAATGCCACTAAAGTAATACGATTTAGAGGCATTTATCTAAAAACGCC
* *
9506973 ACTAAAGTATGAGTAT
66 ACGAAAGTATGACTAT
* * *
9506989 TTAGCGGCGTTTGTCAAAAAATGCCACTAAAGTACTACGATTTAGCGGCGTTTATCTAAAAACGC
1 TT-GCGGCGTTTGTCAAAAAATGCCACTAAAGTAATACGATTTAGAGGCATTTATCTAAAAACGC
9507054 CACGA
65 CACGA
9507059 TATATTTACC
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 2 0.03
82 60 0.97
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (81 bp):
TTGCGGCGTTTGTCAAAAAATGCCACTAAAGTAATACGATTTAGAGGCATTTATCTAAAAACGCC
ACGAAAGTATGACTAT
Found at i:9507190 original size:42 final size:42
Alignment explanation
Indices: 9506910--9507229 Score: 197
Period size: 41 Copynumber: 7.8 Consensus size: 42
9506900 AATTAAACTT
* *
9506910 GCGGCGTTTGTCAAA-AAATGCCACTAAAGTA-ATAGGT-TTTA
1 GCGGCGTTTGTCAAATAAACGCCACTAAAGTACTTA--TATTTA
* * * * *
9506951 GAGGCATTTTTCTAA-AAACGCCACTAAAGTA-TGAGTATTTA
1 GCGGCGTTTGTCAAATAAACGCCACTAAAGTACTTA-TATTTA
* *
9506992 GCGGCGTTTGTCAAA-AAATGCCACTAAAGTAC-TACGATTTA
1 GCGGCGTTTGTCAAATAAACGCCACTAAAGTACTTA-TATTTA
* * * * *
9507033 GCGGCGTTTATCTAA-AAACGCCACGATA-TATTTACCCTA-TT-
1 GCGGCGTTTGTCAAATAAACGCCACTAAAGTACTTA---TATTTA
* ** * * *
9507074 GCAGCGTTTGT-TTA-AAACTGCCACTAAAGAAC-GAT-TCTATG
1 GCGGCGTTTGTCAAATAAAC-GCCACTAAAGTACTTATAT-T-TA
* * *
9507115 GTGGCGTTTGT-ATACAAACGCCACT-AAGTACTTATATTTA
1 GCGGCGTTTGTCAAATAAACGCCACTAAAGTACTTATATTTA
* *
9507155 GCGGCGTTTGTCAAATAAACACCACTAAAGTACTTATCTTTA
1 GCGGCGTTTGTCAAATAAACGCCACTAAAGTACTTATATTTA
*
9507197 GCGACGTTTGTCAAATAAACGCCACTAAAGTAC
1 GCGGCGTTTGTCAAATAAACGCCACTAAAGTAC
9507230 GAGTTTTAGT
Statistics
Matches: 220, Mismatches: 43, Indels: 31
0.75 0.15 0.11
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 27 0.12
41 136 0.62
42 53 0.24
43 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (42 bp):
GCGGCGTTTGTCAAATAAACGCCACTAAAGTACTTATATTTA
Found at i:9508380 original size:42 final size:41
Alignment explanation
Indices: 9508268--9508584 Score: 163
Period size: 41 Copynumber: 7.8 Consensus size: 41
9508258 AATTAAACTT
*
9508268 GCGGTGTTTGTCAAAAAATGCCACTAAAGTACTAGGT-TTTA
1 GCGGCGTTTGTCAAAAAATGCCACTAAAGTACTA-GTATTTA
* *
9508309 GCGGCGCTTT-TCTAAAAACGCCACTAAAGTA-TGAGTATTTA
1 GCGGCG-TTTGTCAAAAAATGCCACTAAAGTACT-AGTATTTA
* * *
9508350 GCTGCGTTTGTCAAAAAAATACCACTAAAGTACTAGGATTTA
1 GCGGCGTTTGTC-AAAAAATGCCACTAAAGTACTAGTATTTA
* * * ** **
9508392 GCGGCGTTTATCTAAAAACGCCACGATATATTTAC-CCTA-TT-
1 GCGGCGTTTGTCAAAAAATGCCAC--TA-AAGTACTAGTATTTA
* ** * * * * * * *
9508433 GCAGCGTTTGTTTAAAACTGCCACTAAAGAACGATTCTATG
1 GCGGCGTTTGTCAAAAAATGCCACTAAAGTACTAGTATTTA
* * *
9508474 GTGGCGTTTGT---AAAACGCCACT-AAGTACTTA-TCTTTA
1 GCGGCGTTTGTCAAAAAATGCCACTAAAGTAC-TAGTATTTA
* * *
9508511 GCGGTGTTTGTCAAATAAACGCCACTAAAGTACTTA-TCTTTA
1 GCGGCGTTTGTCAAA-AAATGCCACTAAAGTAC-TAGTATTTA
* * *
9508553 GCGACGTTTGTGAAATAAACGCCACTAAAGTA
1 GCGGCGTTTGTCAAA-AAATGCCACTAAAGTA
9508585 TGAGTTTTAG
Statistics
Matches: 215, Mismatches: 43, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
37 18 0.08
38 13 0.06
39 3 0.01
40 8 0.04
41 83 0.39
42 82 0.38
43 4 0.02
44 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (41 bp):
