Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 84 of 129
Found at i:13519122 original size:30 final size:30
Alignment explanation
Indices: 13519058--13519122 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
13519048 TAAATGATTG
*
13519058 AAAATAAATATTTAAATATTTAATGAAATT
1 AAAATAAATATTTAAATATTTAATGAAATA
* *
13519088 AAAATAAATATTTAAA-ATTTTGATTAAATA
1 AAAATAAATATTTAAATA-TTTAATGAAATA
13519118 AAAAT
1 AAAAT
13519123 TGCTAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAATAAATATTTAAATATTTAATGAAATA
Found at i:13519358 original size:3 final size:3
Alignment explanation
Indices: 13519350--13519450 Score: 118
Period size: 3 Copynumber: 34.7 Consensus size: 3
13519340 TTTTTAGGTG
* * * * *
13519350 TAT TAT TAT TAT TAT TAT TGT TGT TGT TAT TGT TAC TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
13519397 TAT TA- TAT TA- TAT TAC AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13519443 TAT TAT TA
1 TAT TAT TA
13519451 ATCAGTGTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
2 6 0.07
3 79 0.93
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:13519740 original size:22 final size:24
Alignment explanation
Indices: 13519699--13519757 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
13519689 AGAAAGGCAC
*
13519699 GAGTTAATTTTTGGAGAAAGA-AG
1 GAGTTAATTTTTGCAGAAAGATAG
* *
13519722 GAGTGAATTTTTGCA-AAAGATAT
1 GAGTTAATTTTTGCAGAAAGATAG
13519745 GAGTTAATTTTTG
1 GAGTTAATTTTTG
13519758 GGAAGAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (24 bp):
GAGTTAATTTTTGCAGAAAGATAG
Found at i:13519763 original size:22 final size:21
Alignment explanation
Indices: 13519699--13519764 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 21
13519689 AGAAAGGCAC
13519699 GAGTTAATTTTTGGAGAAAGAAG
1 GAGTTAATTTTTGG-G-AAGAAG
* ** *
13519722 GAGTGAATTTTTGCAAAAGATAT
1 GAGTTAATTTTTG-GGAAGA-AG
13519745 GAGTTAATTTTTGGGAAGAA
1 GAGTTAATTTTTGGGAAGAA
13519765 ATATTTTTGG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.03
22 8 0.24
23 25 0.74
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (21 bp):
GAGTTAATTTTTGGGAAGAAG
Found at i:13519843 original size:20 final size:21
Alignment explanation
Indices: 13519819--13519866 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
13519809 ATTTATTTGG
*
13519819 GTTTGAATTTTTGGATTTCAA
1 GTTTGAAGTTTTGGATTTCAA
*
13519840 -TTTGAAGTTTTGGATTTGAA
1 GTTTGAAGTTTTGGATTTCAA
13519860 GTTTGAA
1 GTTTGAA
13519867 AATATGAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (21 bp):
GTTTGAAGTTTTGGATTTCAA
Found at i:13523653 original size:451 final size:451
Alignment explanation
Indices: 13522811--13523717 Score: 1566
Period size: 451 Copynumber: 2.0 Consensus size: 451
13522801 GATAGTGTAA
* * *
13522811 AGCTGAATAGTTCATTCTTATAATACACAGGCTTATCCAATTTAATTGCTTATTTAAAGAACCTA
1 AGCTGAATAGTTCATTCTTATAACACACAGGCTTATCCAATTTAATTACTTATTTAAAGAAACTA
* *
13522876 AACCATTTTTAAAAAATAATGGCATAATCAAGGCTTAAAAGAAGCCCAGAAGGGTGAGCCTTGGA
66 AAACATTTTAAAAAAATAATGGCATAATCAAGGCTTAAAAGAAGCCCAGAAGGGTGAGCCTTGGA
* *
13522941 TCATTTATTGATTAAGTCACTCAAGGATATTTGATTTGGAAAGCCAAGAAAAGTAAGGAGGTGGC
131 TCATTTATTGATTAAGTCACTCAAGGATATTTGATTTAGAAAGCCAAGAAAAGTAAAGAGGTGGC
*
13523006 ACCTATGTTCAGAGACCAATTAGTGAATCAAGAGTTGGATAATATGCCCTCAGAGTCAGAACTTA
196 ACCTATGTTCAGAGACCAATCAGTGAATCAAGAGTTGGATAATATGCCCTCAGAGTCAGAACTTA
* * *
13523071 CAAGAAAGGAACATGAAGTTGAGAAAGAAAAATTGAAACAAGAAATTCTAAGGCTTTATGAAGAA
261 CAAGAAAGGAACATGAAGTTAAGAAAGAAAAACTGAAACAAGAAATTCTAAGGCTTTAGGAAGAA
13523136 AAAAAATAATGGAAAGACAAAGCAAAAAATTAGAGGTTCAAATCCATAAGATTTTTAAGGAGTGC
326 AAAAAATAATGGAAAGACAAAGCAAAAAATTAGAGGTTCAAATCCATAAGATTTTTAAGGAGTGC
* * *
13523201 AATATAAGCAAGACTCAAAAGGTTATAAGAGAATGGGATGATACCCTTAAGGAGCTGATGG
391 AATATAAGCAAGACTCAAAAGGTTATAAAAGAACGGGATGATACCCTTAAGGAGCTAATGG
*
13523262 AGCTGAATAGTTCATTCTTATAACACACAGGCTTATCCAATTTAATTACTTATTTAAAGAAAGTA
1 AGCTGAATAGTTCATTCTTATAACACACAGGCTTATCCAATTTAATTACTTATTTAAAGAAACTA
* *
13523327 AAACATTTTAAAAAAATAATGGCATAATCAAGGCTTAGAAGAAGCCTAGAAGGGTGAGCCTTGGA
66 AAACATTTTAAAAAAATAATGGCATAATCAAGGCTTAAAAGAAGCCCAGAAGGGTGAGCCTTGGA
*
13523392 TCATTTATTGATTAAGTCACTCAAGGATATTTGATTTAGAGAGCCAAGAAAAGTAAAGAGGTGGC
131 TCATTTATTGATTAAGTCACTCAAGGATATTTGATTTAGAAAGCCAAGAAAAGTAAAGAGGTGGC
*
13523457 A-CTATGTTCAGAGACCAATCAGTGAATCAGGAGTTGGATAATATGCCCTCAGAGTCAGAACTTA
196 ACCTATGTTCAGAGACCAATCAGTGAATCAAGAGTTGGATAATATGCCCTCAGAGTCAGAACTTA
13523521 CAAGAAAGGAACATGAAGTTAAGAAAGAAAAACTGAAACAAGAAATTCTAAGGCTTTAGGAAGAA
261 CAAGAAAGGAACATGAAGTTAAGAAAGAAAAACTGAAACAAGAAATTCTAAGGCTTTAGGAAGAA
** *
13523586 AAGGAATAATGGAGAGACAAA-CTAAAAAAATTAGAGGTTCAAATCCATAAGATTTTTAAGGAGT
326 AAAAAATAATGGAAAGACAAAGC--AAAAAATTAGAGGTTCAAATCCATAAGATTTTTAAGGAGT
* *
13523650 GCAATATAAGCAAGACTCAAAAGGTTATAAAAGAACGGGATGATGCCTTTAAGGAGCTAATGG
389 GCAATATAAGCAAGACTCAAAAGGTTATAAAAGAACGGGATGATACCCTTAAGGAGCTAATGG
13523713 AGCTG
1 AGCTG
13523718 CAACAAGAAC
Statistics
Matches: 430, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
449 1 0.00
450 141 0.33
451 288 0.67
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.25
Consensus pattern (451 bp):
AGCTGAATAGTTCATTCTTATAACACACAGGCTTATCCAATTTAATTACTTATTTAAAGAAACTA
AAACATTTTAAAAAAATAATGGCATAATCAAGGCTTAAAAGAAGCCCAGAAGGGTGAGCCTTGGA
TCATTTATTGATTAAGTCACTCAAGGATATTTGATTTAGAAAGCCAAGAAAAGTAAAGAGGTGGC
ACCTATGTTCAGAGACCAATCAGTGAATCAAGAGTTGGATAATATGCCCTCAGAGTCAGAACTTA
CAAGAAAGGAACATGAAGTTAAGAAAGAAAAACTGAAACAAGAAATTCTAAGGCTTTAGGAAGAA
AAAAAATAATGGAAAGACAAAGCAAAAAATTAGAGGTTCAAATCCATAAGATTTTTAAGGAGTGC
AATATAAGCAAGACTCAAAAGGTTATAAAAGAACGGGATGATACCCTTAAGGAGCTAATGG
Found at i:13526836 original size:92 final size:90
Alignment explanation
Indices: 13526675--13526852 Score: 248
Period size: 92 Copynumber: 2.0 Consensus size: 90
13526665 GATGTCAGCT
* ** *
13526675 AGAATCTCTTTGTTGTCACTACTGTTAATTCTAAATCACATGCAATGCTTTATTAAAAGTGTTGA
1 AGAATCTCCTTGTTGTCACTACTGTTAATTCTAAATCACATGCAACACTTTATTAAAAGTGCTGA
13526740 ATCGGGCCTATGTGGCACATAGGTC
66 ATCGGGCCTATGTGGCACATAGGTC
** * * *
13526765 AGAATCTCCTTGTTGTCACTGTTGTTGAATTCTAAATCACATTGCAACATTTTATTGAAGGTGCT
1 AGAATCTCCTTGTTGTCACTACTGTT-AATTCTAAATCACA-TGCAACACTTTATTAAAAGTGCT
*
13526830 GAATCGGGCTTATGTGGCACATA
64 GAATCGGGCCTATGTGGCACATA
13526853 ATATGTCTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
90 23 0.30
91 14 0.18
92 39 0.51
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (90 bp):
AGAATCTCCTTGTTGTCACTACTGTTAATTCTAAATCACATGCAACACTTTATTAAAAGTGCTGA
ATCGGGCCTATGTGGCACATAGGTC
Found at i:13531930 original size:16 final size:16
Alignment explanation
Indices: 13531874--13531932 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
13531864 GTTGCCATAA
13531874 AAATATAAAAAATTA-T
1 AAATAT-AAAAATTATT
* * *
13531890 ATATATTAAAATT-TA
1 AAATATAAAAATTATT
*
13531905 AAAT-TTAAAATTATT
1 AAATATAAAAATTATT
13531920 AAATATAAAAATT
1 AAATATAAAAATT
13531933 GTTACATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 8 0.24
15 14 0.41
16 12 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAAAAATTATT
Found at i:13531930 original size:23 final size:23
Alignment explanation
Indices: 13531874--13531932 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
13531864 GTTGCCATAA
* *
13531874 AAATATAAAAAATTATATATATT
1 AAATATAAAAATTTAAATATATT
*
13531897 AAA-ATTTAAAATTTAAA-ATTATT
1 AAATA-TAAAAATTTAAATA-TATT
13531920 AAATATAAAAATT
1 AAATATAAAAATT
13531933 GTTACATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 2 0.07
23 26 0.90
24 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATATAAAAATTTAAATATATT
Found at i:13532870 original size:129 final size:129
Alignment explanation
Indices: 13532587--13533023 Score: 432
Period size: 131 Copynumber: 3.4 Consensus size: 129
13532577 TTAATTTACT
* * * * ** * *
13532587 ATATGTAATTTCATAGAAGTATTATAGT-AATT-TTCATAAAATACCACATATCAAAATTTCATG
1 ATATGTAATTTAATAGGAGAATTATAATAAATTATAAATAAAATACCACATATCAAATTTTTATG
* * * *
13532650 AAGCAATTGTAAGGGTACTTTAGTAA-ATAATATATAGTTAATTTTATATTATATCAAAATTTA
66 AAGCAATGGTAAGGGTATTTTAGTAATATAATATATAATTAATTTTATATTATATTAAAATTTA
* * *
13532713 ATATGTAATTTAATAAGGA-TATTATAATAAATTCTAAATAAAATGCCACATATCAAATTTTTAT
1 ATATGTAATTTAAT-AGGAGAATTATAATAAATTATAAATAAAATACCACATATCAAATTTTTAT
* * * * * * * *
13532777 GAAGCAAAGGCAAGGGTATTTTAGTAATTTAATAAATAAATAATTTTATATTGTGTTAAAATTTC
65 GAAGCAATGGTAAGGGTATTTTAGTAATATAATATATAATTAATTTTATATTATATTAAAATTTA
* * *** * * *
13532842 ATATATAATTTAATAGGAGAATTATAATAATTATTTTTTTTAAAATACCATATGTCAAATTTATA
1 ATATGTAATTTAATAGGAGAATTATAATAA--ATTATAAATAAAATACCACATATCAAATTTTTA
** * * *
13532907 TGAAGCAATGGTAATCGTATTTTAGTAATATAATATGTGATTAGTTTTATATTATATTAAAATTT
64 TGAAGCAATGGTAAGGGTATTTTAGTAATATAATATATAATTAATTTTATATTATATTAAAATTT
*
13532972 G
129 A
* * * * * *
13532973 ATATGTAATCTAATAAGAGAATTATAGTAATTTAAAAATAAAATGCCACAT
1 ATATGTAATTTAATAGGAGAATTATAATAAATTATAAATAAAATACCACAT
13533024 GTTCAACTTC
Statistics
Matches: 249, Mismatches: 55, Indels: 11
0.79 0.17 0.03
Matches are distributed among these distances:
126 21 0.08
127 7 0.03
128 52 0.21
129 65 0.26
131 104 0.42
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.40
Consensus pattern (129 bp):
ATATGTAATTTAATAGGAGAATTATAATAAATTATAAATAAAATACCACATATCAAATTTTTATG
