Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 64 of 211
Found at i:19618065 original size:25 final size:25
Alignment explanation
Indices: 19618023--19618075 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
19618013 AATTACATAA
*
19618023 AAATAACCTAAAATTAAAAATAAAT
1 AAATAACCAAAAATTAAAAATAAAT
* *
19618048 AAAT-ACCAAAAATATAAAACTTAAT
1 AAATAACCAAAAAT-TAAAAATAAAT
19618073 AAA
1 AAA
19618076 CTAATATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (25 bp):
AAATAACCAAAAATTAAAAATAAAT
Found at i:19621218 original size:17 final size:17
Alignment explanation
Indices: 19621196--19621230 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
19621186 CATGAATGGT
19621196 TTAAAGAATGTTCAAGC
1 TTAAAGAATGTTCAAGC
19621213 TTAAAGAATGTTCAAGC
1 TTAAAGAATGTTCAAGC
19621230 T
1 T
19621231 CAGATTAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (17 bp):
TTAAAGAATGTTCAAGC
Found at i:19622347 original size:25 final size:25
Alignment explanation
Indices: 19622319--19622377 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
19622309 CTTCTCCTAG
* **
19622319 TTAAACTCTGTTTTTAGTTTTTCAC
1 TTAAACTCTATTTTTAGTTTCACAC
19622344 TTAAACTCTATTTTTAGTTTCACAC
1 TTAAACTCTATTTTTAGTTTCACAC
19622369 TTAAACTCT
1 TTAAACTCT
19622378 TATTGGTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.05, T:0.51
Consensus pattern (25 bp):
TTAAACTCTATTTTTAGTTTCACAC
Found at i:19630786 original size:17 final size:17
Alignment explanation
Indices: 19630756--19630812 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
19630746 ATTTTTATCT
*
19630756 AATAT-TTATTAATTAA
1 AATATATTATAAATTAA
*
19630772 AATATATTATAAATTTA
1 AATATATTATAAATTAA
* * *
19630789 TATGTATGATAAACTTAA
1 AATATATTATAAA-TTAA
19630807 AATATA
1 AATATA
19630813 ACTAATTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
16 5 0.16
17 19 0.61
18 7 0.23
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (17 bp):
AATATATTATAAATTAA
Found at i:19633656 original size:21 final size:21
Alignment explanation
Indices: 19633630--19633674 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
19633620 TATGAGATGT
19633630 ATAGACTCCTGCAACCATGAC
1 ATAGACTCCTGCAACCATGAC
19633651 ATAGACTCCTGCAACCATGAC
1 ATAGACTCCTGCAACCATGAC
19633672 ATA
1 ATA
19633675 TTTGTTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.20
Consensus pattern (21 bp):
ATAGACTCCTGCAACCATGAC
Found at i:19638091 original size:15 final size:15
Alignment explanation
Indices: 19638071--19638104 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19638061 AGTTATGTCT
*
19638071 ATGTATGTAATTAGA
1 ATGTATGGAATTAGA
19638086 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
19638101 ATGT
1 ATGT
19638105 CAAAAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:19651147 original size:29 final size:27
Alignment explanation
Indices: 19651114--19651168 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
19651104 GTGATTAAAT
19651114 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
19651143 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
19651169 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:19653611 original size:23 final size:23
Alignment explanation
Indices: 19653561--19653611 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
19653551 ATTTTTATAA
*
19653561 TAAATTTTAATTTTTTGAAGTTT
1 TAAATTTTAATTTTTTAAAGTTT
* *
19653584 CAAATTTATAA-TTTTTAAATTTT
1 TAAATTT-TAATTTTTTAAAGTTT
19653607 TAAAT
1 TAAAT
19653612 CAGGATTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TAAATTTTAATTTTTTAAAGTTT
Found at i:19654182 original size:3 final size:3
Alignment explanation
Indices: 19654174--19654224 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
19654164 TTGTTTACCC
19654174 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19654222 TTA
1 TTA
19654225 AAGTAAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19654450 original size:13 final size:13
Alignment explanation
Indices: 19654409--19654458 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
19654399 TTATAATATT
19654409 ATAATTAATTTAA
1 ATAATTAATTTAA
** *
19654422 TATTGTATAATATAA
1 -ATAAT-TAATTTAA
19654437 ATAATTAATTTAA
1 ATAATTAATTTAA
19654450 ATAATTAAT
1 ATAATTAAT
19654459 ATCGTTAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 16 0.55
14 6 0.21
15 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (13 bp):
ATAATTAATTTAA
Found at i:19654555 original size:25 final size:26
Alignment explanation
Indices: 19654524--19654574 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
19654514 TTATATATCC
*
19654524 AAAAAAT-AGAAAATTAAAATTTAAA
1 AAAAAATAAGAAAACTAAAATTTAAA
* *
19654549 AAAAAATAAGAGAACTAAATTTTAAA
1 AAAAAATAAGAAAACTAAAATTTAAA
19654575 TCTAGAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.24
Consensus pattern (26 bp):
AAAAAATAAGAAAACTAAAATTTAAA
Found at i:19654883 original size:173 final size:174
Alignment explanation
Indices: 19654591--19654940 Score: 549
Period size: 173 Copynumber: 2.0 Consensus size: 174
19654581 AGATATAGAT
* * *
19654591 ATTTAGGGTATGTTTGGTTGGCTGTAATACCAATACATTACAGCTTAATTCAGTGGGCCCATCAC
1 ATTTAGGGCATGTTTGGTTGGCTATAATACCAATACATTACAGCTCAATTCAGTGGGCCCATCAC
* * *
19654656 TAAGCCATTGTTTGGTTGGCTGCAATGAGCTATTACAACCTTATTCCTTACGGGCTTATTCAAGG
66 TAAGCCATTGTTTGGTTAGCTGCAATGAGCTATTACAACCCTATTCCATACGGGCTTATTCAAGG
*
19654721 AAAAAATGTTGTTTACCATTCGGTGGTCTCCCCATGAAATGATG
131 AAAAAATGTTGTTTACCATTCAGTGGTCTCCCCATGAAATGATG
*
19654765 ATTTAGGGCATGTTTGGTTGGTTATAATACCAATACATT-CAGCTCAATTCAGTGGGCCCATCAC
1 ATTTAGGGCATGTTTGGTTGGCTATAATACCAATACATTACAGCTCAATTCAGTGGGCCCATCAC
* * * * *
19654829 TAAGCTATTGTTTGGTTAGCTGTAATGTGCTATTACAGCCCTATTCCATACGGGCTTATTCAGGG
66 TAAGCCATTGTTTGGTTAGCTGCAATGAGCTATTACAACCCTATTCCATACGGGCTTATTCAAGG
* * *
19654894 CAAAAATGTTGTTTACCATTTAGTGGTCTCCCCATGGAATGATG
131 AAAAAATGTTGTTTACCATTCAGTGGTCTCCCCATGAAATGATG
19654938 ATT
1 ATT
19654941 CAAGGAATGG
Statistics
Matches: 160, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
173 124 0.77
174 36 0.22
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (174 bp):
ATTTAGGGCATGTTTGGTTGGCTATAATACCAATACATTACAGCTCAATTCAGTGGGCCCATCAC
TAAGCCATTGTTTGGTTAGCTGCAATGAGCTATTACAACCCTATTCCATACGGGCTTATTCAAGG
AAAAAATGTTGTTTACCATTCAGTGGTCTCCCCATGAAATGATG
Found at i:19657596 original size:32 final size:32
Alignment explanation
Indices: 19657555--19657616 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
19657545 GAAATGTTAG
19657555 TGCAAACAAGTAAAATTGATAAACTGCATTAA
1 TGCAAACAAGTAAAATTGATAAACTGCATTAA
19657587 TGCAAACAAGTAAAATTGATAAACTGCATT
1 TGCAAACAAGTAAAATTGATAAACTGCATT
19657617 CACAGAGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (32 bp):
TGCAAACAAGTAAAATTGATAAACTGCATTAA
Found at i:19658752 original size:15 final size:15
Alignment explanation
Indices: 19658715--19658757 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
19658705 TAAAACTATT
* *
19658715 TTTATTTTTGATATG
1 TTTATTTTTGTTATA
*
19658730 TTTAATTTATGTTATA
1 TTT-ATTTTTGTTATA
19658746 TTTATTTTTGTT
1 TTTATTTTTGTT
19658758 CTTTAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (15 bp):
TTTATTTTTGTTATA
Found at i:19663121 original size:17 final size:17
Alignment explanation
Indices: 19663088--19663164 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 17
19663078 TATATATAGA
19663088 AATATATA-AAAATAAT
1 AATATATATAAAATAAT
*
19663104 AATA-ATATGAAATCAAT
1 AATATATATAAAAT-AAT
19663121 AATATATATAAAATAA-
1 AATATATATAAAATAAT
*
19663137 AA-A-ATATAAACT-AT
1 AATATATATAAAATAAT
*
19663151 -GTATATATAAAATA
1 AATATATATAAAATA
19663165 GTATTATACG
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
13 1 0.02
14 9 0.18
15 12 0.24
16 10 0.20
17 9 0.18
18 8 0.16
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
AATATATATAAAATAAT
Found at i:19663135 original size:14 final size:14
Alignment explanation
Indices: 19663072--19663164 Score: 53
Period size: 14 Copynumber: 6.4 Consensus size: 14
19663062 TAAAAGAAAT
*
19663072 AAATTATATATATA
1 AAATAATATATATA
* *
19663086 GAAATATATAAAAATA
1 -AAATA-ATATATATA
*
19663102 ATAATAATATGAAAT-
1 A-AATAATAT-ATATA
*
19663117 CAATAATATATATA
1 AAATAATATATATA
* *
19663131 AAATAAAAAATATA
1 AAATAATATATATA
* *
19663145 AACTATGTATATATA
1 AAATA-ATATATATA
19663160 AAATA
1 AAATA
19663165 GTATTATACG
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
13 3 0.05
14 23 0.39
15 18 0.31
16 15 0.25
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (14 bp):
AAATAATATATATA
Found at i:19663325 original size:23 final size:21
Alignment explanation
Indices: 19663299--19663447 Score: 93
Period size: 23 Copynumber: 6.6 Consensus size: 21
19663289 AAAACAATAC
19663299 ATGATAAATTTAAATAATCATA
1 ATGATAAATTTAAATAAT-ATA
* * *
19663321 GATGATAAGTTCAAAATACTAATA
1 -ATGATAAATT-TAAATAAT-ATA
* *
19663345 CATGATAACTTTAAATAAAAATA
1 -ATGATAAATTTAAAT-AATATA
* *
19663368 CATGATAAACTTAAAATAATGTTA
1 -ATGATAAA-TTTAAATAAT-ATA
19663392 ATGATAAATTTAAAATAATAT-
1 ATGATAAATTT-AAATAATATA
* * *
19663413 ATTATAAATTAAAATAATATTG
1 ATGATAAATTTAAATAATA-TA
*
19663435 GTGATAAATTTAA
1 ATGATAAATTTAA
19663448 GAATATATTA
Statistics
Matches: 99, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
20 8 0.08
21 10 0.10
22 13 0.13
23 41 0.41
24 27 0.27
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (21 bp):
ATGATAAATTTAAATAATATA
Found at i:19663348 original size:47 final size:47
Alignment explanation
Indices: 19663294--19663431 Score: 142
Period size: 47 Copynumber: 3.0 Consensus size: 47
19663284 TGCATAAAAC
* * * *
19663294 AATACATGATAAATTTAAATAATCATAGATGAT-AAGTTCAAAATACT
1 AATACATGATAAATTTAAATAATAATACATGATAAACTT-AAAATAAT
* *
19663341 AATACATGATAACTTTAAATAAAAATACATGATAAACTTAAAATAAT
1 AATACATGATAAATTTAAATAATAATACATGATAAACTTAAAATAAT
** * *
19663388 GTTA-ATGATAAATTT-AA-AATAATATATTATAAA-TTAAAATAAT
1 AATACATGATAAATTTAAATAATAATACATGATAAACTTAAAATAAT
19663431 A
1 A
19663432 TTGGTGATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
43 10 0.13
44 13 0.17
45 2 0.03
46 10 0.13
47 38 0.49
48 4 0.05
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (47 bp):
AATACATGATAAATTTAAATAATAATACATGATAAACTTAAAATAAT
Found at i:19664124 original size:45 final size:45
Alignment explanation
Indices: 19663934--19664716 Score: 515
Period size: 45 Copynumber: 17.3 Consensus size: 45
19663924 TACAAAGTCG
* * *
19663934 GGGAGATAGGATTTG-T-TGCTTCAATCTGCTCCACTGCAACTTTA
1 GGGAGATAAGATTTGCTAT-CTTCAATCTGCTCCACTACAACTTCA
* * * *
19663978 GGGAGATAAGATTTGCTA---T-GATCTGTTCTACTGCAACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
* * * ** * *
19664019 GAGAGATAAGATCTGTGATTTATAGCTTTAATCTATTCCACTATAATTTCA
1 GGGAGATAAGAT-T-TG--CTAT--CTTCAATCTGCTCCACTACAACTTCA
* * *
19664070 GGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
* * * *
19664115 GGGAGATAAGACTTG-TAACTTCAATCCGCTCCACTGCAACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
* ** * *
19664159 GGGAGATAGGATTAT--TGGCTTTAATCTACTCCACTACAACTTCA
1 GGGAGATAAGATT-TGCTATCTTCAATCTGCTCCACTACAACTTCA
* * * * *
19664203 AGGAGATAAGATTTGC---CAT-GATCTGCTCTACTGCAACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
* * * * *
19664244 GAGAGATAAGATATGTGATTTATAACTTTAATCTGTTCCACTGCAACTTCA
1 GGGAGATAAGAT-T-TG--CTAT--CTTCAATCTGCTCCACTACAACTTCA
* * * *
