Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 93 of 106
Found at i:19573077 original size:20 final size:19
Alignment explanation
Indices: 19573039--19573078 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
19573029 TATTTTTTTC
* *
19573039 TAATTTTTTTTTTTGTAAT
1 TAATTTTTTTTTATATAAT
19573058 TAATTTTTATTTTATATAAT
1 TAATTTTT-TTTTATATAAT
19573078 T
1 T
19573079 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TAATTTTTTTTTATATAAT
Found at i:19573095 original size:33 final size:33
Alignment explanation
Indices: 19573054--19573126 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
19573044 TTTTTTTTTG
* *
19573054 TAATTAATT-TTTATTTTATATAATTTGATT-AAT
1 TAATTAATTATATATTTTATACAATTT--TTCAAT
*
19573087 TAATTAATTATATATTTTTTACAATTTTTCAAT
1 TAATTAATTATATATTTTATACAATTTTTCAAT
19573120 TAATTAA
1 TAATTAA
19573127 ATTAATTCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 2 0.06
33 19 0.54
34 14 0.40
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (33 bp):
TAATTAATTATATATTTTATACAATTTTTCAAT
Found at i:19575311 original size:15 final size:15
Alignment explanation
Indices: 19575286--19575328 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19575276 AAATATTAAT
*
19575286 AAAGAAAAAGAAAGG
1 AAAGGAAAAGAAAGG
* *
19575301 AAATGAAAAGAAAAG
1 AAAGGAAAAGAAAGG
19575316 AAAGGAAAA-AAAG
1 AAAGGAAAAGAAAG
19575329 TTTTTAAAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (15 bp):
AAAGGAAAAGAAAGG
Found at i:19576357 original size:27 final size:26
Alignment explanation
Indices: 19576317--19576371 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
19576307 AAATAAGATG
19576317 ATATTATTTAATCTAATCTTATTTATA
1 ATATTATTTAATCTAATCTTA-TTATA
* *
19576344 ATATTATTTTATCTTATCTTATTATA
1 ATATTATTTAATCTAATCTTATTATA
19576370 AT
1 AT
19576372 TTTGTGTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (26 bp):
ATATTATTTAATCTAATCTTATTATA
Found at i:19577077 original size:2 final size:2
Alignment explanation
Indices: 19577070--19577105 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19577060 TTGTTTGTGC
19577070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19577106 TGGGTGAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19577572 original size:17 final size:17
Alignment explanation
Indices: 19577550--19577584 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
19577540 AGGTATGGTC
19577550 CTACCATTGATGGTTGA
1 CTACCATTGATGGTTGA
19577567 CTACCATTGATGGTTGA
1 CTACCATTGATGGTTGA
19577584 C
1 C
19577585 ATAGTGTAGA
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:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (17 bp):
CTACCATTGATGGTTGA
Found at i:19579101 original size:78 final size:78
Alignment explanation
Indices: 19578972--19579123 Score: 236
Period size: 78 Copynumber: 1.9 Consensus size: 78
19578962 GCGCCAAATC
* * *
19578972 AGATAATGTTGTTGCTGAAAACCATAACTTCAACTCTGCTTCTCCAGAAAGTGTTGGTCCAAACA
1 AGATAATGTTGTTGCTGAAAACCATAACTTAAACCCTGCTTCTCCACAAAGTGTTGGTCCAAACA
19579037 ACATGCAGAAAGA
66 ACATGCAGAAAGA
19579050 AGATAATG-TGATTGCTGAAAACCATAACTTAAACCCTAGC-TCTCCACAAAGTGTTGGTCCAAA
1 AGATAATGTTG-TTGCTGAAAACCATAACTTAAACCCT-GCTTCTCCACAAAGTGTTGGTCCAAA
*
19579113 CAACTTGCAGA
64 CAACATGCAGA
19579124 TCTCGCCAGT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
77 2 0.03
78 64 0.94
79 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (78 bp):
AGATAATGTTGTTGCTGAAAACCATAACTTAAACCCTGCTTCTCCACAAAGTGTTGGTCCAAACA
ACATGCAGAAAGA
Found at i:19579240 original size:2 final size:2
Alignment explanation
Indices: 19579233--19579276 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
19579223 ATATGTTTCC
*
19579233 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CG CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19579275 CT
1 CT
19579277 TTGAGAGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.02, T:0.48
Consensus pattern (2 bp):
CT
Found at i:19584096 original size:2 final size:2
Alignment explanation
Indices: 19584089--19584114 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19584079 ATGTGTATCC
19584089 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19584115 TACAAGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19585197 original size:25 final size:25
Alignment explanation
Indices: 19585169--19585219 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
19585159 GATTTGCTGG
19585169 TGTTATAGTCTACTAAACACCCAGA
1 TGTTATAGTCTACTAAACACCCAGA
19585194 TGTTATAGTCTACTAAACACCCAGA
1 TGTTATAGTCTACTAAACACCCAGA
19585219 T
1 T
19585220 TTTTAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (25 bp):
TGTTATAGTCTACTAAACACCCAGA
Found at i:19586587 original size:29 final size:29
Alignment explanation
Indices: 19586554--19586612 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
19586544 TTATTTAATC
*
19586554 TCGATTAAATTCTATTCACCTTACCATTT
1 TCGATTAAATTCTATTCACCCTACCATTT
19586583 TCGATTAAATTCTATTCACCCTACCATTT