AAGCAATGGTAAGGGTATTTTAGTAATATAATATATAATTAATTTTATATTATATTAAAATTTA
Found at i:13533195 original size:28 final size:28
Alignment explanation
Indices: 13533155--13533208 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
13533145 AAGGCCCAAG
13533155 TTCAATTGGACTTTAAGCCCAATTTCAA
1 TTCAATTGGACTTTAAGCCCAATTTCAA
13533183 TTCAATTGGACTTTAAGCCCAATTTC
1 TTCAATTGGACTTTAAGCCCAATTTC
13533209 GATCAGGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (28 bp):
TTCAATTGGACTTTAAGCCCAATTTCAA
Found at i:13533358 original size:9 final size:9
Alignment explanation
Indices: 13533332--13533360 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
13533322 AATGAAAATG
13533332 AAAATGAAA
1 AAAATGAAA
13533341 AAAAT-AAA
1 AAAATGAAA
13533349 AAAATGAAA
1 AAAATGAAA
13533358 AAA
1 AAA
13533361 CAAAAGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (9 bp):
AAAATGAAA
Found at i:13533474 original size:30 final size:30
Alignment explanation
Indices: 13533425--13533508 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
13533415 TGCACGGCAC
* *
13533425 CACTGCCA-CCTTTTGTTCACCCCTACATA
1 CACTGCCACCCCTATGTTCACCCCTACATA
* *
13533454 CACTGCCACCCCTATGTTCACCCATGCATA
1 CACTGCCACCCCTATGTTCACCCCTACATA
* * * *
13533484 CATTGCCACCTCTCTGTTCATCCCT
1 CACTGCCACCCCTATGTTCACCCCT
13533509 GTGCCCCTGT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 8 0.18
30 37 0.82
ACGTcount: A:0.19, C:0.43, G:0.08, T:0.30
Consensus pattern (30 bp):
CACTGCCACCCCTATGTTCACCCCTACATA
Found at i:13535418 original size:17 final size:19
Alignment explanation
Indices: 13535384--13535419 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
13535374 GAATTATCTT
13535384 TTTTATAAATTTTAATTAA
1 TTTTATAAATTTTAATTAA
13535403 TTTTA-AAATTTT-ATTAA
1 TTTTATAAATTTTAATTAA
13535420 AATGACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATAAATTTTAATTAA
Found at i:13536156 original size:5 final size:5
Alignment explanation
Indices: 13536146--13536171 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13536136 TATGTGTAAT
13536146 ACAAA ACAAA ACAAA ACAAA ACAAA A
1 ACAAA ACAAA ACAAA ACAAA ACAAA A
13536172 ATCTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:13542416 original size:14 final size:14
Alignment explanation
Indices: 13542382--13542419 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
13542372 ATTTTCATTT
13542382 TCATTTTGCTTTCCA
1 TCATTTT-CTTTCCA
*
13542397 T-TTTTTCTTTCCA
1 TCATTTTCTTTCCA
13542410 TCATTTTCTT
1 TCATTTTCTT
13542420 GTCATTCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.40
14 11 0.55
15 1 0.05
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (14 bp):
TCATTTTCTTTCCA
Found at i:13546829 original size:49 final size:49
Alignment explanation
Indices: 13546775--13546891 Score: 189
Period size: 49 Copynumber: 2.4 Consensus size: 49
13546765 GTTTCAAACA
* * *
13546775 AAGATACAATTTTAAAGTTGTTGAGCCTCTGATGAGAGGATCTTTTTTC
1 AAGATAGAATTTTAAAGTTGTTGAGCCTCTGATGAGAGGAGCCTTTTTC
* *
13546824 AAGATAGAATTTTAAAGTTGTTGAGCCTCTGTTGAGGGGAGCCTTTTTC
1 AAGATAGAATTTTAAAGTTGTTGAGCCTCTGATGAGAGGAGCCTTTTTC
13546873 AAGATAGAATTTTAAAGTT
1 AAGATAGAATTTTAAAGTT
13546892 TTTTCAAGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (49 bp):
AAGATAGAATTTTAAAGTTGTTGAGCCTCTGATGAGAGGAGCCTTTTTC
Found at i:13546898 original size:24 final size:24
Alignment explanation
Indices: 13546867--13546915 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13546857 GAGGGGAGCC
13546867 TTTTTCAAGATAGAATTTTAAAGT
1 TTTTTCAAGATAGAATTTTAAAGT
13546891 TTTTTCAAGATAGAATTTTAAAGT
1 TTTTTCAAGATAGAATTTTAAAGT
13546915 T
1 T
13546916 GTTGAGCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (24 bp):
TTTTTCAAGATAGAATTTTAAAGT
Found at i:13546899 original size:73 final size:73
Alignment explanation
Indices: 13546817--13546966 Score: 255
Period size: 73 Copynumber: 2.1 Consensus size: 73
13546807 TGAGAGGATC
* * * *
13546817 TTTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGTTGAGGGGAGCCTTTTTCAAGATAGAA
1 TTTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTATTGAGAGAAGCCTTTTCCAAGATAGAA
*
13546882 TTTTAAAG
66 TTTTAAAA
13546890 TTTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTATTGAGAGAAGCCTTTTCCAAGATAGAA
1 TTTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTATTGAGAGAAGCCTTTTCCAAGATAGAA
13546955 TTTTAAAA
66 TTTTAAAA
13546963 TTTT
1 TTTT
13546967 CGAGTCTCTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (73 bp):
TTTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTATTGAGAGAAGCCTTTTCCAAGATAGAA
TTTTAAAA
Found at i:13546976 original size:122 final size:121
Alignment explanation
Indices: 13546775--13547009 Score: 330
Period size: 122 Copynumber: 1.9 Consensus size: 121
13546765 GTTTCAAACA
* * * *
13546775 AAGATACAATTTTAAAGTTGTTGAGCCTCTGATGAGAGGATCTTTTTTCAAGATAGAATTTTAAA
1 AAGATACAATTTTAAAGTTGTTGAGCCTCTGATGAGAGAAGCCTTTTCCAAGATAGAATTTTAAA
* * * * *
13546840 GTTGTTGAGCCTCTGTTGAGGGGAGCCTTTTTCAAGATAGAATTTTAAAGTTTTTTC
66 ATTGTTGAGCCTCTGCTGAGAGGAGCATTTTTCAAGAGA-AATTTTAAAGTTTTTTC
*
13546897 AAGATAGAATTTTAAAGTTGTTGAGCCTCT-ATTGAGAGAAGCCTTTTCCAAGATAGAATTTTAA
1 AAGATACAATTTTAAAGTTGTTGAGCCTCTGA-TGAGAGAAGCCTTTTCCAAGATAGAATTTTAA
*
13546961 AATT-TTCGAGTCTCTGCTGAGAGGAGCATTTTTCAAGAGAAATTTTAAA
65 AATTGTT-GAGCCTCTGCTGAGAGGAGCATTTTTCAAGAGAAATTTTAAA
13547010 ATTATTGAGC
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
121 12 0.12
122 88 0.88
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (121 bp):
AAGATACAATTTTAAAGTTGTTGAGCCTCTGATGAGAGAAGCCTTTTCCAAGATAGAATTTTAAA
ATTGTTGAGCCTCTGCTGAGAGGAGCATTTTTCAAGAGAAATTTTAAAGTTTTTTC
Found at i:13546982 original size:49 final size:49
Alignment explanation
Indices: 13546891--13547167 Score: 314
Period size: 48 Copynumber: 5.7 Consensus size: 49
13546881 ATTTTAAAGT
** *
13546891 TTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTATTGAGAGAAGCC
1 TTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCC
* * * *
13546940 TTTTCCAAGATAGAATTTTAAAATT-TTCGAGTCTCTGCTGAGAGGAGCA
1 TTTTTCAAGATAGAATTTTAAAGTTGTT-GAGCCTCTGCTGAGAGGAGCC
* * * *
13546989 TTTTTCAAGAGA-AATTTTAAAATTATTGAGCCTCTGCTAAGAGGAGCC
1 TTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCC
* * *
13547037 TTTGTCAAGAT-GAATTTTAAAGTTGTTGAGCTTCTGCTGAGATGAG-C
1 TTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCC
* *
13547084 TTTTTCAAGATAGATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAG-C
1 TTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCC
* * *
13547132 TTTTT-AAAATAAAATTTTTTAAAGTTGTTAAGCCTC
1 TTTTTCAAGATAGAA--TTTTAAAGTTGTTGAGCCTC
13547168 GAGTAAGAGG
Statistics
Matches: 195, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
47 17 0.09
48 107 0.55
49 71 0.36
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (49 bp):
TTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCC
Found at i:13547433 original size:22 final size:22
Alignment explanation
Indices: 13547399--13547441 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13547389 GCCCAATTTC
* *
13547399 AATTCGATTGGGCTTTAAGCCT
1 AATTCGATCGGGCTTGAAGCCT
*
13547421 AATTTGATCGGGCTTGAAGCC
1 AATTCGATCGGGCTTGAAGCC
13547442 CATTTTGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (22 bp):
AATTCGATCGGGCTTGAAGCCT
Found at i:13547565 original size:11 final size:10
Alignment explanation
Indices: 13547548--13547581 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
13547538 AATGAAAATG
13547548 AAAAAAACAA
1 AAAAAAACAA
13547558 ACAAAAAACACA
1 A-AAAAAACA-A
13547570 AAAAAAACAA
1 AAAAAAACAA
13547580 AA
1 AA
13547582 GCTAAGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.18
11 16 0.73
12 2 0.09
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:13547710 original size:40 final size:40
Alignment explanation
Indices: 13547651--13547726 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
13547641 TGCCACCTTC
* * * *
13547651 TGTTCACCCTGTATTCACTGTCACCCC-CTGTTCACTCCA
1 TGTTCACCCTGCATACACTGCCACCCCTATGTTCACTCCA
13547690 TGTTCACCCCTGCATACACTGCCACCCCTATGTTCAC
1 TGTTCA-CCCTGCATACACTGCCACCCCTATGTTCAC
13547727 CCTTGCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 6 0.19
40 18 0.58
41 7 0.23
ACGTcount: A:0.17, C:0.42, G:0.11, T:0.30
Consensus pattern (40 bp):
TGTTCACCCTGCATACACTGCCACCCCTATGTTCACTCCA
Found at i:13547723 original size:30 final size:30
Alignment explanation
Indices: 13547689--13547745 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
13547679 TGTTCACTCC
13547689 ATGTTCACCCCTGCATACACTGCCACCCCT
1 ATGTTCACCCCTGCATACACTGCCACCCCT
* *
13547719 ATGTTCACCCTTGCATACATTGCCACC
1 ATGTTCACCCCTGCATACACTGCCACC
13547746 TCTCTATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.42, G:0.11, T:0.26
Consensus pattern (30 bp):
ATGTTCACCCCTGCATACACTGCCACCCCT
Found at i:13547761 original size:30 final size:30
Alignment explanation
Indices: 13547692--13547761 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
13547682 TCACTCCATG
* *
13547692 TTCACCCCTGCATACACTGCCACCCCTATG
1 TTCACCCTTGCATACACTGCCACCCCTATA
* * *
13547722 TTCACCCTTGCATACATTGCCACCTCTCTA
1 TTCACCCTTGCATACACTGCCACCCCTATA
*
13547752 TTCATCCTTG
1 TTCACCCTTG