GCGGCGTTTGTCAAAAAATGCCACTAAAGTACTAGTATTTA
Found at i:9508534 original size:41 final size:41
Alignment explanation
Indices: 9508486--9508580 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 41
9508476 GGCGTTTGTA
**
9508486 AAACGCCACTAAGTACTTATCTTTAGCGGTGTTTGTCAAAT
1 AAACGCCACTAAGTACTTATCTTTAGCGACGTTTGTCAAAT
*
9508527 AAACGCCACTAAAGTACTTATCTTTAGCGACGTTTGTGAAAT
1 AAACGCCACT-AAGTACTTATCTTTAGCGACGTTTGTCAAAT
9508569 AAACGCCACTAA
1 AAACGCCACTAA
9508581 AGTATGAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 12 0.24
42 38 0.76
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (41 bp):
AAACGCCACTAAGTACTTATCTTTAGCGACGTTTGTCAAAT
Found at i:9512477 original size:30 final size:31
Alignment explanation
Indices: 9512419--9512483 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 31
9512409 TGAATAATCA
9512419 TTTTAGCTAACTTGATTATTTTTATCTTGT-
1 TTTTAGCTAACTTGATTATTTTTATCTTGTC
*
9512449 TTTTA-CTAACTTGATT-TCCTTTTGTCTTGTC
1 TTTTAGCTAACTTGATTAT--TTTTATCTTGTC
9512480 TTTT
1 TTTT
9512484 GCTTTGTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 1 0.03
29 11 0.35
30 15 0.48
31 4 0.13
ACGTcount: A:0.15, C:0.14, G:0.09, T:0.62
Consensus pattern (31 bp):
TTTTAGCTAACTTGATTATTTTTATCTTGTC
Found at i:9518933 original size:58 final size:58
Alignment explanation
Indices: 9518783--9518994 Score: 241
Period size: 59 Copynumber: 3.7 Consensus size: 58
9518773 ATATGATATC
* * * *
9518783 TTTAAAGAAACGAAGTCTAATTTTCATATGTTTCTTGACATGGTGTTTTCAAATGCGTT
1 TTTAAAGAAACTAAGTCTAATTTTCAGATGTTTCTTGACATGATGTTTTCAAATG-ATT
* * *
9518842 TTTAAAGAAACTAAGTCTGATTTTCAGATGTTTCTTGACATGATGTTTTGAAATGAAT
1 TTTAAAGAAACTAAGTCTAATTTTCAGATGTTTCTTGACATGATGTTTTCAAATGATT
* * * * *
9518900 TTTAAAGAAGCTAAGTCTAATTTTTAGAAGTTTC-T-AGATGAT-TTCTTCACATGAGTT
1 TTTAAAGAAACTAAGTCTAATTTTCAGATGTTTCTTGACATGATGTT-TTCAAATGA-TT
* * *
9518957 TTTAAAGAAGCTAAGTCTGATTTTCAGAGGTTTCTTGA
1 TTTAAAGAAACTAAGTCTAATTTTCAGATGTTTCTTGA
9518995 AGATTACTCA
Statistics
Matches: 131, Mismatches: 18, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
55 2 0.02
56 13 0.10
57 33 0.25
58 32 0.24
59 51 0.39
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (58 bp):
TTTAAAGAAACTAAGTCTAATTTTCAGATGTTTCTTGACATGATGTTTTCAAATGATT
Found at i:9519466 original size:6 final size:7
Alignment explanation
Indices: 9519449--9519483 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
9519439 TATGGTGTTC
9519449 AAAAAAT
1 AAAAAAT
9519456 AAAAAAT
1 AAAAAAT
*
9519463 AAAAAAG
1 AAAAAAT
9519470 AGAAAAAT
1 A-AAAAAT
9519478 AAAAAA
1 AAAAAA
9519484 AATAATAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (7 bp):
AAAAAAT
Found at i:9519497 original size:22 final size:22
Alignment explanation
Indices: 9519448--9519497 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
9519438 ATATGGTGTT
9519448 CAAAAAATAAAAAATAAAAAAG
1 CAAAAAATAAAAAATAAAAAAG
*
9519470 -AGAAAAATAAAAAA-AATAATAG
1 CA-AAAAATAAAAAATAA-AAAAG
9519492 CAAAAA
1 CAAAAA
9519498 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 3 0.12
22 20 0.83
23 1 0.04
