Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 21
Found at i:4971794 original size:198 final size:199
Alignment explanation
Indices: 4971446--4971923 Score: 577
Period size: 198 Copynumber: 2.4 Consensus size: 199
4971436 CGTTTATAAC
* * ** * *
4971446 GCTTCGTATGTGTCAATATTGGTCTCAACTCGAAGCTAAGTTGCAATACTACGCCTCTAAGCTTA
1 GCTTCGTATGTGTCGATATTAGTCTCAACTAAAAGATAAGTTGCAATACTACGCCTCTAAACTTA
* * * *
4971511 AAAATTATAAAAAAAAATCTGATTAACTTCTCAAAAACACCCCTTGAACATGTCTATCAAGCCAT
66 AAAA-T-TACAGAAAAA-CTGAATAACTTCTCAAAAACACCCCTTGAACATGCCTATCAAGCCAT
* ** *
4971576 TTTAGCTTGTTCTTCATGCACAAAATCAAGCTTTGGAACCATTTTCAACGCAAGTTTTACCCCAC
128 TTTAGCTTGTTCTTCATGCACAAAACCAAGCTTTCAAACCATTTTCAACACAAGTTTTACCCCAC
4971641 TTACAAT
193 TTACAAT
* * * *
4971648 GCTTCGTATGTGTCGAT-TTCAGTCTCAACAAAAAGATAAGTTGCAATAATACGCTTATAAACTT
1 GCTTCGTATGTGTCGATATT-AGTCTCAACTAAAAGATAAGTTGCAATACTACGCCTCTAAACTT
** * *
4971712 AAAAATTACAGAAAAA-TGAATAACTTCTCGGAAATACCCCTTGAACATGCCTATCAAGCCGTTT
65 AAAAATTACAGAAAAACTGAATAACTTCTCAAAAACACCCCTTGAACATGCCTATCAAGCCATTT
* ** * * *
4971776 TAGCTTGTTCTTCATGCACAAAACCTAGCTTTCAAACCATTTTCAGTACAATTTTTACCTCGCTT
130 TAGCTTGTTCTTCATGCACAAAACCAAGCTTTCAAACCATTTTCAACACAAGTTTTACCCCACTT
4971841 ACAAT
195 ACAAT
* * * * *
4971846 G-TCTCGTATGTGCCGATATTAGCCTCAACTGAAATATAAGTTGCAATACTACGCCTCTAATCTT
1 GCT-TCGTATGTGTCGATATTAGTCTCAACTAAAAGATAAGTTGCAATACTACGCCTCTAAACTT
*
4971910 ATAAATTAC-GAAAA
65 AAAAATTACAGAAAA
4971924 TTTTCCAATT
Statistics
Matches: 235, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
197 6 0.03
198 160 0.68
199 2 0.01
200 8 0.03
201 3 0.01
202 56 0.24
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (199 bp):
GCTTCGTATGTGTCGATATTAGTCTCAACTAAAAGATAAGTTGCAATACTACGCCTCTAAACTTA
AAAATTACAGAAAAACTGAATAACTTCTCAAAAACACCCCTTGAACATGCCTATCAAGCCATTTT
AGCTTGTTCTTCATGCACAAAACCAAGCTTTCAAACCATTTTCAACACAAGTTTTACCCCACTTA
CAAT
Found at i:4973068 original size:16 final size:16
Alignment explanation
Indices: 4973047--4973099 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
4973037 TTATATTTAG
4973047 TTTAATTATAATTATA
1 TTTAATTATAATTATA
* *
4973063 TTTAATCAAAATTA-A
1 TTTAATTATAATTATA
*
4973078 ATTAATTATAATTATA
1 TTTAATTATAATTATA
4973094 TTTAAT
1 TTTAAT
4973100 CAAAATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAATTATAATTATA
Found at i:4973083 original size:31 final size:31
Alignment explanation
Indices: 4973048--4973116 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
4973038 TATATTTAGT
4973048 TTAATTATAATTATATTTAATCAAAATTAAA
1 TTAATTATAATTATATTTAATCAAAATTAAA
4973079 TTAATTATAATTATATTTAATCAAAATTAAA
1 TTAATTATAATTATATTTAATCAAAATTAAA
4973110 TTAATTA
1 TTAATTA
4973117 CATTCCTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
TTAATTATAATTATATTTAATCAAAATTAAA
Found at i:4973106 original size:16 final size:16
Alignment explanation
Indices: 4973056--4973107 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
4973046 GTTTAATTAT
4973056 AATTATATTTAATCAA
1 AATTATATTTAATCAA
* * *
4973072 AATTA-AATTAATTAT
1 AATTATATTTAATCAA
4973087 AATTATATTTAATCAA
1 AATTATATTTAATCAA
4973103 AATTA
1 AATTA
4973108 AATTAATTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTATATTTAATCAA
Found at i:4974255 original size:3 final size:3
Alignment explanation
Indices: 4974247--4974286 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4974237 TTAATCCGAT
4974247 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4974287 ATAAATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4974731 original size:21 final size:21
Alignment explanation
Indices: 4974664--4974739 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
4974654 AGAGGTTAAG
* *
4974664 ACCTTTCGATGAAAGAACTTA
1 ACCTTTTGATGAAAGGACTTA
* *
4974685 ACCTTTTGATTAAAAGAC-TA
1 ACCTTTTGATGAAAGGACTTA
* *
4974705 GTCCTTTTGATGAAAGGGCTTA
1 -ACCTTTTGATGAAAGGACTTA
*
4974727 ACCTTTTCATGAA
1 ACCTTTTGATGAA
4974740 GAGAATTATT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.05
21 39 0.91
22 2 0.05
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (21 bp):
ACCTTTTGATGAAAGGACTTA
Found at i:4977873 original size:21 final size:21
Alignment explanation
Indices: 4977817--4977902 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
4977807 CCTTTCGATA
* * *
4977817 AAAGGACATAACCTTTTTATT
1 AAAGGACTTAACCTTTTCATG
* * *
4977838 AAAAGAC-TAGTCCTTTTGATG
1 AAAGGACTTA-ACCTTTTCATG
*
4977859 AAAGGGCTTAACCTTTTCATG
1 AAAGGACTTAACCTTTTCATG
* *
4977880 AAAGGATTTAATCTTTTCATG
1 AAAGGACTTAACCTTTTCATG
4977901 AA
1 AA
4977903 GAGAATTGTT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
20 2 0.04
21 48 0.92
22 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (21 bp):
AAAGGACTTAACCTTTTCATG
Found at i:4980925 original size:25 final size:26
Alignment explanation
Indices: 4980897--4980951 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
4980887 AGTGGCAAGG
* *
4980897 TAGGCGTCCGAGAG-AGCTAGCGAGC
1 TAGGCATCCGAGAGAAGATAGCGAGC
4980922 TAGGCATCCGAGAGAAGATAGCGAGC
1 TAGGCATCCGAGAGAAGATAGCGAGC
4980948 TAGG
1 TAGG
4980952 ACAGTTCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.29, C:0.20, G:0.38, T:0.13
Consensus pattern (26 bp):
TAGGCATCCGAGAGAAGATAGCGAGC
Found at i:4989325 original size:20 final size:20
Alignment explanation
Indices: 4989288--4989326 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4989278 AGAGCTCATA
* *
4989288 TAGGATCATATTGATGCATT
1 TAGGAGCATATAGATGCATT
*
4989308 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
4989327 ATGGTGGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:4991196 original size:2 final size:2
Alignment explanation
Indices: 4991187--4991244 Score: 58
Period size: 2 Copynumber: 32.0 Consensus size: 2
4991177 ATATTCAAAT
4991187 TA TA -A TA TA TA TA TA TA TA TA TA TA T- TA TA -A T- TA -A TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
4991225 TA -A TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
4991245 GTTAATATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
1 7 0.15
2 39 0.81
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4991211 original size:32 final size:32
Alignment explanation
Indices: 4991175--4991240 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
4991165 AAATAATTTA
4991175 ATATATTCA-AATT-ATAATATATATATATATAT
1 ATATATT-ATAATTAATAATA-ATATATATATAT
*
4991207 ATATATTATAATTAATGATAATATATATATAT
1 ATATATTATAATTAATAATAATATATATATAT
4991239 AT
1 AT
4991241 TATAGTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 1 0.03
32 25 0.81
33 5 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (32 bp):
ATATATTATAATTAATAATAATATATATATAT
Found at i:4991264 original size:36 final size:36
Alignment explanation
Indices: 4991184--4991264 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
4991174 AATATATTCA
*
4991184 AATTATAATATATATATATATATATATATTATAATT
1 AATTATAATATATATATATATATATATATAATAATT
* *
4991220 AATGATAATATATATATATAT-TATAGT-TAATATTT
1 AATTATAATATATATATATATATATA-TATAATAATT
4991255 GAATTATAAT
1 -AATTATAAT
4991265 CATAAGATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 10 0.26
36 29 0.74
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (36 bp):
AATTATAATATATATATATATATATATATAATAATT
Found at i:4997340 original size:40 final size:40
Alignment explanation
Indices: 4997296--4997504 Score: 124
Period size: 40 Copynumber: 5.2 Consensus size: 40
4997286 CGCAAATTAG
*
4997296 TTTTCAGATTCGCAACGCGATTCTGACTATCGCATTGCGA
1 TTTTCAGATTCGCAACGCGATTCTGACTATCGCAATGCGA
* *** * **
4997336 TTTTCCAAATTCGCGTTGCGATTTTCCGACTATCGCAATATGAA
1 TTTT-CAGATTCGCAACGCGA--TTCTGACTATCGCAATGCG-A
* * * * *
4997380 TATGT-A-AATCGCAATGCGATTATGACTATCGCAACGCGA
1 T-TTTCAGATTCGCAACGCGATTCTGACTATCGCAATGCGA
* * * *
4997419 --TTCTGACTGTCGCAACGAGATTCTGACTGTCGCAACGCGA
1 TTTTCAGA-T-TCGCAACGCGATTCTGACTATCGCAATGCGA
* *
4997459 --TTCTGACTGTCGCAACGCGATGCTGACTATCGCAATGCGA
1 TTTTCAGA-T-TCGCAACGCGATTCTGACTATCGCAATGCGA
4997499 TTTTCA
1 TTTTCA
4997505 AAGCGCCATT
Statistics
Matches: 129, Mismatches: 29, Indels: 20
0.72 0.16 0.11
Matches are distributed among these distances:
36 1 0.01
38 1 0.01
39 1 0.01
40 81 0.63
41 12 0.09
42 13 0.10
43 16 0.12
44 2 0.02
45 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (40 bp):
TTTTCAGATTCGCAACGCGATTCTGACTATCGCAATGCGA
Found at i:4997410 original size:20 final size:20
Alignment explanation
Indices: 4997387--4997500 Score: 156
Period size: 20 Copynumber: 5.7 Consensus size: 20
4997377 GAATATGTAA
* *
4997387 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
4997407 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
4997427 GTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
4997447 GTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
4997467 GTCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
*
4997487 ATCGCAATGCGATT
1 ATCGCAACGCGATT
4997501 TTCAAAGCGC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 85 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:4997844 original size:22 final size:22
Alignment explanation
Indices: 4997816--4997864 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
4997806 TTAATTATTT
4997816 TTATTTTGAAATTTTTGCATTA
1 TTATTTTGAAATTTTTGCATTA
4997838 TTATTTTGAAATTTTTGCATTA
1 TTATTTTGAAATTTTTGCATTA
4997860 TTATT
1 TTATT
4997865 AGGTTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (22 bp):
TTATTTTGAAATTTTTGCATTA
Found at i:4997862 original size:25 final size:25
Alignment explanation
Indices: 4997809--4997865 Score: 84
Period size: 22 Copynumber: 2.4 Consensus size: 25
4997799 TATTTTTTTA
*
4997809 ATTATTTTTATTTTGAAATTTTTGC
1 ATTATTATTATTTTGAAATTTTTGC
4997834 ---ATTATTATTTTGAAATTTTTGC
1 ATTATTATTATTTTGAAATTTTTGC
4997856 ATTATTATTA
1 ATTATTATTA
4997866 GGTTTTTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 21 0.75
25 7 0.25