13547762 TGCCCTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.41, G:0.09, T:0.31
Consensus pattern (30 bp):
TTCACCCTTGCATACACTGCCACCCCTATA
Found at i:13548593 original size:30 final size:31
Alignment explanation
Indices: 13548536--13548593 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
13548526 GTAAAAAAAT
* * *
13548536 TTATTTTTAATTTTTTTGAATATTATTTCTG
1 TTATTTTAAATTTTATTGAATAATATTTCTG
*
13548567 TTATTTTAAATTTTATT-ATTAATATTT
1 TTATTTTAAATTTTATTGAATAATATTT
13548594 ATGCATGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 8 0.35
31 15 0.65
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (31 bp):
TTATTTTAAATTTTATTGAATAATATTTCTG
Found at i:13548651 original size:26 final size:27
Alignment explanation
Indices: 13548622--13548680 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
13548612 AAAATTGCTA
* *
13548622 TAAAAATTTTTGT-TTTATAATATTTT
1 TAAAAATTTTTATAATTATAATATTTT
**
13548648 T-AAAATTTTTATAATTATGTTATTTT
1 TAAAAATTTTTATAATTATAATATTTT
13548674 TAAAAAT
1 TAAAAAT
13548681 AAACCTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 10 0.37
26 12 0.44
27 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (27 bp):
TAAAAATTTTTATAATTATAATATTTT
Found at i:13550867 original size:19 final size:19
Alignment explanation
Indices: 13550843--13550880 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13550833 TAAATACCTT
13550843 TGGATAACCCCCAAACTAA
1 TGGATAACCCCCAAACTAA
13550862 TGGATAACCCCCAAACTAA
1 TGGATAACCCCCAAACTAA
13550881 AGGAAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.16
Consensus pattern (19 bp):
TGGATAACCCCCAAACTAA
Found at i:13553558 original size:10 final size:10
Alignment explanation
Indices: 13553545--13553569 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13553535 AGCAAAACAC
13553545 AAAAAAAAGA
1 AAAAAAAAGA
13553555 AAAAAAAAGA
1 AAAAAAAAGA
13553565 AAAAA
1 AAAAA
13553570 GAAAATTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:13557166 original size:21 final size:21
Alignment explanation
Indices: 13557140--13557181 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13557130 GTTTAGGTAA
* *
13557140 AAAAAATTTTTTTTGAATTTTT
1 AAAAAA-TATTTTTAAATTTTT
13557162 AAAAAATATTTTTAAATTTT
1 AAAAAATATTTTTAAATTTT
13557182 ATTTTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AAAAAATATTTTTAAATTTTT
Found at i:13563635 original size:25 final size:25
Alignment explanation
Indices: 13563603--13563678 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
13563593 CACTAGTAAT
*
13563603 AATATAAAATAATAATAATAATAA-C
1 AATATAAAATAATAA-AATAAAAATC
* * *
13563628 ATTATAAAAAAATAACATAAAAATC
1 AATATAAAATAATAAAATAAAAATC
*
13563653 AATATAAAATAAATCAAAATCAAAAT
1 AATATAAAAT-AAT-AAAATAAAAAT
13563679 GAAAAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 6 0.15
25 22 0.55
26 3 0.08
27 9 0.22
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (25 bp):
AATATAAAATAATAAAATAAAAATC
Found at i:13563683 original size:22 final size:22
Alignment explanation
Indices: 13563636--13563683 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
13563626 ACATTATAAA
*
13563636 AAAATAACATAAAAATCAATAT
1 AAAATAACATAAAAATCAAAAT
*
13563658 AAAATAA-ATCAAAATCAAAAT
1 AAAATAACATAAAAATCAAAAT
13563679 GAAAA
1 -AAAA
13563684 AAAAAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAATAACATAAAAATCAAAAT
Found at i:13563695 original size:11 final size:12
Alignment explanation
Indices: 13563674--13563708 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13563664 AATCAAAATC
*
13563674 AAAATGAAAAAA
1 AAAAGGAAAAAA
*
13563686 AAAAAGAAAAAA
1 AAAAGGAAAAAA
13563698 AAAAGGAAAAA
1 AAAAGGAAAAA
13563709 CTTGCGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (12 bp):
AAAAGGAAAAAA
Found at i:13564478 original size:3 final size:3
Alignment explanation
Indices: 13564470--13564535 Score: 84
Period size: 3 Copynumber: 22.7 Consensus size: 3
13564460 TTTAAAGATC
*
13564470 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AA- ACAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
13564517 AAT TAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
13564536 AAAAGAACAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 5 0.09
3 51 0.89
4 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13572525 original size:25 final size:24
Alignment explanation
Indices: 13572489--13572547 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
13572479 TTATTATTGG
13572489 TAAA-ACTATGAA-AAATATATATTT
1 TAAATACTATGAAGAAATA-AT-TTT
*
13572513 TAAATACTTTGAATGAAATAATTTT
1 TAAATACTATGAA-GAAATAATTTT
13572538 TAAATA-TATG
1 TAAATACTATG
13572548 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 7 0.23
25 16 0.53
26 2 0.07
27 5 0.17
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (24 bp):
TAAATACTATGAAGAAATAATTTT
Found at i:13572850 original size:2 final size:2
Alignment explanation
Indices: 13572843--13572872 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13572833 TATAGTTCAC
13572843 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
13572873 TAATATGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13574471 original size:13 final size:13
Alignment explanation
Indices: 13574453--13574490 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
13574443 ATGAGTTAAT
13574453 AAAAATTAAAATC
1 AAAAATTAAAATC
13574466 AAAAATTAAAATC
1 AAAAATTAAAATC
*
13574479 AATAAAATAAAA
1 AA-AAATTAAAA
13574491 AATTTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATTAAAATC
Found at i:13574713 original size:12 final size:13
Alignment explanation
Indices: 13574686--13574710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13574676 CATTCTATCA
13574686 ATTAAAATTTTTT
1 ATTAAAATTTTTT
13574699 ATTAAAATTTTT
1 ATTAAAATTTTT
13574711 ATTTATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTAAAATTTTTT
Found at i:13575564 original size:13 final size:13
Alignment explanation
Indices: 13575536--13575575 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
13575526 ATTTGGTAAG
13575536 TTTTTTTTTT-TA
1 TTTTTTTTTTGTA
*
13575548 -TTTTTTGTTG-A
1 TTTTTTTTTTGTA
13575559 TTTTTTTTTTGTA
1 TTTTTTTTTTGTA
13575572 TTTT
1 TTTT
13575576 ATGATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 9 0.39
12 9 0.39
13 5 0.22
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTGTA
Found at i:13575580 original size:21 final size:22
Alignment explanation
Indices: 13575537--13575580 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13575527 TTTGGTAAGT
* *
13575537 TTTTTTTTTTATTTTTTGTTGA
1 TTTTTTTTTTATATTTTGATGA
*
13575559 TTTTTTTTTTGTATTTT-ATGA
1 TTTTTTTTTTATATTTTGATGA
13575580 T
1 T
13575581 ATTATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (22 bp):
TTTTTTTTTTATATTTTGATGA
Found at i:13575974 original size:13 final size:13
Alignment explanation
Indices: 13575956--13575993 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
13575946 GATTTATTTC
13575956 AATAATAAAAATA
1 AATAATAAAAATA
* *
13575969 AATAATGAAAATG
1 AATAATAAAAATA
13575982 AA-AATAAAAATA
1 AATAATAAAAATA
13575994 TTTATTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (13 bp):
AATAATAAAAATA
Found at i:13576130 original size:9 final size:9
Alignment explanation
Indices: 13576118--13576188 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
13576108 CAATAACAAA
13576118 AATAATTAT
1 AATAATTAT
13576127 AATAATTCAT
1 AATAATT-AT
*
13576137 AAATAATGAT
1 -AATAATTAT
*
13576147 AATAATAAT
1 AATAATTAT
* * *
13576156 AACAATAAC
1 AATAATTAT
*
13576165 AATAATCAT
1 AATAATTAT
13576174 AAATAATTTAT
1 -AATAA-TTAT
13576185 AATA
1 AATA
13576189 CTTTAAATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
9 28 0.56
10 13 0.26
11 9 0.18
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (9 bp):
AATAATTAT
Found at i:13577413 original size:101 final size:101
Alignment explanation
Indices: 13577302--13577492 Score: 249
Period size: 101 Copynumber: 1.9 Consensus size: 101
13577292 TTTTAAGAAA
** * * *
13577302 ATTCATTAAATTTTTCAATAGTTTGATAAGA-TCTAATTCAATATTTAAATCCTCCAATAGTTTG
1 ATTCATTAAATCCTCCAATAGTTTGATAAGACT-TAATTCAAGATTTAAATCATCCAATAGTTTG
*
13577366 GTAGGATTAAAAATTTTATTATTATTTTTTACAAAAC
65 GTAAGATTAAAAATTTTATTATTATTTTTTACAAAAC
* * * **
13577403 ATTCATTAAATCCTCCAATATTTTGGTAATACTTAATTCAAGATTTAAATCATTTAATAGTTTGG
1 ATTCATTAAATCCTCCAATAGTTTGATAAGACTTAATTCAAGATTTAAATCATCCAATAGTTTGG
* *
13577468 TAAGATTGAAATTTTTATTATTATT
66 TAAGATTAAAAATTTTATTATTATT
13577493 AAAAAGATTA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
101 75 0.99
102 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (101 bp):
ATTCATTAAATCCTCCAATAGTTTGATAAGACTTAATTCAAGATTTAAATCATCCAATAGTTTGG
TAAGATTAAAAATTTTATTATTATTTTTTACAAAAC
Found at i:13578662 original size:17 final size:17
Alignment explanation
Indices: 13578630--13578683 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
13578620 TAAAATTCTC
*
13578630 AAAGATTTCAAAATTCAT
1 AAAGGTTTC-AAATTCAT
* *
13578648 AGAGGTTTCAAATTCGT
1 AAAGGTTTCAAATTCAT
* *
13578665 AAAGGTTGCATATTCAT
1 AAAGGTTTCAAATTCAT
13578682 AA
1 AA
13578684 TGATTTACAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (17 bp):
AAAGGTTTCAAATTCAT
Found at i:13578836 original size:87 final size:87