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (22 bp):
CAAAAAATAAAAAATAAAAAAG
Found at i:9520056 original size:42 final size:42
Alignment explanation
Indices: 9519946--9520133 Score: 184
Period size: 42 Copynumber: 4.5 Consensus size: 42
9519936 TTGGCTGGAT
* * *
9519946 TCCATCACATAAGGAGTTGGAACAGCACCGA-C-CTTGGCTCA
1 TCCATCACATAAGGAGTTGGATCAGCATC-ATCACTTTGCTCA
* * * *
9519987 TCCATCGCAAAAGGAGTTGGATAAGCATCATCACTTTGCTCG
1 TCCATCACATAAGGAGTTGGATCAGCATCATCACTTTGCTCA
* * *
9520029 TCTATCACATAAGGAGTTGGATCAGCATCATCATTTTTCTCA
1 TCCATCACATAAGGAGTTGGATCAGCATCATCACTTTGCTCA
* * * * * *
9520071 TCTATCACATAAGGAGTTAGACCAACATCATCA-TTTCACTCG
1 TCCATCACATAAGGAGTTGGATCAGCATCATCACTTT-GCTCA
*
9520113 TCCATCACATAAGGATTTGGA
1 TCCATCACATAAGGAGTTGGA
9520134 CTAATATTTC
Statistics
Matches: 122, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
40 1 0.01
41 28 0.23
42 93 0.76
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
TCCATCACATAAGGAGTTGGATCAGCATCATCACTTTGCTCA
Found at i:9521137 original size:18 final size:18
Alignment explanation
Indices: 9521114--9521153 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9521104 CTTTTTGGCC
**
9521114 GAAACAAGGGAGTTGAAG
1 GAAACAAGGGAGAGGAAG
9521132 GAAACAAGGGAGAGGAAG
1 GAAACAAGGGAGAGGAAG
9521150 GAAA
1 GAAA
9521154 AAAAAGGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.40, T:0.05
Consensus pattern (18 bp):
GAAACAAGGGAGAGGAAG
Found at i:9524602 original size:2 final size:2
Alignment explanation
Indices: 9524581--9524632 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
9524571 GTTCTTTGAA
*
9524581 AT AT A- AT AT -T AT AA 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 AT AT AT
9524621 AT AT AT AT AT AT
1 AT AT AT AT AT AT
9524633 TTTAGATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9526601 original size:20 final size:21
Alignment explanation
Indices: 9526573--9526612 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9526563 TCAAATATTT
*
9526573 ATATGATAAATTATGAGTTTA
1 ATATGATAAATTATCAGTTTA
9526594 ATAT-ATAAATTATCAGTTT
1 ATATGATAAATTATCAGTTT
9526613 TGATTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (21 bp):
ATATGATAAATTATCAGTTTA
Found at i:9527394 original size:23 final size:22
Alignment explanation
Indices: 9527362--9527415 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
9527352 CCACTAGGGG
*
9527362 CACTGAATATTTGTCCCGAATGAC
1 CACTG-ATA-TTGTCCCGAAGGAC
* *
9527386 CGCTGATA-TGTCCCGACGGAC
1 CACTGATATTGTCCCGAAGGAC
9527407 CACTGATAT
1 CACTGATAT
9527416 CCCTCAACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 18 0.72
23 3 0.12
24 4 0.16
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (22 bp):
CACTGATATTGTCCCGAAGGAC
Found at i:9527397 original size:21 final size:21
Alignment explanation
Indices: 9527373--9527415 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9527363 ACTGAATATT
* *
9527373 TGTCCCGAATGACCGCTGATA
1 TGTCCCGAAGGACCACTGATA
*
9527394 TGTCCCGACGGACCACTGATA
1 TGTCCCGAAGGACCACTGATA
9527415 T
1 T
9527416 CCCTCAACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (21 bp):
TGTCCCGAAGGACCACTGATA