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (25 bp):
ATTATTATTATTTTGAAATTTTTGC
Found at i:4998145 original size:19 final size:20
Alignment explanation
Indices: 4998123--4998236 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
4998113 AGAATCGCAA
4998123 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCAGTTTCGCGT
*
4998142 TGCGATTTTCA-TTTCTCGT
1 TGCGATTTTCAGTTTCGCGT
** **
4998161 TGCGATAGTCAAATTCGCGT
1 TGCGATTTTCAGTTTCGCGT
** * *
4998181 TGCGATGGTCATTTTCGTGT
1 TGCGATTTTCAGTTTCGCGT
* *
4998201 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCAGTTTCGCGT
*
4998221 TGCGATTTTAAGTTTC
1 TGCGATTTTCAGTTTC
4998237 AGAAACTATT
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
19 25 0.31
20 55 0.69
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.46
Consensus pattern (20 bp):
TGCGATTTTCAGTTTCGCGT
Found at i:4999983 original size:18 final size:18
Alignment explanation
Indices: 4999957--5000006 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
4999947 TTTACTCGTA
*
4999957 ATTTCACTTAGATTAACT
1 ATTTCACTTAGATTAACC
*
4999975 ATTTTACTTAGATTAACC
1 ATTTCACTTAGATTAACC
4999993 ATTTCACTTAGATT
1 ATTTCACTTAGATT
5000007 GCTTAGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.46
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:5000176 original size:20 final size:20
Alignment explanation
Indices: 5000151--5000220 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
5000141 AATAATTTAA
*
5000151 TATCGCAACGCGAAAATAAC
1 TATCGCAACGCGAAAATGAC
5000171 TATCGCAACGCGAAAATGAC
1 TATCGCAACGCGAAAATGAC
* ** **
5000191 AATTACAACGCGAATTTGAC
1 TATCGCAACGCGAAAATGAC
5000211 TATCGCAACG
1 TATCGCAACG
5000221 AAAGAATCGC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (20 bp):
TATCGCAACGCGAAAATGAC
Found at i:5000288 original size:20 final size:20
Alignment explanation
Indices: 5000263--5000375 Score: 162
Period size: 20 Copynumber: 5.8 Consensus size: 20
5000253 GCGATTCTCT
* **
5000263 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCATTTTCG
5000283 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
5000303 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
5000323 CGTTGCGATAG----TTTCG
1 CGTTGCGATAGTCATTTTCG
*
5000339 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCATTTTCG
5000359 CGTTGCGATAGTCATTT
1 CGTTGCGATAGTCATTT
5000376 GTGTTGCGAT
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.19
20 69 0.81
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:5000345 original size:36 final size:36
Alignment explanation
Indices: 5000263--5000370 Score: 144
Period size: 36 Copynumber: 2.9 Consensus size: 36
5000253 GCGATTCTCT
* **
5000263 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCGCGTTGCGATAG----TTTCG
5000303 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTTTCG
1 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTTTCG
*
5000339 CGTTGCGATAGTCATTTTTGCGTTGCGATAGT
1 CGTTGCGATAGTCATTTTCGCGTTGCGATAGT
5000371 CATTTGTGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
36 36 0.56
40 28 0.44
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.38
Consensus pattern (36 bp):
CGTTGCGATAGTCATTTTCGCGTTGCGATAGTTTCG
Found at i:5000966 original size:21 final size:20
Alignment explanation
Indices: 5000875--5000978 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 20
5000865 GACTCACATG
*
5000875 TCATCGTTCAAGAGGCCTTA
1 TCATCGTTCAAGAGGCCCTA
*
5000895 TCTATCGTTCAAGAGACCCTTA
1 TC-ATCGTTCAAGAGGCCC-TA
** * *
5000917 TCATCCCTCAAGAGTCTCCTC
1 TCATCGTTCAAGAGGC-CCTA
* * *
5000938 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCC-CTA
*
5000959 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGG-CCCT
5000979 CCCAACATTC
Statistics
Matches: 64, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
20 3 0.05
21 53 0.83
22 8 0.12
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTA
Found at i:5002418 original size:14 final size:14
Alignment explanation
Indices: 5002381--5002442 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
5002371 TTGCTTGTTT
*
5002381 AATTGATTTATAAA
1 AATTGATTTGTAAA
5002395 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
5002409 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
5002424 TATTGATGTGTAAA
1 AATTGATTTGTAAA
5002438 TAATT
1 -AATT
5002443 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:5002669 original size:20 final size:20
Alignment explanation
Indices: 5002641--5002811 Score: 150
Period size: 20 Copynumber: 9.2 Consensus size: 20
5002631 TTCTCGGTGT
* *
5002641 GATAGTCAAATACCCGTTGC
1 GATAGTCAAATTCGCGTTGC
*
5002661 GATAATCAAATTCGCGTTGC
1 GATAGTCAAATTCGCGTTGC
*
5002681 GATACTCAAATTCGCGTTGC
1 GATAGTCAAATTCGCGTTGC
*
5002701 GATAGTCAAATTCGCGTTGT
1 GATAGTCAAATTCGCGTTGC
**
5002721 GAT--T----TTTTCGTTGC
1 GATAGTCAAATTCGCGTTGC
*
5002735 GATAATCAAATTCGCGTTGC
1 GATAGTCAAATTCGCGTTGC
* *
5002755 GATAGACAAATTCGTGTTGC
1 GATAGTCAAATTCGCGTTGC
*
5002775 GAT--T----TTTGCGTTGC
1 GATAGTCAAATTCGCGTTGC
*
5002789 GATAGTCAAATCCGCGTTGC
1 GATAGTCAAATTCGCGTTGC
5002809 GAT
1 GAT
5002812 TTTTGAGTTG
Statistics
Matches: 120, Mismatches: 19, Indels: 24
0.74 0.12 0.15
Matches are distributed among these distances:
14 21 0.17
16 2 0.02
18 1 0.01
20 96 0.80
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
GATAGTCAAATTCGCGTTGC
Found at i:5002757 original size:54 final size:54
Alignment explanation
Indices: 5002674--5002811 Score: 213
Period size: 54 Copynumber: 2.6 Consensus size: 54
5002664 AATCAAATTC
* * *
5002674 GCGTTGCGATACTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTT
1 GCGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGATTTTT
* *
5002728 TCGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTCGTGTTGCGATTTTT
1 GCGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGATTTTT
* *
5002782 GCGTTGCGATAGTCAAATCCGCGTTGCGAT
1 GCGTTGCGATAATCAAATTCGCGTTGCGAT
5002812 TTTTGAGTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (54 bp):
GCGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGATTTTT
Found at i:5002807 original size:74 final size:72
Alignment explanation
Indices: 5002597--5002811 Score: 186
Period size: 74 Copynumber: 2.9 Consensus size: 72
5002587 TGAGAAAGTC
* * * *
5002597 AATTCGCGTTGCGATAGTCTAATAC-T-TTGCGATTTTCTCGGTGTGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGTGTTGCGATTTT-TCGTTGCGATAGTCAAAT-CCCGTTG
5002660 CGATAATCA
64 CGATAATCA
* * ** * * * ** **
5002669 AATTCGCGTTGCGATACTCAAATTCGCGTTGCGA-TAGTCAAATTCGCG-TTGTGATTTTTTCGT
1 AATTCGCGTTGCGATAGTCAAATTCGTGTTGCGATTTTTC--GTT-GCGATAGTCA-AATCCCGT
5002732 TGCGATAATCA
62 TGCGATAATCA
*
5002743 AATTCGCGTTGCGATAGACAAATTCGTGTTGCGATTTTTGCGTTGCGATAGTCAAATCCGCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGTGTTGCGATTTTT-CGTTGCGATAGTCAAATCC-CGTTG
5002808 CGAT
64 CGAT
5002812 TTTTGAGTTG
Statistics
Matches: 106, Mismatches: 27, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
72 24 0.23
73 5 0.05
74 71 0.67
75 5 0.05
76 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (72 bp):
AATTCGCGTTGCGATAGTCAAATTCGTGTTGCGATTTTTCGTTGCGATAGTCAAATCCCGTTGCG
ATAATCA
Found at i:5002832 original size:34 final size:34
Alignment explanation
Indices: 5002750--5002833 Score: 123
Period size: 34 Copynumber: 2.5 Consensus size: 34
5002740 TCAAATTCGC
* * * *
5002750 GTTGCGATAGACAAATTCGTGTTGCGATTTTTGC
1 GTTGCGATAGTCAAATCCGCGTTGCGATTTTTGA
5002784 GTTGCGATAGTCAAATCCGCGTTGCGATTTTTGA
1 GTTGCGATAGTCAAATCCGCGTTGCGATTTTTGA
*
5002818 GTTGCGATATTCAAAT
1 GTTGCGATAGTCAAAT
5002834 GAATGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (34 bp):
GTTGCGATAGTCAAATCCGCGTTGCGATTTTTGA
Found at i:5003070 original size:140 final size:140
Alignment explanation
Indices: 5002813--5003073 Score: 504
Period size: 140 Copynumber: 1.9 Consensus size: 140
5002803 CGTTGCGATT
5002813 TTTGAGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAGCAATGT
1 TTTGAGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAGCAATGT
5002878 TCAAACTCAAGTTACTAATACATGCCTAACTGAAAATATTAAAAGTTTACACATAAAATACACAT
66 TCAAACTCAAGTTACTAATACATGCCTAACTGAAAATATTAAAAGTTTACACATAAAATACACAT
5002943 AATAGTCAAA
131 AATAGTCAAA
* *
5002953 TTTGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAATTGAACATATCATAGCAATGT
1 TTTGAGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAGCAATGT
5003018 TCAAACTCAAGTTACTAATACATGCCTAACTGAAAATATTAAAAGTTTACACATAA
66 TCAAACTCAAGTTACTAATACATGCCTAACTGAAAATATTAAAAGTTTACACATAA
5003074 TATAACGTTT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 119 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (140 bp):
TTTGAGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAGCAATGT
TCAAACTCAAGTTACTAATACATGCCTAACTGAAAATATTAAAAGTTTACACATAAAATACACAT
AATAGTCAAA
Found at i:5005220 original size:14 final size:14
Alignment explanation
Indices: 5005201--5005237 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5005191 TCCTGTGGCA
5005201 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
5005215 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
5005229 TTCTTCTTC
1 TT-TTCTTC
5005238 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:5005461 original size:24 final size:24
Alignment explanation
Indices: 5005427--5005480 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5005417 CTGAAACATC
5005427 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
5005451 ATCAAAGTCCGGGTATTGACTAAG
1 ATCAAAATCCGAGTATTGACCAAG
5005475 ATCAAA
1 ATCAAA
5005481 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:5006326 original size:20 final size:20
Alignment explanation
Indices: 5006301--5006367 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
5006291 GAATTTCAGT
5006301 GTTGCGACAGTCAAAATCGC
1 GTTGCGACAGTCAAAATCGC
* *
5006321 GTTGCGGCAGTCAGAATCGC
1 GTTGCGACAGTCAAAATCGC
*
5006341 GTTGCGACAGTCATAATCGC