Alignment explanation
Indices: 13578726--13578910 Score: 264
Period size: 87 Copynumber: 2.1 Consensus size: 87
13578716 ATAAGATTTT
* * * * *
13578726 AAAGATTCGCAAAATCTTCAAATTTGTAAAAATTTCAGGTTCGTAAAAATTTTCGAATTTACAAA
1 AAAGATTCGCAAAATCTTCAAATTTGCAAAAATTTCAAGTTCGCAAAAATTTTCAAATTCACAAA
*
13578791 AATTTTAGTTTTGCAAAAACTC
66 AATTTTAGTTTCGCAAAAACTC
* * *
13578813 AAA-AGTTCGCAAAATCTTCAAATTTGCAAGAATTTCAAGTTCGCAAGAATTTTCAAATTCGCAA
1 AAAGA-TTCGCAAAATCTTCAAATTTGCAAAAATTTCAAGTTCGCAAAAATTTTCAAATTCACAA
*
13578877 AAATTTTAGTTTCGCAAGAACTC
65 AAATTTTAGTTTCGCAAAAACTC
13578900 AAAGATTCGCA
1 AAAGATTCGCA
13578911 TGACTTTTAG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
86 1 0.01
87 84 0.98
88 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (87 bp):
AAAGATTCGCAAAATCTTCAAATTTGCAAAAATTTCAAGTTCGCAAAAATTTTCAAATTCACAAA
AATTTTAGTTTCGCAAAAACTC
Found at i:13578839 original size:35 final size:34
Alignment explanation
Indices: 13578800--13578879 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
13578790 AAATTTTAGT
13578800 TTTGCAAAAACTCAAAAGTTCGCAA-AATCTTCAAA
1 TTTGCAAAAACTC--AAGTTCGCAAGAATCTTCAAA
** *
13578835 TTTGCAAGAATTTCAAGTTCGCAAGAATTTTCAAA
1 TTTGCAA-AAACTCAAGTTCGCAAGAATCTTCAAA
*
13578870 TTCGCAAAAA
1 TTTGCAAAAA
13578880 TTTTAGTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
34 12 0.32
35 22 0.58
36 4 0.11
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.29
Consensus pattern (34 bp):
TTTGCAAAAACTCAAGTTCGCAAGAATCTTCAAA
Found at i:13578868 original size:18 final size:18
Alignment explanation
Indices: 13578815--13578896 Score: 82
Period size: 17 Copynumber: 4.7 Consensus size: 18
13578805 AAAAACTCAA
*
13578815 AAGTTCGCAA-AATCTTC
1 AAGTTCGCAAGAATTTTC
* *
13578832 AAATTTGCAAGAA-TTTC
1 AAGTTCGCAAGAATTTTC
13578849 AAGTTCGCAAGAATTTTC
1 AAGTTCGCAAGAATTTTC
* *
13578867 AAATTCGCAAAAATTTT-
1 AAGTTCGCAAGAATTTTC
13578884 -AGTTTCGCAAGAA
1 AAG-TTCGCAAGAA
13578897 CTCAAAGATT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
16 1 0.02
17 31 0.58
18 21 0.40
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (18 bp):
AAGTTCGCAAGAATTTTC
Found at i:13578882 original size:35 final size:34
Alignment explanation
Indices: 13578815--13578896 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
13578805 AAAAACTCAA
* *
13578815 AAGTTCGCAA-AATCTTCAAATTTGCAAGAATTT
1 AAGTTCGCAAGAATCTTCAAATTCGCAAAAATTT
*
13578848 CAAGTTCGCAAGAATTTTCAAATTCGCAAAAATTT
1 -AAGTTCGCAAGAATCTTCAAATTCGCAAAAATTT
*
13578883 TAGTTTCGCAAGAA
1 AAG-TTCGCAAGAA
13578897 CTCAAAGATT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 12 0.29
35 30 0.71
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (34 bp):
AAGTTCGCAAGAATCTTCAAATTCGCAAAAATTT
Found at i:13578984 original size:36 final size:35
Alignment explanation
Indices: 13578926--13579004 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
13578916 TTTAGATTCA
* * *
13578926 CAAG-ATTTTCAATTTCATAAGAATCCAAAGATTTT
1 CAAGAATTTTCAAATTCACAAGAA-CCAAAGATTTG
* *
13578961 CAAGAATTTTCAAATTCGCAAGAACGAAAGATTTG
1 CAAGAATTTTCAAATTCACAAGAACCAAAGATTTG
13578996 CAAGAATTT
1 CAAGAATTT
13579005 AGATTCGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 22 0.58
36 16 0.42
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (35 bp):
CAAGAATTTTCAAATTCACAAGAACCAAAGATTTG
Found at i:13579356 original size:135 final size:136
Alignment explanation
Indices: 13579194--13579457 Score: 318
Period size: 135 Copynumber: 1.9 Consensus size: 136
13579184 TTCTCATTCA
* *
13579194 AAAAATTTTAATATATCATAACCAAAATTAAAAAAATTCTCATCCAAAAAATTTAT-GGGTTTCA
1 AAAAACTTTAATATATCACAACCAAAATTAAAAAAATTCTCATCCAAAAAATTT-TGGGGTTTCA
* ** * * **
13579258 TAACCAAAAGTT-AAAGATTTTCCTT-TAAAAAACTTAGAGATTCACATTGAAAATTTCAAAAAT
65 CAACC-AAAGTTCAAAGATTCACATTCGAAAAAACTTAGAGATTCACATCCAAAATTTCAAAAAT
13579321 TTGCATTT
129 TTGCATTT
* * ** * *
13579329 AAAAACTTTAATATTTCACAACTAAAATTTTAAAAATTCTCATCTAAAAAATTTTGGGGTTTTAC
1 AAAAACTTTAATATATCACAACCAAAATTAAAAAAATTCTCATCCAAAAAATTTTGGGGTTTCAC
* * **
13579394 ATCCAAATTTCAAAGATTCACATTCGAAAAATTTTAGAGATTCACATCCAAAATTTCAAAAATT
66 AACCAAAGTTCAAAGATTCACATTCGAAAAAACTTAGAGATTCACATCCAAAATTTCAAAAATT
13579458 CATATTCGAA
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
134 6 0.06
135 67 0.63
136 34 0.32
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.34
Consensus pattern (136 bp):
AAAAACTTTAATATATCACAACCAAAATTAAAAAAATTCTCATCCAAAAAATTTTGGGGTTTCAC
AACCAAAGTTCAAAGATTCACATTCGAAAAAACTTAGAGATTCACATCCAAAATTTCAAAAATTT
GCATTT
Found at i:13579402 original size:90 final size:87
Alignment explanation
Indices: 13579308--13579609 Score: 225
Period size: 91 Copynumber: 3.3 Consensus size: 87
13579298 TTCACATTGA
*
13579308 AAATTTCAAAAATTTGCATTTAAAAACTTTAATATTTCACAACTAAAATTTTAAAAATTCTCA-T
1 AAATTTCAAAAATTT-CATTTAAAAACTTTAATA-TTCACATCTAAAATTTTAAAAATTCTCATT
*
13579372 CTAAAAAATTTTGGGGTTTTACATCC
64 C-AAAAAATTTT-GGGTTTCACATCC
* * * * * * *
13579398 AAATTTCAAAGATTCACATTCGAAAAATTTTAGAGATTCACATCCAAAATTTCAAAAATTCAT-A
1 AAATTTCAAAAATT-TCATT-TAAAAACTTTA-ATATTCACATCTAAAATTTTAAAAATTC-TCA
* * *
13579462 TTCGAAAAATTTTAGAGTTTCACATCT
62 TTCAAAAAATTTT-GGGTTTCACATCC
** * * * * *
13579489 AAAGTTTC-AAAGGTTCTTTTTATAAACTTT-ATGGCTTCACCTCTAAAATTTTAAAGATTCTCA
1 AAA-TTTCAAAAATTTC-ATTTAAAAACTTTAAT--ATTCACATCTAAAATTTTAAAAATTCTCA
*
13579552 TTTGAAAAAATTTTGGGTTTCACATCC
62 -TTCAAAAAATTTTGGGTTTCACATCC
* *
13579579 AAAATTTCAAATATTCTCATTCCAAAAACTT
1 -AAATTTCAAAAATT-TCATT-TAAAAACTT
13579610 ATTTAAACAA
Statistics
Matches: 160, Mismatches: 37, Indels: 28
0.71 0.16 0.12
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 62 0.39
91 78 0.49
92 18 0.11
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (87 bp):
AAATTTCAAAAATTTCATTTAAAAACTTTAATATTCACATCTAAAATTTTAAAAATTCTCATTCA
AAAAATTTTGGGTTTCACATCC
Found at i:13579425 original size:24 final size:24
Alignment explanation
Indices: 13579398--13579473 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
13579388 TTTTACATCC
13579398 AAATTTCAAAGATTCACATTCGAA
1 AAATTTCAAAGATTCACATTCGAA
* * *
13579422 AAATTTTAGAGATTCACA-TC-CA
1 AAATTTCAAAGATTCACATTCGAA
* *
13579444 AAATTTCAAAAATTCATATTCGAA
1 AAATTTCAAAGATTCACATTCGAA
13579468 AAATTT
1 AAATTT
13579474 TAGAGTTTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 15 0.36
23 4 0.10
24 23 0.55
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (24 bp):
AAATTTCAAAGATTCACATTCGAA
Found at i:13579449 original size:22 final size:23
Alignment explanation
Indices: 13579398--13579500 Score: 84
Period size: 24 Copynumber: 4.5 Consensus size: 23
13579388 TTTTACATCC
13579398 AAATTTCAAAGATTCACATTCGAA
1 AAATTTCAAAGATTCACA-TCGAA
* * *
13579422 AAATTTTAGAGATTCACATC-CA
1 AAATTTCAAAGATTCACATCGAA
* *
13579444 AAATTTCAAAAATTCATATTCGAA
1 AAATTTCAAAGATTCACA-TCGAA
* * * *
13579468 AAATTTTAGAGTTTCACATC-TA
1 AAATTTCAAAGATTCACATCGAA
*
13579490 AAGTTTCAAAG
1 AAATTTCAAAG
13579501 GTTCTTTTTA
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
22 24 0.40
23 6 0.10
24 30 0.50
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (23 bp):
AAATTTCAAAGATTCACATCGAA
Found at i:13579451 original size:46 final size:46
Alignment explanation
Indices: 13579170--13579606 Score: 211
Period size: 46 Copynumber: 9.7 Consensus size: 46
13579160 AGGTTCATAG
* * * * *
13579170 CCAAAA-TTCAAAGATTCTCATTCAAAAAATTTTA-ATATATCATAA
1 CCAAAATTTCAAAAATTCTCATTCGAAAAATTTTAGAGAT-TCACAT
** * * * * * *
13579215 CCAAAATTAAAAAAATTCTCA-TCCAAAAAATTTATGGGTTTCATAA
1 CCAAAATTTCAAAAATTCTCATTCGAAAAATTTTA-GAGATTCACAT
* * * * * **
13579261 CCAAAAGTT-AAAGATTTTCCTT-TAAAAAACTTAGAGATTCACAT
1 CCAAAATTTCAAAAATTCTCATTCGAAAAATTTTAGAGATTCACAT
** * * * *
13579305 TGAAAATTTCAAAAATT-TGCATT-TAAAAACTTTA-ATATTTCACAA
1 CCAAAATTTCAAAAATTCT-CATTCGAAAAATTTTAGAGA-TTCACAT
* * * * * * *
13579350 CTAAAATTTTAAAAATTCTCA-TCTAAAAAATTTTGGGGTTTTACAT
1 CCAAAATTTCAAAAATTCTCATTC-GAAAAATTTTAGAGATTCACAT
* *
13579396 CC-AAATTTCAAAGATTCACATTCGAAAAATTTTAGAGATTCACAT
1 CCAAAATTTCAAAAATTCTCATTCGAAAAATTTTAGAGATTCACAT
*
13579441 CCAAAATTTCAAAAATTCAT-ATTCGAAAAATTTTAGAGTTTCACAT
1 CCAAAATTTCAAAAATTC-TCATTCGAAAAATTTTAGAGATTCACAT
* * ** ** * * * *
13579487 CTAAAGTTTCAAAGGTTCT--TTTTATAAACTTTATG-GCTTCACCT
1 CCAAAATTTCAAAAATTCTCATTCGAAAAATTTTA-GAGATTCACAT
* * * * * *
13579531 CTAAAATTTTAAAGATTCTCATTTGAAAAAATTTT-GGGTTTCACAT
1 CCAAAATTTCAAAAATTCTCATTCG-AAAAATTTTAGAGATTCACAT
* *
13579577 CCAAAATTTCAAATATTCTCATTCCAAAAA
1 CCAAAATTTCAAAAATTCTCATTCGAAAAA
13579607 CTTATTTAAA
Statistics
Matches: 299, Mismatches: 74, Indels: 38
0.73 0.18 0.09
Matches are distributed among these distances:
44 50 0.17
45 116 0.39
46 125 0.42
47 8 0.03
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (46 bp):
CCAAAATTTCAAAAATTCTCATTCGAAAAATTTTAGAGATTCACAT
Found at i:13579483 original size:24 final size:24
Alignment explanation
Indices: 13579398--13579486 Score: 92
Period size: 24 Copynumber: 3.8 Consensus size: 24
13579388 TTTTACATCC
* *
13579398 AAATTTCAAAGATTCACATTCGAA
1 AAATTTTAGAGATTCACATTCGAA
*
13579422 AAATTTTAGAGATTCACA-TC-CA
1 AAATTTTAGAGATTCACATTCGAA
* * * *
13579444 AAATTTCAAAAATTCATATTCGAA
1 AAATTTTAGAGATTCACATTCGAA
*
13579468 AAATTTTAGAGTTTCACAT