Found at i:9534587 original size:19 final size:19
Alignment explanation
Indices: 9534563--9534607 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
9534553 CCTTAACGTG
9534563 TGCATCGATGCACTAGCTA
1 TGCATCGATGCACTAGCTA
9534582 TGCATCGATGCACTAGCTA
1 TGCATCGATGCACTAGCTA
9534601 TGCATCG
1 TGCATCG
9534608 GTACACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (19 bp):
TGCATCGATGCACTAGCTA
Found at i:9536115 original size:20 final size:21
Alignment explanation
Indices: 9536080--9536118 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
9536070 TAACTACATG
9536080 TTAATTATTAAAAAATCACAA
1 TTAATTATTAAAAAATCACAA
9536101 TTAATTATT-AAAAATCAC
1 TTAATTATTAAAAAATCAC
9536119 TTTATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAATTATTAAAAAATCACAA
Found at i:9536491 original size:32 final size:32
Alignment explanation
Indices: 9536455--9536521 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
9536445 AGACTAAAAA
*
9536455 CAACAAAAATTAATTATAATTTAAAATCTTTT
1 CAACAAAAATTAATTATAATTTAAAATCTTAT
9536487 CAACAAAAATTAATTATAATTTAAAATCTTAT
1 CAACAAAAATTAATTATAATTTAAAATCTTAT
9536519 CAA
1 CAA
9536522 GGCCAGGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.37
Consensus pattern (32 bp):
CAACAAAAATTAATTATAATTTAAAATCTTAT
Found at i:9538717 original size:53 final size:53
Alignment explanation
Indices: 9538637--9538740 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
9538627 GTGTTCACAT
9538637 GCTATAATTTTATTTGCGACAATTGTAGTAGTTCATAATTCATAGCATAATAC
1 GCTATAATTTTATTTGCGACAATTGTAGTAGTTCATAATTCATAGCATAATAC
9538690 GCTATAATTTTATTTGCGACAATTGTAGTAGTTCATAATTCATAGCATAAT
1 GCTATAATTTTATTTGCGACAATTGTAGTAGTTCATAATTCATAGCATAAT
9538741 CTGATAATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (53 bp):
GCTATAATTTTATTTGCGACAATTGTAGTAGTTCATAATTCATAGCATAATAC
Found at i:9551870 original size:22 final size:21
Alignment explanation
Indices: 9551818--9551867 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
9551808 GTATACTCTA
9551818 TCGAAAAAGAAAAAAAGCAGT
1 TCGAAAAAGAAAAAAAGCAGT
*
9551839 TCGAAAAAGAAAAATAG-ATGT
1 TCGAAAAAGAAAAAAAGCA-GT
9551860 TCGAAAAA
1 TCGAAAAA
9551868 AGAGATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.60, C:0.08, G:0.18, T:0.14
Consensus pattern (21 bp):
TCGAAAAAGAAAAAAAGCAGT
Found at i:9554089 original size:12 final size:12
Alignment explanation
Indices: 9554065--9554096 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
9554055 CAATATCAAT
9554065 TCATGTCTAAATA
1 TCATGT-TAAATA
9554078 TCATGTTAAATA
1 TCATGTTAAATA
9554090 TCATGTT
1 TCATGTT
9554097 GATTCAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (12 bp):
TCATGTTAAATA
Found at i:9559033 original size:14 final size:13
Alignment explanation
Indices: 9559018--9559097 Score: 89
Period size: 13 Copynumber: 6.3 Consensus size: 13
9559008 AAAAGGATAG
9559018 AAAAG-AAAGAAA
1 AAAAGAAAAGAAA
*
9559030 AGAAAAAAAAGAAA
1 A-AAAGAAAAGAAA
9559044 AAAAGAAAA-AGAA
1 AAAAGAAAAGA-AA
9559057 AAAA-AAAAGAAA
1 AAAAGAAAAGAAA
9559069 AAAAGAAAA-AGAA
1 AAAAGAAAAGA-AA
9559082 AAAA-AAAAGAAA
1 AAAAGAAAAGAAA