1 TCGATTAAATTCTATTCACCCTACCATTT
19586612 T
1 T
19586613 ATTTTCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.03, T:0.44
Consensus pattern (29 bp):
TCGATTAAATTCTATTCACCCTACCATTT
Found at i:19589099 original size:2 final size:2
Alignment explanation
Indices: 19589092--19589118 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19589082 AATCACTGAT
19589092 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19589119 TTCTACCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19591090 original size:21 final size:22
Alignment explanation
Indices: 19591050--19591090 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19591040 TTAAATCATA
* *
19591050 TAATTTTTATATTTTCTTATAT
1 TAATTTTTATATTATATTATAT
19591072 TAATTTTT-TATTATATTAT
1 TAATTTTTATATTATATTAT
19591091 TATATCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TAATTTTTATATTATATTATAT
Found at i:19591101 original size:26 final size:24
Alignment explanation
Indices: 19591047--19591102 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
19591037 ATTTTAAATC
* *
19591047 ATATAA-TTTTTATATTTTCTTAT
1 ATATAATTTTTTATATATTATTAT
19591070 AT-TAATTTTTTATTATATTATTAT
1 ATATAATTTTTTA-TATATTATTAT
19591094 ATCATAATT
1 AT-ATAATT
19591103 AAAGTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.11
23 8 0.30
24 11 0.41
26 5 0.19
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATAATTTTTTATATATTATTAT
Found at i:19602161 original size:21 final size:20
Alignment explanation
Indices: 19602135--19602179 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
19602125 ATATGACAAG
*
19602135 CAAAATCACTAATTTTTATAA
1 CAAAATCACCAA-TTTTATAA
*
19602156 CAAAATTACCAATTTTATAA
1 CAAAATCACCAATTTTATAA
19602176 -AAAA
1 CAAAA
19602180 AATTTGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 8 0.36
21 10 0.45
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (20 bp):
CAAAATCACCAATTTTATAA
Found at i:19607342 original size:2 final size:2
Alignment explanation
Indices: 19607335--19607377 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
19607325 CTGTAAAAAC
* * *
19607335 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19607377 A
1 A
19607378 AAAACTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:19609104 original size:18 final size:18
Alignment explanation
Indices: 19609034--19609096 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
19609024 AGAAACCTCG
19609034 TCAGAATCATCTTCATCC
1 TCAGAATCATCTTCATCC
* *
19609052 TCAGAATCATCTTCCTCA
1 TCAGAATCATCTTCATCC
*
19609070 TCAGAACCA-CTTTCATCC
1 TCAGAATCATC-TTCATCC
19609088 TCAGAATCA
1 TCAGAATCA
19609097 CTATCATCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 1 0.03
18 37 0.97
ACGTcount: A:0.30, C:0.33, G:0.06, T:0.30
Consensus pattern (18 bp):
TCAGAATCATCTTCATCC
Found at i:19610217 original size:17 final size:16
Alignment explanation
Indices: 19610197--19610239 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
19610187 TGTTTTATTA
19610197 TTTTTTTCTTCTTCTT
1 TTTTTTTCTTCTTCTT
*
19610213 CTTTTTTTCTTTTTCTT
1 -TTTTTTTCTTCTTCTT
19610230 TTTTTTTCTT
1 TTTTTTTCTT
19610240 TCTTTTTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTCTTCTTCTT
Found at i:19610228 original size:20 final size:20
Alignment explanation
Indices: 19610205--19610248 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19610195 TATTTTTTTC
19610205 TTCTTCTTCTTTT-TTTCTTT
1 TTCTT-TTCTTTTCTTTCTTT
*
19610225 TTCTTTTTTTTTCTTTCTTT
1 TTCTTTTCTTTTCTTTCTTT
19610245 TTCT
1 TTCT
19610249 GACAACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTCTTTTCTTTTCTTTCTTT
Found at i:19611288 original size:21 final size:21
Alignment explanation
Indices: 19611245--19611288 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19611235 TTATAAGTAT
* *
19611245 AATTAAATAAAAATAATACAA
1 AATTAAATAAAAATAAGAAAA
19611266 AATT-AATAAAAAATAAGAAAA
1 AATTAAAT-AAAAATAAGAAAA
19611287 AA
1 AA
19611289 AAAATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AATTAAATAAAAATAAGAAAA
Found at i:19632093 original size:21 final size:20
Alignment explanation
Indices: 19632064--19632102 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19632054 TGCATTTGTG
*
19632064 TTATAAAAAGATTGAGCTATT
1 TTATAAAAA-ATTAAGCTATT
*
19632085 TTATGAAAAATTAAGCTA
1 TTATAAAAAATTAAGCTA
19632103 AAAGGCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (20 bp):
TTATAAAAAATTAAGCTATT
Found at i:19645511 original size:35 final size:35
Alignment explanation
Indices: 19645447--19645542 Score: 110
Period size: 34 Copynumber: 2.8 Consensus size: 35
19645437 ATTTTTTATA
*
19645447 TTATATTTATATTTAATAAATATTTTAAATTTAAAT
1 TTAT-TTTATATTTAATAAATATTTTAAATATAAAT
*
19645483 TTATTTTAT-TTTTATAAATATTTATAAATATAAAT
1 TTATTTTATATTTAATAAATATTT-TAAATATAAAT
* *
19645518 TT-TTTTGTA-TTCATAAAT-TTTTAAA
1 TTATTTTATATTTAATAAATATTTTAAA
19645543 AAATAAATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.07
33 3 0.06