1 GTTGCGACAGTCAAAATCGC
*
5006361 ATTGCGA
1 GTTGCGA
5006368 TTTACATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (20 bp):
GTTGCGACAGTCAAAATCGC
Found at i:5006375 original size:20 final size:20
Alignment explanation
Indices: 5006352--5006428 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
5006342 TTGCGACAGT
*
5006352 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
5006372 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
5006392 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
5006412 CATATTCGCATTGCGAT
1 CATATTCGCATTGCGAT
5006429 AGTCGGAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:5006386 original size:40 final size:39
Alignment explanation
Indices: 5006337--5006432 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 39
5006327 GCAGTCAGAA
*
5006337 TCGCGTTGCGACAGTCATAATCGCATTGCGATTTACATAT
1 TCGCATTGCGA-AGTCATAATCGCATTGCGATTTACATAT
** *
5006377 TCGCATTGCGATTTACATATTCGCATTGCGATTTACATAT
1 TCGCATTGCGAAGT-CATAATCGCATTGCGATTTACATAT
5006417 TCGCATTGCGATAGTC
1 TCGCATTGCGA-AGTC
5006433 GGAAAATCGC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.02
40 46 0.96
41 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (39 bp):
TCGCATTGCGAAGTCATAATCGCATTGCGATTTACATAT
Found at i:5006460 original size:21 final size:22
Alignment explanation
Indices: 5006424--5006479 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
5006414 TATTCGCATT
** *
5006424 GCGATAGTCGGAAAATCGCAAC
1 GCGATAGTTAGAAAATCACAAC
* *
5006446 GCGA-ATTTAGAAAATCACAAT
1 GCGATAGTTAGAAAATCACAAC
5006467 GCGATAGTTAGAA
1 GCGATAGTTAGAA
5006480 TCGCGTTGCG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (22 bp):
GCGATAGTTAGAAAATCACAAC
Found at i:5007449 original size:35 final size:35
Alignment explanation
Indices: 5007403--5007473 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
5007393 AATTACATCC
5007403 ACTTTAGCTTAGGTAAAAGCTTAAACGTAATATGA
1 ACTTTAGCTTAGGTAAAAGCTTAAACGTAATATGA
*
5007438 ACTTTAGCTTAGGTAAAAGTTTAAACGTAATATGA
1 ACTTTAGCTTAGGTAAAAGCTTAAACGTAATATGA
5007473 A
1 A
5007474 TCTAGTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (35 bp):
ACTTTAGCTTAGGTAAAAGCTTAAACGTAATATGA
Found at i:5013218 original size:64 final size:65
Alignment explanation
Indices: 5013116--5013268 Score: 175
Period size: 64 Copynumber: 2.3 Consensus size: 65
5013106 AGTTGGGTAG
* * * * * *
5013116 TGCTCGACTCATTGCTCATTAAGCCCT-TTAAAATTTTACTCGACTCGTGCTCGTT-AAAATTTT
1 TGCTCGACTC-GTGCTCGTTAAG-CTTGTTAAAATTTTACTCGACTCATGCTCATTAAAAAATTT
5013179 GT
64 GT
* * * *
5013181 TGCTCGAGTTGTGCTCGTTAAGCTTGTTAAAATTTTACTTGACTTATGCTCATTAAAAAAATTTG
1 TGCTCGACTCGTGCTCGTTAAGCTTGTTAAAATTTTACTCGACTCATGCTCATT-AAAAAATTTG
5013246 T
65 T
5013247 TGCTCGACTCGTGCTCGTTAAG
1 TGCTCGACTCGTGCTCGTTAAG
5013269 TTCGTTACTC
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
63 2 0.03
64 34 0.47
65 8 0.11
66 29 0.40
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (65 bp):
TGCTCGACTCGTGCTCGTTAAGCTTGTTAAAATTTTACTCGACTCATGCTCATTAAAAAATTTGT
Found at i:5013560 original size:16 final size:16
Alignment explanation
Indices: 5013539--5013579 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
5013529 GTTAAGATCT
5013539 CGAGTCGAGCTTTGAC
1 CGAGTCGAGCTTTGAC
*
5013555 CGAGTCAAGCTTTGAC
1 CGAGTCGAGCTTTGAC
5013571 CGAGTCGAG
1 CGAGTCGAG
5013580 TTCGAGTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.22
Consensus pattern (16 bp):
CGAGTCGAGCTTTGAC
Found at i:5015911 original size:28 final size:28
Alignment explanation
Indices: 5015879--5015938 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
5015869 CTTAGTCATA
5015879 CTTTTAATAAATTAAAATAAATTTAATC
1 CTTTTAATAAATTAAAATAAATTTAATC
5015907 CTTTTAATAAATTAAAATAAATTTAATC
1 CTTTTAATAAATTAAAATAAATTTAATC
5015935 CTTT
1 CTTT
5015939 AATCGAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (28 bp):
CTTTTAATAAATTAAAATAAATTTAATC
Found at i:5019025 original size:20 final size:20
Alignment explanation
Indices: 5019000--5019042 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5018990 AGTAGTATCA
*
5019000 ATATTGTTCATAGAGCATCG
1 ATATTGTTCATACAGCATCG
* *
5019020 ATATTGTTTATACAGTATCG
1 ATATTGTTCATACAGCATCG
5019040 ATA
1 ATA
5019043 CTATGGCTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (20 bp):
ATATTGTTCATACAGCATCG
Found at i:5022925 original size:3 final size:3
Alignment explanation
Indices: 5022912--5022959 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
5022902 GTTATTTTTG
* *
5022912 TTA TTA TTTA TTA TTA TCA TTTA TTA TTA TT- TTA TTA TTA TTT TTA
1 TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
5022958 TT
1 TT
5022960 TCATTAAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.82
4 5 0.13
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:5022927 original size:10 final size:10
Alignment explanation
Indices: 5022912--5022959 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
5022902 GTTATTTTTG
5022912 TTATTATT-T
1 TTATTATTAT
*
5022921 ATTATTATCAT
1 -TTATTATTAT
5022932 TTATTATTATT
1 TTATTATTA-T
5022943 TTATTATTAT
1 TTATTATTAT
5022953 TT-TTATT
1 TTATTATT
5022960 TCATTAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 5 0.15
10 18 0.53
11 11 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATTAT
Found at i:5022933 original size:13 final size:12
Alignment explanation
Indices: 5022916--5022959 Score: 63
Period size: 13 Copynumber: 3.7 Consensus size: 12
5022906 TTTTTGTTAT
5022916 TATTTATTATTA
1 TATTTATTATTA
5022928 TCATTTATTATTA
1 T-ATTTATTATTA
5022941 T-TTTATTATTA
1 TATTTATTATTA
*
5022952 TTTTTATT
1 TATTTATT
5022960 TCATTAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.37
12 7 0.23
13 12 0.40
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTTATTATTA
Found at i:5022952 original size:17 final size:18
Alignment explanation
Indices: 5022912--5022965 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
5022902 GTTATTTTTG
*
5022912 TTATTATTTATTATTATCAT
1 TTATTA-TTATT-TTATTAT
5022932 TTATTATTATTTTATTA-
1 TTATTATTATTTTATTAT
* *
5022949 TTATTTTTATTTCATTA
1 TTATTATTATTTTATTA
5022966 AGAATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.48
18 5 0.16
19 5 0.16
20 6 0.19
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTATTATTTTATTAT
Found at i:5024311 original size:22 final size:21
Alignment explanation
Indices: 5024242--5024318 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 21
5024232 CCTTTAGGTA
* *
5024242 TTTATTTATATATATATTATCAT
1 TTTATTTATCTATTTATTAT--T
*
5024265 TTTATTTTATCTTGTTTAATT-TT
1 TTTA-TTTATC-TATTT-ATTATT
5024288 TTTATTTATCTATTTATTTATT
1 TTTATTTATCTATTTA-TTATT
*
5024310 TTAATTTAT
1 TTTATTTAT
5024319 AAAATATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
20 1 0.02
21 6 0.14
22 16 0.36
23 9 0.20
24 5 0.11
25 4 0.09
26 3 0.07
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (21 bp):
TTTATTTATCTATTTATTATT
Found at i:5031225 original size:20 final size:20
Alignment explanation
Indices: 5031202--5031239 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5031192 CTATTCATGG
*
5031202 GTATCGATACTGACCCTTCA
1 GTATCGATACTAACCCTTCA
*
5031222 GTATCGATGCTAACCCTT
1 GTATCGATACTAACCCTT
5031240 TGGTATCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (20 bp):
GTATCGATACTAACCCTTCA
Found at i:5031245 original size:20 final size:20
Alignment explanation
Indices: 5031201--5031251 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
5031191 TCTATTCATG
*
5031201 GGTATCGATACTGACCCTTC
1 GGTATCGATACTAACCCTTC
* * *
5031221 AGTATCGATGCTAACCCTTT
1 GGTATCGATACTAACCCTTC
*
5031241 GGTATCAATAC
1 GGTATCGATAC
5031252 CACTTATTGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (20 bp):
GGTATCGATACTAACCCTTC
Found at i:5034788 original size:22 final size:22
Alignment explanation
Indices: 5034763--5034810 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
5034753 TCAATCGGTC
* * *
5034763 GAACCGGTCAGATCGGTCGGAA
1 GAACCGGTCAGACCGATCGAAA
5034785 GAACCGGTCAGACCGATCGAAA
1 GAACCGGTCAGACCGATCGAAA
5034807 GAAC
1 GAAC
5034811 AGGACGATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.31, T:0.10
Consensus pattern (22 bp):
GAACCGGTCAGACCGATCGAAA
Found at i:5035954 original size:21 final size:21
Alignment explanation
Indices: 5035925--5035966 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
5035915 AAACATGACA
5035925 TTTTTTCTC-TTAATTTATTT
1 TTTTTTCTCTTTAATTTATTT
5035945 TTTTTGTCTCTTTAATTTATTT
1 TTTTT-TCTCTTTAATTTATTT
5035967 AGTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 4 0.20
22 11 0.55
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTCTCTTTAATTTATTT
Found at i:5040306 original size:64 final size:64
Alignment explanation
Indices: 5040203--5040479 Score: 385
Period size: 64 Copynumber: 4.3 Consensus size: 64
5040193 TGTAGCTTTT
* * * *
5040203 AGAGTCAATTTTAACTTCACAAAGAAGGATATTGGACTCAATAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGAGAAGGATATTGAACTCAACAAACAACTTTCCAGTTTCATTC
* * * *
5040267 AGAGTCAATTTCAACTTCACAGATAAGTATATTGAACTCAATAAACAACTTTCCAGTTTCATTT
1 AGAGTCAATTTCAACTTCACAGAGAAGGATATTGAACTCAACAAACAACTTTCCAGTTTCATTC
* *
5040331 AGAGTCAATTTCAACTTCACAGTGAAGAATATTGAACTCAACAAACAACCTTT-CAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGAGAAGGATATTGAACTCAACAAACAA-CTTTCCAGTTTCATTC
* * * * * *
5040395 AGAGTCAATTTTAACTTCAAAGCGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTTATTC
1 AGAGTCAATTTCAACTTCACAGAGAAGGATATTGAACTCAACAAACAACTTTCCAGTTTCATTC
*
5040459 AGAGTCAAGTTCAACTTCACA
1 AGAGTCAATTTCAACTTCACA
5040480 CAAAAGATAT
Statistics
Matches: 190, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
63 4 0.02
64 182 0.96
65 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGAGAAGGATATTGAACTCAACAAACAACTTTCCAGTTTCATTC
Found at i:5040960 original size:114 final size:114
Alignment explanation