19664295 GGGAAATAAAAATTGCTATCTTCAATTTGCTCCACTACAACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
* * * * * *
19664340 TGGAGATAAGACTCGCTATTTTCAGTCTGCTCCACTACTACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
* * * * *
19664385 AGGAAATAGGATTAG-TAGCTTCAATCTGCTCCACTACAACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
* * * * * *
19664429 GGGATATAAGATTTGCTATGATT-AGTTTACTCCATTACAACTTCA
1 GGGAGATAAGATTTGCTAT-CTTCAATCTGCTCCACTACAACTTCA
* * * * * *
19664474 GGGAGATAAGATCTGTGATTTATAGCTTTAATATGTTCCACTGCAATTTCA
1 GGGAGATAAGAT-T-TG--CTAT--CTTCAATCTGCTCCACTACAACTTCA
* * * * *
19664525 GGGAAATAAGATTTGCTATTTTCAGTCTGATCCACTGCAACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
* * * ** *
19664570 AGGACATAAGACTCACTATCTTCAATCCGCTCCACTACAACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
* ** *
19664615 GGGAGATAAGATTTTCTATGATCAGTCTGCTCCACTACAACTTCA
1 GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
19664660 GGGAGATAAGACTATTGGC--T-TT-AATCTGCTCCACTACAACTTCA
1 GGGAGATAAGA-T-TT-GCTATCTTCAATCTGCTCCACTACAACTTCA
19664704 GGGAGATAAGATT
1 GGGAGATAAGATT
19664717 CGCCATAATG
Statistics
Matches: 576, Mismatches: 127, Indels: 74
0.74 0.16 0.10
Matches are distributed among these distances:
41 57 0.10
42 6 0.01
43 6 0.01
44 153 0.27
45 238 0.41
46 5 0.01
47 13 0.02
48 1 0.00
49 9 0.02
50 9 0.02
51 79 0.14
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
GGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCA
Found at i:19664255 original size:41 final size:42
Alignment explanation
Indices: 19664095--19664254 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 42
19664085 CTATCTTCAG
* **
19664095 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTT-TGCCTT-AA
* * * * *
19664139 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TT-GCCTTAA
* * * *
19664183 TCTACTCCACTACAACTTCA-AGGAGATAAGA-TTTGCCATGA
1 TCTGCTCCACTGCAACTTCAGA-GAGATAAGACTTTGCCTTAA
*
19664224 TCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA
19664255 TATGTGATTT
Statistics
Matches: 95, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
41 30 0.32
42 3 0.03
43 1 0.01
44 58 0.61
45 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (42 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTTGCCTTAA
Found at i:19664438 original size:89 final size:89
Alignment explanation
Indices: 19664038--19664716 Score: 493
Period size: 89 Copynumber: 7.5 Consensus size: 89
19664028 GATCTGTGAT
* ** * * * *
19664038 TTATAGCTTTAATCTATTCCACTATAATTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCC
1 TTATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATTTTCAGTCTGCTCC
* * *
19664103 ACTGCAACTTCAGGGAGATAAGAC
66 ACTACAACTTCAAGGAAATAAGAC
* * * * * * *
19664127 TTGTAACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGC---TTT-AATCTAC
1 TTATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA-T-TT-GCTATTTTCAGTCTGC
*
19664188 TCCACTACAACTTCAAGGAGATAAGA-
63 TCCACTACAACTTCAAGGAAATAAGAC
* * * *
19664214 TT-T-GC--CATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATATG-TGATTTATAACTTTA
1 TTATAGCTTCA--ATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCT-ATTT-T--C---A
* * * * * *
19664274 ATCTGTTCCACTGCAACTTCAGGGAAATAAAAA
57 GTCTGCTCCACTACAACTTCAAGGAAATAAGAC
* * * * * *
19664307 TTGCTATCTTCAATTTGCTCCACTACAACTTCATGGAGATAAGACTCGCTATTTTCAGTCTGCTC
1 TT-ATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATTTTCAGTCTGCTC
* *
19664372 CACTACTACTTCAAGGAAATAGGA-
65 CACTACAACTTCAAGGAAATAAGAC
* * * *
19664396 TTAGTAGCTTCAATCTGCTCCACTACAACTTCAGGGATATAAGATTTGCTATGATT-AGTTTACT
1 TTA-TAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTAT-TTTCAGTCTGCT
* * *
19664460 CCATTACAACTTCAGGGAGATAAGATC
64 CCACTACAACTTCAAGGAAATAAGA-C
* * * * * *
19664487 TGTGATTTATAGCTTTAATATGTTCCACTGCAATTTCAGGGAAATAAGATTTGCTATTTTCAGTC
1 ------TTATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATTTTCAGTC
* * *
19664552 TGATCCACTGCAACTTCAAGGACATAAGAC
60 TGCTCCACTACAACTTCAAGGAAATAAGAC
* * * * **
19664582 TCACTATCTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTTTCTATGATCAGTCTGCTC
1 TTA-TAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATTTTCAGTCTGCTC
* *
19664647 CACTACAACTTCAGGGAGATAAGAC
65 CACTACAACTTCAAGGAAATAAGAC
* *
19664672 -TATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
1 TTA-TAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
19664717 CGCCATAATG
Statistics
Matches: 460, Mismatches: 95, Indels: 70
0.74 0.15 0.11
Matches are distributed among these distances:
82 1 0.00
83 3 0.01
84 1 0.00
85 31 0.07
86 2 0.00
87 2 0.00
88 29 0.06
89 145 0.32
90 100 0.22
91 2 0.00
92 29 0.06
93 3 0.01
95 5 0.01
96 101 0.22
97 4 0.01
98 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (89 bp):
TTATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATTTTCAGTCTGCTCC
ACTACAACTTCAAGGAAATAAGAC
Found at i:19664527 original size:230 final size:227
Alignment explanation
Indices: 19663934--19664715 Score: 973
Period size: 225 Copynumber: 3.4 Consensus size: 227
19663924 TACAAAGTCG
* * * *
19663934 GGGAGATAGGATTTGTTGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGA
1 GGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGA
* **
19663999 TCTGTTCT-ACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTATTCCACTAT
66 TCTGTTCTCACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTGC
*
19664063 AATTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
131 AATTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
* * *
19664128 TG-TAACTTCAATCCGCTCCACTGCAACTTCA
196 CGCTATCTTCAATCCGCTCCACTACAACTTCA
* * * * * *
19664159 GGGAGATAGGATTATTGGCTTTAATCTACTCCACTACAACTTCAAGGAGATAAGATTTGCCATGA
1 GGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGA
* * *
19664224 TCTGCTCT-ACTGCAACTTCAGAGAGATAAGATATGTGATTTATAACTTTAATCTGTTCCACTGC
66 TCTGTTCTCACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTGC
* * * * * * *
19664288 AACTTCAGGGAAATAAAAATTGCTATCTTCAATTTGCTCCACTACAACTTCATGGAGATAAGACT
131 AATTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
* * * *
19664353 CGCTATTTTCAGTCTGCTCCACTACTACTTCA
196 CGCTATCTTCAATCCGCTCCACTACAACTTCA
* * *
19664385 AGGAAATAGGATTAGTAGCTTCAATCTGCTCCACTACAACTTCAGGGATATAAGATTTGCTATGA
1 GGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGA
* * * *
19664450 T-TAGTTTACTCCATTACAACTTCAGGGAGATAAGATCTGTGATTTATAGCTTTAATATGTTCCA
66 TCT-G-TT-CT-CACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCCA
* * *
19664514 CTGCAATTTCAGGGAAATAAGATTTGCTATTTTCAGTCTGATCCACTGCAACTTCAAGGACATAA
127 CTGCAATTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAA
*
19664579 GACTCACTATCTTCAATCCGCTCCACTACAACTTCA
192 GACTCGCTATCTTCAATCCGCTCCACTACAACTTCA
* ** * *
19664615 GGGAGATAAGATTTTCTATG-ATCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTATTGGC
1 GGGAGATAGGA-TTAGTA-GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA-T-TT-GC
* * * * *
19664679 TTTAATCTGCTC-CACTACAACTTCAGGGAGATAAGAT
61 TATGATCTGTTCTCACTGCAACTTCAGAGAGATAAGAT
19664716 TCGCCATAAT
Statistics
Matches: 473, Mismatches: 72, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
225 174 0.37
226 81 0.17
227 1 0.00
228 2 0.00
230 164 0.35
231 37 0.08
232 3 0.01
233 3 0.01
234 7 0.01
235 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (227 bp):
GGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGA
TCTGTTCTCACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTGC
AATTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
CGCTATCTTCAATCCGCTCCACTACAACTTCA
Found at i:19664626 original size:186 final size:185
Alignment explanation
Indices: 19664325--19664719 Score: 498
Period size: 186 Copynumber: 2.2 Consensus size: 185
19664315 TTCAATTTGC
* * * *
19664325 TCCACTACAACTTCATGGAGATAAGACTCGCTATTTTCAGTCTGCTCCACTACTACTTCAAGGAA
1 TCCACTACAACTTCAGGGAAATAAGACTCGCTATTTTCAGTCTGATCCACTACAACTTCAAGGAA
* * * * * *
19664390 ATAGGATTAGTAGCTTCAATCTGCTCCACTACAACTTCAGGGATATAAGATTTGCTATGATTAGT
66 ATAAGATCACTAGCTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGATCAGT
* *
19664455 TTACTCCATTACAACTTCAGGGAGATAAGATCTGTGATTTATAGCTTTAATATGT
131 CTACTCCACTACAACTTCAGGGAGATAAGATCTGTGATTTATAGCTTTAATATGT
* * * * * *
19664510 TCCACTGCAATTTCAGGGAAATAAGATTTGCTATTTTCAGTCTGATCCACTGCAACTTCAAGGAC
1 TCCACTACAACTTCAGGGAAATAAGACTCGCTATTTTCAGTCTGATCCACTACAACTTCAAGGAA
* *
19664575 ATAAGACTCACTATCTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTTTCTATGATCAG
66 ATAAGA-TCACTAGCTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGATCAG
* * * *
19664640 TCTGCTCCACTACAACTTCAGGGAGATAAGA-C--T-A--T-TGGCTTTAATCTGC
130 TCTACTCCACTACAACTTCAGGGAGATAAGATCTGTGATTTATAGCTTTAATATGT
* *
19664689 TCCACTACAACTTCAGGGAGATAAGATTCGC
1 TCCACTACAACTTCAGGGAAATAAGACTCGC
19664720 CATAATGACT
Statistics
Matches: 181, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
179 38 0.21
180 1 0.01
182 1 0.01
183 1 0.01
185 61 0.34
186 79 0.44
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (185 bp):
TCCACTACAACTTCAGGGAAATAAGACTCGCTATTTTCAGTCTGATCCACTACAACTTCAAGGAA
ATAAGATCACTAGCTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGATCAGT
CTACTCCACTACAACTTCAGGGAGATAAGATCTGTGATTTATAGCTTTAATATGT
Found at i:19669799 original size:20 final size:20
Alignment explanation
Indices: 19669774--19669823 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
19669764 AATTATACAC
* *
19669774 AAATAAGGACAAGCTACAGA
1 AAATAAGAACAAGCCACAGA
19669794 AAATAAGAACAAGCCACAGA
1 AAATAAGAACAAGCCACAGA
19669814 AAATAAGAAC
1 AAATAAGAAC
19669824 GCAAGAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (20 bp):
AAATAAGAACAAGCCACAGA
Found at i:19670017 original size:22 final size:21
Alignment explanation
Indices: 19669992--19670088 Score: 71
Period size: 19 Copynumber: 4.7 Consensus size: 21
19669982 TACAAATTAA
*
19669992 ATCTCTAATATTGCAAAATCAT
1 ATCTCTAAGATTGC-AAATCAT
*
19670014 ATCTTCTAAGATTGCATATCAT
1 ATC-TCTAAGATTGCAAATCAT
*
19670036 A--TCTAAGATTGCATTTATCAT
1 ATCTCTAAGATTGCA--AATCAT
*
19670057 A--TCTAAGATTGCATAT--T
1 ATCTCTAAGATTGCAAATCAT
*
19670074 ATATCTAAGATTGCA
1 ATCTCTAAGATTGCA
19670089 TATCCTTGAA
Statistics
Matches: 68, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
17 2 0.03
19 27 0.40
21 19 0.28
22 10 0.15
23 10 0.15
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (21 bp):
ATCTCTAAGATTGCAAATCAT
Found at i:19670027 original size:23 final size:22
Alignment explanation
Indices: 19669995--19670039 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19669985 AAATTAAATC
*
19669995 TCTAATATTGCAAAATCATATCT
1 TCTAAGATTGC-AAATCATATCT
*
19670018 TCTAAGATTGCATATCATATCT
1 TCTAAGATTGCAAATCATATCT
19670040 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (22 bp):
TCTAAGATTGCAAATCATATCT
Found at i:19670056 original size:21 final size:19
Alignment explanation
Indices: 19670018--19670092 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
19670008 AATCATATCT
19670018 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
19670037 TCTAAGATTGCATTTATCATA
1 TCTAAGATTGCA--TATCATA
*
19670058 TCTAAGATTGCATATTATA
1 TCTAAGATTGCATATCATA
19670077 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
19670093 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 33 0.63
21 19 0.37
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:19670691 original size:44 final size:44