34 26 0.48
35 17 0.31
36 4 0.07
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (35 bp):
TTATTTTATATTTAATAAATATTTTAAATATAAAT
Found at i:19652364 original size:20 final size:21
Alignment explanation
Indices: 19652341--19652400 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
19652331 AAAAAATCAC
19652341 AAAAATAATTTTAAAATA-TA
1 AAAAATAATTTTAAAATATTA
*
19652361 AAAAATAAAAATTTT-AGATATTA
1 AAAAAT---AATTTTAAAATATTA
19652384 AACAAATAATTTTAAAA
1 AA-AAATAATTTTAAAA
19652401 CATCTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
20 6 0.19
21 6 0.19
22 6 0.19
23 10 0.31
24 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAATAATTTTAAAATATTA
Found at i:19654606 original size:16 final size:16
Alignment explanation
Indices: 19654585--19654641 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
19654575 ATTATTTTTT
*
19654585 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
19654601 AAATATAATTATATAA
1 AAATATAAATATATAA
*
19654617 ATATATATAA-ATA-AA
1 AAATATA-AATATATAA
19654632 AAAT-TAAATA
1 AAATATAAATA
19654642 ATTAATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 5 0.15
16 23 0.68
17 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:19654632 original size:30 final size:30
Alignment explanation
Indices: 19654562--19654633 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
19654552 ATTCGACTCG
* * * *
19654562 AAATTAAT-AAAATATTATTTTTTAAATAT
1 AAATAAATAAAAATATAATTATATAAATAT
**
19654591 AAATATTTAAAAATATAATTATATAAATAT
1 AAATAAATAAAAATATAATTATATAAATAT
*
19654621 ATATAAATAAAAA
1 AAATAAATAAAAA
19654634 ATTAAATAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATAAATAAAAATATAATTATATAAATAT
Found at i:19655461 original size:3 final size:3
Alignment explanation
Indices: 19655455--19655481 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19655445 CAACAACAAC
19655455 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
19655482 TTTATTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19655956 original size:33 final size:35
Alignment explanation
Indices: 19655918--19655989 Score: 103
Period size: 37 Copynumber: 2.1 Consensus size: 35
19655908 TTATGAGATA
*
19655918 TAATAAAC-AAA-TATTATTATATAATAAATTAAT
1 TAATAAACAAAATTATTATTATATAATAAACTAAT
19655951 TAATAAACAAAAATTTATTATTATATAATAAACTAAT
1 TAATAAAC-AAAA-TTATTATTATATAATAAACTAAT
19655988 TA
1 TA
19655990 TTTTTTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 8 0.24
35 3 0.09
37 23 0.68
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (35 bp):
TAATAAACAAAATTATTATTATATAATAAACTAAT
Found at i:19656219 original size:23 final size:22
Alignment explanation
Indices: 19656193--19656250 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
19656183 ATATCTAAAC
19656193 ATATATTTTTATTAT--TAATT
1 ATATATTTTTATTATAATAATT
* *
19656213 TTAATATTATTATTATAATAATT
1 AT-ATATTTTTATTATAATAATT
*
19656236 AATTTATTTTTATTA
1 -ATATATTTTTATTA
19656251 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 1 0.03
21 12 0.41
23 15 0.52
24 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATATTTTTATTATAATAATT
Found at i:19660953 original size:2 final size:2
Alignment explanation
Indices: 19660946--19660975 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19660936 ATAATTATTA
19660946 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19660976 TTGAGCCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19663279 original size:38 final size:37
Alignment explanation
Indices: 19663228--19663299 Score: 117
Period size: 38 Copynumber: 1.9 Consensus size: 37
19663218 AAAATTGGAC
19663228 CACACGTACACATAAAATGAAATAAAACGAGGCTTATA
1 CACACGTACACATAAAATGAAAT-AAACGAGGCTTATA
* *
19663266 CACACGTGCACATAAAATGAAATCAACGAGGCTT
1 CACACGTACACATAAAATGAAATAAACGAGGCTT
19663300 CCGCATGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 10 0.31
38 22 0.69
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.18
Consensus pattern (37 bp):
CACACGTACACATAAAATGAAATAAACGAGGCTTATA
Found at i:19670246 original size:128 final size:131
Alignment explanation
Indices: 19670039--19670277 Score: 421
Period size: 128 Copynumber: 1.8 Consensus size: 131
19670029 AATGGGTTTT
* *
19670039 GAAGATGTTGAAGAGGAGAGGATTTATGAATTTTTTTTATAGCATTCTTTTTTTTTTTTTGGTCA
1 GAAGATATTGAAGAGGAGAGGATTTATGAATTTTTTTTATAGCATTCTTTTTTTTTTTCTGGTCA
* *
19670104 ATGGAGGATATGGAATTTGCTGAGGTAATAGATTTTTTTTTTATTTGCTGATCAGTGGGTTATGA
66 ATGGAGGACATGGAATTTGCTGAGGTAATAGATTTTTTTTTAATTTGCTGATCAGTGGGTTATGA
19670169 A
131 A
19670170 GAAGATATTGAAGAGGA-AGGATTTATGAA-TTTTTTTATAGCATTCTTTTTTTTTTTCT-GTCA
1 GAAGATATTGAAGAGGAGAGGATTTATGAATTTTTTTTATAGCATTCTTTTTTTTTTTCTGGTCA
19670232 ATGGAGGACATGGAATTTGCTGAGGTAATAGATTTTTTTTTAATTT
66 ATGGAGGACATGGAATTTGCTGAGGTAATAGATTTTTTTTTAATTT
19670278 TTATTTTATA
Statistics
Matches: 104, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
128 48 0.46
129 28 0.27
130 12 0.12
131 16 0.15