Indices: 5040511--5041788 Score: 1451
Period size: 114 Copynumber: 10.9 Consensus size: 114
5040501 CAATGCAACT
* * *
5040511 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACAATGAAAGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
5040576 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCCACCAACAACATTCATCTTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGT----------CATTCATCTTTAGA
* * * * *
5040635 TTGGATTTCAACTTCACGATGAATGATATCCAATTCGAGGCTCAACTTCACAACGAAGAGGTCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
*
5040700 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGTAACATCCATCCTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGT----CA-T----T-CATCTTTAGA
*
5040759 TTGGATTTCAACTTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * *
5040824 CCACGATTTCAACTTCATGACGAATGATATTGTGTCATTCATCTTTATA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
* * * *
5040873 TTGGATTTCAAATTCACGACAAAGGATATCCAATTTAAGGCTCAACTTCACAACGAAGGGGCTAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * *
5040938 CCACGATTTTAACTTCACGACGAAGGATATCATGCCATTCATCATTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
* * *
5040987 TTGGATTTCAACTTTACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * * *
5041052 CTACGATTTCAACTTCACGACGAAGGATATCGTGACATTAATCTTAAAA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
*
5041101 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACTAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * *
5041166 ACACGATTTTAACTTCACGATGAAGGATATC-TGCCATTCATCTTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
* * * * * * * *
5041214 TTGGATTTTAAATTCATGACAAATGATATCCAATTCAAGGCTCAACTTTATAACGAAGGGGTCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* **
5041279 CCACGATTTCAACTTCACGATGAAGGATATCGTGTCAAGCATCTTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
* * * * * * *
5041328 TTGGATTTTAACTTCACGATGAAGGATATCCAATTCGAGGCTTAACTTCCCAACGAATGGGTCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * *
5041393 CCACGATTTCAACTTCACGATGAAAGATATCGTGACATTCATCTTTAAA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
* * *
5041442 TTGGATTTCAATTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAATGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
5041507 CCACGATTTCAACTTCACGACGAAGGATACCATGTCCACCAGCAATATTCATCCTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGT-------C---ATTCATCTTTAGA
* * * * *
5041566 TTGGATTTCAACTTCACAATGAATGATATCCAATTCGAGGCTCAACTTCACAACGAATGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * * *
5041631 CCACGATTTCAACTTCACAACGAACGATATCGTGCCCACCAGCAACATTCATCATTGGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGT--------G--TCATTCATCTTTAGA
* * * * *
5041690 TTGGATTTCTACTTCACAACGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAATGAGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA-
* * *
5041755 TCTAAGATTTCAACTTCACAACGAAGGATATCGT
65 TCCACGATTTCAACTTCACGACGAAGGATATCGT
5041789 ACCCAAAAGA
Statistics
Matches: 1003, Mismatches: 123, Indels: 55
0.85 0.10 0.05
Matches are distributed among these distances:
113 98 0.10
114 497 0.50
115 1 0.00
118 4 0.00
119 2 0.00
120 2 0.00
121 1 0.00
123 1 0.00
124 364 0.36
125 31 0.03
127 1 0.00
132 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (114 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
Found at i:5041331 original size:341 final size:342
Alignment explanation
Indices: 5040511--5041788 Score: 1543
Period size: 341 Copynumber: 3.6 Consensus size: 342
5040501 CAATGCAACT
* * * * *
5040511 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACAATGAAAGGGCCAT
1 TTGGATTTCAAATTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
*
5040576 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCCACCAACAACATTCATCTTTAGATTGGAT
66 CCACGATTTCAACTTCACGACGAAGGATATCGTG-----C--C-ACA-GCATCTTTAGATTGGAT
* * *
5040641 TTCAACTTCACGATGAATGATATCCAATTCGAGGCTCAACTTCACAACGAAGAGGTCATCCACGA
122 TTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCATCCACGA
* *
5040706 TTTCAACTTCACGACGAAGGATATCGTGTCCACCAGTAACATCCATCCTTAGATTGGATTTCAAC
187 TTTCAACTTCACGACGAAGGATATCGTG---A-CA-TTA-AT-C-T--TTAAATTGGATTTCAAC
* *
5040771 TTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTTCAA
242 TTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAAGGGGCCATCCACGATTTCAA
* * * * *
5040836 CTTCATGACGAATGATATTGTGTCATTCATCTTTATA
307 CTTCACGACGAAGGATA-TCTGCCATTCATCTTTAGA
* *
5040873 TTGGATTTCAAATTCACGACAAAGGATATCCAATTTAAGGCTCAACTTCACAACGAAGGGGCTAT
1 TTGGATTTCAAATTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * ** * *
5040938 CCACGATTTTAACTTCACGACGAAGGATATCATGCCA-TTCATCATTAGATTGGATTTCAACTTT
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGCCACAGCATCTTTAGATTGGATTTCAACTTC
*
5041002 ACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCATCTACGATTTCAACTT
131 ACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTTCAACTT
*
5041067 CACGACGAAGGATATCGTGACATTAATCTTAAAATTGGATTTCAACTTCACGACGAAGGATATCC
196 CACGACGAAGGATATCGTGACATTAATCTTTAAATTGGATTTCAACTTCACGACGAAGGATATCC
* * * *
5041132 AATTCAAGGCTCAACTTCACAACTAAGGGGCCATACACGATTTTAACTTCACGATGAAGGATATC
261 AATTCAAGGCTCAACTTCACAACAAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATC
5041197 TGCCATTCATCTTTAGA
326 TGCCATTCATCTTTAGA
* * * * * *
5041214 TTGGATTTTAAATTCATGACAAATGATATCCAATTCAAGGCTCAACTTTATAACGAAGGGGTCAT
1 TTGGATTTCAAATTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
5041279 CCACGATTTCAACTTCACGATGAAGGATATCGTGTCA-AGCATCTTTAGATTGGATTTTAACTTC
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGCCACAGCATCTTTAGATTGGATTTCAACTTC
* * * *
5041343 ACGATGAAGGATATCCAATTCGAGGCTTAACTTCCCAACGAATGGGTCATCCACGATTTCAACTT
131 ACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTTCAACTT
* * * *
5041408 CACGATGAAAGATATCGTGACATTCATCTTTAAATTGGATTTCAATTTCACGACGAAGGATATCC
196 CACGACGAAGGATATCGTGACATTAATCTTTAAATTGGATTTCAACTTCACGACGAAGGATATCC
* *
5041473 AATTCAAGGCTCAACTTCACAACAAATGGGCCATCCACGATTTCAACTTCACGACGAAGGATACC
261 AATTCAAGGCTCAACTTCACAACAAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATC
*
5041538 ATGTCCACCAGCAATATTCATCCTTAGA
326 -TG-----C--C---ATTCATCTTTAGA
* * ** * * *
5041566 TTGGATTTCAACTTCACAATGAATGATATCCAATTCGAGGCTCAACTTCACAACGAATGGGCCAT
1 TTGGATTTCAAATTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
5041631 CCACGATTTCAACTTCACAACGAACGATATCGTGCCCACCAGCAACATTCATCATTGGATTGGAT
66 CCACGATTTCAACTTCACGACGAAGGATATCGTG-CCA-CAG---CA-TC-T--TTAGATTGGAT
* * * * * * *
5041696 TTCTACTTCACAACGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAATGAGCCATTCTAAG
122 TTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCA-TCCACG
*
5041761 ATTTCAACTTCACAACGAAGGATATCGT
186 ATTTCAACTTCACGACGAAGGATATCGT
5041789 ACCCAAAAGA
Statistics
Matches: 802, Mismatches: 92, Indels: 43
0.86 0.10 0.05
Matches are distributed among these distances:
341 307 0.38
342 92 0.11
344 1 0.00
345 1 0.00
346 2 0.00
347 3 0.00
348 2 0.00
349 2 0.00
352 201 0.25
353 2 0.00
354 1 0.00
355 3 0.00
357 1 0.00
358 2 0.00
359 2 0.00
360 1 0.00
362 150 0.19
363 29 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (342 bp):
TTGGATTTCAAATTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGATTTCAACTTCACGACGAAGGATATCGTGCCACAGCATCTTTAGATTGGATTTCAACTTC
ACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTTCAACTT
CACGACGAAGGATATCGTGACATTAATCTTTAAATTGGATTTCAACTTCACGACGAAGGATATCC
AATTCAAGGCTCAACTTCACAACAAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATC
TGCCATTCATCTTTAGA
Found at i:5042326 original size:3 final size:3
Alignment explanation
Indices: 5042318--5042343 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5042308 AAAAATATAT
5042318 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
5042344 TTTACTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5042352 original size:9 final size:9
Alignment explanation
Indices: 5042317--5042355 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
5042307 TAAAAATATA
5042317 TTTATTATT
1 TTTATTATT
*
5042326 ATTATTATT
1 TTTATTATT
*
5042335 ATTATTATT
1 TTTATTATT
*
5042344 TTTACTATT
1 TTTATTATT
5042353 TTT
1 TTT
5042356 TTCAGCCACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTATTATT
Found at i:5042352 original size:12 final size:12
Alignment explanation
Indices: 5042315--5042357 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
5042305 TTTAAAAATA
5042315 TATTTATTATTAT
1 TATTT-TTATTAT
*
5042328 TATTATTATTAT
1 TATTTTTATTAT
*
5042340 TATTTTTACTAT
1 TATTTTTATTAT
5042352 T-TTTTT
1 TATTTTT
5042358 CAGCCACCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 5 0.19
12 18 0.67
13 4 0.15
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTTTTATTAT
Found at i:5056163 original size:48 final size:48
Alignment explanation
Indices: 5056092--5056435 Score: 415
Period size: 48 Copynumber: 7.1 Consensus size: 48
5056082 ACTCTAAATG
* *
5056092 ATCAACAA-ATGAACTTTTACTGGTCTGAATAACATCT-TGTGATTCTTC
1 ATCAACAAGA-GAACTTTTACTGGTCTGAATAACAT-TGTTTGCTTCTTC
* **
5056140 ATCAACATGAGGCCTTTTACTGGTCTGAATAACA-TGATTTGCTTCTTC
1 ATCAACAAGAGAACTTTTACTGGTCTGAATAACATTG-TTTGCTTCTTC
*
5056188 ATCAACAAGAGAACTTTTACTGGTCTGGATAACATTGTTTGCTTCTTC
1 ATCAACAAGAGAACTTTTACTGGTCTGAATAACATTGTTTGCTTCTTC
* * * *
5056236 ACCAACACGAGAACTTTTACTAGTTTGAATAACATTGTTTGCTTCTTC
1 ATCAACAAGAGAACTTTTACTGGTCTGAATAACATTGTTTGCTTCTTC
* *
5056284 ATCAACAAGAGAACTTTTACTGGTATGAATAATAATATTGTTTGCTTCTTC
1 ATCAACAAGAGAACTTTTACTGGTCTG---AATAACATTGTTTGCTTCTTC
* * * * * *
5056335 ATCAACAGGAGAAGTTTTACTAGTTTGAATACCATTGTTTGCTTTTTC
1 ATCAACAAGAGAACTTTTACTGGTCTGAATAACATTGTTTGCTTCTTC
* * * *
5056383 ATCGACAAGAGAACTTTTACTGGTCAGGATAACATTGTCTGCTTCTTC
1 ATCAACAAGAGAACTTTTACTGGTCTGAATAACATTGTTTGCTTCTTC
5056431 ATCAA
1 ATCAA
5056436 TAAGTGCTTC
Statistics