9559094 AAAA
1 AAAA
9559098 ACCGGTCAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
12 23 0.39
13 28 0.47
14 8 0.14
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:9559035 original size:25 final size:23
Alignment explanation
Indices: 9559023--9559097 Score: 107
Period size: 25 Copynumber: 3.1 Consensus size: 23
9559013 GATAGAAAAG
9559023 AAAG-AAAAGAAAAAAAAGAAAA
1 AAAGAAAAAGAAAAAAAAGAAAA
9559045 AAAGAAAAAGAAAAAAAAAAGAAAA
1 AAAGAAAAAG--AAAAAAAAGAAAA
9559070 AAAGAAAAAGAAAAAAAAAAGAAAA
1 AAAGAAAAAG--AAAAAAAAGAAAA
9559095 AAA
1 AAA
9559098 ACCGGTCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
22 4 0.08
23 5 0.10
25 41 0.82
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAGAAAAAAAAGAAAA
Found at i:9559038 original size:1 final size:1
Alignment explanation
Indices: 9559027--9559098 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
9559017 GAAAAGAAAG
* * * * * * * *
9559027 AAAAGAAAAAAAAGAAAAAAAGAAAAAGAAAAAAAAAAGAAAAAAAGAAAAAGAAAAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9559092 AAAAAAA
1 AAAAAAA
9559099 CCGGTCAAAT
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:9559047 original size:17 final size:17
Alignment explanation
Indices: 9559018--9559097 Score: 112
Period size: 17 Copynumber: 4.7 Consensus size: 17
9559008 AAAAGGATAG
9559018 AAAAGAAAGAAAAGAAAA
1 AAAAGAAA-AAAAGAAAA
9559036 AAAAGAAAAAAAGAAAA
1 AAAAGAAAAAAAGAAAA
9559053 AGAAA-AAAAAAAG-AAA
1 A-AAAGAAAAAAAGAAAA
9559069 AAAAGAAAAAGAA-AAAA
1 AAAAGAAAAA-AAGAAAA
9559086 AAAAGAAAAAAA
1 AAAAGAAAAAAA
9559098 ACCGGTCAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.05
16 11 0.19
17 33 0.57
18 11 0.19
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAGAAAA
Found at i:9559098 original size:14 final size:14
Alignment explanation
Indices: 9559018--9559098 Score: 89
Period size: 14 Copynumber: 6.0 Consensus size: 14
9559008 AAAAGGATAG
* *
9559018 AAAAGAAAGAAAAG
1 AAAAAAAAGAAAAA
9559032 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
*
9559046 AAGAAAAAG---AA
1 AAAAAAAAGAAAAA
9559057 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
*
9559071 AAGAAAAAGAAAAA
1 AAAAAAAAGAAAAA
9559085 AAAAAGAAA-AAAAA
1 AAAAA-AAAGAAAAA
9559099 CCGGTCAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
11 10 0.18
14 44 0.77
15 3 0.05
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:9566931 original size:181 final size:181
Alignment explanation
Indices: 9566627--9566988 Score: 724
Period size: 181 Copynumber: 2.0 Consensus size: 181
9566617 TTTTGTTGAA
9566627 GCAAAAGACACAAAGGTTTTGATATTTGAGAAAAATCTTTTATGAACCGCCTATAAAATCTTGCA
1 GCAAAAGACACAAAGGTTTTGATATTTGAGAAAAATCTTTTATGAACCGCCTATAAAATCTTGCA
9566692 TGTCCTAGGAAACTGCATATGCCTTTCACATTGGTAGGTGGAGGTAGATTTTCAATTACTTCAAC
66 TGTCCTAGGAAACTGCATATGCCTTTCACATTGGTAGGTGGAGGTAGATTTTCAATTACTTCAAC
9566757 CTTGGCTCTATCGACTTTAATGCCTTGACAACAAATCTTATGTCCCAATAT
131 CTTGGCTCTATCGACTTTAATGCCTTGACAACAAATCTTATGTCCCAATAT
9566808 GCAAAAGACACAAAGGTTTTGATATTTGAGAAAAATCTTTTATGAACCGCCTATAAAATCTTGCA
1 GCAAAAGACACAAAGGTTTTGATATTTGAGAAAAATCTTTTATGAACCGCCTATAAAATCTTGCA