Alignment explanation
Indices: 19670600--19670700 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
19670590 ACCTGATACG
* * * * *
19670600 ATCTACTCTACTGTAACTTCAGAGAGATAAGATATATTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATATATGACTTCA
* *
19670644 ATCTGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTGGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATATA-TGACTTCA
19670688 ATCTGCTCCACTG
1 ATCTGCTCCACTG
19670701 CAAGTTAGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 2 0.04
44 47 0.96
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (44 bp):
ATCTGCTCCACTGTAACTTCAGAGAGATAAGATATATGACTTCA
Found at i:19670829 original size:88 final size:88
Alignment explanation
Indices: 19670737--19671025 Score: 262
Period size: 88 Copynumber: 3.3 Consensus size: 88
19670727 TTTCAACCTA
*
19670737 CTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTTCTTCCCTACTACCTTGGGAAGA
1 CTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTTCTTCCCTACTACCTTGGGAAGA
*
19670802 TAAGATTCGCCGTCTTTGATCTG
66 TAAGATTCGCCGTCTTCGATCTG
* * ** * *** * * * * * *
19670825 CTCCACTACTACTTAGGGAGATAAGATTTGTAATTTTCAACCTAC-TCCACTGCT-GCTCAGGG-
1 CTCCACTACTGCTCAGGGAGATAAGGCTAGT-GGCTTAAATCTTCTTCC-CTACTACCT-TGGGA
* * ** * * *
19670887 AGATAAG-GTCTACAATCTTCAACCTA
63 AGATAAGATTC-GCCGTCTTCGATCTG
* *
19670913 CTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTTCTTCCTTACTACCTTGGGAAGA
1 CTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTTCTTCCCTACTACCTTGGGAAGA
19670978 TAAGATTCGCCGTCTTCGATCTG
66 TAAGATTCGCCGTCTTCGATCTG
* * *
19671001 CTCCATTACTGCTTAAGGAGATAAG
1 CTCCACTACTGCTCAGGGAGATAAG
19671026 ATCCTACTCC
Statistics
Matches: 143, Mismatches: 50, Indels: 16
0.68 0.24 0.08
Matches are distributed among these distances:
87 15 0.10
88 112 0.78
89 16 0.11
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (88 bp):
CTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTTCTTCCCTACTACCTTGGGAAGA
TAAGATTCGCCGTCTTCGATCTG
Found at i:19670873 original size:44 final size:44
Alignment explanation
Indices: 19670825--19670937 Score: 154
Period size: 44 Copynumber: 2.6 Consensus size: 44
19670815 CTTTGATCTG
* * * * ** *
19670825 CTCCACTACTACTTAGGGAGATAAGATTTGTAATTTTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
*
19670869 CTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
19670913 CTCCACTGCTGCTCAGGGAGATAAG
1 CTCCACTGCTGCTCAGGGAGATAAG
19670938 GCTAGTGGCT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
Found at i:19670889 original size:176 final size:176
Alignment explanation
Indices: 19670707--19671027 Score: 552
Period size: 176 Copynumber: 1.8 Consensus size: 176
19670697 ACTGCAAGTT
** *
19670707 AGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCT
1 AGGGAGATAAAATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCT
*
19670772 TAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTAC
66 TAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTAC
*
19670837 TTAGGGAGATAAGATTTGTAATTTTCAACCTACTCCACTGCTGCTC
131 TTAAGGAGATAAGATTTGTAATTTTCAACCTACTCCACTGCTGCTC
**
19670883 AGGGAGATAAGGTCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCT
1 AGGGAGATAAAATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCT
* * *
19670948 TAAATCTTCTTCCTTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCATTACTGC
66 TAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTAC
19671013 TTAAGGAGATAAGAT
131 TTAAGGAGATAAGAT
19671028 CCTACTCCAC
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
176 135 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (176 bp):
AGGGAGATAAAATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCT
TAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTAC
TTAAGGAGATAAGATTTGTAATTTTCAACCTACTCCACTGCTGCTC
Found at i:19671082 original size:44 final size:44
Alignment explanation
Indices: 19671028--19671711 Score: 715
Period size: 44 Copynumber: 16.2 Consensus size: 44
19671018 GAGATAAGAT
* * * *
19671028 CCTACTCCACTGCTG-CTCAAGAAGATAAGATTCACAATCTTCAA
1 CCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCAA
* *
19671072 CCTATTCCACTTCTGACCAGGGAGATAGGATTCACAATCTTTAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
*
19671116 CCTATTTCACTGCTGACCAGGGAGATAGGACTT-ACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCAA
* *
19671160 ACTATTCCACTACTGACCAGGGAGATAGG-------A--TTC-A
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
* *
19671194 CCTATTCCACTACTGACCAGGGAGATAAGACTT-ACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCAA
* * * *
19671238 CCTATTCCACTACTAACAAGGGAGATAGGACTCACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
*
19671282 CCTATTCCACTGCTGACCAGGGAGATGGGATTCACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
19671326 CCTATTCCACTGCTGACCAGGGAGATAGG-------A--TTC-A
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
* * *
19671360 CCTATTCCACTACTGACTAGGGAGATAGGACTT-ACAATATTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCAA
19671404 CCTATTCCACTGCTGACCAGGGAGATAGGATTCAC---C-T--A
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
* *
19671442 --T-TT-CACTGTTGACTAGGGAGATAGGACTT-ACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCAA
* *
19671482 CCTATTCCACTGCTAACCAGGGAGAT-GGACTCACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
* * *
19671525 CCTATTTCACTGCTAACCAGGGGGATAGGACTT-ACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCAA
* * * *
19671569 CATATTCCACTACTAACCAGGGAGATAGGACTCACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
* * *
19671613 CATATTCCACTGCTAACCAGGGAGATAGGATTCACCATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
* * *
19671657 CCTATTCCACTACTGACCAGGGAGGTAGGACTT-ACAATCTTTAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCAA
19671701 CCTATTCCACT
1 CCTATTCCACT
19671712 ACTGGTCAGG
Statistics
Matches: 548, Mismatches: 52, Indels: 80
0.81 0.08 0.12
Matches are distributed among these distances:
34 79 0.14
35 10 0.02
36 1 0.00
37 3 0.01
38 2 0.00
40 2 0.00
41 2 0.00
42 2 0.00
43 50 0.09
44 391 0.71
45 6 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (44 bp):
CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAA
Found at i:19671244 original size:78 final size:80
Alignment explanation
Indices: 19671114--19671689 Score: 621
Period size: 78 Copynumber: 7.0 Consensus size: 80
19671104 CACAATCTTT
* *
19671114 AACCTATTTCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAAACTATTCCACTACTGACCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACCA
19671179 GGGAGATAGGA-TTC
66 GGGAGATAGGACTTC
* * * *
19671193 -ACCTATTCCACTACTGACCAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTACTAACAA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACCA
19671257 GGGAGATAGGACTCACAATCTTC
66 GGGAGATAGG-------A-CTTC
* *
19671280 AACCTATTCCACTGCTGACCAGGGAGATGGGA-TTCACAATCTTCAACCTATTCCACTGCTGACC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTACTGACC
19671344 AGGGAGATAGGA-TTC
65 AGGGAGATAGGACTTC
* * * *
19671359 -ACCTATTCCACTACTGACTAGGGAGATAGGACTTACAATATTCAACCTATTCCACTGCTGACCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACCA
19671423 GGGAGATAGGA-TTC
66 GGGAGATAGGACTTC
* * * * *
19671437 -ACCTATTTCACTGTTGACTAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTAACCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACCA
19671501 GGGAGAT-GGACTCACAATCTTC
66 GGGAGATAGG-------A-CTTC
* * * * *
19671523 AACCTATTTCACTGCTAACCAGGGGGATAGGACTTACAATCTTCAACATATTCCACTACTAACCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACCA
19671588 GGGAGATAGGACTCACAATCTTC
66 GGGAGATAGG-------A-CTTC
* * *
19671611 AACATATTCCACTGCTAACCAGGGAGATAGGA-TTCACCATCTTCAACCTATTCCACTACTGACC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTACTGACC
*
19671675 AGGGAGGTAGGACTT
65 AGGGAGATAGGACTT
19671690 ACAATCTTTA
Statistics
Matches: 439, Mismatches: 34, Indels: 47
0.84 0.07 0.09
Matches are distributed among these distances:
77 2 0.00
78 205 0.47
79 5 0.01
80 3 0.01
81 2 0.00
84 1 0.00
85 1 0.00
86 3 0.01
87 72 0.16
88 145 0.33
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (80 bp):
AACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACCA
GGGAGATAGGACTTC
Found at i:19671288 original size:122 final size:124
Alignment explanation
Indices: 19671066--19671689 Score: 704
Period size: 122 Copynumber: 5.0 Consensus size: 124
19671056 GATTCACAAT
* * *
19671066 CTTCAACCTATTCCACTTCTGACCAGGGAGATAGGA-TTCACAATCTTTAACCTATTTCACTGCT
1 CTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCT
* * * *
19671130 GACCAGGGAGATAGGACTTACAATCTTCAAACTATTCCACTACTGACCAGGGAGATAGGA
65 AACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGA
* *
19671190 -TTC-ACCTATTCCACTACTGACCAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTACTA
1 CTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTA
* *
19671253 ACAAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATGGGATTCACA
66 ACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGG-------
19671318 A
124 A
* *
19671319 TCTTCAACCTATTCCACTGCTGACCAGGGAGATAGG-------A--TTC-ACCTATTCCACTACT
1 -CTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCT
* * * *
19671374 GACTAGGGAGATAGGACTTACAATATTCAACCTATTCCACTGCTGACCAGGGAGATAGGA
65 AACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGA
* ** *
19671434 -TTC-ACCTATTTCACTGTTGACTAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTA
1 CTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTA
* * *
19671497 ACCAGGGAGAT-GGACTCACAATCTTCAACCTATTTCACTGCTAACCAGGGGGATAGGA
66 ACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGA
* * *
19671555 CTTACAATCTTCAACATATTCCACTACTAACCAGGGAGATAGGACTCACAATCTTCAACATATTC
1 CTT-CAA----C--C-TATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTC
* * * *
19671620 CACTGCTAACCAGGGAGATAGGATTCACCATCTTCAACCTATTCCACTACTGACCAGGGAGGTAG
58 CACTGCTAACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAG
19671685 GA
123 GA
19671687 CTT
1 CTT
19671690 ACAATCTTTA
Statistics
Matches: 425, Mismatches: 43, Indels: 56
0.81 0.08 0.11
Matches are distributed among these distances:
112 27 0.06
113 3 0.01
115 1 0.00
119 1 0.00
121 45 0.11
122 199 0.47
123 9 0.02
124 1 0.00
125 1 0.00
128 1 0.00
129 1 0.00
130 1 0.00
131 64 0.15
132 71 0.17
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (124 bp):
CTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTA
ACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGA
Found at i:19673017 original size:14 final size:14
Alignment explanation
Indices: 19672982--19673032 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
19672972 CACCTTGGCC
*
19672982 TTTCATTTT-TCCT
1 TTTCATTTTGTCAT
*
19672995 TTTCTTTTTGTCAT
1 TTTCATTTTGTCAT
* *
19673009 TTTCATTTTTTAAT
1 TTTCATTTTGTCAT
*
19673023 TTTGATTTTG
1 TTTCATTTTG
19673033 ATTTTTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 8 0.27
14 22 0.73
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (14 bp):
TTTCATTTTGTCAT
Found at i:19674343 original size:21 final size:21
Alignment explanation
Indices: 19674319--19674387 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
19674309 TAAAACAACA
19674319 AAAATGTTCTGAACATTACTC
1 AAAATGTTCTGAACATTACTC
* * * ** *
19674340 AAAATAAGCTCTAAAAACAAC-A
1 AAAAT--GTTCTGAACATTACTC