Matches: 252, Mismatches: 37, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
46 1 0.00
48 205 0.81
49 3 0.01
51 43 0.17
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (48 bp):
ATCAACAAGAGAACTTTTACTGGTCTGAATAACATTGTTTGCTTCTTC
Found at i:5056454 original size:63 final size:63
Alignment explanation
Indices: 5056380--5056498 Score: 193
Period size: 63 Copynumber: 1.9 Consensus size: 63
5056370 TGTTTGCTTT
* *
5056380 TTCATCGACAAGAGAACTTTTACTGGTCAGGATAACATTGTCTGCTTCTTCATCAATAAGTGC
1 TTCATCAACAAGAGAACTTTTACTGGTCAGAATAACATTGTCTGCTTCTTCATCAATAAGTGC
* * *
5056443 TTCATCAACAAGAGAATTTTTACTGGTCTGAATAACATTGTTTGCTTCTTCATCAA
1 TTCATCAACAAGAGAACTTTTACTGGTCAGAATAACATTGTCTGCTTCTTCATCAA
5056499 CAAGAGAACT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (63 bp):
TTCATCAACAAGAGAACTTTTACTGGTCAGAATAACATTGTCTGCTTCTTCATCAATAAGTGC
Found at i:5056495 original size:48 final size:48
Alignment explanation
Indices: 5056442--5056635 Score: 270
Period size: 48 Copynumber: 4.1 Consensus size: 48
5056432 TCAATAAGTG
*
5056442 CTTCATCAACAAGAGAATTTTTACTGGTCTGAATAACATTGTTTGCTT
1 CTTCATCAACAAGAGAACTTTTACTGGTCTGAATAACATTGTTTGCTT
* *
5056490 CTTCATCAACAAGAGAACTTTTACTTGTCTGAATAACATTGTTTGCTG
1 CTTCATCAACAAGAGAACTTTTACTGGTCTGAATAACATTGTTTGCTT
* *
5056538 CTTCATCAACAAGATG-ACTTTTACTAGTTTGAATAACATT-TTT--TT
1 CTTCATCAACAAGA-GAACTTTTACTGGTCTGAATAACATTGTTTGCTT
* * **
5056583 CTTCATCAATAAGTGAACTTTTACTGGTCTGAATAACATTGTTTATTT
1 CTTCATCAACAAGAGAACTTTTACTGGTCTGAATAACATTGTTTGCTT
5056631 CTTCA
1 CTTCA
5056636 GAAGGTAACT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
44 1 0.01
45 35 0.27
46 3 0.02
47 3 0.02
48 88 0.67
49 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (48 bp):
CTTCATCAACAAGAGAACTTTTACTGGTCTGAATAACATTGTTTGCTT
Found at i:5056526 original size:111 final size:111
Alignment explanation
Indices: 5056331--5056546 Score: 324
Period size: 111 Copynumber: 1.9 Consensus size: 111
5056321 TTGTTTGCTT
* * * * *
5056331 CTTCATCAACAGGAGAAGTTTTACTAGTTTGAATACCATTGTTTGCTTTTTCATCGACAAGAGAA
1 CTTCATCAACAAGAGAAGTTTTACTAGTCTGAATAACATTGTTTGCTTCTTCATCAACAAGAGAA
* *
5056396 CTTTTACTGGTCAGGATAACATTGTCTGCTTCTTCATCAATAAGTG
66 CTTTTACTGGTCAGAATAACATTGTCTGCTGCTTCATCAATAAGTG
* *
5056442 CTTCATCAACAAGAGAATTTTTACTGGTCTGAATAACATTGTTTGCTTCTTCATCAACAAGAGAA
1 CTTCATCAACAAGAGAAGTTTTACTAGTCTGAATAACATTGTTTGCTTCTTCATCAACAAGAGAA
* * *
5056507 CTTTTACTTGTCTGAATAACATTGTTTGCTGCTTCATCAA
66 CTTTTACTGGTCAGAATAACATTGTCTGCTGCTTCATCAA
5056547 CAAGATGACT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 93 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (111 bp):
CTTCATCAACAAGAGAAGTTTTACTAGTCTGAATAACATTGTTTGCTTCTTCATCAACAAGAGAA
CTTTTACTGGTCAGAATAACATTGTCTGCTGCTTCATCAATAAGTG
Found at i:5056574 original size:159 final size:157
Alignment explanation
Indices: 5056280--5056597 Score: 424
Period size: 159 Copynumber: 2.0 Consensus size: 157
5056270 TTGTTTGCTT
* *
5056280 CTTCATCAACAAGAGAACTTTTACTGGTATGAATAATAATATTGTTTGCTTCTTCATCAACAGGA
1 CTTCATCAACAAGAGAACTTTTACTGGTATG-A-AATAACATTGTTTGCTTCTTCATCAACAAGA
* * * ** * *
5056345 GAAGTTTTACTAGTTTGAATACCATTGTTTGCTTTTTCATCGACAAGAGAACTTTTACTGGTCAG
64 GAACTTTTACTAGTCTGAATAACATTGTTTGCTGCTTCATCAACAAGAGAACTTTTACTAGTCAG
*
5056410 GATAACATTGTCTGCTTCTTCATCAATAAGTG
129 AATAACATT-T-T-CTTCTTCATCAATAAGTG
* *
5056442 CTTCATCAACAAGAGAATTTTTACTGGTCTG-AATAACATTGTTTGCTTCTTCATCAACAAGAGA
1 CTTCATCAACAAGAGAACTTTTACTGGTATGAAATAACATTGTTTGCTTCTTCATCAACAAGAGA
* **
5056506 ACTTTTACTTGTCTGAATAACATTGTTTGCTGCTTCATCAACAAGATG-ACTTTTACTAGTTTGA
66 ACTTTTACTAGTCTGAATAACATTGTTTGCTGCTTCATCAACAAGA-GAACTTTTACTAGTCAGA
*
5056570 ATAACATTTTTTTCTTCATCAATAAGTG
130 ATAACATTTTCTTCTTCATCAATAAGTG
5056598 AACTTTTACT
Statistics
Matches: 139, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
156 17 0.12
157 1 0.01
158 1 0.01
159 90 0.65
160 1 0.01
162 29 0.21
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (157 bp):
CTTCATCAACAAGAGAACTTTTACTGGTATGAAATAACATTGTTTGCTTCTTCATCAACAAGAGA
ACTTTTACTAGTCTGAATAACATTGTTTGCTGCTTCATCAACAAGAGAACTTTTACTAGTCAGAA
TAACATTTTCTTCTTCATCAATAAGTG
Found at i:5056620 original size:93 final size:95
Alignment explanation
Indices: 5056440--5056626 Score: 281
Period size: 93 Copynumber: 2.0 Consensus size: 95
5056430 CATCAATAAG
* *
5056440 TGCTTCATCAACAAGAGAATTTTTACTGGTCTGAATAACATTGTTTGCTTCTTCATCAACAAGAG
1 TGCTTCATCAACAAGAGAACTTTTACTAGTCTGAATAACATTGTTT-CTTCTTCATCAACAAGAG
*
5056505 AACTTTTACTTGTCTGAATAACATTGTTTGC
65 AACTTTTACTGGTCTGAATAACATTGTTTGC
* * *
5056536 TGCTTCATCAACAAGATG-ACTTTTACTAGTTTGAATAACATT-TTT-TTCTTCATCAATAAGTG
1 TGCTTCATCAACAAGA-GAACTTTTACTAGTCTGAATAACATTGTTTCTTCTTCATCAACAAGAG
5056598 AACTTTTACTGGTCTGAATAACATTGTTT
65 AACTTTTACTGGTCTGAATAACATTGTTT
5056627 ATTTCTTCAG
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
93 43 0.51
95 3 0.04
96 37 0.44
97 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (95 bp):
TGCTTCATCAACAAGAGAACTTTTACTAGTCTGAATAACATTGTTTCTTCTTCATCAACAAGAGA
ACTTTTACTGGTCTGAATAACATTGTTTGC
Found at i:5059450 original size:23 final size:24
Alignment explanation
Indices: 5059400--5059450 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
5059390 TGTTATCTGT
*
5059400 CTTTATAGCACGTTTATCCTCTAT
1 CTTTATAGCACGTTTATCCTCTAC
* *
5059424 CTTTATGGCACGTTT-TTCTCTAC
1 CTTTATAGCACGTTTATCCTCTAC
5059447 CTTT
1 CTTT
5059451 TGGTACTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.16, C:0.25, G:0.10, T:0.49
Consensus pattern (24 bp):
CTTTATAGCACGTTTATCCTCTAC
Found at i:5061853 original size:16 final size:16
Alignment explanation
Indices: 5061832--5061863 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5061822 ACTAAAACAT
5061832 ATTAAAATAAATAAAA
1 ATTAAAATAAATAAAA
*
5061848 ATTAAAATAATTAAAA
1 ATTAAAATAAATAAAA
5061864 TTTACAGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATTAAAATAAATAAAA
Found at i:5062773 original size:18 final size:17
Alignment explanation
Indices: 5062747--5062780 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5062737 TTTCTGTCCT
*
5062747 CGTTTCTCTCGTGTTCTC
1 CGTTGCTCTC-TGTTCTC
5062765 CGTTGCTCTCTGTTCT
1 CGTTGCTCTCTGTTCT
5062781 TTGCTTGCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.32, G:0.18, T:0.50
Consensus pattern (17 bp):
CGTTGCTCTCTGTTCTC
Found at i:5063273 original size:3 final size:3
Alignment explanation
Indices: 5063254--5063312 Score: 82
Period size: 3 Copynumber: 19.0 Consensus size: 3
5063244 TTGTAATATT
**
5063254 TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTT TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5063301 TAA TAA TAA TAA
1 TAA TAA TAA TAA
5063313 ACTTAAATGG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 44 0.88
4 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:5063572 original size:76 final size:76
Alignment explanation
Indices: 5063441--5064079 Score: 1174
Period size: 76 Copynumber: 8.4 Consensus size: 76
5063431 GATGGAAATG
* *
5063441 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063506 CCCGAAGGCTT
66 CCCGAAGGCTT
* * *
5063517 TTTGGAAACATCATGCACTGCATGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063582 CCCGAAGGCTT
66 CCCGAAGGCTT
5063593 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063658 CCCGAAGGCTT
66 CCCGAAGGCTT
*
5063669 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063733 CCCGAAGGCTT
66 CCCGAAGGCTT
*
5063744 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063809 CCCGAAGGCTT
66 CCCGAAGGCTT
*
5063820 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063885 CCCGAAGGCTT
66 CCCGAAGGCTT
5063896 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063960 CCCGAAGGCTT
66 CCCGAAGGCTT
*
5063971 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5064036 CCCGAAGGCTT
66 CCCGAAGGCTT
*
5064047 TTTGGAAACATCATGCACTGAAGGGCTTACAGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGA
5064080 CGTGGGAAAT
Statistics
Matches: 550, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
75 149 0.27
76 401 0.73
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:5063792 original size:151 final size:152
Alignment explanation
Indices: 5063441--5064079 Score: 1192
Period size: 151 Copynumber: 4.2 Consensus size: 152
5063431 GATGGAAATG
* *
5063441 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
* * * *
5063506 CCCGAAGGCTTTTTGGAAACATCATGCACTGCATGACTTACAGATGACCCTAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
5063571 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
5063593 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063658 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA-CCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
5063722 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
*
5063744 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063809 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
5063874 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
5063896 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063960 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
5064025 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
*
5064047 TTTGGAAACATCATGCACTGAAGGGCTTACAGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGA
5064080 CGTGGGAAAT
Statistics
Matches: 477, Mismatches: 9, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
151 275 0.58
152 202 0.42
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (152 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTT
Found at i:5063842 original size:227 final size:228
Alignment explanation
Indices: 5063441--5064079 Score: 1192
Period size: 227 Copynumber: 2.8 Consensus size: 228
5063431 GATGGAAATG
* *
5063441 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
* * * *
5063506 CCCGAAGGCTTTTTGGAAACATCATGCACTGCATGACTTACAGATGACCCTAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
