Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 72 of 202
Found at i:21260508 original size:26 final size:26
Alignment explanation
Indices: 21260451--21260508 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
21260441 TTTGATACTC
* * *
21260451 TATTTTTAAGATATGTTTCCAAGTTT
1 TATTTTTAAGATATGTTTCAAAGATA
* * *
21260477 TGTTTTTAAGCTATGTTTTAAAGATA
1 TATTTTTAAGATATGTTTCAAAGATA
21260503 TATTTT
1 TATTTT
21260509 ACACGTGCTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (26 bp):
TATTTTTAAGATATGTTTCAAAGATA
Found at i:21263316 original size:38 final size:38
Alignment explanation
Indices: 21263265--21263342 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
21263255 ATTTACTCGC
*
21263265 GTAATTACTTTAATTCAC-TCTCTTAAGAATTGGGGAGA
1 GTAATTACTTTAATTCACAT-TCTTAAAAATTGGGGAGA
21263303 GTAATTACTTTAATTCACATTCTTAAAAATTGGGGAGA
1 GTAATTACTTTAATTCACATTCTTAAAAATTGGGGAGA
21263341 GT
1 GT
21263343 CCCTAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 37 0.97
39 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (38 bp):
GTAATTACTTTAATTCACATTCTTAAAAATTGGGGAGA
Found at i:21268174 original size:155 final size:155
Alignment explanation
Indices: 21267882--21268167 Score: 376
Period size: 155 Copynumber: 1.8 Consensus size: 155
21267872 TGTTAATTAT
*
21267882 ATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTATGCATCATTAATAT
1 ATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATAT
* * * * * *
21267947 AAAAATGTACATTATAATATCATAATTGTGCATAGTGTTACATATCATTAATAATCTACCTTAAT
66 AAAAATGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAATCTACATTAAT
21268012 TGAATAATTGAATAATGCTACTTGC
131 TGAATAATTGAATAATGCTACTTGC
* * * *** * *
21268037 ATATATTATAATCTACCATAAAGTTAGTTCCACGTTTAGGGTTTAAGTTTACGTATCATTAATAT
1 ATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATAT
* * * * *
21268102 TAAAATGTAAATTACAATAACATAGTTGTATATAG-GAATACATATCATTGATAATCTATATTAA
66 AAAAATGTAAATTACAATAACATAATTGTACATAGTG-ATACATATCATTAATAATCTACATTAA
21268166 TT
130 TT
21268168 ATATAATGTT
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
154 1 0.01
155 109 0.99
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (155 bp):
ATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATAT
AAAAATGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAATCTACATTAAT
TGAATAATTGAATAATGCTACTTGC
Found at i:21276816 original size:50 final size:50
Alignment explanation
Indices: 21276713--21276954 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 50
21276703 GGTGATGAGA
* * * * *
21276713 TCCCATGTAAGACCATGTTTGGAATATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-TAAGAGAGG
* * *
21276769 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAAGAGAGG
** * * **
21276819 TCCCCCGTAAGACCATGTCTGGGACATGGTATGGGCACCGATAAGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAAGAGAGG
* * * * * **
21276869 TCCCATGTAAGACCATATTTGGGATATAGCATTGGCA--GTATAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ATAAGAGAGG
* *
21276918 TCCCATATAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21276955 TGTTATTATC
Statistics
Matches: 153, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 78 0.51
51 2 0.01
55 1 0.01
56 33 0.22
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAAGAGAGG
Found at i:21279032 original size:39 final size:39
Alignment explanation
Indices: 21278973--21279056 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
21278963 TAAGGTTAAC
*
21278973 TTGATTTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
1 TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
21279012 TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
1 TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
21279051 TTGAAT
1 TTGAAT
21279057 GACACATTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.40
Consensus pattern (39 bp):
TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
Found at i:21280558 original size:19 final size:19
Alignment explanation
Indices: 21280534--21280581 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
21280524 TTGTTTAAGT
* *
21280534 TTAATATATTTTAATTTTA
1 TTAATATATTTCAATATTA
21280553 TTAATACTATTTCAATATTA
1 TTAATA-TATTTCAATATTA
21280573 -TAATATATT
1 TTAATATATT
21280582 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATTTCAATATTA
Found at i:21280694 original size:32 final size:31
Alignment explanation
Indices: 21280639--21280717 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
21280629 TTGTTCAAAA
* *
21280639 TTTATTATATATCTTTATTTAAATTTCCACAT-T
1 TTTA-TATATAT-TTTATGTAAA-TTCAACATGT
*
21280672 TTTATATATATTTTCATGTAAATTCAATATGT
1 TTTATATATATTTT-ATGTAAATTCAACATGT
*
21280704 TTTATATACATTTT
1 TTTATATATATTTT
21280718 TTTATATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 9 0.22
32 27 0.68
33 4 0.10
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.57
Consensus pattern (31 bp):
TTTATATATATTTTATGTAAATTCAACATGT
Found at i:21280940 original size:29 final size:29
Alignment explanation
Indices: 21280908--21280987 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
21280898 ATTTTATCTC
21280908 TTTCAAATATTTTAACATTTTTTAATTTA
1 TTTCAAATATTTTAACATTTTTTAATTTA
* * * *
21280937 TTTCAACTTATTTCAATA-TTGTTAATTTA
1 TTTCAA-ATATTTTAACATTTTTTAATTTA
21280966 TTT-AAATTTATTTTAACATTTT
1 TTTCAAA--TATTTTAACATTTT
21280988 AATTCATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
28 2 0.05
29 27 0.69
30 10 0.26
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTCAAATATTTTAACATTTTTTAATTTA
Found at i:21281169 original size:7 final size:7
Alignment explanation
Indices: 21281153--21281197 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
21281143 TTAAATTTAT
*
21281153 TTATTAA
1 TTATTCA
21281160 TTATTCA
1 TTATTCA
*
21281167 TTATTAA
1 TTATTCA
21281174 TTATTCA
1 TTATTCA
21281181 TTATTCA
1 TTATTCA
21281188 TTATTCA
1 TTATTCA
21281195 TTA
1 TTA
21281198 ATGTACATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (7 bp):
TTATTCA
Found at i:21281172 original size:14 final size:14
Alignment explanation
Indices: 21281153--21281197 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
21281143 TTAAATTTAT
21281153 TTATTAATTATTCA
1 TTATTAATTATTCA
21281167 TTATTAATTATTCA
1 TTATTAATTATTCA
*
21281181 TTATTCATTATTCA
1 TTATTAATTATTCA
21281195 TTA
1 TTA
21281198 ATGTACATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATTAATTATTCA
Found at i:21286500 original size:17 final size:17
Alignment explanation
Indices: 21286462--21286672 Score: 201
Period size: 17 Copynumber: 12.5 Consensus size: 17
21286452 ACACAATTCA
* *
21286462 CATATAAA-ACGGCTCA
1 CATATAAACACAGCTCG
* *
21286478 CATATAAACACAACTTG
1 CATATAAACACAGCTCG
*
21286495 CATATAAACACAACTCG
1 CATATAAACACAGCTCG
* *
21286512 CATATAAACACATCTTG
1 CATATAAACACAGCTCG
* *
21286529 CATATAAACACATCTCA
1 CATATAAACACAGCTCG
*
21286546 CATATAAACATAGCTCG
1 CATATAAACACAGCTCG
* *
21286563 TATATAAACATAGCTCG
1 CATATAAACACAGCTCG
*
21286580 CATATAAACACAGTTCG
1 CATATAAACACAGCTCG
* * * *
21286597 AATATAAATACATCTGG
1 CATATAAACACAGCTCG
*
21286614 CATATAAACATAGC-CAG
1 CATATAAACACAGCTC-G
*
21286631 CATATAAACACAGCTCA
1 CATATAAACACAGCTCG
* * *
21286648 CATATAAACATAGTTAG
1 CATATAAACACAGCTCG
21286665 CATATAAA
1 CATATAAA
21286673 TATAACTCGT
Statistics
Matches: 160, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
16 8 0.05
17 151 0.94
18 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24
Consensus pattern (17 bp):
CATATAAACACAGCTCG
Found at i:21289963 original size:74 final size:75
Alignment explanation
Indices: 21289861--21290002 Score: 196
Period size: 74 Copynumber: 1.9 Consensus size: 75
21289851 AGCACATAAA
* * * *
21289861 TAGGAAGCTCTTACGAGCCAATTATCGGGAAGCTCATACGAGCCATA-AACGGGAAGCTCAAGAG
1 TAGGAAGCTCATACGAGCCAAATATCGGGAAGCTCATAAGAGCCATATAACAGGAAGCTCAAGAG
21289925 AGCTATTAAC
66 AGCTATTAAC
** * * *
21289935 TAGGAAGCTCATGGGAGCCAAATATCGGGAAGCTCGTAAGAGCCATATATCAGGAAGCTCCAGAG
1 TAGGAAGCTCATACGAGCCAAATATCGGGAAGCTCATAAGAGCCATATAACAGGAAGCTCAAGAG
21290000 AGC
66 AGC
21290003 CATATATCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
74 41 0.71
75 17 0.29
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.18
Consensus pattern (75 bp):
TAGGAAGCTCATACGAGCCAAATATCGGGAAGCTCATAAGAGCCATATAACAGGAAGCTCAAGAG
AGCTATTAAC
Found at i:21289984 original size:25 final size:25
Alignment explanation
Indices: 21289836--21290010 Score: 119
Period size: 25 Copynumber: 7.0 Consensus size: 25
21289826 ATTCATATTT
*
21289836 GGGAATGCTCATAAGAGCACATAAAT-
1 GGGAA-GCTCATAAGAGC-CATATATC
* * *
21289862 AGGAAGCTCTTACGAGCCA-ATTATC
1 GGGAAGCTCATAAGAGCCATA-TATC
* *
21289887 GGGAAGCTCATACGAGCCATA-AAC
1 GGGAAGCTCATAAGAGCCATATATC
* *
21289911 GGGAAGCTCA-AGAGAGCTAT-TAAC
1 GGGAAGCTCATA-AGAGCCATATATC
* ** *
21289935 TAGGAAGCTCATGGGAGCCAAATATC
1 -GGGAAGCTCATAAGAGCCATATATC
*
21289961 GGGAAGCTCGTAAGAGCCATATATC
1 GGGAAGCTCATAAGAGCCATATATC
* *
21289986 AGGAAGCTCCA-GAGAGCCATATATC
1 GGGAAGCT-CATAAGAGCCATATATC
21290011 AATATGCTCA
Statistics
Matches: 117, Mismatches: 23, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
23 2 0.02
24 25 0.21
25 81 0.69
26 9 0.08
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCATAAGAGCCATATATC
Found at i:21290019 original size:25 final size:25
Alignment explanation
Indices: 21289938--21290027 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
21289928 TATTAACTAG
* * **
21289938 GAAGCTCATGGGAGCCAAATATCGG
1 GAAGCTCATGAGAGCCATATATCAA
* * *
21289963 GAAGCTCGTAAGAGCCATATATCAG
1 GAAGCTCATGAGAGCCATATATCAA
21289988 GAAGCTCCA-GAGAGCCATATATCAA