19674362 AAAATGTTCTGAACATTACTC
1 AAAATGTTCTGAACATTACTC
19674383 AAAAT
1 AAAAT
19674388 AAGCTCTAAA
Statistics
Matches: 33, Mismatches: 12, Indels: 6
0.65 0.24 0.12
Matches are distributed among these distances:
20 9 0.27
21 10 0.30
22 5 0.15
23 9 0.27
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAATGTTCTGAACATTACTC
Found at i:19674368 original size:43 final size:43
Alignment explanation
Indices: 19674310--19674400 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
19674300 TTTTTAGGCT
19674310 AAAACAACAAAAATGTTCTGAACATTACTCAAAATAAGCTCTA
1 AAAACAACAAAAATGTTCTGAACATTACTCAAAATAAGCTCTA
19674353 AAAACAACAAAAATGTTCTGAACATTACTCAAAATAAGCTCTA
1 AAAACAACAAAAATGTTCTGAACATTACTCAAAATAAGCTCTA
19674396 AAAAC
1 AAAAC
19674401 TACAGGGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.53, C:0.19, G:0.07, T:0.22
Consensus pattern (43 bp):
AAAACAACAAAAATGTTCTGAACATTACTCAAAATAAGCTCTA
Found at i:19674385 original size:22 final size:22
Alignment explanation
Indices: 19674317--19674386 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
19674307 GCTAAAACAA
19674317 CAAAAATGTTCTGAACATTACT
1 CAAAAATGTTCTGAACATTACT
* * * *
19674339 CAAAATAAGCTCT-AA-A-AACAA
1 CAAAA-ATGTTCTGAACATTAC-T
19674360 CAAAAATGTTCTGAACATTACT
1 CAAAAATGTTCTGAACATTACT
19674382 CAAAA
1 CAAAA
19674387 TAAGCTCTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
20 7 0.20
21 8 0.23
22 13 0.37
23 7 0.20
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (22 bp):
CAAAAATGTTCTGAACATTACT
Found at i:19676169 original size:12 final size:11
Alignment explanation
Indices: 19676143--19676181 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
19676133 TTACTCAATT
19676143 AGAATATACAA
1 AGAATATACAA
19676154 AGAATATACAAA
1 AGAATATAC-AA
19676166 AGAATATACAA
1 AGAATATACAA
19676177 AGAAT
1 AGAAT
19676182 GTATGAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (11 bp):
AGAATATACAA
Found at i:19678456 original size:19 final size:20
Alignment explanation
Indices: 19678432--19678478 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
19678422 TGGTGGACTT
* *
19678432 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
19678451 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
19678471 -AATGCAAA
1 TAATGCAAA
19678479 AAGAGACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:19679043 original size:39 final size:39
Alignment explanation
Indices: 19679000--19679076 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
19678990 AGTTAATACC
19679000 AAGCAAAAGCAAGCAAAAAAATAAAAATAAATAAAGCAA
1 AAGCAAAAGCAAGCAAAAAAATAAAAATAAATAAAGCAA
19679039 AAGCAAAAGCAAGCAAAAAAATAAAAATAAATAAAGCA
1 AAGCAAAAGCAAGCAAAAAAATAAAAATAAATAAAGCA
19679077 CCTATTCGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.08
Consensus pattern (39 bp):
AAGCAAAAGCAAGCAAAAAAATAAAAATAAATAAAGCAA
Found at i:19681029 original size:18 final size:17
Alignment explanation
Indices: 19680991--19681031 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
19680981 GAAATAAATA
19680991 AAAATAATAATA-ATAT
1 AAAATAATAATATATAT
*
19681007 GAAATCAATAATATATAT
1 AAAAT-AATAATATATAT
19681025 AAAATAA
1 AAAATAA
19681032 AAAATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATAATAATATATAT
Found at i:19681292 original size:23 final size:23
Alignment explanation
Indices: 19681266--19681358 Score: 109
Period size: 23 Copynumber: 4.0 Consensus size: 23
19681256 ATAAAAATAC
* *
19681266 ATGATAAACTTAAAATAATGTTA
1 ATGATAAATTTAAAATAATATTA
*
19681289 ATGATAAATTTAAAATAATAATA
1 ATGATAAATTTAAAATAATATTA
* *
19681312 TATTATAAA-TTAAAATAATATTG
1 -ATGATAAATTTAAAATAATATTA
19681335 ATGATAAATTTAAGAAT-ATATTA
1 ATGATAAATTTAA-AATAATATTA
19681358 A
1 A
19681359 GCTTAAACAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
22 7 0.12
23 42 0.71
24 10 0.17
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATATTA
Found at i:19681326 original size:46 final size:48
Alignment explanation
Indices: 19681255--19681352 Score: 137
Period size: 46 Copynumber: 2.1 Consensus size: 48
19681245 GATAACTTTC
*
19681255 AATAAAAATACATGATAAACTTAAAATAATGTTAATGATAAATTTAA-
1 AATAAAAATACATGATAAACTTAAAATAATATTAATGATAAATTTAAG
* * * *
19681302 AATAATAATATATTATAAA-TTAAAATAATATTGATGATAAATTTAAG
1 AATAAAAATACATGATAAACTTAAAATAATATTAATGATAAATTTAAG
19681349 AATA
1 AATA
19681353 TATTAAGCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
46 25 0.56
47 20 0.44
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (48 bp):
AATAAAAATACATGATAAACTTAAAATAATATTAATGATAAATTTAAG
Found at i:19681372 original size:46 final size:45
Alignment explanation
Indices: 19681270--19681377 Score: 105
Period size: 46 Copynumber: 2.3 Consensus size: 45
19681260 AAATACATGA
* *
19681270 TAAACTTAAAATAATGTTAATGATAAATTTAAAATAATAATATAT
1 TAAACATAAAATAATATTAATGATAAATTTAAAATAATAATATAT
* *
19681315 TATAA-ATTAAAATAATATTGATGATAAATTTAAGAAT-ATATTA-AGCT
1 TA-AACA-TAAAATAATATTAATGATAAATTTAA-AATAATAATATA--T
19681362 TAAACATAAAAATAAT
1 TAAACAT-AAAATAAT
19681378 GTTAGATTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
45 3 0.06
46 34 0.65
47 15 0.29
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (45 bp):
TAAACATAAAATAATATTAATGATAAATTTAAAATAATAATATAT
Found at i:19684712 original size:14 final size:15
Alignment explanation
Indices: 19684688--19684720 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
19684678 AATGTTTAAT
19684688 TTTTTATTTTTTGAA
1 TTTTTATTTTTTGAA
19684703 TTTTTA-TTTTTGAA
1 TTTTTATTTTTTGAA
19684717 TTTT
1 TTTT
19684721 AAGAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTTATTTTTTGAA
Found at i:19684888 original size:61 final size:60
Alignment explanation
Indices: 19684823--19685016 Score: 216
Period size: 61 Copynumber: 3.2 Consensus size: 60
19684813 GTATTGTAGT
* *
19684823 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTTTGATTTTAATAAATTCATATAAGAATATTTAATATTAA-AATTTTATTAA
* * * * * * * *
19684884 ATTATATATTTTTA-TTAAATTATATTTA-ATAATAATTATGTTAAAATT-ATATTTTA-TAGT
1 ATTATATATTTTGATTTTAA-TAAATTCATATAAGAA-TAT-TTAATATTAAAATTTTATTA-A
19684944 ATTATATATTTTGATTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
1 ATTATATATTTTGATTTTAATAAATTCATATAAGAATATTTAATATTAA-AATTTTATTAA
19685005 ATTATATATTTT
1 ATTATATATTTT
19685017 TATTAAATTA
Statistics
Matches: 106, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
59 9 0.08
60 38 0.36
61 50 0.47
62 9 0.08
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (60 bp):
ATTATATATTTTGATTTTAATAAATTCATATAAGAATATTTAATATTAAAATTTTATTAA
Found at i:19684951 original size:121 final size:121
Alignment explanation
Indices: 19684819--19685051 Score: 439
Period size: 121 Copynumber: 1.9 Consensus size: 121
19684809 GTAAGTATTG
*
19684819 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
19684884 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTA
66 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTA
* *
19684940 TAGTATTATATATTTTGATTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
1 TAGTATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
19685005 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
66 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
19685052 ATGGTTAAAT
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 109 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (121 bp):
TAGTATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTA
Found at i:19685017 original size:18 final size:18
Alignment explanation
Indices: 19684983--19685029 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
19684973 ATAAGAATAT
19684983 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
19685001 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
19685019 TTAAATTATAT
1 TTAAATTATAT
19685030 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:19685274 original size:45 final size:44
Alignment explanation
Indices: 19685188--19685280 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
19685178 ATTACATCAT
* *
19685188 CATTTCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
*
19685232 CATTCCATTCAACCAAACA-ATTGAATTACTATTAC-GCCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAG-CTCTATTC
19685277 CATT
1 CATT
19685281 ACACCTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 20 0.47
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:19685291 original size:16 final size:16
Alignment explanation
Indices: 19685262--19685299 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
19685252 TTGAATTACT
*
19685262 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
19685278 ATTACACCTTTATTCC
1 ATTACACCTCTATTCC
19685294 ATTACA
1 ATTACA
19685300 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:19687029 original size:6 final size:6
Alignment explanation
Indices: 19687020--19687053 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
19687010 ATATTTTATT
19687020 TATAAA TATAAA TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATA
19687054 GATTTATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TATAAA
Found at i:19689075 original size:25 final size:25
Alignment explanation
Indices: 19689047--19689101 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
19689037 ATAAGGTTTT
19689047 ACAGAGAGTTTC-CCACAAAGGCTTC
1 ACAGAGAG-TTCGCCACAAAGGCTTC
*
19689072 ACAGAGAGTTCGCCACAAGGGCTTC
1 ACAGAGAGTTCGCCACAAAGGCTTC
19689097 ACAGA
1 ACAGA
19689102 ATATGATGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (25 bp):
ACAGAGAGTTCGCCACAAAGGCTTC
Found at i:19692844 original size:21 final size:21
Alignment explanation
Indices: 19692818--19692859 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
19692808 TACCAAGAAG
*
19692818 AAATAGGTTTTTGAAGCTTAA
1 AAATAGGTTTTTAAAGCTTAA
19692839 AAATAGGTTTTTAAAGCTTAA
1 AAATAGGTTTTTAAAGCTTAA
19692860 TTGAGCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (21 bp):
AAATAGGTTTTTAAAGCTTAA
Found at i:19698828 original size:3 final size:3
Alignment explanation
Indices: 19698820--19698854 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
19698810 CTTTGCCTTA
19698820 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19698855 AGCTAACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19702561 original size:31 final size:31
Alignment explanation
Indices: 19702523--19702584 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
19702513 ATTAGAGACA
19702523 TAGAGCGGTGAGAATAAGATAGGGAATGATC
1 TAGAGCGGTGAGAATAAGATAGGGAATGATC
19702554 TAGAGCGGTGAGAATAAGATAGGGAATGATC
1 TAGAGCGGTGAGAATAAGATAGGGAATGATC
19702585 AAAGCACCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.19
Consensus pattern (31 bp):
TAGAGCGGTGAGAATAAGATAGGGAATGATC
Found at i:19708691 original size:15 final size:14
Alignment explanation
Indices: 19708664--19708701 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
19708654 GACATAAATT
19708664 TTTTTGAATTATTA
1 TTTTTGAATTATTA
*
19708678 TTTTTGAATATATTG
1 TTTTTGAAT-TATTA
19708693 TTTTT-AATT
1 TTTTTGAATT
19708702 TTTTTTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 12 0.55
15 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (14 bp):
TTTTTGAATTATTA
Found at i:19719700 original size:3 final size:3
Alignment explanation
Indices: 19719692--19719734 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
19719682 AAAATTAGGG