*
5063571 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
5063636 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
5063669 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063733 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
5063798 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
5063863 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
5063896 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
5063960 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
5064025 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGA
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGA
5064080 CGTGGGAAAT
Statistics
Matches: 401, Mismatches: 9, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
227 347 0.87
228 54 0.13
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (228 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
Found at i:5064786 original size:22 final size:22
Alignment explanation
Indices: 5064761--5064816 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
5064751 CATAAAGCTT
*
5064761 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAAAATCTA
* * *
5064783 TCATCTTTAAAAAAGAAAATTTG
1 TCATCTTT-GAAAAGAAAATCTA
5064806 TCATCTTTGAA
1 TCATCTTTGAA
5064817 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAAAATCTA
Found at i:5065253 original size:54 final size:54
Alignment explanation
Indices: 5065171--5065282 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 54
5065161 CGAATAGCAG
***
5065171 GTTCGTAAAACATTTAACAGTGCATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
*
5065225 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
5065279 GTTC
1 GTTC
5065283 TTAATCATTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTAACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
Found at i:5067618 original size:115 final size:115
Alignment explanation
Indices: 5067431--5068231 Score: 1383
Period size: 115 Copynumber: 7.0 Consensus size: 115
5067421 GATCATGCAG
* * * * * * *
5067431 TTCATCTTTCAATTCCAATGA-TGG-TTCTGGGGTTCCTACCGAATCAGATCAGATAACTTAAAG
1 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
* * *
5067494 AATACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGC-AAA
* * * **
5067545 TTCATCTTTCAAATCCAATGATT-GATTTTGGAGTTCATACCAAATTAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
5067609 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
5067659 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
5067724 AACACTTTCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
5067774 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
5067839 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGAAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
5067889 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
5067954 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
*
5068004 TTTATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
* *
5068069 AACACTTCCAGAAGATGCTATTAAGTCTTCTTATTTATACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
5068119 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
5068184 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
66 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
5068232 CATGGCACTT
Statistics
Matches: 657, Mismatches: 27, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
114 46 0.07
115 611 0.93
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (115 bp):
TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
Found at i:5070428 original size:18 final size:18
Alignment explanation
Indices: 5070405--5070441 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5070395 TCAATTTTCC
*
5070405 TTTTTCTTTTTCTCTCTT
1 TTTTTCTTCTTCTCTCTT
*
5070423 TTTTTCTTCTTCTTTCTT
1 TTTTTCTTCTTCTCTCTT
5070441 T
1 T
5070442 GTTAGATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTCTTCTCTCTT
Found at i:5075943 original size:16 final size:16
Alignment explanation
Indices: 5075922--5075953 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5075912 ACTAAAACAT
5075922 ATTAAAATAAATAAAA
1 ATTAAAATAAATAAAA
*
5075938 ATTAAAATAATTAAAA
1 ATTAAAATAAATAAAA
5075954 TTTACAGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATTAAAATAAATAAAA
Found at i:5076537 original size:13 final size:13
Alignment explanation
Indices: 5076519--5076547 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
5076509 CCACCGTACT
5076519 CCGCCGGCGGCCA
1 CCGCCGGCGGCCA
5076532 CCGCCGGCGGCCA
1 CCGCCGGCGGCCA
5076545 CCG
1 CCG
5076548 TAACGGTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.55, G:0.38, T:0.00
Consensus pattern (13 bp):
CCGCCGGCGGCCA
Found at i:5076857 original size:18 final size:17
Alignment explanation
Indices: 5076834--5076867 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
5076824 TTTCTGTCCT
5076834 CGTTTCTCTCGTGTTCTC
1 CGTTTCTCTC-TGTTCTC
5076852 CGTTTCTCTCTGTTCT
1 CGTTTCTCTCTGTTCT
5076868 TTGCTTGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.00, C:0.32, G:0.15, T:0.53
Consensus pattern (17 bp):
CGTTTCTCTCTGTTCTC
Found at i:5077359 original size:3 final size:3
Alignment explanation
Indices: 5077340--5077404 Score: 85
Period size: 3 Copynumber: 21.0 Consensus size: 3
5077330 TTGTAATATT
*
5077340 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
5077387 TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
5077405 ACTTAAATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
3 48 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:5077361 original size:24 final size:23
Alignment explanation
Indices: 5077333--5077404 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 23
5077323 ATGGGCTTTG
5077333 TAAT-ATTTAATAAATAATATATAA
1 TAATAATTTAAT-AATAATA-ATAA
5077357 TAATAATTATAATAATAATAATAA
1 TAATAATT-TAATAATAATAATAA
5077381 TAATAATTTTAATAATAATAATAA
1 TAATAA-TTTAATAATAATAATAA
5077405 ACTTAAATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
24 29 0.64
25 12 0.27
26 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATAATTTAATAATAATAATAA
Found at i:5090697 original size:9 final size:9
Alignment explanation
Indices: 5090685--5090741 Score: 62
Period size: 9 Copynumber: 5.9 Consensus size: 9
5090675 TTTTTGGCTC
5090685 TTTTTTTGT
1 TTTTTTTGT
5090694 TTTTTTTGT
1 TTTTTTTGT
5090703 TTTTTTT-T
1 TTTTTTTGT
5090711 TGCCTTTTTTGTTT
1 T---TTTTTTG--T
5090725 TTTTTTTGT
1 TTTTTTTGT
5090734 TTTTTTTG
1 TTTTTTTG
5090742 AAAAAAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.05
9 25 0.60
11 13 0.31
14 2 0.05
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:5090709 original size:31 final size:31
Alignment explanation
Indices: 5090674--5090740 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
5090664 AAATTTTGGC
5090674 TTTTTTGGCTCTTTTTT-TGTTTTTTTTGTTT
1 TTTTTTGGC-CTTTTTTGTGTTTTTTTTGTTT
* *
5090705 TTTTTTTGCCTTTTTTGTTTTTTTTTTGTTT
1 TTTTTTGGCCTTTTTTGTGTTTTTTTTGTTT
5090736 TTTTT
1 TTTTT
5090741 GAAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (31 bp):
TTTTTTGGCCTTTTTTGTGTTTTTTTTGTTT
Found at i:5090718 original size:29 final size:29
Alignment explanation
Indices: 5090686--5090741 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
5090676 TTTTGGCTCT
5090686 TTTTTTGTTTTTTTTGTT-TTTTTTTTGCC
1 TTTTTTGTTTTTTTT-TTGTTTTTTTTGCC
5090715 TTTTTTGTTTTTTTTTTGTTTTTTTTG
1 TTTTTTGTTTTTTTTTTGTTTTTTTTG
5090742 AAAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (29 bp):
TTTTTTGTTTTTTTTTTGTTTTTTTTGCC
Found at i:5090740 original size:20 final size:20
Alignment explanation
Indices: 5090685--5090741 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
5090675 TTTTTGGCTC
5090685 TTTTTTTGTTTTTTTTGTTT
1 TTTTTTTGTTTTTTTTGTTT
**
5090705 TTTTTTTGCCTTTTTTGTTT
1 TTTTTTTGTTTTTTTTGTTT
5090725 TTTTTTTGTTTTTTTTG
1 TTTTTTTGTTTTTTTTG
5090742 AAAAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (20 bp):
TTTTTTTGTTTTTTTTGTTT
Found at i:5092840 original size:3 final size:3
Alignment explanation
Indices: 5092828--5092925 Score: 117
Period size: 3 Copynumber: 32.7 Consensus size: 3
5092818 TTAATGTTAT
* * *
5092828 TTA TTA -TA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
5092875 TTA TTA TTA TAA TAA TAA TTA TTA TTA TTA TTA TTA TTA ATA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
5092921 TTA TT
1 TTA TT
5092926 TAATATTACA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.02
3 78 0.94
4 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:5092858 original size:21 final size:21
Alignment explanation
Indices: 5092834--5092929 Score: 133
Period size: 21 Copynumber: 4.6 Consensus size: 21
5092824 TTATTTATTA
*
5092834 TATTATTATTATTATAATTAT
1 TATTATTATAATTATAATTAT
5092855 TATTATTATAATTATAATTAT
1 TATTATTATAATTATAATTAT
*
5092876 TATTATTATAATAATAATTAT
1 TATTATTATAATTATAATTAT
*
5092897 TATTATTATTATTATTAA-TAT
1 TATTATTATAATTA-TAATTAT
5092918 ATATTATT-TAAT
1 -TATTATTATAAT
5092930 ATTACAAGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
21 58 0.85
22 10 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTATTATAATTATAATTAT
Found at i:5095574 original size:9 final size:9
Alignment explanation
Indices: 5095560--5095584 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5095550 TTACATATAA
5095560 ATTTAAATT
1 ATTTAAATT
5095569 ATTTAAATT
1 ATTTAAATT
5095578 ATTTAAA
1 ATTTAAA
5095585 AGCATGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTTAAATT
Found at i:5098364 original size:15 final size:16
Alignment explanation
Indices: 5098334--5098366 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5098324 TTTGGGATCA
*
5098334 ATACCTTTTCGCATAC
1 ATACATTTTCGCATAC
5098350 ATACATTTT-GCATAC
1 ATACATTTTCGCATAC
5098365 AT
1 AT
5098367 TCATCATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (16 bp):
ATACATTTTCGCATAC
Found at i:5105737 original size:18 final size:17