1 GAAGCT-CATGAGAGCCATATATCAA
* *
21290013 TATGCTCATGAGAGC
1 GAAGCTCATGAGAGC
21290028 TAATAACAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.04
25 50 0.94
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCATATATCAA
Found at i:21296544 original size:23 final size:23
Alignment explanation
Indices: 21296518--21296562 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
21296508 TTTCTTACTA
*
21296518 TAGTAATTTTCGGGGTATTACAG
1 TAGTAATTTTCGGGATATTACAG
21296541 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
21296563 AATGTCAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAG
Found at i:21296883 original size:76 final size:76
Alignment explanation
Indices: 21296757--21296908 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
21296747 TGGCACCGAG
21296757 CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
1 CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
21296822 GTAATGGAAAA
66 GTAATGGAAAA
21296833 CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
1 CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
21296898 GTAATGGAAAA
66 GTAATGGAAAA
21296909 TGATTCTAGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (76 bp):
CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
GTAATGGAAAA
Found at i:21298012 original size:4 final size:4
Alignment explanation
Indices: 21298003--21299160 Score: 1454
Period size: 4 Copynumber: 289.5 Consensus size: 4
21297993 GGAGTGCCAC
21298003 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
21298051 TATG TATG TATG TATG TCTG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
21298099 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
21298147 TATT TATG TATG TATG TATG TATG TATA TATG TATG TATG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
21298195 TATG TATG TATG TATG TACG TATG TATG TATG TATG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
21298243 TACG TACG TACG TACG GAGG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
21298291 TATG TATG TATG TATG TACG TATG TATG TACG TACG TACG TACAG -AGG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-TG TATG
* * * *
21298339 TATG TATG TATG TATG TATG TACG TATG TACG TATG TACG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
21298387 TACG TACG TACG TACG GAGG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * ** * * *
21298435 TACG TATA TATG TATG TACG TATG TATG TACG TACA TACG GAGG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
21298483 TATG TATG TATG TATG TATG TATA TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
21298531 TATG TATG TATG TACG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
21298579 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
21298627 TATG TATG TACG TACG TACG TACG GAGG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * ** * * *
21298675 TACG TATA TACG TATG TATG TACG TACG TACA TACG GAGG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
21298723 TATG TATG TATG TATG TACG TATG TATG TATG TATG TACG TACG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
21298771 TACG GAGG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
21298819 TACG TATG TATG TACG TACG TACG TACG GAGG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
21298867 TATG TACG TATG TACG TATG TATG TATG TACG GAGG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * *
21298915 TATG TATG TACG TACG TATG TATG TACG TACG TACG TACG TACG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
21298963 TACG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
21299011 TATG TATG TATG TATG TACG TATG TATG TACG TACG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
21299059 TATG TATG AATG TACG TATG TATG TATG TACG TACG TACG TATG TAGG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
21299107 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
21299155 TATG TA
1 TATG TA
21299161 ATACAAGTTT
Statistics
Matches: 1040, Mismatches: 112, Indels: 4
0.90 0.10 0.00
Matches are distributed among these distances:
3 1 0.00
4 1038 1.00
5 1 0.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.43
Consensus pattern (4 bp):
TATG
Found at i:21313484 original size:34 final size:34
Alignment explanation
Indices: 21313440--21313507 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
21313430 CCATAGTTGA
* *
21313440 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
21313475 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
21313508 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:21318592 original size:36 final size:35
Alignment explanation
Indices: 21318552--21318630 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
21318542 CATACGGCGC
*
21318552 CGTTTTGGGGCCACTGAAACATGCCCCAAACGACG
1 CGTTTTGGGGCCACTGAAACAGGCCCCAAACGACG
** *
21318587 TCGTTTAAGGGCCACTGAAACAGGCCTCAAACGACG
1 -CGTTTTGGGGCCACTGAAACAGGCCCCAAACGACG
21318623 CTGTTTTG
1 C-GTTTTG
21318631 CATCTTCTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
35 1 0.03
36 35 0.97
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (35 bp):
CGTTTTGGGGCCACTGAAACAGGCCCCAAACGACG
Found at i:21319926 original size:127 final size:127
Alignment explanation
Indices: 21319793--21320213 Score: 447
Period size: 127 Copynumber: 3.3 Consensus size: 127
21319783 TGTGTTTTTG
* *
21319793 TCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTATCCGCTCTACTGCAACTTCAGG
* * *
21319858 GAGATAGGATTGGTTTTTTTCGTCTGCTCCATTACTGCTTAGGTAGATAAGACTTGATACGA
66 GAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* * *
21319920 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTGTTTTTTATCCGCTCTACTGTAACTTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTATCCGCTCTACTGCAACTTCAGG
* * * * ** * *
21319985 GAGATAGGATTGG-TTTCTTCTGACTGTTCCACTGCAACTTCAGGGAGGTAAGACTGGATGCGA
66 GAGATAGGATTGGTTTTTTTC-GTCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGATGCGA
* * * ** * * * * ** * * *
21320048 TTTGCTCTACTGCAACTTCAGAGAGATATGATCTG-CGTTTTTGTCTACTCCACTACTACTT-AG
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTGGTTTTTATCCGCTCTACTGCAACTTCAG
* ***
21320111 GGAGATAAGATCT-GTGGCTTT-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
65 GGAGATAGGAT-TGGTTTTTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* *
21320173 TCTACTCCACTACTGCTTAGGGAGATAAGATATGTGGTTTT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTT
21320214 GTCTGCTCCA
Statistics
Matches: 233, Mismatches: 55, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
124 13 0.06
125 37 0.16
126 20 0.09
127 99 0.42
128 50 0.21
129 14 0.06
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (127 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTATCCGCTCTACTGCAACTTCAGG
GAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
Found at i:21319934 original size:87 final size:83
Alignment explanation
Indices: 21319702--21319926 Score: 227
Period size: 86 Copynumber: 2.7 Consensus size: 83
21319692 GAGATTTTGG
* * ** * * *
21319702 GTTTTAGTCTGCTCCACTGCAACTTCAGGTAGGTAAGACTGGATGCGATCTGCTCTACTGCAACT
1 GTTTTTGTCTGCTCCACTACTGCTT-AGGTAGATAAGACTTGATACGATCTGCTCTACTGCAACT
*
21319767 TCAGAGAGATATGATCTGT
65 TCAGAGAGATAGGATCTGT
* * * *** *
21319786 GTTTTTGTCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAA
1 GTTTTTGTCTGCTCCACTACTGCTTAGGTAGATAAGA-CT-T-GATACGATCTGCTCTACTGCAA
*
21319851 CTTCAGGGAGATAGGAT-TGGT
63 CTTCAGAGAGATAGGATCT-GT
* *
21319872 TTTTTTCGTCTGCTCCATTACTGCTTAGGTAGATAAGACTTGATACGATCTGCTC
1 GTTTTT-GTCTGCTCCACTACTGCTTAGGTAGATAAGACTTGATACGATCTGCTC
21319927 CACTACTGTT
Statistics
Matches: 112, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
83 10 0.09
84 31 0.28
85 2 0.02
86 41 0.37
87 28 0.25
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (83 bp):
GTTTTTGTCTGCTCCACTACTGCTTAGGTAGATAAGACTTGATACGATCTGCTCTACTGCAACTT
CAGAGAGATAGGATCTGT
Found at i:21320182 original size:40 final size:42
Alignment explanation
Indices: 21320090--21320421 Score: 270
Period size: 40 Copynumber: 7.9 Consensus size: 42
21320080 CTGCGTTTTT
* * * **
21320090 GTCTACTCCACTACTACTTAGGGAGATAAGATCTGTGGCTTT
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
21320132 GTCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGC
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
* * * **
21320171 GATCTACTCCACTACTGCTTAGGGAGATAAGATATGTGGTTTT
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
21320214 GTCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGC
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
* **
21320253 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTA
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG-ATGC
* * * * * * * * *** *
21320297 ATCCGCTCCACT-GTAACTTCAAGGAGATAGAATTGGTTTTTTTTTCC
1 GTCTGCTCCACTACT-GCTT-AGGGAGAT--AA--GATCTGTGGATGC
*
21320344 GTCTGCTCCACTACTGTTTAGGGAGATAAGA-CT-T-GATGC
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
21320383 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG
21320422 TTTTAATCCG
Statistics
Matches: 228, Mismatches: 42, Indels: 39
0.74 0.14 0.13
Matches are distributed among these distances:
39 9 0.04
40 91 0.40
41 9 0.04
42 63 0.28
43 18 0.08
44 10 0.04
46 9 0.04
47 14 0.06
48 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (42 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
Found at i:21320292 original size:82 final size:82
Alignment explanation
Indices: 21320091--21320295 Score: 374
Period size: 82 Copynumber: 2.5 Consensus size: 82
21320081 TGCGTTTTTG
* *
21320091 TCTACTCCACTACTACTTAGGGAGATAAGATCTGTGGCTTTGTCTGCTCCACTACTGCTTAGGGA