19719692 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
19719735 CTAAAGTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:19721492 original size:89 final size:88
Alignment explanation
Indices: 19721326--19721658 Score: 508
Period size: 88 Copynumber: 3.8 Consensus size: 88
19721316 TTAGCTCTTC
* * *
19721326 GAAGA-AAGATTTGCTATCTTCAGTCTGCTCTGCTGCAA-CTCAAGGAGGCAAGGCTAGTGTCTT
1 GAAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAACCT-AGGGAGGCAAGGCTGGTGTCTT
19721389 CGATCTGCTTCGCTGTTAGTACAA
65 CGATCTGCTTCGCTGTTAGTACAA
*
19721413 GAAGATAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACCTAGGGAGGCAAGGCTGGTGTCTT
1 GAAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGC-AACCTAGGGAGGCAAGGCTGGTGTCTT
* * * *
19721478 TGATCTGATTCGCTGTCAGTACAG
65 CGATCTGCTTCGCTGTTAGTACAA
* *
19721502 GAAGGCAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTC
1 GAAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTC
19721567 GATCTGCTTCGCTGTTAGTACAA
66 GATCTGCTTCGCTGTTAGTACAA
* * *
19721590 GAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTAAACCTAGGGAGGCAAGGCTGGTGTCTT
1 GAAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTG-CAACCTAGGGAGGCAAGGCTGGTGTCTT
19721655 CGAT
65 CGAT
19721659 TTACTCCACT
Statistics
Matches: 225, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
87 5 0.02
88 111 0.49
89 107 0.48
90 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (88 bp):
GAAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTC
GATCTGCTTCGCTGTTAGTACAA
Found at i:19721633 original size:177 final size:177
Alignment explanation
Indices: 19721331--19721654 Score: 576
Period size: 177 Copynumber: 1.8 Consensus size: 177
19721321 TCTTCGAAGA
* *
19721331 AAGATTTGCTATCTTCAGTCTGCTCTGCTGCAACTCAAGGAGGCAAGGCTAGTGTCTTCGATCTG
1 AAGATCTGCTATCTTCAGTCTGCTCTGCTGCAACCCAAGGAGGCAAGGCTAGTGTCTTCGATCTG
* *
19721396 CTTCGCTGTTAGTACAAGAAGATAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACCTAGGGA
66 CTTCGCTGTTAGTACAAGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACCTAGGGA
19721461 GGCAAGGCTGGTGTCTTTGATCTGATTCGCTGTCAGTACAGGAAGGC
131 GGCAAGGCTGGTGTCTTTGATCTGATTCGCTGTCAGTACAGGAAGGC
* *
19721508 AAGATCTGCTATCTTCAGTCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
1 AAGATCTGCTATCTTCAGTCTGCTCTGCTGCAACCCAAGGAGGCAAGGCTAGTGTCTTCGATCTG
* *
19721573 CTTCGCTGTTAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTAAACCTAGGGA
66 CTTCGCTGTTAGTACAAGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACCTAGGGA
19721638 GGCAAGGCTGGTGTCTT
131 GGCAAGGCTGGTGTCTT
19721655 CGATTTACTC
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
177 139 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (177 bp):
AAGATCTGCTATCTTCAGTCTGCTCTGCTGCAACCCAAGGAGGCAAGGCTAGTGTCTTCGATCTG
CTTCGCTGTTAGTACAAGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACCTAGGGA
GGCAAGGCTGGTGTCTTTGATCTGATTCGCTGTCAGTACAGGAAGGC
Found at i:19721808 original size:88 final size:88
Alignment explanation
Indices: 19721703--19721900 Score: 274
Period size: 88 Copynumber: 2.2 Consensus size: 88
19721693 AATTTTTAAC
* *
19721703 CTACTCCACTGCTGCTCAGGAAGA-AGGGATTGATGGCTTAAATCTGCTTCCCTACTACCTTGGG
1 CTACTCCACTACTGCTCAGGAAGATA-GGACTGATGGCTTAAATCTGCTTCCCTACTACCTTGGG
* *
19721767 AAGATAAGATTTG-CTGCCTTCGAT
65 AAGATAAGATTCGTC-GCCTTCAAT
* * *
19721791 CTACTCCACTACTGCTCAGGAAGATAGGACTGGTGGCTTAAATCTGCTTCCTTGCTACCTTGGGA
1 CTACTCCACTACTGCTCAGGAAGATAGGACTGATGGCTTAAATCTGCTTCCCTACTACCTTGGGA
*
19721856 AGATAAGATTCGTCGTCTTCAAT
66 AGATAAGATTCGTCGCCTTCAAT
* *
19721879 CTACTCCACTACTTCTTAGGAA
1 CTACTCCACTACTGCTCAGGAA
19721901 ACATGATCTA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
88 96 0.98
89 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (88 bp):
CTACTCCACTACTGCTCAGGAAGATAGGACTGATGGCTTAAATCTGCTTCCCTACTACCTTGGGA
AGATAAGATTCGTCGCCTTCAAT
Found at i:19722010 original size:45 final size:45
Alignment explanation
Indices: 19721955--19722227 Score: 393
Period size: 45 Copynumber: 6.1 Consensus size: 45
19721945 ATAAGACTAG
* *
19721955 TATCTTCGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * *
19722000 TATATTCGATCTACTTCACTGCCAATACAAGAAGACAATATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * *
19722045 TATATTCGATCTACTTCGGTGTCAATACAAGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
*
19722090 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * *
19722135 TATCTTTGATCTACTTTGCTGCCAATACAGGAATACAAAATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* *
19722180 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATTTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
19722225 TAT
1 TAT
19722228 TTTTTATCCT
Statistics
Matches: 202, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 202 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (45 bp):
TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
Found at i:19723557 original size:13 final size:13
Alignment explanation
Indices: 19723539--19723576 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
19723529 TAGCCTCTCC
19723539 ATTTTTACTTTTT
1 ATTTTTACTTTTT
*
19723552 ATTTTTTCTTTTT
1 ATTTTTACTTTTT
*
19723565 ATTATTA-TTTTT
1 ATTTTTACTTTTT
19723577 GGACTCAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (13 bp):
ATTTTTACTTTTT
Found at i:19724596 original size:21 final size:21
Alignment explanation
Indices: 19724572--19724611 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19724562 CATTTTTATT
* *
19724572 TTTTTTATTTTGATTTTTTGA
1 TTTTTGATCTTGATTTTTTGA
19724593 TTTTTGATCTTGATTTTTT
1 TTTTTGATCTTGATTTTTT
19724612 TTGAATCTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (21 bp):
TTTTTGATCTTGATTTTTTGA
Found at i:19724864 original size:17 final size:17
Alignment explanation
Indices: 19724844--19724881 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
19724834 ATGCGAAGAG
19724844 ATGAAAACTTGACTTCA
1 ATGAAAACTTGACTTCA
*
19724861 ATGAAAACTTGACTTCG
1 ATGAAAACTTGACTTCA
19724878 ATGA
1 ATGA
19724882 GCAAATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (17 bp):
ATGAAAACTTGACTTCA
Found at i:19740108 original size:13 final size:13
Alignment explanation
Indices: 19740090--19740115 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19740080 ATTCCTCCGC
19740090 ATAGAATGTGTGG
1 ATAGAATGTGTGG
19740103 ATAGAATGTGTGG
1 ATAGAATGTGTGG
19740116 TATTATGGGT
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:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (13 bp):
ATAGAATGTGTGG
Found at i:19742284 original size:43 final size:43
Alignment explanation
Indices: 19742223--19742346 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
19742213 ATTTCTGATA
* *
19742223 TGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGA-C
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATC
19742265 TTGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATC
1 -TGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATC
* * * * *
19742309 TGTGATTACATGTAAGATCACGTTTGGGATGTTGGCAT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
19742347 TGTACGAGCC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 2 0.03
43 64 0.93
44 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATC
Found at i:19758090 original size:25 final size:25
Alignment explanation
Indices: 19758053--19758106 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
19758043 GTCATTAGGG
* *
19758053 TTACCAATTTTTAGCTCGAATGAGC
1 TTACCAATATTTAGCTCGAATAAGC
*
19758078 TTACCAATATTTAGCTCGCATAAGC
1 TTACCAATATTTAGCTCGAATAAGC
19758103 TTAC
1 TTAC
19758107 TATTACTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (25 bp):
TTACCAATATTTAGCTCGAATAAGC
Found at i:19758151 original size:24 final size:25
Alignment explanation
Indices: 19758117--19758180 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
19758107 TATTACTCAA
*
19758117 CTCGTATGAGCTTACCGATT-ACAG
1 CTCGTATGAGCATACCGATTCACAG
* * *
19758141 CTCGTAAGAGCATATCGATTCAGAG
1 CTCGTATGAGCATACCGATTCACAG
19758166 CTCGTATGAGCATAC
1 CTCGTATGAGCATAC
19758181 ATGTATAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (25 bp):
CTCGTATGAGCATACCGATTCACAG
Found at i:19766719 original size:18 final size:19
Alignment explanation
Indices: 19766674--19766722 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
19766664 GAATATTTAC
*
19766674 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
19766694 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
19766712 ATAAAAATAAA
1 ATAAAAATAAA
19766723 ACTTTACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:19773179 original size:18 final size:19
Alignment explanation
Indices: 19773134--19773182 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
19773124 GAATATTTAC
*
19773134 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
19773154 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
19773172 ATAAAAATAAA
1 ATAAAAATAAA
19773183 ACTTTACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:19784026 original size:16 final size:17
Alignment explanation
Indices: 19784007--19784047 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
19783997 CGTACTCGAA
19784007 AAAATTCGAATA-TGAG
1 AAAATTCGAATATTGAG
*
19784023 AAAATCCG-ATATTGAG
1 AAAATTCGAATATTGAG
19784039 AAAATTCGA
1 AAAATTCGA
19784048 GTGCAGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (17 bp):
AAAATTCGAATATTGAG
Found at i:19785607 original size:15 final size:16
Alignment explanation
Indices: 19785579--19785611 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
19785569 TAAATGCTTC
19785579 TTTCTTTCTTTTTCTT
1 TTTCTTTCTTTTTCTT
19785595 TTTCTTT-TTTTTCTT
1 TTTCTTTCTTTTTCTT
19785610 TT
1 TT
19785612 GATGATATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTCTTTCTTTTTCTT
Found at i:19786332 original size:95 final size:93
Alignment explanation
Indices: 19786158--19786386 Score: 257
Period size: 94 Copynumber: 2.4 Consensus size: 93
19786148 GAGTCATAAG
* * **
19786158 AGTATTCTTTAGTTAACGTGGGATTAAAATTAACTTTTTAATGAAAATAGTGAAGAATTTGTTAC
1 AGTATTCTCTAGTTAACATGGGATTAAAATTAACTTTTTAATGAAAATAGTGAAGAATTTGACAC
19786223 TTATTTATAAGGTAAATGTGAGACATGAA
66 TTATTTATAAGGTAAATGTGAG-CATGAA
* *
19786252 AGTATTCTCTAGTTAATATGGCG-TTAAAATTAATTTTTTTAATGAAAATAGTGAAGAAATTT-A
1 AGTATTCTCTAGTTAACATGG-GATTAAAATTAA-CTTTTTAATGAAAATAGTGAAG-AATTTGA
* * **
19786315 CACTTATTTATATGGTAAGTGTGAGCATGGG
63 CACTTATTTATAAGGTAAATGTGAGCATGAA
* ** **
19786346 AGTGTTCTCTAGCCAATGTGGGA-TAAGAATTAACTTTTTAA
1 AGTATTCTCTAGTTAACATGGGATTAA-AATTAACTTTTTAA
19786387 GGGATTAAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
93 11 0.10
94 55 0.48
95 44 0.38
96 5 0.04
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (93 bp):
AGTATTCTCTAGTTAACATGGGATTAAAATTAACTTTTTAATGAAAATAGTGAAGAATTTGACAC
TTATTTATAAGGTAAATGTGAGCATGAA
Found at i:19786518 original size:69 final size:69
Alignment explanation
Indices: 19786387--19786558 Score: 190
Period size: 69 Copynumber: 2.5 Consensus size: 69
19786377 AACTTTTTAA
* * *
19786387 GGGATTAAATTTAA-TTTTTAGTAAAAATAT-TGAAGAAGTGAACTATGAAAGTATTTTCTAGTC
1 GGGATTAAAATTAACTTTTTAATAAAAAT-TGTGAAGAAGTGAACTATGAAAGCATTTTCTAGTC
19786450 AATGT
65 AATGT
* **
19786455 GGGATTAAAATTAACATTTTAATAAAAATTGTGAAGAAGTGAGTTAT-AAGAGCATTGTT-TAGT
1 GGGATTAAAATTAACTTTTTAATAAAAATTGTGAAGAAGTGAACTATGAA-AGCATT-TTCTAGT