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.46
Consensus pattern (131 bp):
GAAGATATTGAAGAGGAGAGGATTTATGAATTTTTTTTATAGCATTCTTTTTTTTTTTCTGGTCA
ATGGAGGACATGGAATTTGCTGAGGTAATAGATTTTTTTTTAATTTGCTGATCAGTGGGTTATGA
A
Found at i:19672526 original size:14 final size:15
Alignment explanation
Indices: 19672507--19672536 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19672497 TATAATTTTT
19672507 AATAT-AAAAATAAA
1 AATATAAAAAATAAA
19672521 AATATAAAAAATAAA
1 AATATAAAAAATAAA
19672536 A
1 A
19672537 GTTTTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AATATAAAAAATAAA
Found at i:19674460 original size:2 final size:2
Alignment explanation
Indices: 19674453--19674478 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19674443 GCCAGTAAGA
19674453 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19674479 TAAGCATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19675112 original size:18 final size:18
Alignment explanation
Indices: 19675084--19675124 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
19675074 ATTATTATAT
*
19675084 TATTCTATAT-TTTTA-A
1 TATTTTATATATTTTAGA
19675100 TATTTTATATATTTTAGA
1 TATTTTATATATTTTAGA
19675118 TATTTTA
1 TATTTTA
19675125 ATTATTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 8 0.36
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTTATATATTTTAGA
Found at i:19679148 original size:25 final size:25
Alignment explanation
Indices: 19679098--19679148 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
19679088 CACCACCCAC
* *
19679098 ACACAGAGCAAGAAATAGAATAATA
1 ACACAGAGAAAGAAATAGAAGAATA
*
19679123 ACACAGATAAAGAAATA-AAGACATA
1 ACACAGAGAAAGAAATAGAAGA-ATA
19679148 A
1 A
19679149 GTAAGGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.12
Consensus pattern (25 bp):
ACACAGAGAAAGAAATAGAAGAATA
Found at i:19685690 original size:406 final size:403
Alignment explanation
Indices: 19683606--19686212 Score: 1946
Period size: 406 Copynumber: 6.4 Consensus size: 403
19683596 TTCTTAGGTT
* * * * * *
19683606 ATTACCAATTAATCACTTCAAATGATAATTAACGAGTAAACAATTAAATAAATAGTAATAATGAC
1 ATTACCAATTAATCACTTCGAATAATAATCAATGAATAAACAAATAAATAAATAGTAATAATGAC
* * * * * * *
19683671 AAATGAAAAACAAAAAATAAAAATGTTTTGACCCTTAGATGAAAAAATAATTGCAT-AACAACAA
66 AAATGAAAAGCGAAAAATAAAAATATTTTGACCCTTGGATGGAAAAATAATTGTATAAACAACTA
* * * * * *
19683735 TACCAACAAATG-AAA--AAAGAATAAAAATATAGGATGCAACACTAGGACTTCCTAATAGGTCA
131 TACCAACAAATGAAAAGCAAAAAATAAAAATGTGGGGTGCAACACGAGGACTTCCTAAAAGGTCA
* ** ***
19683797 CCCATCATAGTACTAGTCTCTT-CC-AAGCA-CGTATAACTACGGAGTTCTTG-T-GAGATTTGG
196 CCCATCCTAGTACTA-T-TCTTACCTAAGCAGC-T-TAACTACAAAGTTC-TGATAG-GA-TCAA
* ** * * ** * * ** *
19683857 TGCTTTGGTGCTAGTATGATTGCA-CTAGCAATTTCACGCATAAATAATATACATAACCCTT-TT
254 AGCTTTAATGTTGGTATGATTGCACCTATTACTTGCGTGC--AAATAATATACATAA-CCTTCAT
* * * * * * ** ** *** *
19683920 TTTTCACGCTTTGCTCCATTTATCTCACGTAGGCCCTCATATTTGGAATTTGCATTACACCTCAA
316 TCTTCATGCGTTGCTCTATATATCCCACACAGGCCCTCATCCTCAAAATTTGCATTACGCCTCAA
19683985 AGAGTTAATCAATTTCTCGAGTC
381 AGAGTTAATCAATTTCTCGAGTC
* * *
19684008 GTTACCAATTAGTCACGTCGAATGAA-AATCAATGAATAAACAAATAAATAAATAGTAATAATGA
1 ATTACCAATTAATCACTTCGAAT-AATAATCAATGAATAAACAAATAAATAAATAGTAATAATGA
* * * * * * *
19684072 CAAATGAAAAGTGAAAAATAAAAATGTTTTGACTCTTGGATGAAAAAATAATTATATAGACAATT
65 CAAATGAAAAGCGAAAAATAAAAATATTTTGACCCTTGGATGGAAAAATAATTGTATAAACAACT
* * * * ** *
19684137 ATACCAATAAATGAAAAGAAAAAAAATAAAAATGTGGGGTGCAATAAGAGGACTTTCC-AGTATG
130 ATACCAACAAATGAAAAG-CAAAAAATAAAAATGTGGGGTGCAACACGAGGAC-TTCCTAAAAGG
* * * ** * * ****
19684201 TCACCCATCCTAGTACTATTCTTGCCCAAGCATGCTTGACTATGAAGTTCTAATGGGATTTGGTG
193 TCACCCATCCTAGTACTATTCTTACCTAAGCA-GCTTAACTACAAAGTTCTGATAGGA-TCAAAG
* * * * * *
19684266 CTTTAAAGTTGGTATGATTGCACCTATAACTTG-ATGGTCAAATAATATACCTAACACATCCTTC
256 CTTTAATGTTGGTATGATTGCACCTATTACTTGCGT-G-CAAATAATATACATAAC-CTTCATTC
* * * ** * *
19684330 TCCGTGCGTTGCTCTATATATCCCACACGGGCTCCT-ATCCTCAGTATTTGCATTACACTTCAAA
318 TTCATGCGTTGCTCTATATATCCCACACAGGC-CCTCATCCTCAAAATTTGCATTACGCCTCAAA
* * ** *
19684394 CAATTAATTGATTTTTCGAGTC
382 GAGTTAATCAATTTCTCGAGTC
* * *
19684416 ATTACCAATTAATCATTTCGAATGATAAT--A--AAT----AAATAAATAAATAGTAATAATGAT
1 ATTACCAATTAATCACTTCGAATAATAATCAATGAATAAACAAATAAATAAATAGTAATAATGAC
* * **
19684473 AAATGAAAAGCAAAAAATAAAATTATTTTGACTTTTGGACT-GAAAAATAATTGTATAAACAACT
66 AAATGAAAAGCGAAAAATAAAAATATTTTGACCCTTGGA-TGGAAAAATAATTGTATAAACAACT
* * * * * *
19684537 ATACCAACAAATGAAAAGTAAAAAATAAAAATGTAGGGTGTAACATGAGGACTTCTTAAGAGGTC
130 ATACCAACAAATGAAAAGCAAAAAATAAAAATGTGGGGTGCAACACGAGGACTTCCTAAAAGGTC
* * * * ** * *
19684602 ATCCATTCTAGTACTACTCTTA-CTCAAGCAGGCTTAATTGTAGAGTTCTGATAGAATCTAAAGC
195 ACCCATCCTAGTACTATTCTTACCT-AAGCA-GCTTAACTACAAAGTTCTGATAGGATC-AAAGC
* * * * * * *
19684666 TTTAATGCTGGTATGATTGCACTTGTTAGTTGATGTGTAAATAATATACATAACCCTTCATTTTT
257 TTTAATGTTGGTATGATTGCACCTATTACTTG-CGTGCAAATAATATACATAA-CCTTCATTCTT