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGA
21320156 GATAAGACTTGATGCGA
66 GATAAGACTTGATGCGA
*
21320173 TCTACTCCACTACTGCTTAGGGAGATAAGATATGTGGTTTTGTCTGCTCCACTACTGCTTAGGGA
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGA
21320238 GATAAGACTTGATGCGA
66 GATAAGACTTGATGCGA
*
21320255 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTT
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTT
21320296 AATCCGCTCC
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 118 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (82 bp):
TCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGA
GATAAGACTTGATGCGA
Found at i:21320374 original size:130 final size:130
Alignment explanation
Indices: 21320214--21320461 Score: 460
Period size: 130 Copynumber: 1.9 Consensus size: 130
21320204 ATGTGGTTTT
21320214 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
*
21320279 ATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGAATTGGTTTTTTTTTCC
66 ATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGAATTGGTTTTTTTTTCC
*
21320344 GTCTGCTCCACTACTGTTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
* *
21320409 ATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTG
66 ATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGAATTG
21320462 ATTTCTTTCA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
130 114 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (130 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGAATTGGTTTTTTTTTCC
Found at i:21320748 original size:100 final size:100
Alignment explanation
Indices: 21320479--21321241 Score: 951
Period size: 100 Copynumber: 7.7 Consensus size: 100
21320469 TCAAATTGAC
* * * * * *
21320479 TGCAATGTCGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCTACTGCA-TCGCCAGGGA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACT-GCCAGGGA
***
21320542 AGTAAGATTCATTGTTGCGGCTTCAATCTTTT-AAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * *
21320577 TGCAATACCGGGGAA-CAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCACCGCCAGGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
*
21320641 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAA
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
** * * * *
21320676 TGCAATATCAGGGAAGCAAGATTCGTCGTCGTAGCTTTAATTTGCTCCACTGTACTGCCAAGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
21320741 GTGAGATTCGCTGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * *
21320776 TTCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
21320841 GTGAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * ** * *
21320876 TGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATTTGCTCCATTGCACCACTATGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
21320941 GTAAGATTCGCCGTTGCAGCTTCAATATTTTTAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * * * *
21320976 TACAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCTATTGCACCGCTATGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
21321041 GTAAGATTCACCGTTGCAGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * *
21321076 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCATGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* *
21321141 GTAAGATTCGTCGCTGCGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* *
21321176 TGCAATGTC-GAGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
1 TGCAATATCAG-GGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
21321240 AG
65 AG
21321242 GTAACTTCAT
Statistics
Matches: 593, Mismatches: 68, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
98 86 0.15
99 16 0.03
100 491 0.83
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (100 bp):
TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
Found at i:21321241 original size:50 final size:50
Alignment explanation
Indices: 21320479--21321241 Score: 438
Period size: 50 Copynumber: 15.3 Consensus size: 50
21320469 TCAAATTGAC
* * * * *
21320479 TGCAATGTCGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCTAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* *** ** *
21320528 TGC-ATCGCCAGGGAAGTAAGATTCATTGTTGCGGCTTCAATCT-TTTAAT
1 TGCAAT-GCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * * *
21320577 TGCAATACCGGGGAA-CAAGATTCACCGTTGTAGCTTCAATCTGATCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
** * ** * * *
21320626 TGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAA
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
** * * * * * * *
21320676 TGCAATATCAGGGAAGCAAGATTCGTCGTCGTAGCTTTAATTTGCTCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * ** * * * *
21320726 TGTACTGCCAAGGAAGTGAGATTCGCTGTTGTGGCTTCAATCTTTTAAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* ** * * * * * *
21320776 TTCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * ** * * * *
21320826 TGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
** * * * * * *
21320876 TGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATTTGCTCCAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
*** * * * * * * *
21320926 TGCACCACTATGGAAGTAAGATTCGCCGTTGCAGCTTCAATATTTTTAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * *
21320976 TACAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCTAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
** * * * * * * *
21321026 TGCACCGCTATGGAAGTAAGATTCACCGTTGCAGCTTCAATCTTTTTAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * * * *
21321076 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * * ** * *
21321126 TGCACTGCCATGGAAGTAAGATTCGTCGCTGCGGCTTCAATCTTTTAAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * *
21321176 TGCAATGTC-GAGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCAC
1 TGCAATGCCAG-GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
*
21321226 TGCACTGCCAGGGAAG
1 TGCAATGCCAGGGAAG
21321242 GTAACTTCAT
Statistics
Matches: 500, Mismatches: 207, Indels: 13
0.69 0.29 0.02
Matches are distributed among these distances:
48 24 0.05
49 35 0.07
50 440 0.88
51 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
Found at i:21321571 original size:23 final size:24
Alignment explanation
Indices: 21321522--21321578 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
21321512 TGGATTGCCC
21321522 CCACTGTAATATTCAAAGTTCAAT
1 CCACTGTAATATTCAAAGTTCAAT
* *
21321546 CCACTGTAATCTTC-AAGTTCAGT
1 CCACTGTAATATTCAAAGTTCAAT
21321569 CCACTGTAAT
1 CCACTGTAAT
21321579 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.33
Consensus pattern (24 bp):
CCACTGTAATATTCAAAGTTCAAT
Found at i:21322493 original size:18 final size:18
Alignment explanation
Indices: 21322470--21322510 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
21322460 CGTCTCCTTT
*
21322470 TTTTTCTTTCTTCTTTTC
1 TTTTTCTTTCTTCTTTCC
* *
21322488 TTTTTCTTTTTTGTTTCC
1 TTTTTCTTTCTTCTTTCC
21322506 TTTTT
1 TTTTT
21322511 TCAAATGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTCTTTCTTCTTTCC
Found at i:21332066 original size:43 final size:43
Alignment explanation
Indices: 21331921--21332157 Score: 272
Period size: 43 Copynumber: 5.6 Consensus size: 43
21331911 TAACCATTAC
* **
21331921 ACGGTGGAATCAGCACTTAGCAACCACC-TCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCACCTTCATAATC-AAGGAT
* * * *
21331964 CCCGGTGGAATCAGCACTTGGCAACCACCTT-ATAATCAATGAT
1 -ACGGTGGAATCAGCACATAGCAACCACCTTCATAATCAAGGAT
*
21332007 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCACC-TTCATAATCAAGGAT
*
21332049 ACGGTGGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCACC-TTCATAATCAAGGAT
* *
21332092 ACGGTGGAATCAGCACTTAGCAACCACCTT-ATAATCAATGAT
1 ACGGTGGAATCAGCACATAGCAACCACCTTCATAATCAAGGAT
* *
21332134 ACGG-GGAATTAGCACATATCAACC
1 ACGGTGGAATCAGCACATAGCAACC
21332158 TTTTTTTGAA
Statistics
Matches: 172, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
40 2 0.01
41 37 0.22
42 31 0.18
43 69 0.40
44 32 0.19
45 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (43 bp):
ACGGTGGAATCAGCACATAGCAACCACCTTCATAATCAAGGAT
Found at i:21332148 original size:127 final size:128
Alignment explanation
Indices: 21331921--21332157 Score: 363
Period size: 127 Copynumber: 1.9 Consensus size: 128
21331911 TAACCATTAC
* *** * *
21331921 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCCCGGTGGAATCAGCACTTGGC
1 ACGGTGGAATCAGCACATAGCAACCACCTCACAATCAAAGGATCACGGTGGAATCAGCACTTAGC
21331986 AACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGAT
66 AACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGAT
21332049 ACGGTGGAATCAGCACATAGCAACC-CCTTTCACAATC-AAGGAT-ACGGTGGAATCAGCACTTA
1 ACGGTGGAATCAGCACATAGCAACCACC--TCACAATCAAAGGATCACGGTGGAATCAGCACTTA
* *
21332111 GCAACCACCTTATAATCAATGATACGGGGAATTAGCACATATCAACC
64 GCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
21332158 TTTTTTTGAA
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
127 64 0.65
128 30 0.30
129 5 0.05
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (128 bp):
ACGGTGGAATCAGCACATAGCAACCACCTCACAATCAAAGGATCACGGTGGAATCAGCACTTAGC
AACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGAT
Found at i:21342089 original size:24 final size:24
Alignment explanation
Indices: 21342054--21342103 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
21342044 TTAAAGTAAT
*
21342054 TTGAGCTCAAGTTTTA-AAAAAAA
1 TTGAGCTCAAGTTTAATAAAAAAA
21342077 TTGAGCTCAAAGTTTAATAAAAAAA
1 TTGAGCTC-AAGTTTAATAAAAAAA
21342102 TT
1 TT
21342104 TAAGCTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.33
24 7 0.29
25 9 0.38
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (24 bp):