9566873 TGTCCTAGGAAACTGCATATGCCTTTCACATTGGTAGGTGGAGGTAGATTTTCAATTACTTCAAC
66 TGTCCTAGGAAACTGCATATGCCTTTCACATTGGTAGGTGGAGGTAGATTTTCAATTACTTCAAC
9566938 CTTGGCTCTATCGACTTTAATGCCTTGACAACAAATCTTATGTCCCAATAT
131 CTTGGCTCTATCGACTTTAATGCCTTGACAACAAATCTTATGTCCCAATAT
9566989 TATTCCCTCG
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 181 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (181 bp):
GCAAAAGACACAAAGGTTTTGATATTTGAGAAAAATCTTTTATGAACCGCCTATAAAATCTTGCA
TGTCCTAGGAAACTGCATATGCCTTTCACATTGGTAGGTGGAGGTAGATTTTCAATTACTTCAAC
CTTGGCTCTATCGACTTTAATGCCTTGACAACAAATCTTATGTCCCAATAT
Found at i:9568441 original size:26 final size:26
Alignment explanation
Indices: 9568405--9568455 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
9568395 TAGTTTTGAC
9568405 CCTAAGTCAGCAACAGCTCATTCTAG
1 CCTAAGTCAGCAACAGCTCATTCTAG
**
9568431 CCTAAGTCAGCAATGGCTCATTCTA
1 CCTAAGTCAGCAACAGCTCATTCTA
9568456 CAAAGTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (26 bp):
CCTAAGTCAGCAACAGCTCATTCTAG
Found at i:9571110 original size:14 final size:14
Alignment explanation
Indices: 9571091--9571121 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9571081 CCGACATGAT
9571091 TACTCAATGTTAAC
1 TACTCAATGTTAAC
9571105 TACTCAATGTTAAC
1 TACTCAATGTTAAC
9571119 TAC
1 TAC
9571122 AACCCTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (14 bp):
TACTCAATGTTAAC
Found at i:9573882 original size:278 final size:279
Alignment explanation
Indices: 9573184--9574284 Score: 1538
Period size: 278 Copynumber: 4.0 Consensus size: 279
9573174 AAGATTTTAA
* * * *
9573184 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGAT-TTTCAAAGAGTCTTTAAAAGGAAG
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCT-AAAGAATTTTTAAAAGGAAG
* *
9573248 CTAAGCCTAATTTTTAGGGGTTCCTTGATAACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTT
65 ATAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTT
** * ** *
9573313 CTTTATGAGTAAGTCCTTTAGGCCATCAGTAAGTATTTTGAGCATGATGCTTAAATTTTTTGGGT
130 CTTTATGAGTAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATGATGCTTAAATCCTTCGGGT
* *
9573378 CATCTATAAGTATTTTGAGCAAGATGATAAGTCC-TCTGGG-CATCCATAAGACCTTCGGG-AAG
195 CATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTC-GGGCCATCCATAAGACCTTCGGGCAAG
*
9573440 GATGTTCTGAAATGAGTTTTT
259 GATGTTCTCAAATGAGTTTTT
* * *
9573461 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTACCTCCAAAGAATTTTT-AAAGGAAGC
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCTAAAGAATTTTTAAAAGGAAGA
* *
9573525 TAAGCCTAATTTTTAAGGGTTCCTTGATGACAACTAAGAAACTAAGCTTCATTTTCAAGGGTTTC
66 TAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTC
* * * *
9573590 TTAATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCAAGATGCTTAAATCCTTCGGGTC
131 TTTATGAGTAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATGATGCTTAAATCCTTCGGGTC
* * *
9573655 ATCTATAAGTCTTTCGAGCAAGATGATAAGTTCTTCGGGCCACCCATAAGACCTTTGGGCAAGG-
196 ATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGGA
9573719 TGTTCTCAAATGAGTTTTT
261 TGTTCTCAAATGAGTTTTT
* * * * *