** * ** * * * * * *
19684731 CACACGTTGCTCTATATATCTCATGC-GAGCCTTCATCCCCGAAATTTGCTTTATGCCTCAAAAA
320 CATGCGTTGCTCTATATATCCCACACAG-GCCCTCATCCTCAAAATTTGCATTACGCCTCAAAGA
* * *
19684795 GTTGATTAATTTTTCGAGTC
384 GTTAATCAATTTCTCGAGTC
** ** * * *
19684815 ATTAGTACCTAATCA-TTCAGAATGATAATTAACGAATAAATAAATAAATAAATAAATAGTAATA
1 ATTACCAATTAATCACTTC-GAATAATAA-T--C-AATGAATAAACAAATAAATAAATAGTAATA
* * *
19684879 ACGACAAATGAAAAGTGAAAAATAAAAATATTTTGACCTTTGGATGGAAAAATAATTGTATAAAC
61 ATGACAAATGAAAAGCGAAAAATAAAAATATTTTGACCCTTGGATGGAAAAATAATTGTATAAAC
* * * * * * * *
19684944 AACTACATCAAAAAATGAAAAGCAAAAGA-AAAAATGTGAGGTACAACATGAGGACTTTCTAAAA
126 AACTATACCAACAAATGAAAAGCAAAAAATAAAAATGTGGGGTGCAACACGAGGACTTCCTAAAA
* * ** * * *
19685008 GGACACCCATCATAGTACTATTCTCGCCTAAACGC-GCTTAATTGCAAAGTTCTGATAGGATC-T
191 GGTCACCCATCCTAGTACTATTCTTACCT-AA-GCAGCTTAACTACAAAGTTCTGATAGGATCAA
* * * * * * * * *
19685071 AGTTCTTTAGTGTTGGTATGATTGCA-CTCATAAAATTACATGCAAATAATATATATATCCCATG
254 AG--CTTTAATGTTGGTATGATTGCACCT-AT-TACTTGCGTGCAAATAATATACATA-ACCTTC
* * * * * ** * *
19685135 TTTCTTCACGTGTTGCTTTATATATCCCACA-AGGGCCCTTAT-CTTGAAACTTGCGTTACGCCT
314 ATTCTTCATGCGTTGCTCTATATATCCCACACA-GGCCCTCATCCTCAAAATTTGCATTACGCCT
** * *
19685198 CAAAGAGTTAATTGATTTCTTGAGTT
378 CAAAGAGTTAATCAATTTCTCGAGTC
* * ** * * ** **
19685224 ATTACCAATTAATTACTTCTAATGGTTATCTACAAATAAACAAATAAATAAATAGTAATAACAAC
1 ATTACCAATTAATCACTTCGAATAATAATCAATGAATAAACAAATAAATAAATAGTAATAATGAC
* * *
19685289 AAATGAAAAGCGAAAAATAAAAATATTTTGGCCCTTGGATGGACAAATAATTGTATAAACAATTA
66 AAATGAAAAGCGAAAAATAAAAATATTTTGACCCTTGGATGGAAAAATAATTGTATAAACAACTA
** * **
19685354 TACTGACAAATGAAAAGCAAAAAATAAAAATGTGGGGTGTAACACGAGGACTTCCTAAAAAATCA
131 TACCAACAAATGAAAAGCAAAAAATAAAAATGTGGGGTGCAACACGAGGACTTCCTAAAAGGTCA
* *
19685419 CCCATCCTAGTACTATTCTTACCTAGGCA-CATATAACTACAAAGTTCTGATAGGATTCAAAGTT
196 CCCATCCTAGTACTATTCTTACCTAAGCAGC-T-TAACTACAAAGTTCTGATAGGA-TCAAAGCT
* * * * * *
19685483 TTAGTGTTGGTATGATCGTACCTATTTCTTGCGCT-CAAATAATATACGTAACCTTTCATTCTCC
258 TTAATGTTGGTATGATTGCACCTATTACTTGCG-TGCAAATAATATACATAACC-TTCATTCTTC
* * * * *
19685547 ATGCGTTGCT-TGATATATCCCACATAGGCCCTCGTCCTCAAAATTTACGTTACGCCTTAAAGAG
321 ATGCGTTGCTCT-ATATATCCCACACAGGCCCTCATCCTCAAAATTTGCATTACGCCTCAAAGAG
* * **
19685611 TTTATCAATTTTTTTAGTC
385 TTAATCAATTTCTCGAGTC
* * * * *
19685630 ATTACAAATTAATCACTCCGAATAATAATGAATGAATAAACAAATACATAAATGGTAATAATGAC
1 ATTACCAATTAATCACTTCGAATAATAATCAATGAATAAACAAATAAATAAATAGTAATAATGAC
* * * * * *
19685695 AAATGAAATGCGAAAAATAAAAATGTTTTGACCTTTAGATGGAAAAATTATTGTATAAACAATTA
66 AAATGAAAAGCGAAAAATAAAAATATTTTGACCCTTGGATGGAAAAATAATTGTATAAACAACTA
** *** * * *
19685760 TACTGACAAATGAAAAGCAAAAAATAAAAATGTGACTTGGAACACGAGGATTTCCCAAAAGGTCA
131 TACCAACAAATGAAAAGCAAAAAATAAAAATGTGGGGTGCAACACGAGGACTTCCTAAAAGGTCA
* * * * * * * * *
19685825 TCGATCATAGTACTA--CTTAACCCAATCATGCTCAACTACAAAGTTTTGATGGGATCTAATGCT
196 CCCATCCTAGTACTATTCTT-ACCTAAGCA-GCTTAACTACAAAGTTCTGATAGGATC-AAAGCT
* * ** * * * * * * * *
19685888 TTACTGCTCATATTACTGCACGC-ATTACTTAACGTACAAATAATGTACATAAAACTTCTTTTTT
258 TTAATGTTGGTATGATTGCAC-CTATTACTT-GCGTGCAAATAATATACAT-AACCTTCATTCTT
* * ** * * ** * *
19685952 CATGTGTTACTCTATATATATCACACAGG-CCTCTGTCTTCAAAATTTGCATTATACATTAAAGA
320 CATGCGTTGCTCTATATATCCCACACAGGCCCTC-ATCCTCAAAATTTGCATTACGCCTCAAAGA
*
19686016 GTTAATCAATTTCTTGAGTC
384 GTTAATCAATTTCTCGAGTC
* * * *
19686036 ATTACCAATTAATTACTTTGAATGATAATCAATGAATAAACAAATAAATAACTAGTAATAATGAC
1 ATTACCAATTAATCACTTCGAATAATAATCAATGAATAAACAAATAAATAAATAGTAATAATGAC
* *
19686101 AAATGAAAAGTGAAAAATAAAAATGTTTTGACCCTTGGATGGAAAAATAATTGTATAAACAACTA
66 AAATGAAAAGCGAAAAATAAAAATATTTTGACCCTTGGATGGAAAAATAATTGTATAAACAACTA
* *
19686166 TACCAACAAATGAAAAGAAAAAAATAAAAATGTAGGGTGCAACACGA
131 TACCAACAAATGAAAAGCAAAAAATAAAAATGTGGGGTGCAACACGA
19686213 AAGCTTTCCA
Statistics
Matches: 1755, Mismatches: 375, Indels: 146
0.77 0.16 0.06
Matches are distributed among these distances:
398 11 0.01
399 202 0.12
400 96 0.05
401 2 0.00
402 103 0.06
403 17 0.01
404 17 0.01
405 218 0.12
406 555 0.32
407 120 0.07
408 103 0.06
409 58 0.03
410 143 0.08
411 108 0.06
412 2 0.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (403 bp):
ATTACCAATTAATCACTTCGAATAATAATCAATGAATAAACAAATAAATAAATAGTAATAATGAC
AAATGAAAAGCGAAAAATAAAAATATTTTGACCCTTGGATGGAAAAATAATTGTATAAACAACTA
TACCAACAAATGAAAAGCAAAAAATAAAAATGTGGGGTGCAACACGAGGACTTCCTAAAAGGTCA
CCCATCCTAGTACTATTCTTACCTAAGCAGCTTAACTACAAAGTTCTGATAGGATCAAAGCTTTA
ATGTTGGTATGATTGCACCTATTACTTGCGTGCAAATAATATACATAACCTTCATTCTTCATGCG
TTGCTCTATATATCCCACACAGGCCCTCATCCTCAAAATTTGCATTACGCCTCAAAGAGTTAATC
AATTTCTCGAGTC
Found at i:19686624 original size:24 final size:24
Alignment explanation
Indices: 19686595--19686652 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 24
19686585 TCAACAAATA
19686595 AACAAATAAGTAAATAGTAATAAT
1 AACAAATAAGTAAATAGTAATAAT
* *
19686619 GACAAATGGTCAGTAAATAGTAATAAT
1 AACAAA---TAAGTAAATAGTAATAAT
19686646 AACAAAT
1 AACAAAT