Alignment explanation
Indices: 5105714--5105769 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
5105704 ATTATGCTTG
5105714 AAGAAAAAAAAAGAGAAA
1 AAGAAAAAAAAAGA-AAA
5105732 AAG-AAAAAAAAGAAAA
1 AAGAAAAAAAAAGAAAA
5105748 AAGAGAAAAAAGAAGAAAA
1 AAGA-AAAAAA-AAGAAAA
5105767 AAG
1 AAG
5105770 GGGGGTCAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.17
17 10 0.29
18 9 0.26
19 10 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAGAAAA
Found at i:5105740 original size:16 final size:16
Alignment explanation
Indices: 5105719--5105767 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 16
5105709 GCTTGAAGAA
5105719 AAAAAAAGAGAAAAAG
1 AAAAAAAGAGAAAAAG
5105735 AAAAAAA-AGAAAAAAG
1 AAAAAAAGAG-AAAAAG
5105751 AGAAAAAAGAAGAAAAA
1 A-AAAAAAG-AGAAAAA
5105768 AGGGGGGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.07
16 14 0.48
17 6 0.21
18 5 0.17
19 2 0.07
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAG
Found at i:5105752 original size:24 final size:26
Alignment explanation
Indices: 5105720--5105769 Score: 86
Period size: 24 Copynumber: 2.0 Consensus size: 26
5105710 CTTGAAGAAA
5105720 AAAAAAGAG-AAAAAGAA-AAAAAAG
1 AAAAAAGAGAAAAAAGAAGAAAAAAG
5105744 AAAAAAGAGAAAAAAGAAGAAAAAAG
1 AAAAAAGAGAAAAAAGAAGAAAAAAG
5105770 GGGGGTCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.38
25 8 0.33
26 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (26 bp):
AAAAAAGAGAAAAAAGAAGAAAAAAG
Found at i:5105769 original size:10 final size:10
Alignment explanation
Indices: 5105713--5105769 Score: 68
Period size: 9 Copynumber: 6.1 Consensus size: 10
5105703 TATTATGCTT
5105713 GAAGAAAAAA
1 GAAGAAAAAA
* *
5105723 AAAG-AGAAA
1 GAAGAAAAAA
5105732 -AAGAAAAAA
1 GAAGAAAAAA
5105741 -AAGAAAAAA
1 GAAGAAAAAA
5105750 G-AGAAAAAA
1 GAAGAAAAAA
5105759 GAAGAAAAAA
1 GAAGAAAAAA
5105769 G
1 G
5105770 GGGGGTCAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
8 3 0.07
9 26 0.63
10 12 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
GAAGAAAAAA
Found at i:5107071 original size:84 final size:84
Alignment explanation
Indices: 5106916--5107908 Score: 1589
Period size: 84 Copynumber: 11.8 Consensus size: 84
5106906 GAACAAATGT
*
5106916 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
*
5106981 TCATTGAATTTGAAAGATG
66 TTATTGAATTTGAAAGATG
* * * *
5107000 AATTTGCTAATAGAATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
* *
5107065 TTATTGAATTTGGAAGAGG
66 TTATTGAATTTGAAAGATG
5107084 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
* *
5107149 TTATTGAATTTGGAAGAGG
66 TTATTGAATTTGAAAGATG
* * *
5107168 AATGTGCTAATAGCATCTTATGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
5107233 TTATTGAATTTGAAAGATG
66 TTATTGAATTTGAAAGATG
5107252 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
5107317 TTATTGAATTTGAAAGATG
66 TTATTGAATTTGAAAGATG
* *
5107336 AATGTGCTCATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
*
5107400 TTATTGAATTTGAAAGAGG
66 TTATTGAATTTGAAAGATG
* *
5107419 AATGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
5107484 TTATTGAATTTGAAAGATG
66 TTATTGAATTTGAAAGATG
5107503 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT-TGATCTGGTTTGGTAAAAAACCA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAAACCA
5107567 ATTATTGAATTTGAAAGATG
65 ATTATTGAATTTGAAAGATG
*
5107587 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
*
5107651 TTATTGAATTTGAAAGAGG
66 TTATTGAATTTGAAAGATG
*
5107670 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
*
5107734 TCATTGAATTTGAAAGATG
66 TTATTGAATTTGAAAGATG
* * *
5107753 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T-----A-
* * * *
5107818 AAAACCAGTTATTGAATTTGGAATAGG
58 AAAACCAATTATTGAATTTGAAAGATG
* *
5107845 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGATATAAAACC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-AAAACC
5107909 CAGAAACAAT
Statistics
Matches: 852, Mismatches: 45, Indels: 23
0.93 0.05 0.03
Matches are distributed among these distances:
83 251 0.29
84 505 0.59
85 22 0.03
90 1 0.00
92 73 0.09
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.38
Consensus pattern (84 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
TTATTGAATTTGAAAGATG
Found at i:5107516 original size:251 final size:252
Alignment explanation
Indices: 5106916--5107898 Score: 1641
Period size: 251 Copynumber: 3.9 Consensus size: 252
5106906 GAACAAATGT
* *
5106916 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
1 AATGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
* *
5106981 TCATTGAATTTGAAAGATGAATTTGCTAATAGAATCTTCTGGAAGTGTTCTTTGAGTTATTTGAT
66 TCATTGAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGAT
*
5107046 CTGGTTTGGT-AAAAACCAATTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAG
131 CTGGTTTGGTAAAAAACCAATTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAG
* *
5107110 TGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAATTATTGAATTTGGAAGAGG
196 TGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAGTTATTGAATTTGAAAGAGG
* *
5107168 AATGTGCTAATAGCATCTTATGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
* * *
5107233 TTATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TCATTGAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGAT
* *
5107298 CTGGTTTGGT-AAAAACCAATTATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTTTGGAAG
131 CTGGTTTGGTAAAAAACCAATTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAG
5107362 TGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGG
196 TGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGG
*
5107419 AATGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
* *
5107484 TTATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA-TTGAT
66 TCATTGAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGAT
*
5107548 CTGGTTTGGTAAAAAACCAATTATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAG
131 CTGGTTTGGTAAAAAACCAATTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAG
5107613 TGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGG
196 TGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGG
* *
5107670 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
*
5107734 TCATTGAATTTGAAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGAT
66 TCATTGAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGAT
* * *
5107799 CTGGTTTGGTATGAACCACAAAACCAGTTATTGAATTTGGAATAGGAATGTGCTCATAGCATCTT
131 CTGGTTTGG--T--A--A-AAAACCAATTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTT
*
5107864 CTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTG
189 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
5107899 ATATAAAACC
Statistics
Matches: 694, Mismatches: 28, Indels: 12
0.95 0.04 0.02
Matches are distributed among these distances:
250 77 0.11
251 326 0.47
252 212 0.31
253 1 0.00
255 1 0.00
257 1 0.00
258 76 0.11
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (252 bp):
AATGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
TCATTGAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGAT
CTGGTTTGGTAAAAAACCAATTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAG
TGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGG
Found at i:5108337 original size:52 final size:52
Alignment explanation
Indices: 5108275--5108375 Score: 202
Period size: 52 Copynumber: 1.9 Consensus size: 52
5108265 TATCGATATC
5108275 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
1 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
5108327 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCA
1 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCA
5108376 CAATTAACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (52 bp):
TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
Found at i:5108875 original size:113 final size:113
Alignment explanation
Indices: 5108677--5109195 Score: 995
Period size: 113 Copynumber: 4.6 Consensus size: 113
5108667 GCAAAGATTT
5108677 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
5108742 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
*
5108790 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
5108855 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
* *
5108903 AAATCCATCACTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
5108968 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
*
5109016 AAATCCATCACTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
5109081 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
5109129 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
5109193 AAG
66 AAG
5109196 AGCTTATTCA
Statistics
Matches: 402, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
112 33 0.08
113 369 0.92
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
Found at i:5109449 original size:3 final size:3
Alignment explanation
Indices: 5109437--5109516 Score: 90
Period size: 3 Copynumber: 26.7 Consensus size: 3
5109427 TTAATGTTAT
* * * *
5109437 TTA TTA -TA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
5109484 TAA TTA TTA TTA TTA TTA TTA ATA TATA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT
5109517 TAATATTACA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.93
4 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:5112002 original size:12 final size:12
Alignment explanation
Indices: 5111965--5112075 Score: 56
Period size: 12 Copynumber: 9.3 Consensus size: 12
5111955 ATGATTTAAG
5111965 GCATGAAAGGAT
1 GCATGAAAGGAT
**
5111977 GCCAT-AAAAAAT
1 G-CATGAAAGGAT
5111989 GCATGAAAGGAT
1 GCATGAAAGGAT
*
5112001 GCAT-TAA-G--
1 GCATGAAAGGAT
5112009 GCATGAAAGGAT
1 GCATGAAAGGAT
*
5112021 GCCAT--AAGTAT
1 G-CATGAAAGGAT
5112032 AAGGCATGAAAGGAT
1 ---GCATGAAAGGAT
* **
5112047 GCCATAAAAAAAT
1 G-CATGAAAGGAT
5112060 GCATGAAAGGAT
1 GCATGAAAGGAT
5112072 GCAT