TTGAGCTCAAGTTTAATAAAAAAA
Found at i:21355301 original size:79 final size:79
Alignment explanation
Indices: 21355218--21355495 Score: 301
Period size: 79 Copynumber: 3.5 Consensus size: 79
21355208 AGAGAAATTG
* *
21355218 ATTGAACAATTCTGTTTCAGGATTTTATTCCTATCGTTCAACAAGATTTGTTCAATTTTCTGTTT
1 ATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTTGTTCAATTTTCTATTT
*
21355283 CCAAACATAAATCA
66 CCAAACAAAAATCA
* * * * * * *
21355297 ATTGAATAATTCTGTTTAAGGATTTTATTCTTGCCGTTCAACAAGATTTGGTT-GATTTTTTCTT
1 ATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTT-GTTCAATTTTCTATT
* * *
21355361 TCCGAATAGAAA-CAA
65 TCCAAACAAAAATC-A
* * * * * * *
21355376 ATTAAACAACTCTGTTTTAGGATTTTATCCCTGTCATTCAACAAGATTTCTTCAAATTTCTATTT
1 ATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTTGTTCAATTTTCTATTT
21355441 CCAAACAAAAATCA
66 CCAAACAAAAATCA
* * *
21355455 ATTGAACAATTTTGTTTC-GAGATTCTATTCCTGTAGTTCAA
1 ATTGAACAATTCTGTTTCAG-GATTTTATTCCTGTCGTTCAA
21355496 TTGAATTTAT
Statistics
Matches: 159, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
78 4 0.03
79 151 0.95
80 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (79 bp):
ATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTTGTTCAATTTTCTATTT
CCAAACAAAAATCA
Found at i:21356334 original size:38 final size:37
Alignment explanation
Indices: 21356278--21356372 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 37
21356268 TTATTGATTG
* * * * * *
21356278 CATGTTCAGCATGCCTACTATTATTGTTGAATCGAATA
1 CATGTTAAGCATGTCTACTACTACTATTG-AGCGAATA
* *
21356316 CATGTTAAGCATGTCTACTGCTACTATTGAGCTAATA
1 CATGTTAAGCATGTCTACTACTACTATTGAGCGAATA
*
21356353 CATGTTAAGAATGTCTACTA
1 CATGTTAAGCATGTCTACTA
21356373 GTTTTACATG
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 24 0.51
38 23 0.49
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (37 bp):
CATGTTAAGCATGTCTACTACTACTATTGAGCGAATA
Found at i:21370224 original size:21 final size:19
Alignment explanation
Indices: 21370200--21370264 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 19
21370190 AAGGAGAACT
21370200 GAAAGAAGTAAAAAGACAAAA
1 GAAAGAAG-AAAAAGA-AAAA
*
21370221 GAAAG--GAAAAATAAAAA
1 GAAAGAAGAAAAAGAAAAA
* *
21370238 GAAAGAAAAGGAAAAGAAGAA
1 GAAAG--AAGAAAAAGAAAAA
21370259 GAAAGA
1 GAAAGA
21370265 GTACAGAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 9 0.25
18 6 0.17
19 2 0.06
21 19 0.53
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (19 bp):
GAAAGAAGAAAAAGAAAAA
Found at i:21370250 original size:22 final size:24
Alignment explanation
Indices: 21370208--21370252 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
21370198 CTGAAAGAAG
21370208 TAAAAAGACAAAAGAAAGGAAAAA
1 TAAAAAGACAAAAGAAAGGAAAAA
*
21370232 TAAAAAGA-AAGA-AAAGGAAAA
1 TAAAAAGACAAAAGAAAGGAAAA
21370253 GAAGAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (24 bp):
TAAAAAGACAAAAGAAAGGAAAAA
Found at i:21374203 original size:3 final size:3
Alignment explanation
Indices: 21374195--21374221 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21374185 TTTTTAAAGC
21374195 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
21374222 TTTTAGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21374399 original size:18 final size:19
Alignment explanation
Indices: 21374378--21374431 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
21374368 ATTTTATAAT
* *
21374378 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTCAA
21374396 TTTTAAAAATTATTTTCAA
1 TTTTAAAAATTATTTTCAA
*
21374415 TTTTTGAAAATTATTTT
1 -TTTTAAAAATTATTTT
21374432 GATTATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 15 0.48
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTTAAAAATTATTTTCAA
Found at i:21374399 original size:19 final size:19
Alignment explanation
Indices: 21374375--21374433 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
21374365 CAAATTTTAT
21374375 AATTTTTATAAA-TATTTTG
1 AATTTTTA-AAATTATTTTG
* *
21374394 AATTTTAAAAATTATTTTC
1 AATTTTTAAAATTATTTTG
21374413 AATTTTTGAAAATTATTTTG
1 AATTTTT-AAAATTATTTTG
21374433 A
1 A
21374434 TTATTTTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.09
19 19 0.56
20 12 0.35
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTG
Found at i:21379738 original size:25 final size:24
Alignment explanation
Indices: 21379700--21379750 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
21379690 ATCATTTGAA
* *
21379700 AATTAAAAAATATAAATTAATAAT
1 AATTAAAAAATATAAATAAAAAAT
*
21379724 AATTAAAAATTTATAAATAAAAAAT
1 AATTAAAAA-ATATAAATAAAAAAT
21379749 AA
1 AA
21379751 AAAAAAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AATTAAAAAATATAAATAAAAAAT
Found at i:21382405 original size:11 final size:11
Alignment explanation
Indices: 21382389--21382424 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
21382379 GAATTTCCAC
21382389 TTCATAAGATA
1 TTCATAAGATA
21382400 TTCATAAGATA
1 TTCATAAGATA
*
21382411 TTAATAAGATA
1 TTCATAAGATA
21382422 TTC
1 TTC
21382425 TTTTGAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (11 bp):
TTCATAAGATA
Found at i:21387266 original size:22 final size:24
Alignment explanation
Indices: 21387241--21387295 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
21387231 TTTATAAATT
21387241 TAATTTAA-AATATATAAT-ACAA
1 TAATTTAAGAATATATAATAACAA
* *
21387263 TAATTTCAAGCATATTTAATAACAA
1 TAATTT-AAGAATATATAATAACAA
21387288 TAATTTAA
1 TAATTTAA
21387296 TCAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 6 0.21
23 2 0.07
24 10 0.36
25 10 0.36
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (24 bp):
TAATTTAAGAATATATAATAACAA
Found at i:21387933 original size:34 final size:35
Alignment explanation
Indices: 21387874--21387941 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
21387864 TCAAACACCA
21387874 TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
1 TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
*
21387909 TAAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 TAAAATATTTTCCAGTAAATCATTTTACAGAAAA
21387942 CATTTTACTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
Found at i:21388783 original size:17 final size:18
Alignment explanation
Indices: 21388748--21388786 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
21388738 GCTTTAATAA
21388748 TTTAAAAAATTATAGAATT
1 TTTAAAAAATTATA-AATT
21388767 TTTAAAAAATTAT-AATT
1 TTTAAAAAATTATAAATT
21388784 TTT
1 TTT
21388787 CTCATATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
19 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTAAAAAATTATAAATT
Found at i:21390500 original size:35 final size:35
Alignment explanation
Indices: 21390442--21390592 Score: 180
Period size: 35 Copynumber: 4.3 Consensus size: 35
21390432 AAAAAAAAGC
* * *
21390442 TAGGATAGACTCGTCTAAAGCAACCTTAAAGAGGT
1 TAGGATAGACCCGTCTAAGGCAACCTTAAAAAGGT
* *
21390477 TAGGATAGACCCGTTTAAGGCAACCGTAAAAAGGT
1 TAGGATAGACCCGTCTAAGGCAACCTTAAAAAGGT
* *
21390512 T-GAGATGGACCAGTCTAAGGCAACCTTAAAAAGGT
1 TAG-GATAGACCCGTCTAAGGCAACCTTAAAAAGGT
* *
21390547 TTGGATA-ATCCTGTCTAAGGCAACCTTAAAAAGGT
1 TAGGATAGA-CCCGTCTAAGGCAACCTTAAAAAGGT
*
21390582 TTGGATAGACC
1 TAGGATAGACC
21390593 TTGTTTGCAC
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
34 2 0.02
35 97 0.96
36 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (35 bp):
TAGGATAGACCCGTCTAAGGCAACCTTAAAAAGGT
Found at i:21397070 original size:37 final size:37
Alignment explanation
Indices: 21397020--21397093 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
21397010 GGTATAAGCC
*
21397020 CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
1 CTAAAGCAGGAGATCTATCACTCTGTTAGATTGAATT
*
21397057 CTAAAGCAGGAGATCTGTCACTCTGTTAGATTGAATT
1 CTAAAGCAGGAGATCTATCACTCTGTTAGATTGAATT
21397094 TGACGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (37 bp):
CTAAAGCAGGAGATCTATCACTCTGTTAGATTGAATT
Found at i:21400265 original size:15 final size:15
Alignment explanation
Indices: 21400245--21400275 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21400235 AAAAGGTGAA
*
21400245 TCCAATGGTGCCATG
1 TCCAATGATGCCATG
21400260 TCCAATGATGCCATG
1 TCCAATGATGCCATG
21400275 T
1 T
21400276 GATGTGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (15 bp):
TCCAATGATGCCATG
Found at i:21400604 original size:38 final size:38
Alignment explanation
Indices: 21400529--21400604 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
21400519 GAGATGTTAG
*
21400529 CTAAATTTATGTCGGTGTTAGAAACTCGATTTAAAAAC
1 CTAAATTTATGTCGGTGTTAGAAACTCGATTGAAAAAC
*
21400567 CTAAATTTATGTCGGTGTTAGAAACTCGATTGCAAAAC
1 CTAAATTTATGTCGGTGTTAGAAACTCGATTGAAAAAC
21400605 ACTGAGACAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (38 bp):
CTAAATTTATGTCGGTGTTAGAAACTCGATTGAAAAAC
Found at i:21404077 original size:16 final size:16
Alignment explanation
Indices: 21404058--21404094 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
21404048 ACTTTTTGTT
21404058 TTATTTATTATTATTA
1 TTATTTATTATTATTA
* *
21404074 TTATTTATTCTTATTC
1 TTATTTATTATTATTA
21404090 TTATT
1 TTATT
21404095 AGTCTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:21414308 original size:5 final size:5
Alignment explanation
Indices: 21414298--21414341 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
21414288 TGCTTAAAAG
21414298 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
21414342 AAAGAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:21415331 original size:25 final size:25
Alignment explanation
Indices: 21415303--21415379 Score: 127
Period size: 25 Copynumber: 3.1 Consensus size: 25
21415293 TAGCGCACTA
21415303 TCTGATTATTAGCACGTTGGTGCTC