9573738 AGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATTTTCTCTAAAGAGTTTTTAAAAGGAATA
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCTAAAGAATTTTTAAAAGGAAGA
* *
9573803 TAAACCTAATTTTTAGGGGTTCTTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTC
66 TAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTC
* * * *
9573868 TTTATAAGTAAGTCCTTCGGGCCATTAGTAAGTATTTCGAGCATGATTCTTAAATCCTTCAGGTC
131 TTTATGAGTAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATGATGCTTAAATCCTTCGGGTC
* * *
9573933 ATCTATATGTCTTTCGAGCAAGATGATAAGTCCTTTGAGCCATCCATAAGACCTTCGGGC-AGGA
196 ATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGGA
9573997 TGTTCTCAAATGAGTTTTT
261 TGTTCTCAAATGAGTTTTT
* * *
9574016 AGAAACTTAGCTTGATTTTTAGGGGTTTCTTGATGATTATCTCTAAAGAATTTTTAAAAGGAA-A
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCTAAAGAATTTTTAAAAGGAAGA
* * * * *
9574080 CTAACCCTAATTTTTAGGGGTTCCTTAATGATAACTAAGGAACTAAGCTTGATTTACAAGGGTTT
66 -TAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTT
* * * *
9574145 CTTGATGAGTAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATG-TGTAAGTCCTTCGGG
130 CTTTATGAGTAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATGATGCT-TAAATCCTTCGGG
* * * * * * *
9574209 CCATCTATAAATCTCTCGAGCAAGGTGATAAGACCTTCGGACCATCCATAAAGACCTTTGGGCAA
194 TCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCAT-AAGACCTTCGGGCAA
*
9574274 -GATGTTTTCAA
258 GGATGTTCTCAA
9574285 CATTTCCAGT
Statistics
Matches: 737, Mismatches: 77, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
276 161 0.22
277 138 0.19
278 415 0.56
279 22 0.03
280 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (279 bp):
AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCTAAAGAATTTTTAAAAGGAAGA
TAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTC
TTTATGAGTAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATGATGCTTAAATCCTTCGGGTC
ATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGGA
TGTTCTCAAATGAGTTTTT
Found at i:9574177 original size:20 final size:22
Alignment explanation
Indices: 9574149--9574212 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 22
9574139 GGGTTTCTTG
9574149 ATGAGTAAGTCCTTCGGGCCAT
1 ATGAGTAAGTCCTTCGGGCCAT
* *
9574171 -T-AGTAAGTCTTTCGAG-CAT
1 ATGAGTAAGTCCTTCGGGCCAT
*
9574190 GATGTGTAAGTCCTTCGGGCCAT
1 -ATGAGTAAGTCCTTCGGGCCAT
9574213 CTATAAATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 3 0.09
20 13 0.39
21 2 0.06
22 12 0.36
23 3 0.09
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (22 bp):
ATGAGTAAGTCCTTCGGGCCAT
Found at i:9574206 original size:42 final size:42
Alignment explanation
Indices: 9574147--9574260 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
9574137 AAGGGTTTCT
* *
9574147 TGATGAGTAAGTCCTTCGGGCCAT-TAGTAAGTCTTTCGAGCA
1 TGATGAGTAAGTCCTTCGGGCCATCTA-TAAATCTCTCGAGCA
*
9574189 TGATGTGTAAGTCCTTCGGGCCATCTATAAATCTCTCGAGCA
1 TGATGAGTAAGTCCTTCGGGCCATCTATAAATCTCTCGAGCA
* * * * *
9574231 AGGTGA-TAAGACCTTCGGACCATCCATAAA
1 TGATGAGTAAGTCCTTCGGGCCATCTATAAA
9574261 GACCTTTGGG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 21 0.34
42 39 0.63