1 AAATTTTAGAGATTCACAT
13579487 CTAAAGTTTC
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
22 15 0.30
23 4 0.08
24 31 0.62
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (24 bp):
AAATTTTAGAGATTCACATTCGAA
Found at i:13580854 original size:16 final size:17
Alignment explanation
Indices: 13580835--13580873 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
13580825 CCTAAAAAAA
13580835 TTTTATTTTTTACC-CTT
1 TTTTATTTTTT-CCTCTT
13580852 TTTCTATTTTTTCCTCTT
1 TTT-TATTTTTTCCTCTT
13580870 TTTT
1 TTTT
13580874 TTTGAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTTTTTCCTCTT
Found at i:13580861 original size:18 final size:18
Alignment explanation
Indices: 13580838--13580872 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13580828 AAAAAAATTT
13580838 TATTTTTTACC-CTTTTTC
1 TATTTTTT-CCTCTTTTTC
13580856 TATTTTTTCCTCTTTTT
1 TATTTTTTCCTCTTTTT
13580873 TTTTGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTTTCCTCTTTTTC
Found at i:13581791 original size:17 final size:17
Alignment explanation
Indices: 13581769--13581806 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13581759 CCAATTATAA
*
13581769 AAAATAA-AATCAAAATC
1 AAAATAAGAAT-AAAAAC
13581786 AAAATAAGAATAAAAAC
1 AAAATAAGAATAAAAAC
13581803 AAAA
1 AAAA
13581807 CAAAGCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.13
Consensus pattern (17 bp):
AAAATAAGAATAAAAAC
Found at i:13582097 original size:42 final size:41
Alignment explanation
Indices: 13582051--13582166 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 41
13582041 TAAACAAAAT
13582051 TCCTCTAAACAGAGGCGAAACAACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGC-AAACAACTTTGAAAAAATAAATTGC
*
13582093 TCCTCTAAACAGAGGC-AACTGAACTTTGAAAAAATAAATTGT
1 TCCTCTAAACAGAGGCAAAC--AACTTTGAAAAAATAAATTGC
* * * *
13582135 TCTTTTAAATAGAGGCAACAGAACTTTGAAAA
1 TCCTCTAAACAGAGGCAA-ACAACTTTGAAAA
13582167 TAAAGGCAAC
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
40 3 0.05
42 60 0.92
43 1 0.02
44 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCAAACAACTTTGAAAAAATAAATTGC
Found at i:13582167 original size:23 final size:23
Alignment explanation
Indices: 13582141--13582194 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
13582131 TTGTTCTTTT
*
13582141 AAATAGAGGCAACAGAACTTTGA
1 AAATAAAGGCAACAGAACTTTGA
13582164 AAATAAAGGCAACAGAACTTTGAA
1 AAATAAAGGCAACAGAACTTTG-A
13582188 AAATAAA
1 AAATAAA
13582195 TTGTTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.56, C:0.11, G:0.17, T:0.17
Consensus pattern (23 bp):
AAATAAAGGCAACAGAACTTTGA
Found at i:13582207 original size:64 final size:66
Alignment explanation
Indices: 13582105--13582235 Score: 230
Period size: 64 Copynumber: 2.0 Consensus size: 66
13582095 CTCTAAACAG
*
13582105 AGGCAACTGAACTTTGAAAAAATAAATTGTTCTTTTAAATAGAGGCAACAGAACTTT-GAAAATA
1 AGGCAACAGAACTTTGAAAAAATAAATTGTTCTTTTAAATAGAGGCAACAGAACTTTGGAAAATA
13582169 A
66 A
*
13582170 AGGCAACAGAACTTTG-AAAAATAAATTGTTCTTTTAAATAGAGGCAACATAACTTTGGAAAATA
1 AGGCAACAGAACTTTGAAAAAATAAATTGTTCTTTTAAATAGAGGCAACAGAACTTTGGAAAATA
13582234 A
66 A
13582235 A
1 A
13582236 TTGCTCCTCT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 39 0.62
65 24 0.38
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (66 bp):
AGGCAACAGAACTTTGAAAAAATAAATTGTTCTTTTAAATAGAGGCAACAGAACTTTGGAAAATA
A
Found at i:13582224 original size:41 final size:42
Alignment explanation
Indices: 13582164--13582321 Score: 212
Period size: 41 Copynumber: 3.8 Consensus size: 42
13582154 AGAACTTTGA
* * * *
13582164 AAATAAAGGCAACAGAACTTTG-AAAAATAAATTGTTCTTTT
1 AAATAGAGGCAACAGAACTTTGAAAAAATAAATTGCTCATCT
* * *
13582205 AAATAGAGGCAACATAACTTTG-GAAAATAAATTGCTCCTCT
1 AAATAGAGGCAACAGAACTTTGAAAAAATAAATTGCTCATCT
* *
13582246 AAATAGAGGTAATAGAACTTTGAAAAAATAAATTGCTCATCT
1 AAATAGAGGCAACAGAACTTTGAAAAAATAAATTGCTCATCT
*
13582288 AAATAGAGGCAACATAACTTTGAAAAAATAAATT
1 AAATAGAGGCAACAGAACTTTGAAAAAATAAATT
13582322 ACTCCTAGAT
Statistics
Matches: 102, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 54 0.53
42 48 0.47
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.28
Consensus pattern (42 bp):
AAATAGAGGCAACAGAACTTTGAAAAAATAAATTGCTCATCT
Found at i:13582688 original size:21 final size:21
Alignment explanation
Indices: 13582660--13582726 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
13582650 TTCACATCTT
*
13582660 AAAGATTCTCGTTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
* *
13582681 AAATATTCTCATTTGGAATTC
1 AAAGATTCTCATTTGAAATTC
*
13582702 AAAGATTCGT-ATTTGAGAACTC
1 AAAGATTC-TCATTTGA-AATTC
13582724 AAA
1 AAA
13582727 AATTTTTATC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 30 0.79
22 8 0.21
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Found at i:13584322 original size:19 final size:19
Alignment explanation
Indices: 13584282--13584328 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
13584272 TTCTTCTTGC
*
13584282 TTTTTTTCTTTAGACCTTT
1 TTTTTTTCTTTAGACCTCT
*
13584301 TTTTTTATCTTTAG-GCTCT
1 TTTTTT-TCTTTAGACCTCT
*
13584320 TTTCTTTCT
1 TTTTTTTCT
13584329 CAAAAATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.12
19 14 0.58
20 7 0.29
ACGTcount: A:0.09, C:0.17, G:0.06, T:0.68
Consensus pattern (19 bp):
TTTTTTTCTTTAGACCTCT
Found at i:13586791 original size:23 final size:23
Alignment explanation
Indices: 13586765--13586815 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
13586755 TGAGCAAAAA
13586765 AATGATGCAT-AGAATGAAATGAT
1 AATGATGCATGA-AATGAAATGAT
13586788 AATGATGCATGAAATGAAATGAT
1 AATGATGCATGAAATGAAATGAT
13586811 -ATGAT
1 AATGAT
13586816 AATATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 5 0.19
23 21 0.78
24 1 0.04
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (23 bp):
AATGATGCATGAAATGAAATGAT
Found at i:13588122 original size:7 final size:7
Alignment explanation
Indices: 13588110--13588135 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13588100 TCAGCCCAAA
13588110 TTTTTAT
1 TTTTTAT
13588117 TTTTTAT
1 TTTTTAT
13588124 TTTTTAT
1 TTTTTAT
13588131 TTTTT
1 TTTTT
13588136 TGGTCTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:13589298 original size:21 final size:22
Alignment explanation
Indices: 13589250--13589291 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13589240 ATCCAATTAT
*
13589250 AAAAATCAAAATCAAAATAAAA
1 AAAAAACAAAATCAAAATAAAA
13589272 AAAAAACAAAA-CAAAATAAA
1 AAAAAACAAAATCAAAATAAA
13589292 GCCAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (22 bp):
AAAAAACAAAATCAAAATAAAA
Found at i:13590148 original size:17 final size:16
Alignment explanation
Indices: 13590128--13590159 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13590118 AGTTTGAGTT
13590128 TTTTTTTTTTCATTTTC
1 TTTTTTTTTTC-TTTTC
13590145 TTTTTTTTTTCTTTT
1 TTTTTTTTTTCTTTT
13590160 ACACATCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTTCTTTTC
Found at i:13590461 original size:11 final size:11
Alignment explanation
Indices: 13590445--13590478 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
13590435 TCCATCAATT
13590445 TTTTTTCTTTA
1 TTTTTTCTTTA
13590456 TTTTTTCTTTA
1 TTTTTTCTTTA
13590467 TCTTCTTTCTTT
1 T-TT-TTTCTTT
13590479 TCTTTACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.57
12 2 0.10
13 7 0.33
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTTA
Found at i:13590497 original size:18 final size:18
Alignment explanation
Indices: 13590456--13590510 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 18
13590446 TTTTTCTTTA
*
13590456 TTTTTTCTTTATCT-TCTT
1 TTTTTTCTTTA-CTATTTT
*
13590474 TCTTTTCTTTACTATTTTT
1 TTTTTTCTTTACTA-TTTT
*
13590493 TTTTTTTTTTAC-ATTTT
1 TTTTTTCTTTACTATTTT
13590510 T
1 T
13590511 CATCATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 7 0.23
18 11 0.35
19 13 0.42
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTACTATTTT
Found at i:13599566 original size:7 final size:7
Alignment explanation
Indices: 13599554--13599596 Score: 59
Period size: 7 Copynumber: 5.7 Consensus size: 7
13599544 GAAGTAAAAA
13599554 AAAAATG
1 AAAAATG
13599561 AAAAATG
1 AAAAATG
13599568 AAAAAGTG
1 AAAAA-TG
13599576 AAAAATATG
1 -AAAA-ATG
13599585 AAAAATG
1 AAAAATG
13599592 AAAAA
1 AAAAA
13599597 AAAATGATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 20 0.61
8 6 0.18
9 6 0.18
10 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:13599598 original size:9 final size:8
Alignment explanation
Indices: 13599553--13599597 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
13599543 AGAAGTAAAA
13599553 AAAAAATG
1 AAAAAATG
13599561 -AAAAATG
1 AAAAAATG
*
13599568 AAAAAGTG
1 AAAAAATG
13599576 AAAAATATG
1 AAAAA-ATG
13599585 -AAAAATG
1 AAAAAATG
13599592 AAAAAA
1 AAAAAA
13599598 AAATGATGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 10 0.31
8 20 0.62
9 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:13600312 original size:9 final size:9
Alignment explanation
Indices: 13600300--13600374 Score: 69
Period size: 9 Copynumber: 7.7 Consensus size: 9
13600290 TAGTGACATT
13600300 TGCATTATA
1 TGCATTATA
*
13600309 TGCATTGCATT
1 TGCATT--ATA
13600320 TGCATTATA
1 TGCATTATA
*
13600329 TGCATTGCATT
1 TGCATT--ATA
13600340 TGCATTATA