1 GCAT
5112076 TAAGGCATGA
Statistics
Matches: 72, Mismatches: 14, Indels: 26
0.64 0.12 0.23
Matches are distributed among these distances:
8 4 0.06
9 2 0.03
10 2 0.03
11 10 0.14
12 30 0.42
13 18 0.25
14 1 0.01
15 5 0.07
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.18
Consensus pattern (12 bp):
GCATGAAAGGAT
Found at i:5112079 original size:71 final size:70
Alignment explanation
Indices: 5111962--5112184 Score: 319
Period size: 71 Copynumber: 3.2 Consensus size: 70
5111952 ATGATGATTT
5111962 AAGGCATGAAAGGATGCCATAAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
1 AAGGCATGAAAGGATGCCATAAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
*
5112027 AGTAT
66 AGTAA
5112032 AAGGCATGAAAGGATGCCATAAAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
1 AAGGCATGAAAGGATGCCAT-AAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
5112097 AAGTAA
65 AAGTAA
* * * * * *
5112103 AATGAATGAAATGATG-CATTAAGAA---ATGAAAGGATGTATTAAGGCATGAAAGGATGCCATA
1 AAGGCATGAAAGGATGCCATAAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
*
5112164 AATAA
66 AGTAA
**
5112169 AATACATGAAAGGATG
1 AAGGCATGAAAGGATG
5112185 TACTAGGGCA
Statistics
Matches: 141, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
66 52 0.37
69 4 0.03
70 23 0.16
71 62 0.44
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.19
Consensus pattern (70 bp):
AAGGCATGAAAGGATGCCATAAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
AGTAA
Found at i:5112089 original size:45 final size:46
Alignment explanation
Indices: 5112031--5112138 Score: 164
Period size: 46 Copynumber: 2.4 Consensus size: 46
5112021 GCCATAAGTA
*
5112031 TAAGGCATGAAAGGATGCCATAA-AAAAATGCATGAAAGGATGCAT
1 TAAGGCATGAAAGGATGCCATAAGAAAAATGAATGAAAGGATGCAT
* *
5112076 TAAGGCATGAAAGGATGCCATAAGTAAAATGAATGAAATGATGCAT
1 TAAGGCATGAAAGGATGCCATAAGAAAAATGAATGAAAGGATGCAT
**
5112122 TAAGAAATGAAAGGATG
1 TAAGGCATGAAAGGATG
5112139 TATTAAGGCA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 23 0.40
46 34 0.60
ACGTcount: A:0.47, C:0.08, G:0.25, T:0.19
Consensus pattern (46 bp):
TAAGGCATGAAAGGATGCCATAAGAAAAATGAATGAAAGGATGCAT
Found at i:5112118 original size:26 final size:25
Alignment explanation
Indices: 5111962--5112184 Score: 166
Period size: 20 Copynumber: 9.6 Consensus size: 25
5111952 ATGATGATTT
5111962 AAGGCATGAAAGGATGCCATAA-AA
1 AAGGCATGAAAGGATGCCATAATAA
*
5111986 AATGCATGAAAGGATG-CAT--T--
1 AAGGCATGAAAGGATGCCATAATAA
*
5112006 AAGGCATGAAAGGATGCCATAAGTAT
1 AAGGCATGAAAGGATGCCATAA-TAA
*
5112032 AAGGCATGAAAGGATGCCATAAAAA
1 AAGGCATGAAAGGATGCCATAATAA
*
5112057 AATGCATGAAAGGATG-CAT--T--
1 AAGGCATGAAAGGATGCCATAATAA
5112077 AAGGCATGAAAGGATGCCATAAGTAA
1 AAGGCATGAAAGGATGCCATAA-TAA
* * *
5112103 AATGAATGAAATGATG-CAT--TAA
1 AAGGCATGAAAGGATGCCATAATAA
*
5112125 GAA---ATGAAAGGATG---T-AT-T
1 -AAGGCATGAAAGGATGCCATAATAA
5112143 AAGGCATGAAAGGATGCCATAAATAA
1 AAGGCATGAAAGGATGCCAT-AATAA
**
5112169 AATACATGAAAGGATG
1 AAGGCATGAAAGGATG
5112185 TACTAGGGCA
Statistics
Matches: 160, Mismatches: 15, Indels: 46
0.72 0.07 0.21
Matches are distributed among these distances:
17 2 0.01
18 1 0.01
19 1 0.01
20 51 0.32
21 6 0.04
22 3 0.02
23 6 0.04
24 20 0.12
25 21 0.13
26 49 0.31
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.19
Consensus pattern (25 bp):
AAGGCATGAAAGGATGCCATAATAA
Found at i:5112178 original size:46 final size:46
Alignment explanation
Indices: 5112128--5112217 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
5112118 GCATTAAGAA
*
5112128 ATGAAAGGATGTATTAAGGCATGAAAGGATGCCATAAATAAAATAC
1 ATGAAAGGATGTACTAAGGCATGAAAGGATGCCATAAATAAAATAC
* *
5112174 ATGAAAGGATGTACTAGGGCATGAAATGATGCCATAAATAAAAT
1 ATGAAAGGATGTACTAAGGCATGAAAGGATGCCATAAATAAAAT
5112218 GAAATTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (46 bp):
ATGAAAGGATGTACTAAGGCATGAAAGGATGCCATAAATAAAATAC
Found at i:5112679 original size:68 final size:68
Alignment explanation
Indices: 5112580--5112834 Score: 343
Period size: 68 Copynumber: 3.8 Consensus size: 68
5112570 CAAGATTAAT
* * * *
5112580 GGCCTAACTGAGCAATTGGCAGAA-AGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGGCT
1 GGCCTAACTGTGCATTTGACAGAACA-ATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGGCT
5112644 TTGA
65 TTGA
* * *
5112648 GGCCTAACTGTGCATTTGACATAACAATGTCAATTATGCCAGTTAGATGAAAGACCAAGTGGCTT
1 GGCCTAACTGTGCATTTGACAGAACAATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGGCTT
5112713 TGA
66 TGA
* * * **
5112716 GGCCTAACTCTGCATTTGATAGAACGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTTCCTT
1 GGCCTAACTGTGCATTTGACAGAACAATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGGCTT
*
5112781 TGC
66 TGA
* *
5112784 GGCCTAACTGTGCATTTGACAGAA-ATGTGTCAATTATGTCAGTTAGATGAA
1 GGCCTAACTGTGCATTTGACAGAACA-ATGTCAATTATGCCAGTTAGATGAA
5112835 CGGAGAAACA
Statistics
Matches: 164, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
68 163 0.99
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAACAATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGGCTT
TGA
Found at i:5112872 original size:29 final size:29
Alignment explanation
Indices: 5112840--5112915 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
5112830 ATGAACGGAG
*
5112840 AAACACTGTTGAGTAAAAGATGAAAGGTC
1 AAACACTGTTGAGTAAAAGATGAAAGATC
* *
5112869 AAACACTGTTGAGTAAAAGATGAACGATT
1 AAACACTGTTGAGTAAAAGATGAAAGATC
*
5112898 AAACATTGTTGAGTAAAA
1 AAACACTGTTGAGTAAAA
5112916 TAATAATGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (29 bp):
AAACACTGTTGAGTAAAAGATGAAAGATC
Found at i:5117187 original size:26 final size:26
Alignment explanation
Indices: 5117157--5117321 Score: 107
Period size: 26 Copynumber: 7.0 Consensus size: 26
5117147 AATTAGATTG
*
5117157 GCATGAAATGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
*
5117183 GCATGAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
5117203 GCATGGAAA-GATGCCATAAATAAAAT
1 GCAT-GAAAGGATGCCATAAATAAAAT
* *
5117229 GCATAAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
* * *
5117249 GAATGAAAAGAGGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
* *
5117275 GCATGAAAAGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
5117295 GCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
5117321 G
1 G
5117322 AAATTTAATG
Statistics
Matches: 104, Mismatches: 15, Indels: 40
0.65 0.09 0.25
Matches are distributed among these distances:
20 35 0.34
21 13 0.12
22 3 0.03
24 3 0.03
25 12 0.12
26 38 0.37
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.19
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAAATAAAAT
Found at i:5117223 original size:46 final size:46
Alignment explanation
Indices: 5117156--5117321 Score: 262
Period size: 46 Copynumber: 3.6 Consensus size: 46
5117146 TAATTAGATT
*
5117156 GGCATGAAATGATGCCATAAATAAAATGCATGAAAGGATGCATTAA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAA
*
5117202 GGCATGGAAA-GATGCCATAAATAAAATGCATAAAAGGATGCATTAA
1 GGCAT-GAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAA
* * * *
5117248 GGAATGAAAAGAGGCCATAAATAAAATGCATGAAAAGATGCATTAA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAA
5117294 GGCATGAAAGGATGCCATAAATAAAATG
1 GGCATGAAAGGATGCCATAAATAAAATG
5117322 AAATTTAATG
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 4 0.04
46 102 0.93
47 4 0.04
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.19
Consensus pattern (46 bp):
GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAA
Found at i:5117300 original size:20 final size:20
Alignment explanation
Indices: 5117183--5117308 Score: 65
Period size: 20 Copynumber: 5.7 Consensus size: 20
5117173 TAAATAAAAT
*
5117183 GCATGAAAGGATGCATTAAG
1 GCATGAAAAGATGCATTAAG
* *
5117203 GCATGGAAAGATGCCATAAATAAAAT
1 GCATGAAAAGATG-CAT---T--AAG
5117229 GCAT-AAAAGGATGCATTAAG
1 GCATGAAAA-GATGCATTAAG
* * *
5117249 GAATGAAAAGAGGCCATAAATAAAAT
1 GCATGAAAAGATG-CAT---T--AAG
5117275 GCATGAAAAGATGCATTAAG
1 GCATGAAAAGATGCATTAAG
*
5117295 GCATGAAAGGATGC
1 GCATGAAAAGATGC
5117309 CATAAATAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
20 34 0.43
21 10 0.12
22 2 0.03
24 2 0.03
25 9 0.11
26 23 0.29
ACGTcount: A:0.47, C:0.10, G:0.25, T:0.18
Consensus pattern (20 bp):
GCATGAAAAGATGCATTAAG
Found at i:5117933 original size:67 final size:68
Alignment explanation
Indices: 5117687--5117940 Score: 300
Period size: 68 Copynumber: 3.8 Consensus size: 68
5117677 CAAGATTAAT
* * * * *
5117687 GGCCTAACTGAGCAATTGGCAGAAAAGAGTCAATTATGCCAATTAGATGAAAGGCTAAGTGGCTT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
5117752 TGA
66 TGA
* * * * *
5117755 GGCCTAACTGTGCATTTGACACAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAGTGCATT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
5117820 TGCA
66 TG-A
* * * * *
5117824 -GTCGAACTGTGCATTTGAG-AGAAAGATGTCAATTATGACAGTTAGATGAAA-GCTAAGTGCCT
1 GGCCTAACTGTGCAATTG-GCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
5117886 TTGA
65 TTGA
* *
5117890 GGCCTAACAAG-GCAATTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAA
1 GGCCTAAC-TGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
5117941 CAACAAAACA
Statistics
Matches: 156, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
66 2 0.01
67 52 0.33
68 101 0.65
69 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (68 bp):
GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:5117978 original size:29 final size:29
Alignment explanation
Indices: 5117946--5118023 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
5117936 ATGAACAACA
*
5117946 AAACACTATTGAGTAAAAGATGAAAGGTC
1 AAACACTGTTGAGTAAAAGATGAAAGGTC
* *
5117975 AAACACTGTTGAGTAAAAGATGAACGGTT
1 AAACACTGTTGAGTAAAAGATGAAAGGTC
5118004 AAACACTGTTGAGTAAAAGA
1 AAACACTGTTGAGTAAAAGA
5118024 ATAATGGACT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (29 bp):
AAACACTGTTGAGTAAAAGATGAAAGGTC
Done.