*
19786518 CATTGT
64 CAATGT
* * * *
19786524 GGAATCAAAATTAACTTTTTAATGAAAATAGTGAA
1 GGGATTAAAATTAACTTTTTAATAAAAATTGTGAA
19786559 AAAATTGACA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
68 16 0.18
69 70 0.80
70 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (69 bp):
GGGATTAAAATTAACTTTTTAATAAAAATTGTGAAGAAGTGAACTATGAAAGCATTTTCTAGTCA
ATGT
Found at i:19788016 original size:41 final size:41
Alignment explanation
Indices: 19787971--19788147 Score: 196
Period size: 41 Copynumber: 4.3 Consensus size: 41
19787961 ACAGAAGCAT
* *
19787971 GTATGTGTAATTCAAGGGTA-CTAAAGTACAAATAGGGGCAC
1 GTATGTGCAATTCAAGGGTATC-GAAGTACAAATAGGGGCAC
* * *
19788012 GTATGTGCAATTTAAGGGTACCGAAGTACAAATAGGGGCAT
1 GTATGTGCAATTCAAGGGTATCGAAGTACAAATAGGGGCAC
** * * *
19788053 GTATGTGC-ATTTTAGTGGTATCGAAGTACAAATACGAGTAC
1 GTATGTGCAATTCAAG-GGTATCGAAGTACAAATAGGGGCAC
* * * *
19788094 GTATGTGCAGTTCAGGGGTATCGAAGTACAAACAGGGGTAC
1 GTATGTGCAATTCAAGGGTATCGAAGTACAAATAGGGGCAC
19788135 GTATGTGCAATTC
1 GTATGTGCAATTC
19788148 TTCATTATTC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
40 6 0.05
41 105 0.91
42 4 0.03
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (41 bp):
GTATGTGCAATTCAAGGGTATCGAAGTACAAATAGGGGCAC
Found at i:19789343 original size:21 final size:21
Alignment explanation
Indices: 19789308--19789365 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
19789298 ATATGAGATT
*
19789308 AAAATTAACTTTTTAAAGGATC
1 AAAATTAA-TTTTTAAAGCATC
* *
19789330 AAAATTATTTTTTAAAGCATT
1 AAAATTAATTTTTAAAGCATC
19789351 AAAATTAATTTTTAA
1 AAAATTAATTTTTAA
19789366 TGAAAATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 25 0.78
22 7 0.22
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
AAAATTAATTTTTAAAGCATC
Found at i:19789480 original size:69 final size:69
Alignment explanation
Indices: 19789348--19789523 Score: 230
Period size: 69 Copynumber: 2.5 Consensus size: 69
19789338 TTTTTAAAGC
* * * *
19789348 ATTAAAATTAA-TTTTTAATGAAAATAGTGAAAAAAAATGATCTATGGGAGTATTGTTTAGTCAA
1 ATTAAAATTAACTTTTTAATGAAAATA--GAGAAGAAATGATCTATGAGAGTATTCTTTAGTCAA
* *
19789412 TTTGGG
64 TGTAGG
*
19789418 ATTAAAATTAACTTTTTAATGAAAATAGAGAAGAAGTGAGT-TATGAGAGTATTCTTTAGTCAAT
1 ATTAAAATTAACTTTTTAATGAAAATAGAGAAGAAATGA-TCTATGAGAGTATTCTTTAGTCAAT
19789482 GTAGG
65 GTAGG
* *
19789487 ATTAAAATTAACTTTTTAACGAAAATAGTGAAGAAAT
1 ATTAAAATTAACTTTTTAATGAAAATAGAGAAGAAAT
19789524 TGTCATTTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
69 67 0.71
70 12 0.13
71 15 0.16
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (69 bp):
ATTAAAATTAACTTTTTAATGAAAATAGAGAAGAAATGATCTATGAGAGTATTCTTTAGTCAATG
TAGG
Found at i:19789816 original size:69 final size:68
Alignment explanation
Indices: 19789695--19789843 Score: 194
Period size: 69 Copynumber: 2.2 Consensus size: 68
19789685 AATTTTGTTG
* * * *
19789695 GGGATTAAAATTAGTTTTTAATGAAACTAGTAAAGAAGTGAGGTATAAGAGTATTCTCTAGTCAA
1 GGGATTAAAATTACTTTTTAATGAAAATAGTAAAGAAGTGAGCTATAAGAGTATTCTCTAGCCAA
*
19789760 TGT
66 TCT
**
19789763 -GGAGTTAAAATTAACTTTTTAATGAAAATAG-AGAAGAAGTGAGCTATGTGAGTATTCTCTAGC
1 GGGA-TTAAAATT-ACTTTTTAATGAAAATAGTA-AAGAAGTGAGCTATAAGAGTATTCTCTAGC
19789826 CAATCT
63 CAATCT
19789832 GGGATTAAAATT
1 GGGATTAAAATT
19789844 TACTCTCTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
67 3 0.04
68 9 0.13
69 55 0.79
70 3 0.04
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (68 bp):
GGGATTAAAATTACTTTTTAATGAAAATAGTAAAGAAGTGAGCTATAAGAGTATTCTCTAGCCAA
TCT
Found at i:19789960 original size:22 final size:22
Alignment explanation
Indices: 19789930--19789973 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19789920 TAGTAAATGT
*
19789930 GGGATTAAAATTAAATTTTTAA
1 GGGAGTAAAATTAAATTTTTAA
**
19789952 GGGAGTAAAATTATTTTTTTAA
1 GGGAGTAAAATTAAATTTTTAA
19789974 TGAAAATAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (22 bp):
GGGAGTAAAATTAAATTTTTAA
Found at i:19791406 original size:185 final size:185
Alignment explanation
Indices: 19791094--19791508 Score: 618
Period size: 185 Copynumber: 2.2 Consensus size: 185
19791084 TAACCAGATG
* * * *
19791094 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGCGAAAAATATGGCACTCGATA
1 TGTTTTGAAGAAGAAAAATGGTGTTTGACAAGAGAGAAAATGAGAGAAAAATATGACACTCGACA
* * *
19791159 GTGGGGAAAAAAACCAATGATTTTAAGTTGAAAGTGTGGTGTGGGTTTACAAAAAATACACAAAA
66 ATGGGGAAAAAAACCAATGATTTTAAGCTAAAAGTGTGGTGTGGGTTTACAAAAAATACACAAAA
* * * * *
19791224 GCATGATTATAGTCATGGTAATGAAAATTTTTGTAGAGGAAATGGGCCAACTATA
131 GCATGATTATAATCATGGTAAAGAAAATTATTGTAGAGGAAATGAGCCAACCATA
* *
19791279 TGTTTTGAAGAAGAAAAATGGTGTTCGACAAGAGAGAAAATGAGAGAAGAAA-ATGACAGTCGAC
1 TGTTTTGAAGAAGAAAAATGGTGTTTGACAAGAGAGAAAATGAGAGAA-AAATATGACACTCGAC
* *
19791343 AATGGGGTGAAAAAA-CAATGATTTTAAGCTAAAAGTGTGGTGTGGGTTTACAAAAATTACACAA
65 AATGGGG-AAAAAAACCAATGATTTTAAGCTAAAAGTGTGGTGTGGGTTTACAAAAAATACACAA
* * *
19791407 AAGCATGATTATAATCATGGTAAAGGAAATTATTGTAGATGAAATGAGCCAACCATG
129 AAGCATGATTATAATCATGGTAAAGAAAATTATTGTAGAGGAAATGAGCCAACCATA
*
19791464 TGTTTTGAAGAAGAAAAATGGTGTTTGACAAGAGAGAATATGAGA
1 TGTTTTGAAGAAGAAAAATGGTGTTTGACAAGAGAGAAAATGAGA
19791509 AAATTTTTTT
Statistics
Matches: 207, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
185 198 0.96
186 9 0.04
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (185 bp):
TGTTTTGAAGAAGAAAAATGGTGTTTGACAAGAGAGAAAATGAGAGAAAAATATGACACTCGACA
ATGGGGAAAAAAACCAATGATTTTAAGCTAAAAGTGTGGTGTGGGTTTACAAAAAATACACAAAA
GCATGATTATAATCATGGTAAAGAAAATTATTGTAGAGGAAATGAGCCAACCATA
Found at i:19791883 original size:18 final size:19
Alignment explanation
Indices: 19791862--19791904 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
19791852 AAATTTTGAA
*
19791862 ATTTTTATAAA-TATTTTG
1 ATTTTTAAAAATTATTTTG
19791880 ATTTTTAAAAATTATTTTG
1 ATTTTTAAAAATTATTTTG
19791899 ATTTTT
1 ATTTTT
19791905 TTTTTGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
ATTTTTAAAAATTATTTTG
Found at i:19793337 original size:16 final size:16
Alignment explanation
Indices: 19793315--19793383 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
19793305 TTTGGTTCGC
19793315 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
19793331 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
19793347 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
19793364 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
19793380 TGTA
1 TGTA
19793384 ATAGCTAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:19793361 original size:33 final size:32
Alignment explanation
Indices: 19793315--19793383 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
19793305 TTTGGTTCGC
19793315 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
* *
19793347 TGTATTGGGATTAGAGGTGTATTGGATTAGATG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
19793380 TGTA
1 TGTA
19793384 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:19793634 original size:15 final size:15
Alignment explanation
Indices: 19793599--19793651 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
19793589 TTAATCATAT
* *
19793599 TTAAACATAATTATTA
1 TTAAATATAATT-TAA
*
19793615 TTAAATATATTTTAA
1 TTAAATATAATTTAA
19793630 TTAAAATATAATTTAA
1 TT-AAATATAATTTAA
*
19793646 TGAAAT
1 TTAAAT
19793652 TCTTAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 8 0.26
16 23 0.74
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
TTAAATATAATTTAA
Found at i:19793729 original size:66 final size:66
Alignment explanation
Indices: 19793657--19793855 Score: 210
Period size: 66 Copynumber: 3.2 Consensus size: 66
19793647 GAAATTCTTA
*
19793657 ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTATTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
19793722 C
66 C
* * * *
19793723 ATAATTATTATTA-AATA-TAATTTAATTAAA--AT-ATATA--AT--T-T--AATA-AAATTCT
1 ATAATTAATATTATTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-T-T
*
19793775 TA-
64 AAC
*
19793777 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTATTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
19793842 C
66 C
*
19793843 ATAATTATTATTA
1 ATAATTAATATTA
19793856 AATATATTTT
Statistics
Matches: 104, Mismatches: 13, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
53 3 0.03
54 16 0.15
55 5 0.05
56 12 0.12
57 1 0.01
58 2 0.02
59 7 0.07
61 7 0.07
62 2 0.02
63 1 0.01
64 12 0.12
65 5 0.05
66 28 0.27
67 3 0.03
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (66 bp):
ATAATTAATATTATTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
C
Found at i:19793778 original size:17 final size:18
Alignment explanation
Indices: 19793737--19793771 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19793727 TTATTATTAA
19793737 ATATAATTTAATTAAAAT
1 ATATAATTTAATTAAAAT
19793755 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
19793772 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:19793813 original size:120 final size:120
Alignment explanation
Indices: 19793602--19795062 Score: 2791
Period size: 120 Copynumber: 12.2 Consensus size: 120
19793592 ATCATATTTA
19793602 AACATAATTATTATTAAATATATTTTAATT-AAA-ATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
* *
19793665 TATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
19793720 AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
19793785 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19793840 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
19793905 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
19793960 AACATAATTATTATTAAATATATTTTATTTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
19794025 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19794080 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
19794145 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19794200 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
19794265 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19794320 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
19794385 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19794440 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
19794505 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19794560 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
19794625 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19794680 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
19794745 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19794800 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
19794865 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19794920 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
19794985 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
19795040 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
19795063 AACTTGAAAA
Statistics
Matches: 1326, Mismatches: 15, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
118 29 0.02
119 3 0.00
120 1294 0.98
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:19799407 original size:26 final size:26
Alignment explanation
Indices: 19799377--19799427 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
19799367 CCGTAAAATA
19799377 CTGCAGCTAATACCAATGACAAAAAC
1 CTGCAGCTAATACCAATGACAAAAAC
*
19799403 CTGCAGCTAATATCAATGACAAAAA
1 CTGCAGCTAATACCAATGACAAAAA
19799428 TAAATGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (26 bp):