1 TGCATTATA
*
13600349 TGCATTGCATT
1 TGCATT--ATA
13600360 TGCATTATA
1 TGCATTATA
13600369 TGCATT
1 TGCATT
13600375 GCATTTGCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 30 0.56
11 24 0.44
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (9 bp):
TGCATTATA
Found at i:13600321 original size:20 final size:20
Alignment explanation
Indices: 13600296--13600387 Score: 184
Period size: 20 Copynumber: 4.6 Consensus size: 20
13600286 ATGTTAGTGA
13600296 CATTTGCATTATATGCATTG
1 CATTTGCATTATATGCATTG
13600316 CATTTGCATTATATGCATTG
1 CATTTGCATTATATGCATTG
13600336 CATTTGCATTATATGCATTG
1 CATTTGCATTATATGCATTG
13600356 CATTTGCATTATATGCATTG
1 CATTTGCATTATATGCATTG
13600376 CATTTGCATTAT
1 CATTTGCATTAT
13600388 TTGTTTGAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (20 bp):
CATTTGCATTATATGCATTG
Found at i:13601241 original size:17 final size:17
Alignment explanation
Indices: 13601221--13601278 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
13601211 TTTGAAAGTC
13601221 AAATTCTTGCGAAATTG
1 AAATTCTTGCGAAATTG
13601238 AAA-TCTTGC-AAATT-
1 AAATTCTTGCGAAATTG
* * **
13601252 AAATTTTTGTGAAGCTG
1 AAATTCTTGCGAAATTG
13601269 AAATTCTTGC
1 AAATTCTTGC
13601279 AAAAATAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
14 3 0.09
15 9 0.28
16 9 0.28
17 11 0.34
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (17 bp):
AAATTCTTGCGAAATTG
Found at i:13601256 original size:31 final size:32
Alignment explanation
Indices: 13601194--13601281 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 32
13601184 ACAATTTGAA
* *
13601194 TCTTGCGAAACTAAAATTTTG-AAAGTCAAAT
1 TCTTGCGAAACTGAAATCTTGCAAAGTCAAAT
* *
13601225 TCTTGCGAAATTGAAATCTTGCAAA-TTAAAT
1 TCTTGCGAAACTGAAATCTTGCAAAGTCAAAT
* * *
13601256 TTTTGTGAAGCTGAAATTCTTGCAAA
1 TCTTGCGAAACTGAAA-TCTTGCAAA
13601282 AATAAAATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 35 0.74
32 12 0.26
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (32 bp):
TCTTGCGAAACTGAAATCTTGCAAAGTCAAAT
Found at i:13601425 original size:18 final size:18
Alignment explanation
Indices: 13601402--13601436 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13601392 CAAATTTTTC
13601402 ATTCTTGTGAATATGAAA
1 ATTCTTGTGAATATGAAA
*
13601420 ATTCTTGTGAATTTGAA
1 ATTCTTGTGAATATGAA
13601437 GATGTTGCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (18 bp):
ATTCTTGTGAATATGAAA
Found at i:13602054 original size:26 final size:26
Alignment explanation
Indices: 13602018--13602067 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
13602008 AGAACTCATG
13602018 GATATTCAAAGGAGCAAAAACACATA
1 GATATTCAAAGGAGCAAAAACACATA
*
13602044 GATATTCAAAGGAGCAGAAACACA
1 GATATTCAAAGGAGCAAAAACACA
13602068 GTAGCAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.52, C:0.16, G:0.18, T:0.14
Consensus pattern (26 bp):
GATATTCAAAGGAGCAAAAACACATA
Found at i:13605167 original size:101 final size:100
Alignment explanation
Indices: 13605044--13605236 Score: 244
Period size: 101 Copynumber: 1.9 Consensus size: 100
13605034 TTATTTTAAG
* * * * * *
13605044 AAAATTCATTAAACTTTTCAATAGTTTGGTAAGATTTGATTCAATATTTAAATCTTACAATAATT
1 AAAATTCATTAAACTTTCCAATAGTTTGCTAAAACTTAATTCAATATTTAAATCATACAATAATT
* *
13605109 TGGTAGAATTAAAAATTTTATTATTATTTTTCACAA
66 TGATAG-AGTAAAAATTTTATTATTATTTTTCACAA
* * * *
13605145 AAAATTCATT-AAGTCTTCCAATATTTTGCTAAAACTTAATTCAATATTTAAATCATCCAATAGT
1 AAAATTCATTAAACT-TTCCAATAGTTTGCTAAAACTTAATTCAATATTTAAATCATACAATAAT
*
13605209 TTGATAGGGTAAAAATTTTATTATTATT
65 TTGATAGAGTAAAAATTTTATTATTATT
13605237 AAAAAAATTA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
100 22 0.28
101 56 0.72
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (100 bp):
AAAATTCATTAAACTTTCCAATAGTTTGCTAAAACTTAATTCAATATTTAAATCATACAATAATT
TGATAGAGTAAAAATTTTATTATTATTTTTCACAA
Found at i:13605465 original size:17 final size:17
Alignment explanation
Indices: 13605419--13605455 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13605409 AAAGTACAAT
*
13605419 AAATGAATA-AATATAA
1 AAATAAATATAATATAA
13605435 AAATAAATATAATATAA
1 AAATAAATATAATATAA
13605452 AAAT
1 AAAT
13605456 TACTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
AAATAAATATAATATAA
Found at i:13611276 original size:59 final size:59
Alignment explanation
Indices: 13611184--13611295 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 59
13611174 AATTTCTAGC
* *
13611184 TAACCTTCATGACACTATCCAACAAAGTTAGTGCCTGTATAACTAAATTAAAGTTTAAG
1 TAACCTTCATGACACTATCCAACAAAGTTAGTGCCTGCATAAATAAATTAAAGTTTAAG
* *
13611243 TAACCTTCATGACACTATTCAAGAAAGTTAGTGCCTGCATAAATAAATTAAAG
1 TAACCTTCATGACACTATCCAACAAAGTTAGTGCCTGCATAAATAAATTAAAG
13611296 GTAAGTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (59 bp):
TAACCTTCATGACACTATCCAACAAAGTTAGTGCCTGCATAAATAAATTAAAGTTTAAG
Found at i:13618783 original size:15 final size:15
Alignment explanation
Indices: 13618758--13618796 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
13618748 TCAAAGATTC
13618758 GAATT-AAAAAATTT
1 GAATTCAAAAAATTT
13618772 GAATTCAAAAAATTT
1 GAATTCAAAAAATTT
* *
13618787 AAACTCAAAA
1 GAATTCAAAA
13618797 CGATACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (15 bp):
GAATTCAAAAAATTT
Found at i:13618826 original size:2 final size:2
Alignment explanation
Indices: 13618819--13618847 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13618809 AATTTGATTG
13618819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13618848 TTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13619373 original size:26 final size:25
Alignment explanation
Indices: 13619317--13619373 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
13619307 TTTACTCATT
* * *
13619317 TTATATTGAATTTTTTTTATTATGA
1 TTATATTAAATTTATTTGATTATGA
*
13619342 TATATATTAAATATTATTTGATTGTGA
1 T-TATATTAAAT-TTATTTGATTATGA
13619369 TTATA
1 TTATA
13619374 ACTTTTACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 13 0.50
27 12 0.46
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (25 bp):
TTATATTAAATTTATTTGATTATGA
Found at i:13621451 original size:3 final size:3
Alignment explanation
Indices: 13621443--13621473 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13621433 AGTTGGTCTG
13621443 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT G
13621474 CTACTACTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (3 bp):
GTT
Found at i:13627830 original size:15 final size:15
Alignment explanation
Indices: 13627780--13627835 Score: 67
Period size: 16 Copynumber: 3.6 Consensus size: 15
13627770 AATAAAAGAT
*
13627780 TAAAAGAAGGAAAAA
1 TAAAAGAAAGAAAAA
* *
13627795 TGAAAGGACAGAAAGAA
1 T-AAAAGAAAGAAA-AA
13627812 TAAAAGAAAGAAAAA
1 TAAAAGAAAGAAAAA
13627827 TAAAAGAAA
1 TAAAAGAAA
13627836 TGGATGGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 12 0.35
16 19 0.56
17 3 0.09
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (15 bp):
TAAAAGAAAGAAAAA
Found at i:13629098 original size:118 final size:118
Alignment explanation
Indices: 13628884--13629099 Score: 306
Period size: 118 Copynumber: 1.8 Consensus size: 118
13628874 ATGAAAGTTT
* * * *
13628884 AAGCCTAGATTATCTGGTATACTATGAAAAGATTTTAAGCCCAGCTTAGCTGGCAACCAAATTTA
1 AAGCCTAGATTATCTGGCATACCATGAAAAAATTTTAAGCCCAGCTTAGCTCGCAACCAAATTTA
*
13628949 AGCCTAATTTATCTATCACTAATAAAATTTTAAACCAAGTGTAGCTGGCATGC
66 AGCCTAATTTATCTAGCACTAATAAAATTTTAAACCAAGTGTAGCTGGCATGC
* * **
13629002 AAGCCTAGATTCTTTGGCATACCATGAAAAAATTTTAAGCCCAGCTTAGCTCGCATTCAAATTTA
1 AAGCCTAGATTATCTGGCATACCATGAAAAAATTTTAAGCCCAGCTTAGCTCGCAACCAAATTTA
* * * * *
13629067 AGCCTAGTTTATTTGGCACTAATGAAGTTTTAA
66 AGCCTAATTTATCTAGCACTAATAAAATTTTAA
13629100 GCCTAAATTA
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
118 84 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (118 bp):
AAGCCTAGATTATCTGGCATACCATGAAAAAATTTTAAGCCCAGCTTAGCTCGCAACCAAATTTA
AGCCTAATTTATCTAGCACTAATAAAATTTTAAACCAAGTGTAGCTGGCATGC
Found at i:13629323 original size:23 final size:22
Alignment explanation
Indices: 13629269--13629323 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
13629259 AATTTAATTG
*
13629269 GCACACAAGCCTAAATTAGCTA
1 GCACGCAAGCCTAAATTAGCTA
* *
13629291 GCACGAAAGCCTAAAATTAGCTG
1 GCACGCAAGCCT-AAATTAGCTA
*
13629314 GCATGCAAGC
1 GCACGCAAGC
13629324 TCAGATTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.16
Consensus pattern (22 bp):
GCACGCAAGCCTAAATTAGCTA
Found at i:13629729 original size:35 final size:35
Alignment explanation
Indices: 13629639--13629903 Score: 117
Period size: 35 Copynumber: 7.6 Consensus size: 35
13629629 TCAGTTTTGG
* * * * * *
13629639 TCATCTTTATTCTCTAACTCGTGGTTTAATCTCAA
1 TCATCTTTATTTTTTGACTTGTGGCTTAGTCTCAA
* * **
13629674 TCATTTTTATTTCTCAACTTGTGGCTTAGTCTCAA
1 TCATCTTTATTTTTTGACTTGTGGCTTAGTCTCAA
*** *
13629709 TCATCTTTATTTTTTGACTTG-CAATTCAGTCTCGA
1 TCATCTTTATTTTTTGACTTGTGGCTT-AGTCTCAA
* * * * * * * * *
13629744 TCATTTTTACTTCTTGACTTG-CGATCCAATCACAG
1 TCATCTTTATTTTTTGACTTGTGGCT-TAGTCTCAA
* * * * * *
13629779 TCATATTTGTTCTCTGA-TT-TGTCATTCAGTAC-CGA
1 TCATCTTTATTTTTTGACTTGTGGC-TT-AGT-CTCAA
* * *
13629814 TCATCTTTATTTTTTGACTTGTAGCTCAGTCTCAG
1 TCATCTTTATTTTTTGACTTGTGGCTTAGTCTCAA
* * * *
13629849 TCATCTTTATTTTTTAACTTGTAGTTTAGTCCCAA