19686653 GGTCAGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 6 0.21
27 22 0.79
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.24
Consensus pattern (24 bp):
AACAAATAAGTAAATAGTAATAAT
Found at i:19686635 original size:27 final size:27
Alignment explanation
Indices: 19686603--19686658 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
19686593 TAAACAAATA
*
19686603 AGTAAATAGTAATAATGACAAATGGTC
1 AGTAAATAGTAATAATAACAAATGGTC
19686630 AGTAAATAGTAATAATAACAAATGGTC
1 AGTAAATAGTAATAATAACAAATGGTC
19686657 AG
1 AG
19686659 CAAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (27 bp):
AGTAAATAGTAATAATAACAAATGGTC
Found at i:19687862 original size:409 final size:402
Alignment explanation
Indices: 19687023--19688688 Score: 998
Period size: 404 Copynumber: 4.1 Consensus size: 402
19687013 ACAATCAATG
* * ** * *
19687023 AATATACAAAGAAATAAATAGTAATAACAACAAATGAAAAGTGAAGAATAAAAGTGTTTTGACTC
1 AATAAACAAATAAATAAATAGTAATAATGACAAATGAAAAGTGAAAAATAAAAATGTTTTGAC-C
* * * *
19687088 TTGGATGGAAAAATATTTGTATAAATAACTATA-T--C----GACAAAAAATAAAAATATG-GGT
65 TTGGATGGAAAAATAATTGTATAAACAACTATATTGACAAATGAAAAAAAATAAAAAAATGAGG-
* ** ** * * * * *
19687145 TACAGGATGATGACTTGCTAAG-AGGTCATCCATCCTAGTACTACTCTTGCCCAAGCATGTTTAA
129 TGCAACACAAAGACTT-CCAAGAAGGTCACCCATCCTAATACTACTCTTGCCCAAGCATGCTTAA
* * * * * * * ** * * *
19687209 CTGCATTA-TTCTTAT-GGGATCTTGTGGTTTATTATTGGTATTATCGCAACCATCACTTGATCG
193 CTGCA-GAGTTCTAATAGGAATC-GGTGCTTAAGTGCTGGTATGATTGCAACCATCACCTGAT-G
* * * * * * * * * *
19687272 C-C-AATAATATAAATAAACATTCTTTCTTTATCCA---TTGCTCTATATATCCCACGTAGG-CG
255 CACAAATAACATACATAACCCTTCATTC--T-TCCAGTGTTGCTTTTTATATCCAATGCAGGAC-
** *** * * * *
19687331 CCCATCTTCAAAATTTATGTTACGCCTTAAAGAATTGAA-C-AGTTTTTGAAGTCATTGCCAATT
316 CCCATCCCCAAAATTTGCATTACGCCTAAAAGAGTT-AATCAATTTTTTG-AGTCATTACCAATT
* *
19687394 AATCACTTTGAACAATGATCAACA
379 AATCACTTCGAACAATAATCAACA
* ** *
19687418 AATAAACAAATAAATAAATGGTAATAACAACAAATGAAAAGTAAAAAATAAAAATGTTTTGACTC
1 AATAAACAAATAAATAAATAGTAATAATGACAAATGAAAAGTGAAAAATAAAAATGTTTTGAC-C
*
19687483 TTGGATGGAAAAATAATTGTATAAACAACTATATTGACAAATGAAAAAAAA-ATAAAAATGAGCG
65 TTGGATGGAAAAATAATTGTATAAACAACTATATTGACAAATGAAAAAAAATAAAAAAATGAG-G
* ** * * **
19687547 ATGCGACATGAGGACTTCCCAAG-AGGTCACCCATCCTAATACTACT-TTGACCTAAGTGTGCTT
129 -TGCAACACAAAGACTT-CCAAGAAGGTCACCCATCCTAATACTACTCTTG-CCCAAGCATGCTT
* *
19687610 AACTGCAGAGTTCTAATAGGAATCGGTGTTTTAA-TGCTGGTATGGTTG-AACCAGTCACCTGAT
191 AACTGCAGAGTTCTAATAGGAATCGGTG-CTTAAGTGCTGGTATGATTGCAACCA-TCACCTGAT
* ** *
19687673 GCGCAAATAACATACATAACCCTTCATTC-TCCATGTGTTGCTATATATATATATATTTAATG-G
254 GCACAAATAACATACATAACCCTTCATTCTTCCA-GTGTTGC--T-T-T-T-TATATCCAATGCA
* * * * * * *
19687736 GGACCTCGTCCCCAAAATTTGCATTACTCTTCAAAGAGTTAATCGATTTTTTGAGTCAATACCAA
312 GGACCCCATCCCCAAAATTTGCATTACGCCTAAAAGAGTTAATCAATTTTTTGAGTCATTACCAA
*
19687801 TTAATCACTTCGAACGATAATCAACA
377 TTAATCACTTCGAACAATAATCAACA
* * * *
19687827 AATAAACAAATAAATAAATAGTAAGAATGACAAATGAAAAGCGAAAAATAAAACTGTTTTTACCC
1 AATAAACAAATAAATAAATAGTAATAATGACAAATGAAAAGTGAAAAATAAAAATGTTTTGA-CC
* * * **
19687892 TTGGATGGATTATAAACAACTATATCTACAA--ATA---A-AAA-GAAAAAAAATAAAAAAATGA
65 TTGGATGGA--A-AAATAATTGTATAAACAACTATATTGACAAATGAAAAAAAATAAAAAAATGA
* * ** * * *
19687950 GGTGCAACACAAAGACTTCCTAGAATGTCACCCATTTTAGTATTACTCTTGCCCAAGCATGTTTA
127 GGTGCAACACAAAGACTTCCAAGAAGGTCACCCATCCTAATACTACTCTTGCCCAAGCATGCTTA
* * * ** * *
19688015 ATTGCAGAGTTCTAATGGGATTCGGTGCTTAAGTTTTGGTATGATTGCACCCATCACTTGATGCA
192 ACTGCAGAGTTCTAATAGGAATCGGTGCTTAAGTGCTGGTATGATTGCAACCATCACCTGATGCA
* * * ** * *
19688080 CAAATAATATACGTAACCCTTCCTTCTTTGAGTGTTGCTTTTTATATCCCATGCAGGCCCCCATC
257 CAAATAACATACATAACCCTTCATTCTTCCAGTGTTGCTTTTTATATCCAATGCAGGACCCCATC
* * * * * * *
19688145 CCTAAAGTTTGCATTACGCCTAAAAGAGTTGATCAATTTCTTGTGTCATTACCAATTGATCACTC
322 CCCAAAATTTGCATTACGCCTAAAAGAGTTAATCAATTTTTTGAGTCATTACCAATTAATCACTT
* *
19688210 CGAACAATAATGAACG
387 CGAACAATAATCAACA
* * ***
19688226 AATAAAAAAATAAATAAATAGTAATAATGATAAATGGTCAGTGAAAAATAAAAATG-TTTGACCT
1 AATAAACAAATAAATAAATAGTAATAATGACAAATGAAAAGTGAAAAATAAAAATGTTTTGACC-
* * *
19688290 TTAGATGGAAAAATAATTGTATAAACAACTATATTGGCAAATGAAAACTTAAAA-AAAAAATGTG
65 TTGGATGGAAAAATAATTGTATAAACAACTATATTGACAAATGAAAA---AAAATAAAAAA-ATG
* * * * * * * * * **
19688354 GGGTGCAACATAAAAACTTCCTAGGAA-TTCACCTATCC-AAGAACTA-TTTTCACCCAAGCACA
126 AGGTGCAACACAAAGACTTCC-AAGAAGGTCACCCATCCTAA-TACTACTCTT-GCCCAAGCATG
* * * * * * ** * * * *
19688416 TTTAATTACGGAGTTCTAAT-GAGATTTGGTGCTTTGGTTCTAGTATGATTG-TACCTATCACTT
188 CTTAACTGCAGAGTTCTAATAG-GAATCGGTGCTTAAGTGCTGGTATGATTGCAACC-ATCACCT
** * * * * * * *
19688479 GATGCGTAAATAATATACATAACCCTTCCTT-GTCTGAGTGTTGCTCTGTATATGCCAGGTG--G
251 GATGCACAAATAACATACATAACCCTTCATTCTTC-CAGTGTTGCTTTTTATAT-CCA-ATGCAG
* ** * * * *
19688541 G-CCCTCATCTCCTGAATTTGCATTACGCATCAAAA-TGTTAATCAATTTCTCT-AGTCATTACT
313 GACCC-CATCCCCAAAATTTGCATTACGCCT-AAAAGAGTTAATCAATTT-TTTGAGTCATTACC