43 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (42 bp):
TGATGAGTAAGTCCTTCGGGCCATCTATAAATCTCTCGAGCA
Found at i:9574389 original size:57 final size:59
Alignment explanation
Indices: 9574296--9574405 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 59
9574286 ATTTCCAGTA
*** *
9574296 CTCGATTCACAACACTTCGAATCAGTGACGCCTCACTAGAGGG-TC-ACATTTTCTTTG
1 CTCGATTCACAACACTTCGAATCAACAACGCATCACTAGAGGGATCAACATTTTCTTTG
* *
9574353 CTCGATTCACAACACTTCGAATCAACAATGCATCACTCGAGGGATCAACATTT
1 CTCGATTCACAACACTTCGAATCAACAACGCATCACTAGAGGGATCAACATTT
9574406 CTAATGGGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 37 0.82
58 2 0.04
59 6 0.13
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (59 bp):
CTCGATTCACAACACTTCGAATCAACAACGCATCACTAGAGGGATCAACATTTTCTTTG
Found at i:9576128 original size:22 final size:22
Alignment explanation
Indices: 9576100--9576161 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
9576090 GTGAAATCTG
*
9576100 TCCCGAATGACCTATGTATATA
1 TCCCGAAGGACCTATGTATATA
* *
9576122 TCTCGAAGGACCTATGTATATG
1 TCCCGAAGGACCTATGTATATA
9576144 TCCCGAAGGACCTATGTA
1 TCCCGAAGGACCTATGTA
9576162 ACCCTCGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (22 bp):
TCCCGAAGGACCTATGTATATA
Found at i:9576361 original size:24 final size:24
Alignment explanation
Indices: 9576334--9576379 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
9576324 TCATGTAATC
9576334 ATATCACTTATAATCACATAACTT
1 ATATCACTTATAATCACATAACTT
9576358 ATATCACTTATAATCACATAAC
1 ATATCACTTATAATCACATAAC
9576380 ACATATTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATCACTTATAATCACATAACTT
Found at i:9576385 original size:24 final size:24
Alignment explanation
Indices: 9576333--9576385 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
9576323 ATCATGTAAT
*
9576333 CATATCACTTATAATCACATAACT
1 CATATCACTTATAATCACATAACA
*
9576357 TATATCACTTATAATCACATAACA
1 CATATCACTTATAATCACATAACA
9576381 CATAT
1 CATAT
9576386 TCACATGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (24 bp):
CATATCACTTATAATCACATAACA
Found at i:9577041 original size:64 final size:64
Alignment explanation
Indices: 9576949--9577091 Score: 259
Period size: 64 Copynumber: 2.2 Consensus size: 64
9576939 TACCCCTCCA
**
9576949 TGGTATCGATACCCAATTTTGATTCTGTAATTTCATCTCAAAAATGGTATTGATACCTCCATAT
1 TGGTATCGATACCCAATTTTGATTCTGTAATTTCATCTCAAAAATGGTACAGATACCTCCATAT
*
9577013 TGGTATCGATACCTAATTTTGATTCTGTAATTTCATCTCAAAAATGGTACAGATACCTCCATAT
1 TGGTATCGATACCCAATTTTGATTCTGTAATTTCATCTCAAAAATGGTACAGATACCTCCATAT
9577077 TGGTATCGATACCCA
1 TGGTATCGATACCCA
9577092 TGGTTCCGAT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 75 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (64 bp):
TGGTATCGATACCCAATTTTGATTCTGTAATTTCATCTCAAAAATGGTACAGATACCTCCATAT
Found at i:9578885 original size:5 final size:5
Alignment explanation
Indices: 9578877--9578901 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9578867 TTAATTTAGG
9578877 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
9578902 GTTGTGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Done.