1 TCTGATTATTAGCACGTTGGTGCTC
21415328 TCTGATTATTAGCACGTTGGTGCTC
1 TCTGATTATTAGCACGTTGGTGCTC
* **
21415353 TCTGATTACTAGCACGTCAGTGCTC
1 TCTGATTATTAGCACGTTGGTGCTC
21415378 TC
1 TC
21415380 CGTTTAGCAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (25 bp):
TCTGATTATTAGCACGTTGGTGCTC
Found at i:21415420 original size:22 final size:23
Alignment explanation
Indices: 21415312--21415426 Score: 92
Period size: 25 Copynumber: 4.9 Consensus size: 23
21415302 ATCTGATTAT
* *
21415312 TAGCACGTTGGTGCTCTCTGATTAT
1 TAGCACGTTAGTGCTCTCTG--TAC
*
21415337 TAGCACGTTGGTGCTCTCTGATTAC
1 TAGCACGTTAGTGCTCTCTG--TAC
* * *
21415362 TAGCACGTCAGTGCTCTCCGT-T
1 TAGCACGTTAGTGCTCTCTGTAC
*
21415384 TAGCACATCTA-TGCTCTCTGTA-
1 TAGCACGT-TAGTGCTCTCTGTAC
*
21415406 TAGCACTTTAGTGCTCTCTGT
1 TAGCACGTTAGTGCTCTCTGT
21415427 TCATTAGTGC
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.03
22 33 0.42
23 2 0.03
25 41 0.53
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (23 bp):
TAGCACGTTAGTGCTCTCTGTAC
Found at i:21435190 original size:331 final size:331
Alignment explanation
Indices: 21434578--21435236 Score: 966
Period size: 331 Copynumber: 2.0 Consensus size: 331
21434568 TTTTCTTTCC
* * * *
21434578 TTCTCTTTCATTTCTCTATCGTTTCCTTCTATATTACTCCTCTTTTGCTTTTAATTTTTTCCCGT
1 TTCTCCTTCATTTCTCTATCATTTCCTTCTAGATTACTCCTCTTTTGCTTTTAATTTTTTCCCAT
* * * * *
21434643 TAATCTTGCTACTACTCTATTGAAGGAGTTGCATATTTTGTTGTGTTCGATTGAAAAGTATCAAT
66 TAATCTT-CTAATACTCTATTGAAGGACTTACATATTTTGTCGTGTTCGACTGAAAAGTATCAAT
21434708 GTAAGTTTTATGGTTGAAATTCTGTAAATGTTACTCCCACTCGTTGTCAATTTGAGTGTTTCCAC
130 GTAAGTTTTATGGTTGAAATTCTGTAAATGTTACTCCCACTCGTTGTCAATTTGAGTGTTTCCAC
* *
21434773 TTGTTTGTTCTATATCTCTTTTTGAATGTTCAATTGATTCTATTTTAGGCGAAGACCTTGAGAAT
195 TTGTTTGTTCTATATATATTTTTGAATGTTCAATTGATTCTATTTTAGGCGAAGACCTTGAGAAT
* * ** * *
21434838 AATGATTTCTCCAACGTTAGGAGTTCGTGAATTGCTGTAGTG-TGCTTGGTAAGTGTTTGAATTT
260 AACGATTTCTCCAACGTTAGGAGTCCGTGAATTGCTGTAACGCT-CGTGGAAAGTGTTTGAATTT
21434902 ATGAATTA
324 ATGAATTA
* *
21434910 TTCTCCTTCATTTCTCTATCATTTCTTTCTAGATTACTCCTCTTTTGCTTTT-ATTTTTTTCCAT
1 TTCTCCTTCATTTCTCTATCATTTCCTTCTAGATTACTCCTCTTTTGCTTTTAATTTTTTCCCAT
* ** *
21434974 TAATC-T-TAATACTCTGTTGAAGGACTTATTTATTTTGTCGTGTTCGACTGAAAAGTATCAGTG
66 TAATCTTCTAATACTCTATTGAAGGACTTACATATTTTGTCGTGTTCGACTGAAAAGTATCAATG
* * * *
21435037 TAAGTTTTATGGTTGAAATTCTGTGAATGTTACTCTCGCTCGTTGTTGTCAATTTGGGTGTTTCC
131 TAAGTTTTATGGTTGAAATTCTGTAAATGTTACTC-C-CAC-TCGTTGTCAATTTGAGTGTTTCC
* *
21435102 GCTTGTTTGTTCTATATATATTTTTGAATGTTCAATTGGTTCTATTTTAGGCGAAGACCTTGAGA
193 ACTTGTTTGTTCTATATATATTTTTGAATGTTCAATTGATTCTATTTTAGGCGAAGACCTTGAGA
* *
21435167 ATAACGATTTCTCCAATGTTAGGAGTCCGTGAATTGTTGTAACGCTCGTGGAAAGTGTTTGAATT
258 ATAACGATTTCTCCAACGTTAGGAGTCCGTGAATTGCTGTAACGCTCGTGGAAAGTGTTTGAATT
21435232 TATGA
323 TATGA
21435237 GTTGAGTTTT
Statistics
Matches: 292, Mismatches: 31, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
328 82 0.28
329 1 0.00
330 3 0.01
331 157 0.54
332 49 0.17
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (331 bp):
TTCTCCTTCATTTCTCTATCATTTCCTTCTAGATTACTCCTCTTTTGCTTTTAATTTTTTCCCAT
TAATCTTCTAATACTCTATTGAAGGACTTACATATTTTGTCGTGTTCGACTGAAAAGTATCAATG
TAAGTTTTATGGTTGAAATTCTGTAAATGTTACTCCCACTCGTTGTCAATTTGAGTGTTTCCACT
TGTTTGTTCTATATATATTTTTGAATGTTCAATTGATTCTATTTTAGGCGAAGACCTTGAGAATA
ACGATTTCTCCAACGTTAGGAGTCCGTGAATTGCTGTAACGCTCGTGGAAAGTGTTTGAATTTAT
GAATTA
Found at i:21435579 original size:15 final size:15
Alignment explanation
Indices: 21435555--21435586 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21435545 TATGCATGCA
*
21435555 AAATATAAAAGACAT
1 AAATACAAAAGACAT
21435570 AAATACAAAAGACAT
1 AAATACAAAAGACAT
21435585 AA
1 AA
21435587 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:21439151 original size:63 final size:63
Alignment explanation
Indices: 21439052--21439218 Score: 183
Period size: 63 Copynumber: 2.7 Consensus size: 63
21439042 AGGCCATGTA
* * * *
21439052 ACTCACTGTTTGTGAATTAGAGTCACATGGGTCAGGGACATGGGCATGTGTCCAAGCCGTGTG
1 ACTCACTGTTTGTGAATTAGAGTCACACGGGCCAGGGACACGGGCATGTGTACAAGCCGTGTG
* * * * * ***
21439115 ACTCATTGTTTGTGAATTAGAGTCACACGTGCCAGGGACACGGGCGTGTGTACAAGTCATAAA
1 ACTCACTGTTTGTGAATTAGAGTCACACGGGCCAGGGACACGGGCATGTGTACAAGCCGTGTG
* * *
21439178 ACTCACTGTTT-TAGAATTAAAGTCACATGAGCCAGGGACAC
1 ACTCACTGTTTGT-GAATTAGAGTCACACGGGCCAGGGACAC
21439219 AGGTGTGTGT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
62 1 0.01
63 86 0.99
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (63 bp):
ACTCACTGTTTGTGAATTAGAGTCACACGGGCCAGGGACACGGGCATGTGTACAAGCCGTGTG
Found at i:21443050 original size:14 final size:15
Alignment explanation
Indices: 21443022--21443063 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
21443012 TAAATAAGAA
21443022 TAAAAAATAT-T--T
1 TAAAAAATATATAAT
21443034 TAAAAAATATA-AAT
1 TAAAAAATATATAAT
21443048 TAAAAAATATATAAT
1 TAAAAAATATATAAT
21443063 T
1 T
21443064 TTCTTAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.38
14 12 0.46
15 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAAATATATAAT
Found at i:21444001 original size:3 final size:3
Alignment explanation
Indices: 21443995--21444058 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
21443985 GTAGTAGTAG
21443995 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21444043 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
21444059 GGCTAAATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:21444372 original size:12 final size:13
Alignment explanation
Indices: 21444344--21444378 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
21444334 TCACACTATT
*
21444344 TTCTTCATCTTTC
1 TTCTTCATCTGTC
21444357 TTCTTCA-CTGTC
1 TTCTTCATCTGTC
21444369 TTCTTCATCT
1 TTCTTCATCT
21444379 CCCATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.09, C:0.31, G:0.03, T:0.57
Consensus pattern (13 bp):
TTCTTCATCTGTC
Found at i:21446757 original size:56 final size:56
Alignment explanation
Indices: 21446671--21446783 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
21446661 GAATTATAAG
* * * *
21446671 TCAGAATGTGCTATAAATGTCTATATAATTTTTAGTTCTCACACCCTTAAACTTAA
1 TCAGAATGTGCTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAAATTAA
*
21446727 TCAGAATGTGTTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAAATTAA
1 TCAGAATGTGCTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAAATTAA
21446783 T
1 T
21446784 TCATTGTTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (56 bp):
TCAGAATGTGCTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAAATTAA
Found at i:21450061 original size:13 final size:13
Alignment explanation
Indices: 21450045--21450075 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21450035 AATGATTACA
21450045 TGAAATGGTTATG
1 TGAAATGGTTATG
*
21450058 TGAATTGGTTATG
1 TGAAATGGTTATG
21450071 TGAAA
1 TGAAA
21450076 ATATATGCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (13 bp):
TGAAATGGTTATG
Found at i:21454734 original size:18 final size:18
Alignment explanation
Indices: 21454694--21454749 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
21454684 AAAGATTAGT
*
21454694 GTATTTGTGTTATT-TATA
1 GTATTTGTGATATTAT-TA
*
21454712 ATATTTGTGATATTATTA
1 GTATTTGTGATATTATTA
*
21454730 GTATTTTTGTAATATTATTA
1 GTA--TTTGTGATATTATTA
21454750 TTAATGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 16 0.52
19 1 0.03
20 14 0.45
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (18 bp):
GTATTTGTGATATTATTA
Found at i:21467094 original size:19 final size:18
Alignment explanation
Indices: 21467046--21467094 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
21467036 TATTTCCTAT
*
21467046 AAAATATAAAAAATTTTCA
1 AAAATATAAAAAA-TTTAA
*
21467065 ATAATATAAAAAATTTAA
1 AAAATATAAAAAATTTAA
*
21467083 AAAATTTAAAAA
1 AAAATATAAAAA
21467095 TTTGTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATAAAAAATTTAA
Found at i:21467097 original size:8 final size:9
Alignment explanation
Indices: 21467046--21467094 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
21467036 TATTTCCTAT
*
21467046 AAAATATAA
1 AAAATTTAA
*
21467055 AAAATTTTCA
1 AAAA-TTTAA
* *
21467065 ATAATATAA
1 AAAATTTAA
21467074 AAAATTTAA
1 AAAATTTAA
21467083 AAAATTTAA
1 AAAATTTAA
21467092 AAA
1 AAA
21467095 TTTGTTATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
9 26 0.81
10 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATTTAA
Found at i:21474452 original size:21 final size:22
Alignment explanation
Indices: 21474427--21474470 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21474417 CAAATATAAG
*
21474427 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
21474448 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
21474470 T
1 T
21474471 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:21475068 original size:13 final size:13
Alignment explanation
Indices: 21475050--21475082 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
21475040 CAAATTTTTT
21475050 AAAAGCACTTCTA
1 AAAAGCACTTCTA
*
21475063 AAAAGCACTTCTC
1 AAAAGCACTTCTA
21475076 AAAAGCA
1 AAAAGCA
21475083 ATGAAGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.24, G:0.09, T:0.18
Consensus pattern (13 bp):
AAAAGCACTTCTA
Found at i:21480418 original size:28 final size:28
Alignment explanation
Indices: 21480387--21480454 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
21480377 TAAAATATAA
* *
21480387 AAATTAAAATAATTTTTATATTAATATT
1 AAATTAAAATAATTTTAATACTAATATT
* *
21480415 AAATAAAAATAAATTTAATACTAATATT
1 AAATTAAAATAATTTTAATACTAATATT
21480443 AAA-TAAAATAAT
1 AAATTAAAATAAT