** ** * *
19688603 AGCTAATCA-TTTTAAAAATAATCAACG
375 AATTAATCACTTCGAACAATAATCAACA
* * **
19688630 AATAAACAAATAAATAAATATTATTAATGACAAAT-AACAAGCAAAAAATAAAAATGTTT
1 AATAAACAAATAAATAAATAGTAATAATGACAAATGAA-AAGTGAAAAATAAAAATGTTT
19688689 ATACAAATAT
Statistics
Matches: 995, Mismatches: 211, Indels: 120
0.75 0.16 0.09
Matches are distributed among these distances:
395 103 0.10
396 2 0.00
397 5 0.01
398 21 0.02
399 122 0.12
400 5 0.01
401 11 0.01
402 26 0.03
403 88 0.09
404 222 0.22
405 202 0.20
406 24 0.02
407 3 0.00
408 3 0.00
409 125 0.13
410 19 0.02
411 1 0.00
412 13 0.01
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (402 bp):
AATAAACAAATAAATAAATAGTAATAATGACAAATGAAAAGTGAAAAATAAAAATGTTTTGACCT
TGGATGGAAAAATAATTGTATAAACAACTATATTGACAAATGAAAAAAAATAAAAAAATGAGGTG
CAACACAAAGACTTCCAAGAAGGTCACCCATCCTAATACTACTCTTGCCCAAGCATGCTTAACTG
CAGAGTTCTAATAGGAATCGGTGCTTAAGTGCTGGTATGATTGCAACCATCACCTGATGCACAAA
TAACATACATAACCCTTCATTCTTCCAGTGTTGCTTTTTATATCCAATGCAGGACCCCATCCCCA
AAATTTGCATTACGCCTAAAAGAGTTAATCAATTTTTTGAGTCATTACCAATTAATCACTTCGAA
CAATAATCAACA
Found at i:19688117 original size:404 final size:401
Alignment explanation
Indices: 19687373--19688688 Score: 936
Period size: 405 Copynumber: 3.3 Consensus size: 401
19687363 AATTGAACAG
* * * *
19687373 TTTTTGAAGTCATTGCCAATTAATCACTTTGAACAATGATCAACAAATAAACAAATAAATAAATG
1 TTTTTG-AGTCATTACCAATTAATCACTTCGAACAATAATCAACAAATAAACAAATAAATAAATA
** * * * * *
19687438 GTAATAACAACAAATGAAAAGTAAAAAATAAAAATGTTTTGACTCTTGGATGGAAAAATAATTGT
65 GTAATAATGACAAATGAAAAGTGAAAAATAAAAATGTTTTGACCCTTGGATGGAAAAACAACTAT
* * ** *
19687503 ATAAACAACTATATTGACAAATGAAAAAAAAATAAAAATGAGCGATGCGACATGAGGACTTCCCA
130 ATAAACAAC-ATA-T-ACAAATGAAAAAAAAAAAAAAATGAGCGATGCAACACAAAGACTTCCCA
* **
19687568 AGAGGTCACCCATCCTAATACTACTTTGACCTAAGTGTGCTTAACTGCAGAGTTCTAATAGGAAT
192 AGAGGTCACCCATCCTAATACTACTTTGACCCAAGCATGCTTAACTGCAGAGTTCTAATAGGAAT
* * *
19687633 CGGTGTTTTAATGCTGGTATGGTTGAACCAGTCACCTGATGCGCAAATAACATACATAACCCTTC
257 CGGTGTCTTAATGCTGGTATGATTGAACCAGTCACCTGATGCACAAATAACATACATAACCCTTC
** * * *
19687698 ATTCTCCATGTGTTGCTATATATATATATATTTAATG-GGGACCTCGTCCCCAAAATTTGCATTA
322 ATTCTCCATGTGTTGC--T-T-T-T-TATATCCAATGCAGGACCCCATCCCCAAAATTTGCATTA
* * * *
19687762 CTCTTCAAAGAGTTAATCGAT
381 CGCCTAAAAGAGTTAATCAAT
* *
19687783 TTTTTGAGTCAATACCAATTAATCACTTCGAACGATAATCAACAAATAAACAAATAAATAAATAG
1 TTTTTGAGTCATTACCAATTAATCACTTCGAACAATAATCAACAAATAAACAAATAAATAAATAG
* * * *
19687848 TAAGAATGACAAATGAAAAGCGAAAAATAAAACTGTTTTTACCCTTGGATGGATTATAAACAACT
66 TAATAATGACAAATGAAAAGTGAAAAATAAAAATGTTTTGACCCTTGGATGGA--A-AAACAACT
** *
19687913 ATATCTACAA-ATA-A-AAA-GAAAAAAAATAAAAAAATGAG-G-TGCAACACAAAGACTT-CCT
128 ATATAAACAACATATACAAATGAAAAAAAA-AAAAAAATGAGCGATGCAACACAAAGACTTCCCA
* ** * * * * *
19687971 AGAATGTCACCCATTTTAGTATTACTCTTG-CCCAAGCATGTTTAATTGCAGAGTTCTAATGGGA
192 AG-AGGTCACCCATCCTAATACTACT-TTGACCCAAGCATGCTTAACTGCAGAGTTCTAATAGGA
* ** * * * *
19688035 TTCGGTG-CTTAAGTTTTGGTATGATTGCACCCA-TCACTTGATGCACAAATAATATACGTAACC
255 ATCGGTGTCTTAA-TGCTGGTATGATTG-AACCAGTCACCTGATGCACAAATAACATACATAACC
* ** * * * *
19688098 CTTCCTTCTTTGA-GTGTTGCTTTTTATATCCCATGCAGGCCCCCATCCCTAAAGTTTGCATTAC
318 CTTCATTC-TCCATGTGTTGCTTTTTATATCCAATGCAGGACCCCATCCCCAAAATTTGCATTAC
*
19688162 GCCTAAAAGAGTTGATCAAT
382 GCCTAAAAGAGTTAATCAAT
* * * * * * *
19688182 TTCTTGTGTCATTACCAATTGATCACTCCGAACAATAATGAACGAATAAAAAAATAAATAAATAG
1 TTTTTGAGTCATTACCAATTAATCACTTCGAACAATAATCAACAAATAAACAAATAAATAAATAG
* *** * * * * *
19688247 TAATAATGATAAATGGTCAGTGAAAAATAAAAATG-TTTGACCTTTAGATGGAAAAATAATTGTA
66 TAATAATGACAAATGAAAAGTGAAAAATAAAAATGTTTTGACCCTTGGATGGAAAAACAACTATA
* * * * * * * *
19688311 TAAACAACTATATTGGCAAATGAAAACTTAAAAAAAAAATGTGGGGTGCAACATAAAAACTTCCT
131 TAAACAAC-ATA-T-ACAAATGAAAA--AAAAAAAAAAATGAGCGATGCAACACAAAGACTTCCC
* ** * * * * *** * * *
19688376 AGGAATTCACCTATCC-AAGAACTATTTTCACCCAAGCACATTTAATTACGGAGTTCTAAT-GAG
191 AAGAGGTCACCCATCCTAA-TACTACTTTGACCCAAGCATGCTTAACTGCAGAGTTCTAATAG-G
* * ** * * * * ** *
19688439 ATTTGGTG-CTTTGGTTCTAGTATGATTGTACCTA-TCACTTGATGCGTAAATAATATACATAAC
254 AATCGGTGTC-TTAATGCTGGTATGATTGAACC-AGTCACCTGATGCACAAATAACATACATAAC
* * * * * * * **
19688502 CCTTCCTTGTCTGA-GTGTTGCTCTGTATATGCCAGGTG--GG-CCCTCATCTCCTGAATTTGCA
317 CCTTCATTCTC-CATGTGTTGCTTTTTATAT-CCA-ATGCAGGACCC-CATCCCCAAAATTTGCA
* *
19688563 TTACGCATCAAAA-TGTTAATCAAT
378 TTACGCCT-AAAAGAGTTAATCAAT
* * ** ** * *
19688587 TTCTCT-AGTCATTACTAGCTAATCA-TTTTAAAAATAATCAACGAATAAACAAATAAATAAATA
1 TT-TTTGAGTCATTACCAATTAATCACTTCGAACAATAATCAACAAATAAACAAATAAATAAATA
* * **
19688650 TTATTAATGACAAAT-AACAAGCAAAAAATAAAAATGTTT
65 GTAATAATGACAAATGAA-AAGTGAAAAATAAAAATGTTT
19688689 ATACAAATAT
Statistics
Matches: 717, Mismatches: 154, Indels: 75
0.76 0.16 0.08
Matches are distributed among these distances:
395 13 0.02
396 1 0.00
397 3 0.00
398 22 0.03
399 122 0.17
400 1 0.00
401 4 0.01
402 6 0.01
403 18 0.03
404 188 0.26
405 191 0.27
406 24 0.03
407 3 0.00
409 98 0.14