1 TCATCTTTATTTTTTGACTTGTGGCTTAGTCTCAA
*
13629884 TCATCTCTATTTTTTGACTT
1 TCATCTTTATTTTTTGACTT
13629904 ACAGTTCAAT
Statistics
Matches: 167, Mismatches: 54, Indels: 18
0.70 0.23 0.08
Matches are distributed among these distances:
34 5 0.03
35 156 0.93
36 4 0.02
37 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (35 bp):
TCATCTTTATTTTTTGACTTGTGGCTTAGTCTCAA
Found at i:13629764 original size:70 final size:70
Alignment explanation
Indices: 13629668--13629870 Score: 187
Period size: 70 Copynumber: 2.9 Consensus size: 70
13629658 CGTGGTTTAA
* ** * * *
13629668 TCTCAATCATTTTTATTTCTCAACTTGTGGCTTAGTCTCAATCATCTTTATTTTTTGACTTG-CA
1 TCTCGATCATTTTTATTTCTTGACTTGTAGCTCAGTCTCAGTCATCTTTATTTTTTGACTTGTC-
13629732 ATTCAG
65 ATTCAG
* * * * * * * * * *
13629738 TCTCGATCATTTTTACTTCTTGACTTG-CGATCCAATCACAGTCATATTTGTTCTCTGATTTGTC
1 TCTCGATCATTTTTATTTCTTGACTTGTAGCT-CAGTCTCAGTCATCTTTATTTTTTGACTTGTC
13629802 ATTCAG
65 ATTCAG
* * *
13629808 TAC-CGATCATCTTTATTTTTTGACTTGTAGCTCAGTCTCAGTCATCTTTATTTTTTAACTTGT
1 T-CTCGATCATTTTTATTTCTTGACTTGTAGCTCAGTCTCAGTCATCTTTATTTTTTGACTTGT
13629871 AGTTTAGTCC
Statistics
Matches: 101, Mismatches: 28, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
69 2 0.02
70 95 0.94
71 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (70 bp):
TCTCGATCATTTTTATTTCTTGACTTGTAGCTCAGTCTCAGTCATCTTTATTTTTTGACTTGTCA
TTCAG
Found at i:13629887 original size:70 final size:70
Alignment explanation
Indices: 13629638--13629903 Score: 176
Period size: 70 Copynumber: 3.8 Consensus size: 70
13629628 TTCAGTTTTG
* * * * * * ** * *
13629638 GTCATCTTTATTCTCTAACTCGTGGTTTAATCTCAATCATTTTTATTTCTCAACTTGTGGCTTAG
1 GTCATCTTTATTCTCTAACTTGTAGTTCAGTCCCAATCATCTTTATTTCTTGACTTGTAGCTCAG
13629703 TCTCA
66 TCTCA
* * * * * * * * * * * *
13629708 ATCATCTTTATTTTTTGACTTGCAATTCAGTCTCGATCATTTTTACTTCTTGACTTG-CGATCCA
1 GTCATCTTTATTCTCTAACTTGTAGTTCAGTCCCAATCATCTTTATTTCTTGACTTGTAGCT-CA
* *
13629772 ATCACA
65 GTCTCA
* * * * * * *
13629778 GTCATATTTGTTCTCTGATTTGTCA-TTCAGTACCGATCATCTTTATTTTTTGACTTGTAGCTCA
1 GTCATCTTTATTCTCTAACTTGT-AGTTCAGTCCCAATCATCTTTATTTCTTGACTTGTAGCTCA
13629842 GTCTCA
65 GTCTCA
* * * * *
13629848 GTCATCTTTATTTTTTAACTTGTAGTTTAGTCCCAATCATCTCTATTTTTTGACTT
1 GTCATCTTTATTCTCTAACTTGTAGTTCAGTCCCAATCATCTTTATTTCTTGACTT
13629904 ACAGTTCAAT
Statistics
Matches: 147, Mismatches: 45, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
69 3 0.02
70 141 0.96
71 3 0.02
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (70 bp):
GTCATCTTTATTCTCTAACTTGTAGTTCAGTCCCAATCATCTTTATTTCTTGACTTGTAGCTCAG
TCTCA
Found at i:13629922 original size:35 final size:35
Alignment explanation
Indices: 13629708--13629931 Score: 150
Period size: 35 Copynumber: 6.4 Consensus size: 35
13629698 CTTAGTCTCA
* * *
13629708 ATCATCTTTATTTTTTGACTTGCAATTCAGTCTCG
1 ATCATCTTTATTTTTTGACTTGTAGTTCAGTCCCG
* * * * * * *
13629743 ATCATTTTTACTTCTTGACTTG-CGATCCAATCAC-
1 ATCATCTTTATTTTTTGACTTGTAG-TTCAGTCCCG
* * * * * *
13629777 AGTCATATTTGTTCTCTGATTTGTCA-TTCAGTACCG
1 A-TCATCTTTATTTTTTGACTTGT-AGTTCAGTCCCG
* *
13629813 ATCATCTTTATTTTTTGACTTGTAGCTCAGTCTC-
1 ATCATCTTTATTTTTTGACTTGTAGTTCAGTCCCG
* * *
13629847 AGTCATCTTTATTTTTTAACTTGTAGTTTAGTCCCA
1 A-TCATCTTTATTTTTTGACTTGTAGTTCAGTCCCG
* ** *
13629883 ATCATCTCTATTTTTTGACTTACAGTTCAATCCCG
1 ATCATCTTTATTTTTTGACTTGTAGTTCAGTCCCG
13629918 ATCATCATTTATTT
1 ATCATC-TTTATTT
13629932 CTCAATTTGT
Statistics
Matches: 140, Mismatches: 40, Indels: 17
0.71 0.20 0.09
Matches are distributed among these distances:
34 3 0.02
35 129 0.92
36 8 0.06
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (35 bp):
ATCATCTTTATTTTTTGACTTGTAGTTCAGTCCCG
Found at i:13630114 original size:35 final size:35
Alignment explanation
Indices: 13630028--13630099 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
13630018 AGTCTTGATT
13630028 ATTTTCATCTCAC-AACTTGTAGTTTAATCCCGATC
1 ATTTTCATCTC-CTAACTTGTAGTTTAATCCCGATC
* * *
13630063 ATTTTCATCTCCTAACTTGTGGTTTAGTCTCGATC
1 ATTTTCATCTCCTAACTTGTAGTTTAATCCCGATC
13630098 AT
1 AT
13630100 CTTTATTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (35 bp):
ATTTTCATCTCCTAACTTGTAGTTTAATCCCGATC
Found at i:13630314 original size:15 final size:14
Alignment explanation
Indices: 13630293--13630330 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
13630283 TGCTTTTTAC
13630293 AAAAAAATTAAAAA
1 AAAAAAATTAAAAA
*
13630307 ATAAAAAAATAAAAA
1 A-AAAAAATTAAAAA
13630322 AAAAAAATT
1 AAAAAAATT
13630331 TAATTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAAAATTAAAAA
Found at i:13630493 original size:15 final size:16
Alignment explanation
Indices: 13630468--13630497 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13630458 AGTTTATTTT
13630468 TATTAAAATAAAATAA
1 TATTAAAATAAAATAA
13630484 TATT-AAATAAAATA
1 TATTAAAATAAAATA
13630498 TTTAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TATTAAAATAAAATAA
Found at i:13631198 original size:22 final size:22
Alignment explanation
Indices: 13631166--13631219 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
13631156 AAACAAAAAC
* * * *
13631166 AAAAAAAAAAAGTCAATTTCAT
1 AAAAAATAAAAGTAAAATTAAT
13631188 AAAAAATAAAAGTAAAATTAAT
1 AAAAAATAAAAGTAAAATTAAT
*
13631210 AAATAATAAA
1 AAAAAATAAA
13631220 TACAAAGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAAAATAAAAGTAAAATTAAT
Found at i:13632321 original size:16 final size:16
Alignment explanation
Indices: 13632288--13632321 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13632278 TGAAAAATAA
**
13632288 AATTTTAAATTTTGTT
1 AATTTTAAATTTCATT
13632304 AATTTTAAATTTCATT
1 AATTTTAAATTTCATT
13632320 AA
1 AA
13632322 AAATTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
AATTTTAAATTTCATT
Found at i:13632368 original size:3 final size:3
Alignment explanation
Indices: 13632362--13632390 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13632352 AAATAACAAG
13632362 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13632391 GACAATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13632492 original size:29 final size:29
Alignment explanation
Indices: 13632455--13632512 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
13632445 AGAATAATAG
13632455 CCAAAAAATAAATAAAAATAAT-AAATAAT
1 CCAAAAAATAAAT-AAAATAATAAAATAAT
13632484 CCAAAAAATAAATAAAATAATAAAATAAT
1 CCAAAAAATAAATAAAATAATAAAATAAT
13632513 ATATATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (29 bp):
CCAAAAAATAAATAAAATAATAAAATAAT
Found at i:13632495 original size:16 final size:15
Alignment explanation
Indices: 13632450--13632498 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 15
13632440 AAAGGAGAAT
*
13632450 AATAGCCAAAAAATA
1 AATAACCAAAAAATA
*
13632465 AATAA--AAATAATA
1 AATAACCAAAAAATA
13632478 AATAATCCAAAAAATA
1 AATAA-CCAAAAAATA
13632494 AATAA
1 AATAA
13632499 AATAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 12 0.43
15 4 0.14
16 12 0.43
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.18
Consensus pattern (15 bp):
AATAACCAAAAAATA
Found at i:13632544 original size:14 final size:13
Alignment explanation
Indices: 13632493--13632549 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
13632483 TCCAAAAAAT
13632493 AAATAAAATAATA
1 AAATAAAATAATA
*
13632506 AAATAATATATATA
1 AAATAAAATA-ATA
**
13632520 AAA-ATTGATAATGA
1 AAATA-AAATAAT-A
13632534 AAATAAAATAATA
1 AAATAAAATAATA
13632547 AAA
1 AAA
13632550 AATATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
13 16 0.46
14 18 0.51
15 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:13632927 original size:17 final size:16
Alignment explanation
Indices: 13632901--13632961 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
13632891 CCAAAATTTT
13632901 AAACCCTAAAACCATCA
1 AAACCCTAAAACC-TCA
* *
13632918 AAACCTTAAAAATCTCA
1 AAACCCT-AAAACCTCA
* **
13632935 AAACCCTAAAACTTTT
1 AAACCCTAAAACCTCA
13632951 AAACCCTAAAA
1 AAACCCTAAAA
13632962 TTAAAAACTC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
16 16 0.44
17 15 0.42
18 5 0.14
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (16 bp):
AAACCCTAAAACCTCA
Found at i:13632975 original size:31 final size:31
Alignment explanation
Indices: 13632875--13632993 Score: 89
Period size: 31 Copynumber: 3.8 Consensus size: 31
13632865 TTTTTGAAAT
* * * **
13632875 CCTAAAA-CTCTAAACCCCAAAATTTTAAAC
1 CCTAAAATCTTTAAAACCTAAAATTAAAAAC
* * * *
13632905 CCTAAAACCATCAAAACCTTAAAAATCTCAAAAC
1 CCTAAAATCTTTAAAACC-T-AAAAT-TAAAAAC
*
13632939 CCTAAAA-CTTTTAAACCCTAAAATTAAAAAC
1 CCTAAAATC-TTTAAAACCTAAAATTAAAAAC
*
13632970 TCTAAAATCTTTAAAACCTAAAAT
1 CCTAAAATCTTTAAAACCTAAAAT
13632994 CCAAACTCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
30 7 0.10
31 32 0.46
32 6 0.09
33 7 0.10
34 18 0.26
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.24
Consensus pattern (31 bp):
CCTAAAATCTTTAAAACCTAAAATTAAAAAC
Found at i:13632994 original size:16 final size:16
Alignment explanation
Indices: 13632875--13632994 Score: 63
Period size: 15 Copynumber: 7.6 Consensus size: 16
13632865 TTTTTGAAAT
* *
13632875 CCTAAAA-CTCTAAAC
1 CCTAAAATCTTTAAAA
* *
13632890 CCCAAAAT-TTTAAAC
1 CCTAAAATCTTTAAAA
* * *
13632905 CCTAAAACCATCAAAA