21480455 GATTTTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 7 0.21
28 27 0.79
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (28 bp):
AAATTAAAATAATTTTAATACTAATATT
Found at i:21481554 original size:20 final size:21
Alignment explanation
Indices: 21481515--21481555 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
21481505 AATTCATTTT
21481515 AATATTTTATTATATAAAATA
1 AATATTTTATTATATAAAATA
*
21481536 AATATTTTA-TATTTAAAATA
1 AATATTTTATTATATAAAATA
21481556 GTGTATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATTATATAAAATA
Found at i:21482483 original size:56 final size:56
Alignment explanation
Indices: 21482412--21482525 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
21482402 AAGAACGAAG
*
21482412 TAAGAACGAAGTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
1 TAAGAACGAACTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
21482468 TAAGAACGAACTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
1 TAAGAACGAACTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
21482524 TA
1 TA
21482526 TTACTGGCCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.52, C:0.13, G:0.22, T:0.13
Consensus pattern (56 bp):
TAAGAACGAACTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
Found at i:21484100 original size:31 final size:31
Alignment explanation
Indices: 21484059--21484122 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
21484049 TTTCCTATAG
*
21484059 TTAGGGTTTTTAATATTTTTAAATTTAGGGT
1 TTAGGATTTTTAATATTTTTAAATTTAGGGT
*
21484090 TTAGGATTTTTAATATTTTTAAGTTTAGGGT
1 TTAGGATTTTTAATATTTTTAAATTTAGGGT
21484121 TT
1 TT
21484123 TTTAAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (31 bp):
TTAGGATTTTTAATATTTTTAAATTTAGGGT
Found at i:21486105 original size:20 final size:20
Alignment explanation
Indices: 21486080--21486120 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
21486070 CCCCTATAAG
*
21486080 TATGACCTATTTGATGTGAA
1 TATGACCTATTTGATATGAA
21486100 TATGACCTATTTGATATGAA
1 TATGACCTATTTGATATGAA
21486120 T
1 T
21486121 GGCAAGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (20 bp):
TATGACCTATTTGATATGAA
Found at i:21486706 original size:18 final size:18
Alignment explanation
Indices: 21486664--21486713 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
21486654 AGGCGCAGAT
*
21486664 GAGGAAAAAGATGCGATC
1 GAGGAAGAAGATGCGATC
* *
21486682 GAGGAAGAAGATGTGGTC
1 GAGGAAGAAGATGCGATC
*
21486700 GAGGAAGAATATGC
1 GAGGAAGAAGATGC
21486714 AAGTGAGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.38, T:0.14
Consensus pattern (18 bp):
GAGGAAGAAGATGCGATC
Found at i:21489057 original size:20 final size:20
Alignment explanation
Indices: 21489032--21489071 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21489022 TGAAGACAAA
21489032 TATAGTGTTGAAATGAAAAT
1 TATAGTGTTGAAATGAAAAT
21489052 TATAGTGTTGAAATGAAAAT
1 TATAGTGTTGAAATGAAAAT
21489072 ATATGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (20 bp):
TATAGTGTTGAAATGAAAAT
Found at i:21496114 original size:25 final size:25
Alignment explanation
Indices: 21496076--21496142 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
21496066 ACAAATAAAA
21496076 ACCCAAAA-TCAGCCCAACACCCCAC
1 ACCCAAAACT-AGCCCAACACCCCAC
*
21496101 ACCCAAAACTAGCCCAACACCTCAC
1 ACCCAAAACTAGCCCAACACCCCAC
*
21496126 ACCCAAAACAAGCCCAA
1 ACCCAAAACTAGCCCAA
21496143 GTTAACCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.43, C:0.48, G:0.04, T:0.04
Consensus pattern (25 bp):
ACCCAAAACTAGCCCAACACCCCAC
Found at i:21500736 original size:22 final size:23
Alignment explanation
Indices: 21500704--21500746 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21500694 AAGGCTAAGC
*
21500704 TTTAATATAA-TTAGTTCAATGA
1 TTTAATATAATTTAATTCAATGA
*
21500726 TTTAATTTAATTTAATTCAAT
1 TTTAATATAATTTAATTCAAT
21500747 TAATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (23 bp):
TTTAATATAATTTAATTCAATGA
Found at i:21503927 original size:25 final size:24
Alignment explanation
Indices: 21503899--21503988 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 24
21503889 CTCGCTTGAA
21503899 CTTCCCGATATATGGCTATTCGGAG
1 CTTCCCGAT-TATGGCTATTCGGAG
** *
21503924 CTTCTTGATTAATGGCTCTTCGGAG
1 CTTCCCGATT-ATGGCTATTCGGAG
* * *
21503949 CTACCC-ATTATTGGCTCGTAC-GAG
1 CTTCCCGATTA-TGGCT-ATTCGGAG
21503973 CTTCCCGATTATGGCT
1 CTTCCCGATTATGGCT
21503989 CTTATAAGCT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
23 1 0.02
24 22 0.42
25 29 0.56
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
CTTCCCGATTATGGCTATTCGGAG
Found at i:21506627 original size:18 final size:18
Alignment explanation
Indices: 21506601--21506637 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21506591 TTAAAATTTG
*
21506601 AAAAGAAGTATAAGCATA
1 AAAAAAAGTATAAGCATA
*
21506619 AAAAAAAGTGTAAGCATA
1 AAAAAAAGTATAAGCATA
21506637 A
1 A
21506638 GATAAAAAAT
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:0.62, C:0.05, G:0.16, T:0.16
Consensus pattern (18 bp):
AAAAAAAGTATAAGCATA
Found at i:21507348 original size:16 final size:16
Alignment explanation
Indices: 21507323--21507372 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
21507313 ATATATATTA
*
21507323 ATTATGTTAATTAATT
1 ATTATTTTAATTAATT
*
21507339 ATTATTTTAAATAA-T
1 ATTATTTTAATTAATT
*
21507354 GTTATTTTACATTAATT
1 ATTATTTTA-ATTAATT
21507371 AT
1 AT
21507373 ATGAAACACT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 9 0.33
16 16 0.59
17 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
ATTATTTTAATTAATT
Found at i:21510266 original size:69 final size:69
Alignment explanation
Indices: 21510177--21510310 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 69
21510167 TTCTCTTCCT
* * *
21510177 GAGGATTCCATCACACAGAAGGTCTGTTTCAAGGAATCGAACGTGAATCTTGAAGATGTGATGGT
1 GAGGATTCCAACACAAAGAAGGTCTGTTTCAAGGAATCGAACGTGAATCTTGAAGATGTAATGGT
21510242 TGTG
66 TGTG
* * * *
21510246 GAGGATTCCAACACAAAGAAGGTCTGTTTCAAGGACTCGGATGTGATTCTTGAAGATGTAATGGT
1 GAGGATTCCAACACAAAGAAGGTCTGTTTCAAGGAATCGAACGTGAATCTTGAAGATGTAATGGT
21510311 CATGGAGTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (69 bp):
GAGGATTCCAACACAAAGAAGGTCTGTTTCAAGGAATCGAACGTGAATCTTGAAGATGTAATGGT
TGTG
Found at i:21516634 original size:21 final size:20
Alignment explanation
Indices: 21516604--21516657 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
21516594 TTTAATTTTC
*
21516604 AAATTTTAAAAAAATTAAAA
1 AAATTATAAAAAAATTAAAA
* * *
21516624 AAGATTATAAAATTATTTTAAA
1 AA-ATTATAAAA-AAATTAAAA
21516646 AAATTATAAAAA
1 AAATTATAAAAA
21516658 TTATTTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 17 0.63
22 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATTATAAAAAAATTAAAA
Found at i:21516664 original size:21 final size:21
Alignment explanation
Indices: 21516604--21516675 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 21
21516594 TTTAATTTTC
* * *
21516604 AAATTTTAAAAA-AATTAAAA
1 AAATTATAAAAATTATTTAAA
21516624 AAGATTAT-AAAATTATTTTAAA
1 AA-ATTATAAAAATTA-TTTAAA
21516646 AAATTATAAAAATTATTT-AA
1 AAATTATAAAAATTATTTAAA
21516666 AAA-TATAAAA
1 AAATTATAAAA
21516676 TTAAATGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 7 0.16
20 11 0.24
21 13 0.29
22 14 0.31
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (21 bp):
AAATTATAAAAATTATTTAAA
Found at i:21518251 original size:25 final size:24
Alignment explanation
Indices: 21518221--21518279 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
21518211 TTTCTTATAT
*
21518221 TATTTTTTTAAATATATATA-TGTA
1 TATTTTTTTTAATATATATACT-TA
* *
21518245 TATTTTTATTTTATGTATATACTTA
1 TATTTTT-TTTAATATATATACTTA
21518270 TATTTTTTTT
1 TATTTTTTTT
21518280 CAACTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 19 0.63
26 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (24 bp):
TATTTTTTTTAATATATATACTTA
Found at i:21520517 original size:17 final size:18
Alignment explanation
Indices: 21520495--21520528 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21520485 ATAATTGTAA
21520495 TTTAAAT-TCTAATTATT
1 TTTAAATATCTAATTATT
*
21520512 TTTAAATATGTAATTAT
1 TTTAAATATCTAATTAT
21520529 CACAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAATATCTAATTATT
Found at i:21527565 original size:41 final size:41
Alignment explanation
Indices: 21527456--21527600 Score: 134
Period size: 41 Copynumber: 3.6 Consensus size: 41
21527446 ATAATAATGA
* * * *
21527456 TGAAC-TGCAAATACGTACCCCTCTTTGTACTTCGGTACCC
1 TGAACTTGCACATACATGCCCCTATTTGTACTTCGGTACCC
* * * * * *
21527496 TTGAAATAG-GCATACGTGCCTCTGTTTGTACTTCGGTACCTC
1 -TGAACTTGCACATACATGCCCCTATTTGTACTTCGGTACC-C
* *
21527538 TGAA-TTGCACATATATGCCCCTATTTGTACTTCGGTGCCC
1 TGAACTTGCACATACATGCCCCTATTTGTACTTCGGTACCC
*
21527578 TTAACTTGCACATACATGCCCCT
1 TGAACTTGCACATACATGCCCCT
21527601 GTTTAGACTT
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
40 6 0.07
41 76 0.90
42 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (41 bp):
TGAACTTGCACATACATGCCCCTATTTGTACTTCGGTACCC
Found at i:21532578 original size:13 final size:13
Alignment explanation
Indices: 21532562--21532587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21532552 TTAATTCACA
21532562 TATTTTCACGCCT
1 TATTTTCACGCCT
21532575 TATTTTCACGCCT
1 TATTTTCACGCCT
21532588 ACAGTAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
TATTTTCACGCCT
Found at i:21541519 original size:25 final size:25
Alignment explanation
Indices: 21541486--21541536 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
21541476 TCATATATCT
21541486 TCTTACTATATCAATATCCATTTCA
1 TCTTACTATATCAATATCCATTTCA
21541511 TCTTACTATATCAATATCCATTTCA