CTGCAGCTAATACCAATGACAAAAAC
Found at i:19806465 original size:12 final size:12
Alignment explanation
Indices: 19806382--19806465 Score: 66
Period size: 12 Copynumber: 7.0 Consensus size: 12
19806372 GATAAATACT
19806382 ATATTAAATTTA
1 ATATTAAATTTA
* *
19806394 ATGTTAAATATA
1 ATATTAAATTTA
*
19806406 ATAATT-AATATA
1 AT-ATTAAATTTA
* *
19806418 ATATTTATTTATA
1 ATATTAAATT-TA
19806431 ATA-TAAATATTA
1 ATATTAAAT-TTA
*
19806443 A-ATTAAGTTTA
1 ATATTAAATTTA
19806454 ATATTAAATTTA
1 ATATTAAATTTA
19806466 TTAAAATAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
11 8 0.14
12 41 0.72
13 8 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
ATATTAAATTTA
Found at i:19815488 original size:21 final size:21
Alignment explanation
Indices: 19815464--19815503 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19815454 ATAAATGAAC
*
19815464 AAAACATATT-ACAACATAAA
1 AAAAAATATTAACAACATAAA
*
19815484 AAAAAGTATTAACAACATAA
1 AAAAAATATTAACAACATAA
19815504 TCTAAAGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAAAATATTAACAACATAAA
Found at i:19816003 original size:21 final size:22
Alignment explanation
Indices: 19815972--19816013 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
19815962 ATTTGCAGAG
*
19815972 GAGGTTTGCTTGTATTATGGAA
1 GAGGTTTGCTTGAATTATGGAA
*
19815994 GAGG-TTGCTTGAATTGTGGA
1 GAGGTTTGCTTGAATTATGGA
19816014 GGGAGGTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.21, C:0.05, G:0.36, T:0.38
Consensus pattern (22 bp):
GAGGTTTGCTTGAATTATGGAA
Found at i:19816019 original size:22 final size:20
Alignment explanation
Indices: 19815946--19816020 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 20
19815936 GTGGACAACA
*
19815946 TGGAGGGAAG-TGCTTGATT
1 TGGAGGGAGGTTGCTTGATT
*
19815965 TGCAGAGGAGGTTTGCTTGTATT
1 TGGAG-GGAGG-TTGCTTG-ATT
*
19815988 ATGGA-AGAGGTTGCTTGAATT
1 -TGGAGGGAGGTTGCTTG-ATT
19816009 GTGGAGGGAGGT
1 -TGGAGGGAGGT
19816021 GGATGGTCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 4 0.09
20 4 0.09
21 14 0.33
22 15 0.35
23 3 0.07
24 3 0.07
ACGTcount: A:0.21, C:0.05, G:0.41, T:0.32
Consensus pattern (20 bp):
TGGAGGGAGGTTGCTTGATT
Found at i:19816178 original size:28 final size:29
Alignment explanation
Indices: 19816128--19816189 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
19816118 AGGCACCTCA
* *
19816128 AGTGGATGGTTGGGCTCGTTTCC-CCCTT
1 AGTGGATGGTTGGGCTCGCTTCCTCCCAT
*
19816156 AGTGGATTGTCTGGGCTC-CTTCCTCCCAT
1 AGTGGATGGT-TGGGCTCGCTTCCTCCCAT
19816185 AGTGG
1 AGTGG
19816190 GATGCCCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.10, C:0.26, G:0.31, T:0.34
Consensus pattern (29 bp):
AGTGGATGGTTGGGCTCGCTTCCTCCCAT
Found at i:19820045 original size:33 final size:33
Alignment explanation
Indices: 19819994--19820305 Score: 141
Period size: 33 Copynumber: 8.7 Consensus size: 33
19819984 TTATCCGTTA
*
19819994 TCGGTGGATTCAGCACTTAGCAACCACCAATGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
**
19820028 TCGGGGAATCAGCACTTAGCAACCCCTTTTCACATTCAAAAAT
1 TCGGGGAATCAGCACTTAGCAA---C----CAC---CAATGAT
* *
19820071 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
* * * *
19820105 TCGAGGAATTAGCACTTAGTAACCCCTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* * *
19820146 ACGGTGGGATCAGCACTTAGCAATCACCAATGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
19820180 TCGAGGAATCAGCACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* * *
19820207 TGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
1 TCGGGGAATCAGCACTTAGCAA-CCAC--CA-A--T--GAT
* * *
19820248 ACGGTGGAATCAACACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
19820282 TCGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
19820306 CCTTGGGGGA
Statistics
Matches: 209, Mismatches: 34, Indels: 71
0.67 0.11 0.23
Matches are distributed among these distances:
27 21 0.10
28 2 0.01
29 1 0.00
31 1 0.00
32 2 0.01
33 73 0.35
34 19 0.09
36 5 0.02
37 4 0.02
38 2 0.01
39 5 0.02
40 3 0.01
41 11 0.05
42 34 0.16
43 8 0.04
44 18 0.09
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:19820122 original size:77 final size:76
Alignment explanation
Indices: 19819995--19820207 Score: 329
Period size: 75 Copynumber: 2.8 Consensus size: 76
19819985 TATCCGTTAT
* *
19819995 CGGTGGATTCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAACCCCTTTTCA
19820060 CATTCAAAAATA
66 CATT-AAAAATA
* * *
19820072 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGAGGAATTAGCACTTAGTAACCCC-TTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAACCCCTTTTCA
* *
19820136 CATTTAAGATA
66 CATTAAAAATA
* *
19820147 CGGTGGGATCAGCACTTAGCAATCACCAATGATTCGAGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAACCCCTT
19820208 GGGGGAATCA
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
75 59 0.48
76 10 0.08
77 54 0.44
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAACCCCTTTTCA
CATTAAAAATA
Found at i:19820265 original size:102 final size:102
Alignment explanation
Indices: 19820109--19820337 Score: 377
Period size: 102 Copynumber: 2.2 Consensus size: 102
19820099 AATGAATCGA
* * * * * *
19820109 GGAATTAGCACTTAGTAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAATCACC
1 GGAATTAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCACC
*
19820174 AATGATTCGAGGAATCAGCACTTAGCAACCCCTTGGG
66 AATGAATCGAGGAATCAGCACTTAGCAACCCCTTGGG
*
19820211 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCACC
1 GGAATTAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCACC
*
19820276 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
66 AATGAATCGAGGAATCAGCACTTAGCAACCCCTTGGG
19820313 GGAATTAGCACTTAGCAACCCCCTT
1 GGAATTAGCACTTAGCAACCCCCTT
19820338 TATATTCAAT
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 117 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (102 bp):
GGAATTAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCACC
AATGAATCGAGGAATCAGCACTTAGCAACCCCTTGGG
Found at i:19821431 original size:11 final size:12
Alignment explanation
Indices: 19821403--19821436 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
19821393 GCCCAAACGT
19821403 CGAAATTTTCGAA
1 CGAAATTTTC-AA
19821416 CGAAATTTTC-A
1 CGAAATTTTCAA
19821427 CGAAATTTTC
1 CGAAATTTTC
19821437 CATGAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (12 bp):
CGAAATTTTCAA
Found at i:19829165 original size:17 final size:17
Alignment explanation
Indices: 19829143--19829185 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
19829133 GGACACTCTT
*
19829143 CAAACAGAATGGCCTGA
1 CAAACAGAATGACCTGA
*
19829160 CAAACAGAATGACGTGA
1 CAAACAGAATGACCTGA
*
19829177 CAAATAGAA
1 CAAACAGAA
19829186 GAAATCAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.49, C:0.19, G:0.21, T:0.12
Consensus pattern (17 bp):
CAAACAGAATGACCTGA
Found at i:19830081 original size:22 final size:23
Alignment explanation
Indices: 19830049--19830094 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
19830039 AAAAAAATAA
19830049 TAAGTACAATTC-AATATATTAT
1 TAAGTACAATTCAAATATATTAT
* *
19830071 TAAGTATAATTCAAATATCTTAT
1 TAAGTACAATTCAAATATATTAT
19830094 T
1 T
19830095 TTTTATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
TAAGTACAATTCAAATATATTAT
Found at i:19831227 original size:18 final size:18
Alignment explanation
Indices: 19831204--19831238 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19831194 AAAAAGTATT
19831204 TTTAAAAAATTTAAAAAC
1 TTTAAAAAATTTAAAAAC
19831222 TTTAAAAAATTTAAAAA
1 TTTAAAAAATTTAAAAA
19831239 AAGTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TTTAAAAAATTTAAAAAC
Found at i:19831229 original size:40 final size:40
Alignment explanation
Indices: 19831146--19831278 Score: 184
Period size: 39 Copynumber: 3.4 Consensus size: 40
19831136 AAATTAAAAC
*
19831146 AAAAATTAAAAAAAGTATTTTTAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTTAAAATATTTTAAAATTTA
* *
19831186 AAAAATT-AAAAAAGTATTTTTAAAAAATTTAAAAACTTTA
1 AAAAATTAAAAAAAGTATTTTTAAAATATTTTAAAA-TTTA
19831226 AAAAATTTAAAAAAAGTA-TTTTAAAAGTATTTTAAAA-TTA
1 AAAAA-TTAAAAAAAGTATTTTTAAAA-TATTTTAAAATTTA
19831266 AAAAA-TAAAAAAA
1 AAAAATTAAAAAAA
19831279 TAACAATATT
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
38 8 0.10
39 26 0.31
40 23 0.27
41 10 0.12
42 17 0.20
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTTAAAATATTTTAAAATTTA
Found at i:19831438 original size:12 final size:12
Alignment explanation
Indices: 19831423--19831452 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19831413 TACTCTCTCT
19831423 CTCTCTCACTCA
1 CTCTCTCACTCA
*
19831435 CTCTCTCACTCT
1 CTCTCTCACTCA
19831447 CTCTCT
1 CTCTCT
19831453 TTTGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.50, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCTCTCACTCA
Found at i:19832487 original size:23 final size:23
Alignment explanation
Indices: 19832445--19832489 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
19832435 AAACTTATGT
* *
19832445 ATTTTGTACAAATAATCTATTTG
1 ATTTTATACAAATAACCTATTTG
*
19832468 ATTTTATACAAATAGCCTATTT
1 ATTTTATACAAATAACCTATTT
19832490 AATAGTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (23 bp):
ATTTTATACAAATAACCTATTTG
Found at i:19834087 original size:13 final size:13
Alignment explanation
Indices: 19834069--19834136 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
19834059 AGTTCTGCAA
19834069 TTGAAAAGTGTTT
1 TTGAAAAGTGTTT
19834082 TTGAAAAGT-TTGGT
1 TTGAAAAGTGTT--T
* *
19834096 TTGCAAAACGCGCTT
1 TTG-AAAA-GTGTTT
19834111 TTGAAAAGTG-TT
1 TTGAAAAGTGTTT
*
19834123 GTGAGAAAGTGTTT
1 TTGA-AAAGTGTTT
19834137 GTCGTTTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
12 7 0.16
13 17 0.39
14 10 0.23
15 8 0.18
16 1 0.02
17 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.38
Consensus pattern (13 bp):
TTGAAAAGTGTTT
Found at i:19840366 original size:20 final size:17
Alignment explanation
Indices: 19840328--19840365 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
19840318 GATGTTGGGA
19840328 TATTTTATTAATATTAT
1 TATTTTATTAATATTAT
* *
19840345 TATTTTATTAAGATAAT
1 TATTTTATTAATATTAT
19840362 TATT
1 TATT
19840366 AAAGAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTTATTAATATTAT
Found at i:19843800 original size:20 final size:20
Alignment explanation
Indices: 19843777--19843817 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
19843767 AGTTTTTTAA
19843777 TTTTAAAGAG-TTTTTATTTT
1 TTTTAAA-AGCTTTTTATTTT
19843797 TTTTAAAAGCCTTTTTATTTT
1 TTTTAAAAG-CTTTTTATTTT
19843818 AAATATGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 7 0.37
21 10 0.53
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTTAAAAGCTTTTTATTTT
Found at i:19844700 original size:15 final size:16
Alignment explanation
Indices: 19844649--19844692 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
19844639 TATATTAAAC
*
19844649 ATATTTTATA-ACTTA
1 ATATTTCATATACTTA
19844664 A-A-TTCATATACTTA
1 ATATTTCATATACTTA
19844678 ATATTTCA-ATACTTA
1 ATATTTCATATACTTA
19844693 TTTTTTCAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 9 0.36
16 4 0.16
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTTCATATACTTA
Found at i:19856667 original size:14 final size:14
Alignment explanation
Indices: 19856648--19856688 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
19856638 AAATATAAAT
19856648 ATATATACATATAC
1 ATATATACATATAC
* * *