1 CCTAAAATCTTTAAAA
*
13632921 CCTTAAAAATC-TCAAAA
1 CC-T-AAAATCTTTAAAA
*
13632938 CCCTAAAA-CTTTTAAAC
1 -CCTAAAATC-TTTAAAA
*
13632955 CCTAAAA--TTAAAAA
1 CCTAAAATCTTTAAAA
13632969 CTCTAAAATCTTTAAAA
1 C-CTAAAATCTTTAAAA
13632986 CCTAAAATC
1 CCTAAAATC
13632995 CAAACTCTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
14 6 0.07
15 25 0.30
16 25 0.30
17 19 0.23
18 7 0.09
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (16 bp):
CCTAAAATCTTTAAAA
Found at i:13633050 original size:17 final size:17
Alignment explanation
Indices: 13632965--13633051 Score: 67
Period size: 17 Copynumber: 5.4 Consensus size: 17
13632955 CCTAAAATTA
* *
13632965 AAAACTCTAAAATCTTT
1 AAAACTCTAAAACCCTT
*
13632982 AAAAC-CTAAAATCC--
1 AAAACTCTAAAACCCTT
*
13632996 -AAACTCTTAAACCCTT
1 AAAACTCTAAAACCCTT
* *
13633012 ATAACAT-TAAAACCCTC
1 AAAAC-TCTAAAACCCTT
*
13633029 CAAACTCTAAAACCCTT
1 AAAACTCTAAAACCCTT
13633046 AAAACT
1 AAAACT
13633052 TTTCAGAACC
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
13 4 0.07
14 7 0.13
16 9 0.17
17 33 0.61
18 1 0.02
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAACTCTAAAACCCTT
Found at i:13633126 original size:14 final size:14
Alignment explanation
Indices: 13633107--13633136 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13633097 TCCTGAAACC
13633107 TCAAAATCATAAAA
1 TCAAAATCATAAAA
*
13633121 TCAAAATCCTAAAA
1 TCAAAATCATAAAA
13633135 TC
1 TC
13633137 TCGAAACCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (14 bp):
TCAAAATCATAAAA
Found at i:13633416 original size:3 final size:3
Alignment explanation
Indices: 13633408--13633446 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13633398 TCCTTAACCC
13633408 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13633447 GGATAGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13637083 original size:2 final size:2
Alignment explanation
Indices: 13637076--13637104 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13637066 TCAACAGTCG
13637076 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13637105 AAAGACGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13637160 original size:17 final size:17
Alignment explanation
Indices: 13637138--13637170 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
13637128 TGATAAAAGT
13637138 TTATAAATAATGAAATA
1 TTATAAATAATGAAATA
13637155 TTATAAATAATGAAAT
1 TTATAAATAATGAAAT
13637171 GTAAATCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TTATAAATAATGAAATA
Found at i:13638311 original size:13 final size:13
Alignment explanation
Indices: 13638293--13638319 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13638283 TTACAAATAA
13638293 TAAATTTTAAATT
1 TAAATTTTAAATT
13638306 TAAATTTTAAATT
1 TAAATTTTAAATT
13638319 T
1 T
13638320 GAATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATTTTAAATT
Found at i:13638329 original size:13 final size:13
Alignment explanation
Indices: 13638313--13638339 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13638303 ATTTAAATTT
13638313 TAAATTTGAATAA
1 TAAATTTGAATAA
13638326 TAAATTTGAATAA
1 TAAATTTGAATAA
13638339 T
1 T
13638340 TATTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TAAATTTGAATAA
Found at i:13639407 original size:157 final size:157
Alignment explanation
Indices: 13639131--13639465 Score: 372
Period size: 157 Copynumber: 2.1 Consensus size: 157
13639121 GATTTTTGGC
* *
13639131 TTCACTTTAGGATCATAACATCCTTCCTCACTCCAATGGAGTCCCACCATCATCGGTGACACATC
1 TTCACTTTAGGACCATAACATCCTTCCTCACTCCAATGAAGTCCCACCATCATCGGTGACACATC
* * * * * *
13639196 ACTAGTATCCTCAAAGTTGGCTCTGATATTAATTTGTGAACCTTTATATCCTATTGCTAACTCTA
66 ACTAGTATCATCAAAGCTGACTCTGATACTAATGTGTGAACCCTTATATCCTATTGCTAACTCTA
13639261 CTCCACAGTCGATGTGGGATTTCTAGT
131 CTCCACAGTCGATGTGGGATTTCTAGT
* * * * * * *
13639288 TTCACTTTAGGACCATGACATCC-TCATTCACTCTAATGAAAG-CCCACCGTCCTTGGTGGCACA
1 TTCACTTTAGGACCATAACATCCTTC-CTCACTCCAATG-AAGTCCCACCATCATCGGTGACACA
* * * *
13639351 TCACTAGTATCATTAGAGCTGACTTTGATACTAATGTGTGAACCCTTATATTCTATTGCTAACTC
64 TCACTAGTATCATCAAAGCTGACTCTGATACTAATGTGTGAACCCTTATATCCTATTGCTAACTC
* * * * *
13639416 TAGTCTACAG-CTAATGTGGGATTCCTTA-C
129 TACTCCACAGTC-GATGTGGGATTTC-TAGT
* *
13639445 TTCACTTCAGAACCATAACAT
1 TTCACTTTAGGACCATAACAT
13639466 TTTCCCTTAC
Statistics
Matches: 147, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
156 3 0.02
157 140 0.95
158 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (157 bp):
TTCACTTTAGGACCATAACATCCTTCCTCACTCCAATGAAGTCCCACCATCATCGGTGACACATC
ACTAGTATCATCAAAGCTGACTCTGATACTAATGTGTGAACCCTTATATCCTATTGCTAACTCTA
CTCCACAGTCGATGTGGGATTTCTAGT
Found at i:13639486 original size:157 final size:155
Alignment explanation
Indices: 13639174--13639536 Score: 363
Period size: 157 Copynumber: 2.3 Consensus size: 155
13639164 CAATGGAGTC
* * * * * * * * * * *
13639174 CCACCATCATCGGTGACACATCACTAGTATCCTCAAAGTTGGCTCTGATATTAATTTGTGAACCT
1 CCACCGTCCTCGGTGGCACATCACTAGTAT-CTTAGAGCTGACTTTGATACTAATGTGTGAACCC
* * * * *
13639239 TTATATCCTATTGCTAACTCTACTCCACAGTCGATGTGGGATTTCTAGTTTCACTTTAGGACCAT
65 TTATATCCTATTGCTAACTCTACTCCACAGTCAATGTGGGATTCCTAGCTTCACTTCAGAACCAT
* * *
13639304 GACATCCTCATTCACTCTAATGAAAG
130 AACATCCTCATTCACTCCAACGAAAG
*
13639330 CCCACCGTCCTTGGTGGCACATCACTAGTATCATTAGAGCTGACTTTGATACTAATGTGTGAACC
1 -CCACCGTCCTCGGTGGCACATCACTAGTATC-TTAGAGCTGACTTTGATACTAATGTGTGAACC
* * *
13639395 CTTATATTCTATTGCTAACTCTAGTCTACAG-CTAATGTGGGATTCCTTA-CTTCACTTCAGAAC
64 CTTATATCCTATTGCTAACTCTACTCCACAGTC-AATGTGGGATTCC-TAGCTTCACTTCAGAAC
** *
13639458 CATAACATTTTCCCTT-ACTCCAACGAAAG
127 CATAACATCCT-CATTCACTCCAACGAAAG
* * ** *
13639487 CTACCGTCCTCGATGGCACATCGTTATTATCTTCAGAGCTGACTTTGATA
1 CCACCGTCCTCGGTGGCACATCACTAGTATCTT-AGAGCTGACTTTGATA
13639537 TCACTTGTCA
Statistics
Matches: 169, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
155 2 0.01
156 43 0.25
157 119 0.70
158 5 0.03
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (155 bp):
CCACCGTCCTCGGTGGCACATCACTAGTATCTTAGAGCTGACTTTGATACTAATGTGTGAACCCT
TATATCCTATTGCTAACTCTACTCCACAGTCAATGTGGGATTCCTAGCTTCACTTCAGAACCATA
ACATCCTCATTCACTCCAACGAAAG
Found at i:13643895 original size:26 final size:26
Alignment explanation
Indices: 13643866--13643918 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13643856 TTTTTAAAAA
13643866 TTAAAAAAACTAAAAAAC-TAAAATTT
1 TTAAAAAAA-TAAAAAACTTAAAATTT
* *
13643892 TTAAAAATATACAAAACTTAAAATTT
1 TTAAAAAAATAAAAAACTTAAAATTT
13643918 T
1 T
13643919 CAAACAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAAAAAATAAAAAACTTAAAATTT
Found at i:13644212 original size:45 final size:46
Alignment explanation
Indices: 13644108--13644230 Score: 114
Period size: 45 Copynumber: 2.7 Consensus size: 46
13644098 TGAATGTTAC
**
13644108 AATTTT-A-TTTTTTATATATTTTATGAATTTTTTTATTTTTATTAA
1 AATTTTAAGTTTTTTATAT-TTTTACAAATTTTTTTATTTTTATTAA
* *
13644153 AATTTTAAGCTTTTT-TATTTTTACAAATTTTTTTATTTTT-TTAG
1 AATTTTAAGTTTTTTATATTTTTACAAATTTTTTTATTTTTATTAA
* * *
13644197 TATATTTCAGTTTTTTGA-ATTTTT-CAAAATTTTT
1 AAT-TTTAAGTTTTTT-ATATTTTTACAAATTTTTT
13644231 AAGAATTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
44 5 0.08
45 45 0.69
46 10 0.15
47 5 0.08
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (46 bp):
AATTTTAAGTTTTTTATATTTTTACAAATTTTTTTATTTTTATTAA
Found at i:13650706 original size:3 final size:3
Alignment explanation
Indices: 13650700--13650749 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
13650690 AGAAGAAGAA
* *
13650700 GAT GAT GAT GAT GAT -ACT GAT GAT GAT AAT GAT GAT AAT GAT GAT
1 GAT GAT GAT GAT GAT GA-T GAT GAT GAT GAT GAT GAT GAT GAT GAT
13650745 GAT GA
1 GAT GA
13650750 AACACATGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 39 0.95
4 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.28, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:13650846 original size:3 final size:3
Alignment explanation
Indices: 13650838--13650866 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13650828 ATCTTTGGTT
13650838 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13650867 TTGATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13652161 original size:20 final size:20
Alignment explanation
Indices: 13652127--13652179 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 20
13652117 ATTAAAAATG
*
13652127 CTTAAGAAAATAATAATTATAA
1 CTTAA-AAAA-AATAATAATAA
13652149 CTTAAAAAAAATAATAATAA
1 CTTAAAAAAAATAATAATAA
13652169 --TAAAAAAAATA
1 CTTAAAAAAAATA
13652180 TTTTTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 11 0.37
20 10 0.33
21 4 0.13
22 5 0.17
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (20 bp):
CTTAAAAAAAATAATAATAA
Found at i:13652504 original size:14 final size:14
Alignment explanation
Indices: 13652457--13652512 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
13652447 CATAACCTTT
*
13652457 AAATCCAAACCCGA
1 AAATCCAAACCCTA
*
13652471 AAACCCAAAATCCCTA
1 AAATCC-AAA-CCCTA
*
13652487 AAATCCAAACCCTT
1 AAATCCAAACCCTA
*
13652501 AAATCAAAACCC
1 AAATCCAAACCC
13652513 CAAACCCCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 20 0.57
15 6 0.17
16 9 0.26
ACGTcount: A:0.50, C:0.36, G:0.02, T:0.12
Consensus pattern (14 bp):
AAATCCAAACCCTA
Done.