1 TCTTACTATATCAATATCCATTTCA
21541536 T
1 T
21541537 GCATTTCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (25 bp):
TCTTACTATATCAATATCCATTTCA
Found at i:21541931 original size:21 final size:23
Alignment explanation
Indices: 21541905--21541962 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
21541895 GCCAGAAGCA
*
21541905 ACACACGAAA-TGCCTGAAATTCG
1 ACACA-GAAAGTGCCTGAAATACG
*
21541928 ACACATAAAGTGCCTGAAATACG
1 ACACAGAAAGTGCCTGAAATACG
*
21541951 ACACATAAAGTG
1 ACACAGAAAGTG
21541963 TCTTCTCAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (23 bp):
ACACAGAAAGTGCCTGAAATACG
Found at i:21541941 original size:23 final size:23
Alignment explanation
Indices: 21541915--21541962 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
21541905 ACACACGAAA
*
21541915 TGCCTGAAATTCGACACATAAAG
1 TGCCTGAAATACGACACATAAAG
21541938 TGCCTGAAATACGACACATAAAG
1 TGCCTGAAATACGACACATAAAG
21541961 TG
1 TG
21541963 TCTTCTCAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (23 bp):
TGCCTGAAATACGACACATAAAG
Found at i:21542490 original size:11 final size:11
Alignment explanation
Indices: 21542474--21542498 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21542464 TTAAATTTTC
21542474 CTATTCAATTT
1 CTATTCAATTT
21542485 CTATTCAATTT
1 CTATTCAATTT
21542496 CTA
1 CTA
21542499 CCGTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:21546993 original size:23 final size:25
Alignment explanation
Indices: 21546958--21547021 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
21546948 TTTTTTTTTG
21546958 TATTTTCAATTTATTAGAAAAA-AT-
1 TATTTT-AATTTATTAGAAAAACATC
21546982 TATTTTAATTTATT-GAAAAACATC
1 TATTTTAATTTATTAGAAAAACATC
* *
21547006 TACTTTAATTTTTTAG
1 TATTTTAATTTATTAG
21547022 TATATTTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 18 0.51
25 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (25 bp):
TATTTTAATTTATTAGAAAAACATC
Found at i:21550834 original size:6 final size:6
Alignment explanation
Indices: 21550823--21550910 Score: 176
Period size: 6 Copynumber: 14.7 Consensus size: 6
21550813 ACTCATATCA
21550823 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
21550871 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC
21550911 CAATAATAAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 82 1.00
ACGTcount: A:0.16, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTCAT
Found at i:21553509 original size:20 final size:22
Alignment explanation
Indices: 21553484--21553526 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21553474 TCAATGATTT
21553484 TGTTAAC-A-GAATATATTTAG
1 TGTTAACTATGAATATATTTAG
*
21553504 TGTTAACTATGAATTTATTTAG
1 TGTTAACTATGAATATATTTAG
21553526 T
1 T
21553527 TTTGTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (22 bp):
TGTTAACTATGAATATATTTAG
Found at i:21561717 original size:29 final size:29
Alignment explanation
Indices: 21561647--21561718 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
21561637 ATGTTTAAAT
*
21561647 TAAGATTGAAATTTTTTTATAATAGTATTAG
1 TAAGATT-AAATTTTTCTATAATAG-ATTAG
*
21561678 TAAGTTTAAATTGTTTCTATCAATAG-TTAG
1 TAAGATTAAATT-TTTCTAT-AATAGATTAG
21561708 -AAGATTAAATT
1 TAAGATTAAATT
21561719 AAGTGAGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 10 0.28
30 9 0.25
31 12 0.33
32 5 0.14
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.46
Consensus pattern (29 bp):
TAAGATTAAATTTTTCTATAATAGATTAG
Found at i:21565416 original size:31 final size:31
Alignment explanation
Indices: 21565349--21565416 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
21565339 TCTTTTTATT
* * *
21565349 AATATATGAATTTTATTTTTGTTAATATATG
1 AATATATGAATATTATTTTGGATAATATATG
21565380 AATATATGAATATTATGTTTGGAT-AT-TATG
1 AATATATGAATATTAT-TTTGGATAATATATG
21565410 ACATATA
1 A-ATATA
21565417 AACTAATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 5 0.16
31 22 0.69
32 5 0.16
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (31 bp):
AATATATGAATATTATTTTGGATAATATATG
Found at i:21565644 original size:21 final size:21
Alignment explanation
Indices: 21565599--21565645 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
21565589 AAATAATAAA
*
21565599 ATAG-ATTATATATTATTTTT
1 ATAGTATTATATATTATATTT
21565619 ATAGTATTATATATTATGATTT
1 ATAGTATTATATATTAT-ATTT
21565641 -TAGTA
1 ATAGTA
21565646 AATTCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 17 0.71
22 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
ATAGTATTATATATTATATTT
Found at i:21565687 original size:17 final size:18
Alignment explanation
Indices: 21565662--21565707 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
21565652 TATAAGAATA
*
21565662 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
21565679 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
21565697 ATTAAATTATA
1 ATTAAATTATA
21565708 TTTAATAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:21565924 original size:16 final size:16
Alignment explanation
Indices: 21565903--21565957 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
21565893 CAAGAATATT
*
21565903 ATTACAGTTCTATTTC
1 ATTACAGCTCTATTTC
21565919 ATTACAGCTCTA-TTC
1 ATTACAGCTCTATTTC
*
21565934 AATTACAGCTCTATTCC
1 -ATTACAGCTCTATTTC
21565951 ATTACAG
1 ATTACAG
21565958 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 3 0.09
16 30 0.86
17 2 0.06
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:21595802 original size:19 final size:19
Alignment explanation
Indices: 21595764--21595803 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21595754 CAATTTTCAT
* *
21595764 ATTAATTTTAATTGATTTG
1 ATTAATTTAAATTGACTTG
*
21595783 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTGACTTG
21595802 AT
1 AT
21595804 CAAAATCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:21597589 original size:18 final size:19
Alignment explanation
Indices: 21597563--21597600 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
21597553 GAAATGGCAA
*
21597563 AGATGAGAAATG-AATATG
1 AGATAAGAAATGAAATATG
21597581 AGATAAGAAATGAAATATG
1 AGATAAGAAATGAAATATG
21597600 A
1 A
21597601 AATGATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (19 bp):
AGATAAGAAATGAAATATG
Found at i:21597610 original size:19 final size:19
Alignment explanation
Indices: 21597565--21597632 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
21597555 AATGGCAAAG
*
21597565 ATGAGAAATG-AATATGAG
1 ATGAGAAATGAAATATGAA
*
21597583 ATAAGAAATGAAATATGAA
1 ATGAGAAATGAAATATGAA
* * *
21597602 ATGATAAATGAGATGTGAA
1 ATGAGAAATGAAATATGAA
**
21597621 ATTTGAAATGAA
1 ATGAGAAATGAA
21597633 TTCAAGTATT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 9 0.23
19 30 0.77
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (19 bp):
ATGAGAAATGAAATATGAA
Found at i:21607218 original size:42 final size:42
Alignment explanation
Indices: 21607171--21607314 Score: 137
Period size: 45 Copynumber: 3.3 Consensus size: 42
21607161 GTGCCGATTT
21607171 TCATGCCATATAAATATAGGTACTATGTACCAGTGTTGGCTA
1 TCATGCCATATAAATATAGGTACTATGTACCAGTGTTGGCTA
* * * * *
21607213 TCATGCTATATGCATACA-ACAAGTACTATTTACCAGTGTTGGCTT
1 TCATGCCATAT--A-A-ATATAGGTACTATGTACCAGTGTTGGCTA
* * **
21607258 TCATGTCACATAAATACAATAGGTACTATGTACTGGTGTTGGCTA
1 TCATGCCATATAAAT---ATAGGTACTATGTACCAGTGTTGGCTA
21607303 TCATGCCATATA
1 TCATGCCATATA
21607315 CATACAACAG
Statistics
Matches: 78, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.01
42 11 0.14
43 1 0.01
44 1 0.01
45 63 0.81
46 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (42 bp):
TCATGCCATATAAATATAGGTACTATGTACCAGTGTTGGCTA
Found at i:21607247 original size:45 final size:45
Alignment explanation
Indices: 21607188--21607343 Score: 188
Period size: 45 Copynumber: 3.5 Consensus size: 45
21607178 ATATAAATAT
*
21607188 AGGTACTATGTACCAGTGTTGGCTATCATGCTATATGCATACAAC
1 AGGTACTATGTACCAGTGTTGGCTATCATGCTATATACATACAAC
* * * * * *
21607233 AAGTACTATTTACCAGTGTTGGCTTTCATG-TCACATAAATACAAT
1 AGGTACTATGTACCAGTGTTGGCTATCATGCT-ATATACATACAAC
** *
21607278 AGGTACTATGTACTGGTGTTGGCTATCATGCCATATACATACAAC
1 AGGTACTATGTACCAGTGTTGGCTATCATGCTATATACATACAAC
* *
21607323 AGGTACTATGTATCGGTGTTG
1 AGGTACTATGTACCAGTGTTG
21607344 ATTTTCTTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
44 1 0.01
45 90 0.99
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (45 bp):
AGGTACTATGTACCAGTGTTGGCTATCATGCTATATACATACAAC
Found at i:21609320 original size:91 final size:91
Alignment explanation
Indices: 21609158--21609323 Score: 206
Period size: 91 Copynumber: 1.8 Consensus size: 91
21609148 TTAATAATCC
* * * * *
21609158 GCAAACACTAGTAGTTTATCCACAATTTTTACTAACAACTTTAATCTGCAAAAAAGTTGTGCATT
1 GCAAACACTAGTAGTTTATCCACAATTTATACTAACAAATTTAATCTACAAAAAAGTTATGCAAT
21609223 CACAAATACTAGTAGCGTATTAACCT
66 CACAAATACTAGTAGCGTATTAACCT
* * ** * *** *
21609249 GCAAACACTAGTGGTTTATCCATAATTTATACTGGCAAATTTTATCTACAAACCCGTTATGTAAT
1 GCAAACACTAGTAGTTTATCCACAATTTATACTAACAAATTTAATCTACAAAAAAGTTATGCAAT
21609314 CACAAATACT
66 CACAAATACT
21609324 GGCTGTGTAT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
91 61 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (91 bp):
GCAAACACTAGTAGTTTATCCACAATTTATACTAACAAATTTAATCTACAAAAAAGTTATGCAAT
CACAAATACTAGTAGCGTATTAACCT
Found at i:21609855 original size:9 final size:9
Alignment explanation
Indices: 21609838--21609874 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21609828 TGAGTTTTCG
21609838 AATTCGAAT
1 AATTCGAAT
*
21609847 AACTCGAAT
1 AATTCGAAT
21609856 AATTCGAAT
1 AATTCGAAT
21609865 AATTCGAAT
1 AATTCGAAT
21609874 A
1 A
21609875 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21609951 original size:21 final size:21