19856662 ATATATAAAAATAG
1 ATATATACATATAC
19856676 ATATATACATATA
1 ATATATACATATA
19856689 TATAGATTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (14 bp):
ATATATACATATAC
Found at i:19858374 original size:44 final size:45
Alignment explanation
Indices: 19858320--19858435 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
19858310 CTAATCCACT
* * * * *
19858320 CCACTACAACTTTAGGGAGATATGATTTG-TTTATTCAGTCTGCC
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTATTCAGTCAGCC
* *
19858364 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCAGCC
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTATTCAGTCAGCC
* * *
19858409 CCGCTGCAACCTCAGGGGGATAAGACT
1 CCACTGCAACTTCAGGGAGATAAGACT
19858436 AGATATGATC
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 25 0.41
45 36 0.59
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGCTTTATTCAGTCAGCC
Found at i:19858506 original size:44 final size:44
Alignment explanation
Indices: 19858456--19858606 Score: 128
Period size: 44 Copynumber: 3.4 Consensus size: 44
19858446 TGCTCTCTCT
**
19858456 AACTTCAGAAAGATAAGATCTA-TCACTTTAATCCGCTCCACTGC
1 AACTTCAGGGAGATAAGAT-TATTCACTTTAATCCGCTCCACTGC
* * ** **
19858500 AACTTCAGGGGGATAGGATTATTGGCTTTAATTTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTATTCACTTTAATCCGCTCCACTGC
* * * * *
19858544 AACTTCAGGGAGATAAGATT-TGTCATCTTCAGTCTGCCCCACTGT
1 AACTTCAGGGAGATAAGATTAT-TCA-CTTTAATCCGCTCCACTGC
19858589 AACTTCA-GGAGAATAAGA
1 AACTTCAGGGAG-ATAAGA
19858607 CTGGATGCGA
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
43 3 0.03
44 56 0.65
45 27 0.31
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTATTCACTTTAATCCGCTCCACTGC
Found at i:19858543 original size:173 final size:173
Alignment explanation
Indices: 19858269--19858693 Score: 507
Period size: 173 Copynumber: 2.4 Consensus size: 173
19858259 ATTTGATGTA
* * *
19858269 ATCTGCTCTACTCTAATTTCAGAGAGATAAGATCTATCATTCTAATCCACTCCACTACAACTTTA
1 ATCTGCTCT-CTCTAACTTCAGAGAGATAAGATCTATCATT-TAATCCGCTCCACTGCAACTTTA
* ** * *
19858334 GGGAGATATGA-TTTGTTTATTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTG-CTTT
64 GGGAGATAGGATTTTGGCTATTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTC-AT
* * * * *
19858397 CTTGAGTCAGCCCCGCTGCAACCTCAGGGGGATAAGACTAGATATG
128 CTTCAGTCAGCCCCACTGCAACCTCAGGAGAATAAGACTAGATACG
* *
19858443 ATCTGCTCTCTCTAACTTCAGAAAGATAAGATCTATCACTTTAATCCGCTCCACTGCAACTTCAG
1 ATCTGCTCTCTCTAACTTCAGAGAGATAAGATCTATCA-TTTAATCCGCTCCACTGCAACTTTAG
* * * *
19858508 GGGGATAGGATTATTGGCT-TT-AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATC
65 GGAGATAGGATT-TTGGCTATTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTCATC
* * * * *
19858571 TTCAGTCTGCCCCACTGTAACTTCAGGAGAATAAGACTGGATGCG
129 TTCAGTCAGCCCCACTGCAACCTCAGGAGAATAAGACTAGATACG
* * * *
19858616 ATCTGCTCTTTTGTAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACCGCAACTTTA
1 ATCTGCTC-TCTCTAACTTCAGAGAGATAAGATCTATCA-TTTAATCCGCTCCACTGCAACTTTA
19858681 GGGAGATAGGATT
64 GGGAGATAGGATT
19858694 GGTTCTTCTA
Statistics
Matches: 214, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
173 134 0.63
174 76 0.36
175 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (173 bp):
ATCTGCTCTCTCTAACTTCAGAGAGATAAGATCTATCATTTAATCCGCTCCACTGCAACTTTAGG
GAGATAGGATTTTGGCTATTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTCATCTT
CAGTCAGCCCCACTGCAACCTCAGGAGAATAAGACTAGATACG
Found at i:19858905 original size:99 final size:99
Alignment explanation
Indices: 19858704--19859095 Score: 581
Period size: 98 Copynumber: 4.0 Consensus size: 99
19858694 GGTTCTTCTA
* * *
19858704 TTTAACTGCAATGTTGGGAAGACAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCC
1 TTTAATTGCAATGTTGGGAA-ACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCC
*
19858769 AAGGAAGTAAGATT-GTCGTTGTGGCCTCAATCTT
65 AAGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
* *
19858803 TTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGATTCAATCTGTTCCACTGCACCGCCA
1 TTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
**
19858868 AGGAAGTAAGATTCGCCAATGTGGCCTCAATCTT
66 AGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
* * * *
19858902 TTTAATTGCAATGTCGGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACATCGCCA
1 TTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
* * *
19858967 GGGAAGTAAGATTCACCGTTGTGGCTTCAATC-T
66 AGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
* * *
19859000 ATTAATTGCAATGTTGGGAAACAAGATTCACCGTAGTAGCTTCAATCTGTTCCACTACATCGCCA
1 TTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
* *
19859065 GGGAAGTAAGATTCGCCGTTGTGGCTTCAAT
66 AGGAAGTAAGATTCGCCGTTGTGGCCTCAAT
19859096 ATATTCCACT
Statistics
Matches: 267, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
98 145 0.54
99 122 0.46
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (99 bp):
TTTAATTGCAATGTTGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
AGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
Found at i:19859046 original size:197 final size:198
Alignment explanation
Indices: 19858704--19859095 Score: 599
Period size: 197 Copynumber: 2.0 Consensus size: 198
19858694 GGTTCTTCTA
*
19858704 TTTAACTGCAATGTTGGGAAGACAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCC
1 TTTAACTGCAATGTCGGGAAGACAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCC
** *
19858769 AAGGAAGTAAGATTGTCGTTGTGGCCTCAATCTTTTTAATTGCAATGTTGGGAAACAAGATTCAC
66 AAGGAAGTAAGATTACCGTTGTGGCCTCAATCTTATTAATTGCAATGTTGGGAAACAAGATTCAC
* *
19858834 CGTCGTAGATTCAATCTGTTCCACTGCACCGCCAAGGAAGTAAGATTCGCCAATGTGGCCTCAAT
131 CGTAGTAGATTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGCCAATGTGGCCTCAAT
19858899 CTT
196 CTT
* * * *
19858902 TTTAATTGCAATGTCGGGAA-ACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACATCGCC
1 TTTAACTGCAATGTCGGGAAGACAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCC
* *
19858966 AGGGAAGTAAGATTCACCGTTGTGGCTTCAATC-TATTAATTGCAATGTTGGGAAACAAGATTCA
66 AAGGAAGTAAGATT-ACCGTTGTGGCCTCAATCTTATTAATTGCAATGTTGGGAAACAAGATTCA
* * * ** *
19859030 CCGTAGTAGCTTCAATCTGTTCCACTACATCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAA
130 CCGTAGTAGATTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGCCAATGTGGCCTCAA
19859095 T
195 T
19859096 ATATTCCACT
Statistics
Matches: 175, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
197 142 0.81
198 33 0.19
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (198 bp):
TTTAACTGCAATGTCGGGAAGACAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCC
AAGGAAGTAAGATTACCGTTGTGGCCTCAATCTTATTAATTGCAATGTTGGGAAACAAGATTCAC
CGTAGTAGATTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGCCAATGTGGCCTCAAT
CTT
Found at i:19859234 original size:100 final size:100
Alignment explanation
Indices: 19859111--19859310 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 100
19859101 CCACTGTAAT
19859111 GCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAACTAATCCAAGCCTTA
1 GCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAACTAATCCAAGCCTTA
19859176 ACGCCAAGGAAATAAGATTCGCCGTCGTGGCTTCA
66 ACGCCAAGGAAATAAGATTCGCCGTCGTGGCTTCA
*
19859211 GCCAAAGAGATAGGATTTGCTGCCCACAGCTTCAATCCGCTCCACTTCAACTAATCCAAGCCTTA
1 GCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAACTAATCCAAGCCTTA
* *
19859276 ACGCTAGGGAAATAAGATTCGCCGTCGTGGCTTCA
66 ACGCCAAGGAAATAAGATTCGCCGTCGTGGCTTCA
19859311 ATCTGCTCTG
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (100 bp):
GCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAACTAATCCAAGCCTTA
ACGCCAAGGAAATAAGATTCGCCGTCGTGGCTTCA
Found at i:19859556 original size:88 final size:87
Alignment explanation
Indices: 19859422--19859659 Score: 332
Period size: 88 Copynumber: 2.7 Consensus size: 87
19859412 TTGCTGCTAG
* * **
19859422 TACAGGAAGGCAAGATCTGTCATTTTCAACCTACTCCACTATTGCTCAGGGAGACAAGGCTGGTA
1 TACAGGAAGACAAGATCTCT-ATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTA
*
19859487 TCTTCGATCCACTTCGCTACTAA
65 TCTTCGATCCACTTCACTACTAA
* *
19859510 TACAGGAAGACAAGATCTACTATTTTCAACCTACTCTACTGCTGCTCAGGGAGACAAGGATGGTA
1 TACAGGAAGACAAGATCT-CTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTA
* * * *
19859575 TTTTCGATCTACTTCACTATTGA
65 TCTTCGATCCACTTCACTACTAA
* *
19859598 TACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTG
1 TACAGGAAGACAAGATCT-CTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTG
19859660 AGGTCTCACC
Statistics
Matches: 133, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 132 0.99
89 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (87 bp):
TACAGGAAGACAAGATCTCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTAT
CTTCGATCCACTTCACTACTAA
Found at i:19859565 original size:44 final size:44
Alignment explanation
Indices: 19859512--19859647 Score: 134
Period size: 44 Copynumber: 3.1 Consensus size: 44
19859502 GCTACTAATA
*
19859512 CAGGAAGACAAGATCTACTATTTTCAACCTACTCTACTGCTGCT
1 CAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCT
* * * * ** *
19859556 CAGGGAGACAAGGA--TGGTATTTTCGATCTACT-TCACTATTGAT
1 CAGGAAGACAA-GATCTGCTATTTTCAACCTACTCT-ACTGCTGCT
* *
19859599 ACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCT
1 -CAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCT
19859644 CAGG
1 CAGG
19859648 GAGATAAGGC
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
42 1 0.01
43 22 0.32
44 24 0.35
45 22 0.32
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
CAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCT
Found at i:19859579 original size:43 final size:44
Alignment explanation
Indices: 19859443--19859656 Score: 118
Period size: 44 Copynumber: 4.9 Consensus size: 44
19859433 AAGATCTGTC
* ** *
19859443 ATTTTCAACCTACTCCACTATTGCTCAGGGAGACAAGG-CTGGT
1 ATTTTCAACCTACTCTACTGCTGCTCAGGGAGACAAGGACTGCT
* * * * ** * *
19859486 ATCTTCGATCC-ACT-TCGCTACTAATACAGGAAGACAA-GATCTACT
1 ATTTTC-AACCTACTCT-ACTGCTGCT-CAGGGAGACAAGGA-CTGCT
*
19859531 ATTTTCAACCTACTCTACTGCTGCTCAGGGAGACAAGGA-TGGT
1 ATTTTCAACCTACTCTACTGCTGCTCAGGGAGACAAGGACTGCT
* * ** * *
19859574 ATTTTCGATCTACT-TCACTATTGATACAGGAAGACAA-GATCTGCT
1 ATTTTCAACCTACTCT-ACTGCTGCT-CAGGGAGACAAGGA-CTGCT
* * *
19859619 ATTTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGG
1 ATTTTCAACCTACTCTACTGCTGCTCAGGGAGACAAGG
19859657 CTGAGGTCTC
Statistics
Matches: 122, Mismatches: 35, Indels: 26
0.67 0.19 0.14
Matches are distributed among these distances:
42 1 0.01
43 36 0.30
44 45 0.37
45 39 0.32
46 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
ATTTTCAACCTACTCTACTGCTGCTCAGGGAGACAAGGACTGCT
Found at i:19860906 original size:13 final size:14
Alignment explanation
Indices: 19860890--19860920 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
19860880 TATTTTTACT
19860890 TTTTCATTT-TTCA
1 TTTTCATTTCTTCA
19860903 TTTTCATTTCTTCA
1 TTTTCATTTCTTCA
19860917 TTTT
1 TTTT
19860921 TTCACATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCATTTCTTCA
Found at i:19860924 original size:8 final size:7
Alignment explanation
Indices: 19860889--19860921 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
19860879 CTATTTTTAC
19860889 TTTTTCA
1 TTTTTCA
19860896 TTTTTCA
1 TTTTTCA
19860903 -TTTTCA
1 TTTTTCA
19860909 TTTCTTCA
1 TTT-TTCA
19860917 TTTTT
1 TTTTT
19860922 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Done.