Alignment explanation
Indices: 21609910--21609952 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
21609900 ACCCCAAACT
* *
21609910 CTCAAACCATTTTACTTTTCC
1 CTCAAAACATTTTACTCTTCC
21609931 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACATTTTACT-CTTCC
21609952 C
1 C
21609953 ACTTCCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (21 bp):
CTCAAAACATTTTACTCTTCC
Found at i:21610122 original size:30 final size:31
Alignment explanation
Indices: 21610086--21610145 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21610076 AAACCTTTTA
*
21610086 TTTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
* *
21610116 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
21610146 TCACACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:21610281 original size:19 final size:17
Alignment explanation
Indices: 21610231--21610287 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 17
21610221 CTATTTACTT
21610231 TCCCTCAAACTTTTATTC
1 TCCCT-AAACTTTTATTC
*
21610249 T-CCAAAACTTTTTATTTTC
1 TCCCTAAAC-TTTTA--TTC
21610268 TCCCTAAACTTTTACTTC
1 TCCCTAAACTTTTA-TTC
21610286 TC
1 TC
21610288 ACCCTTTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 4 0.12
17 7 0.22
18 6 0.19
19 9 0.28
20 6 0.19
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (17 bp):
TCCCTAAACTTTTATTC
Found at i:21610425 original size:17 final size:17
Alignment explanation
Indices: 21610405--21610451 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
21610395 CACATTTTAT
21610405 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
21610422 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
21610440 A-TATTTATATTA
1 ATTATTTATATTA
21610452 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:21611451 original size:23 final size:23
Alignment explanation
Indices: 21611425--21611478 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
21611415 GATCATTAAC
*
21611425 ATATTTATGAAAATATGTGTTTA
1 ATATTTATGAAAATATGTATTTA
** * *
21611448 ATATACATGAATATATTTATTTA
1 ATATTTATGAAAATATGTATTTA
*
21611471 ATGTTTAT
1 ATATTTAT
21611479 ACAAGTTTTC
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (23 bp):
ATATTTATGAAAATATGTATTTA
Found at i:21611518 original size:42 final size:43
Alignment explanation
Indices: 21611461--21611545 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 43
21611451 TACATGAATA
*
21611461 TATTTATTTAATGTTT-ATACAAGTTTTCATTTAACTGAAACC
1 TATTTATTTAATGTTTAAAACAAGTTTTCATTTAACTGAAACC
*
21611503 TATTTATTTAATGTTTACAAACAAGTTTTCGTTTAACTGAAAC
1 TATTTATTTAATGTTTA-AAACAAGTTTTCATTTAACTGAAAC
21611546 AAATGGGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 16 0.41
44 23 0.59
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (43 bp):
TATTTATTTAATGTTTAAAACAAGTTTTCATTTAACTGAAACC
Found at i:21612058 original size:14 final size:15
Alignment explanation
Indices: 21612020--21612060 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
21612010 AAAAAATAAA
*
21612020 AATTATATATTTTGT
1 AATTTTATATTTTGT
*
21612035 AAATTT-TATTTTG-
1 AATTTTATATTTTGT
21612048 AATTTTATATTTT
1 AATTTTATATTTT
21612061 TATTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 5 0.23
14 13 0.59
15 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (15 bp):
AATTTTATATTTTGT
Found at i:21612101 original size:20 final size:20
Alignment explanation
Indices: 21612078--21612115 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21612068 AATTTGAATA
21612078 TTTTAAGTTTTTTATATATT
1 TTTTAAGTTTTTTATATATT
* *
21612098 TTTTTATTTTTTTATATA
1 TTTTAAGTTTTTTATATA
21612116 ATTAATATAT
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:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTAAGTTTTTTATATATT
Found at i:21612370 original size:16 final size:20
Alignment explanation
Indices: 21612332--21612368 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
21612322 TAATAGAGAA
21612332 TATTTTCAATTATATTTATT
1 TATTTTCAATTATATTTATT
21612352 TATTTT-AA-TAT-TTTATT
1 TATTTTCAATTATATTTATT
21612369 ATCCTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 2 0.12
20 6 0.35
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTCAATTATATTTATT
Found at i:21614391 original size:27 final size:26
Alignment explanation
Indices: 21614368--21614424 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
21614358 AAAAATAAGT
21614368 TTAAAT-T-TTATATTAATATTAATA
1 TTAAATATATTATATTAATATTAATA
21614392 TTAAATATAATTATATTAATATTAA-A
1 TTAAATAT-ATTATATTAATATTAATA
*
21614418 TAAAATA
1 TTAAATA
21614425 AAAATTCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 6 0.21
25 1 0.03
26 7 0.24
27 15 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTAAATATATTATATTAATATTAATA
Found at i:21614430 original size:27 final size:27
Alignment explanation
Indices: 21614375--21614427 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
21614365 AGTTTAAATT
* *
21614375 TTATATTAATATTAATATTAAATATAA
1 TTATATTAATATTAATATAAAATAAAA
21614402 TTATATTAATATTAA-ATAAAATAAAA
1 TTATATTAATATTAATATAAAATAAAA
21614428 ATTCCCCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
TTATATTAATATTAATATAAAATAAAA
Found at i:21615181 original size:17 final size:16
Alignment explanation
Indices: 21615152--21615185 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
21615142 TTTGCAATCG
21615152 ATTTTTTTATATTTTT
1 ATTTTTTTATATTTTT
*
21615168 ATTTTTATTTTATTTTT
1 ATTTTT-TTATATTTTT
21615185 A
1 A
21615186 AACAACGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTTTATATTTTT
Found at i:21617647 original size:2 final size:2
Alignment explanation
Indices: 21617640--21617683 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
21617630 GTAGTTTAAC
21617640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21617682 AT
1 AT
21617684 GGAATTATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21630420 original size:23 final size:25
Alignment explanation
Indices: 21630375--21630429 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 25
21630365 AACCACCAAG
21630375 TAAATTTAAGAAAACAATGAAAATAAA
1 TAAATTTAAG-AAACAA-GAAAATAAA
21630402 TAAATTTAAG-AACAA-AAAATAAA
1 TAAATTTAAGAAACAAGAAAATAAA
21630425 TAAAT
1 TAAAT
21630430 AAACGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 13 0.46
25 5 0.18
27 10 0.36
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (25 bp):
TAAATTTAAGAAACAAGAAAATAAA
Found at i:21631950 original size:30 final size:30
Alignment explanation
Indices: 21631916--21632001 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 30
21631906 TTTAAAATAT
**
21631916 TTTTAAAATACTTTTTTTAAT-TTTTTTTAA
1 TTTTAAAATA-TTTTTAAAATATTTTTTTAA
21631946 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTAAAATA-TTTTTTTAA
** *
21631977 TTTT--TTTAATTTTAAAATATTTTTT
1 TTTTAAAATATTTTTAAAATATTTTTT
21632002 AAATACTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.12
29 20 0.41
30 10 0.20
31 13 0.27
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAAATATTTTTTTAA
Found at i:21632065 original size:40 final size:40
Alignment explanation
Indices: 21631856--21632063 Score: 337
Period size: 40 Copynumber: 5.2 Consensus size: 40
21631846 AAATATATTT
* * *
21631856 ATTTTTTAAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
21631895 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
21631935 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
* *
21631976 ATTTTTTTAATTTTAAAATATTTTTTAAATACTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
21632016 AATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTA
21632057 ATTTTTT
1 ATTTTTT
21632064 AAAAAATTTT
Statistics
Matches: 157, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 29 0.18
40 75 0.48
41 53 0.34
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:21632074 original size:33 final size:32
Alignment explanation
Indices: 21632018--21632079 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
21632008 TTTTTTAAAA
*
21632018 TTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTTTTTAATTTTAAAATAATTTTAAAATACTT
21632050 TTTTTTAATTTTTTAAAA-AATTTTAAAATA
1 TTTTTTAA--TTTTAAAATAATTTTAAAATA
21632080 AAAATGGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 8 0.30
33 11 0.41
34 8 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (32 bp):
TTTTTTAATTTTAAAATAATTTTAAAATACTT
Found at i:21633904 original size:33 final size:33
Alignment explanation
Indices: 21633870--21634124 Score: 171
Period size: 33 Copynumber: 7.4 Consensus size: 33
21633860 GTGGATTCAA
*
21633870 CACTTAGCAACCACCAATGATTCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
21633903 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * *
21633936 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAA
1 CACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATCAG
* *
21633978 CACTTAGCAACCACCAATAATTCAGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* *
21634011 GACTTAGCAACC-CC-----TTGGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * *
21634038 CACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAATCAG
1 CACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATCAG
*
21634080 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
21634113 CACTTAGCAACC
1 CACTTAGCAACC
21634125 CCTTGGGGGA
Statistics
Matches: 173, Mismatches: 25, Indels: 48
0.70 0.10 0.20
Matches are distributed among these distances:
27 20 0.12
28 2 0.01
29 1 0.01
31 1 0.01
32 2 0.01
33 80 0.46
34 8 0.05
36 4 0.02
37 1 0.01
38 2 0.01
39 5 0.03
41 11 0.06
42 36 0.21
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Done.