410 9 0.01
411 1 0.00
412 13 0.02
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (401 bp):
TTTTTGAGTCATTACCAATTAATCACTTCGAACAATAATCAACAAATAAACAAATAAATAAATAG
TAATAATGACAAATGAAAAGTGAAAAATAAAAATGTTTTGACCCTTGGATGGAAAAACAACTATA
TAAACAACATATACAAATGAAAAAAAAAAAAAAATGAGCGATGCAACACAAAGACTTCCCAAGAG
GTCACCCATCCTAATACTACTTTGACCCAAGCATGCTTAACTGCAGAGTTCTAATAGGAATCGGT
GTCTTAATGCTGGTATGATTGAACCAGTCACCTGATGCACAAATAACATACATAACCCTTCATTC
TCCATGTGTTGCTTTTTATATCCAATGCAGGACCCCATCCCCAAAATTTGCATTACGCCTAAAAG
AGTTAATCAAT
Found at i:19689533 original size:407 final size:406
Alignment explanation
Indices: 19689010--19689952 Score: 997
Period size: 405 Copynumber: 2.3 Consensus size: 406
19689000 GATAGTCAAA
* ** **
19689010 GAATAAACAAACAAATAAATAGTACTAACAAC-AATGAAAAATGAAAACTAAGAATGTTTTGACC
1 GAATAAACAAACAAATAAATAGTAATAACGTCAAATGAAAAATGAAAAAAAAGAATGTTTTGACC
* * *
19689074 CTTAGATGGAAAAATAATAGTATAAACAACTATA-CCAACAAATGAAAAGCAAAAAATAAAAATG
66 CTTGGATGGAAAAATAATTGTATAAACAACTATATCGAA-AAATGAAAAGCAAAAAATAAAAATG
* * * * * ***
19689138 TGGGGCGTAGCACAAGTACTTTCCAAA-TGGTCACCCATCCTAGTACTACTTTCACCCAAGTGCA
130 TGGGGCGCAACACAAGAAC-TTCCAAAGAGGTCACCCATCCTAGAACTACTTTCACCCAAACACA
* * * * * *
19689202 CTTAACTACAGAGTTCTGATGGGATCCAACACTTTAATGTTAGTATGATCGCACACAACATTTAA
194 ATTAACTACAAAATCCTGATGGGATCCAACACTTTAATGCTAGTATGATCGCACACAACACTTAA
* * *
19689267 CGCACAAATAATATACATAACCCTTCCTTCTTCGTGTATTGCTCTACATATCCCATGCGGGC-CC
259 CGCACAAATAATATACATAACCCTTCCTTCTTCGTGCATTGCTCTACATATCACAT-AGGGCTCC
* * *
19689331 TCGTCCCCGAAATTTGCATTACGCCTAAAAAAGTTGATCGATTTCAT-GAG-TCATTACCAATTA
323 T-GTCCCCAAAATTCGCATTACGCCTAAAAAAGTTGATCGATTTC-TCGAGCT-ATTACAAATTA
* * *
19689394 ATCACTTTGAACTAAAATAAAT
385 ATCACTCTGAACGAAAATAAAC
* * *
19689416 GAATAAACAAACAAACAAATAGTAATAACGTCAAATGAAAAGTGAAAAAAAAGAATGCTTTGACC
1 GAATAAACAAACAAATAAATAGTAATAACGTCAAATGAAAAATGAAAAAAAAGAATGTTTTGACC
*
19689481 CTTGGATGGAAAACTAATTGTATAAACAACTATATCGAAAAATGAAAAGCAAAAAA-AAAAATGT
66 CTTGGATGGAAAAATAATTGTATAAACAACTATATCGAAAAATGAAAAGCAAAAAATAAAAATGT
* * *** * * * * *
19689545 AGGGTGCAACTTGAGAACTTCCAAAGAGGTCACCTATCTTAGAACTACTTTCGCCTAAACATAAT
131 GGGGCGCAACACAAGAACTTCCAAAGAGGTCACCCATCCTAGAACTACTTTCACCCAAACACAAT
*** ** * * **** *
19689610 TAACTACAAAATCCTGATGGGATTTGATGCTTTAGTGCTAGTATGATTGCACTTTTCACTTAATG
196 TAACTACAAAATCCTGATGGGATCCAACACTTTAATGCTAGTATGATCGCACACAACACTTAACG
** * * * * * * *
19689675 TGCAAATAATATTCTTGACCCTTTCTTCTTTGTGCATTGCTCTATATATCACATATGGCTCCTGT
261 CACAAATAATATACATAACCCTTCCTTCTTCGTGCATTGCTCTACATATCACATAGGGCTCCTGT
* * * * *
19689740 CTCCAAAATTCGCGTTATGCCTTAAATAGTTGATCGATTTCTCGAGCTATTACAAATTAATCACT
326 CCCCAAAATTCGCATTACGCCTAAAAAAGTTGATCGATTTCTCGAGCTATTACAAATTAATCACT
* *
19689805 CTGAACGATAATCAAC
391 CTGAACGAAAATAAAC
* * *
19689821 AAATAAATAAACAAATAAATAGTAATATCGAT-AAATGAAAAATGAAAAAGAAA-AATGTTTTG-
1 GAATAAACAAACAAATAAATAGTAATAACG-TCAAATGAAAAATGAAAAA-AAAGAATGTTTTGA
** * * *
19689883 CGTTTTGGATGGAAAAATAATTGTATGAACAACTATATAGACAAATGAAAAGCAAAAAATAAAAA
64 C-CCTTGGATGGAAAAATAATTGTATAAACAACTATATCGAAAAATGAAAAGCAAAAAAT-AAAA
19689948 ATGTG
127 ATGTG
19689953 AAGTGCAATA
Statistics
Matches: 440, Mismatches: 86, Indels: 21
0.80 0.16 0.04
Matches are distributed among these distances:
404 2 0.00
405 177 0.40
406 174 0.40
407 84 0.19
408 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (406 bp):
GAATAAACAAACAAATAAATAGTAATAACGTCAAATGAAAAATGAAAAAAAAGAATGTTTTGACC
CTTGGATGGAAAAATAATTGTATAAACAACTATATCGAAAAATGAAAAGCAAAAAATAAAAATGT
GGGGCGCAACACAAGAACTTCCAAAGAGGTCACCCATCCTAGAACTACTTTCACCCAAACACAAT
TAACTACAAAATCCTGATGGGATCCAACACTTTAATGCTAGTATGATCGCACACAACACTTAACG
CACAAATAATATACATAACCCTTCCTTCTTCGTGCATTGCTCTACATATCACATAGGGCTCCTGT
CCCCAAAATTCGCATTACGCCTAAAAAAGTTGATCGATTTCTCGAGCTATTACAAATTAATCACT
CTGAACGAAAATAAAC
Found at i:19689543 original size:406 final size:405
Alignment explanation
Indices: 19689010--19689952 Score: 986
Period size: 406 Copynumber: 2.3 Consensus size: 405
19689000 GATAGTCAAA
* ** **
19689010 GAATAAACAAACAAATAAATAGTACTAACAAC-AATGAAAAATGAAAACTAAGAATGTTTTGACC
1 GAATAAACAAACAAATAAATAGTAATAACGTCAAATGAAAAATGAAAAAAAAGAATGTTTTGACC
* * *
19689074 CTTAGATGGAAAAATAATAGTATAAACAACTATA-CCAACAAATGAAAAGCAAAAAATAAAAATG
66 CTTGGATGGAAAAATAATTGTATAAACAACTATATCGAA-AAATGAAAAGCAAAAAA-AAAAATG
* * * * * ***
19689138 TGGGGCGTAGCACAAGTACTTTCCAAA-TGGTCACCCATCCTAGTACTACTTTCACCCAAGTGCA
129 TGGGGCGCAACACAAGAAC-TTCCAAAGAGGTCACCCATCCTAGAACTACTTTCACCCAAACACA
* * * * * *
19689202 CTTAACTACAGAGTTCTGATGGGATCCAACACTTTAATGTTAGTATGATCGCACACAACATTTAA
193 ATTAACTACAAAATCCTGATGGGATCCAACACTTTAATGCTAGTATGATCGCACACAACACTTAA
* * *
19689267 CGCACAAATAATATACATAACCCTTCCTTCTTCGTGTATTGCTCTACATATCCCATGCGGGC-CC
258 CGCACAAATAATATACATAACCCTTCCTTCTTCGTGCATTGCTCTACATATCACAT-AGGGCTCC
* * *
19689331 TCGTCCCCGAAATTTGCATTACGCCTAAAAAAGTTGATCGATTTCAT-GAG-TCATTACCAATTA
322 T-GTCCCCAAAATTCGCATTACGCCTAAAAAAGTTGATCGATTTC-TCGAGCT-ATTACAAATTA
* * *
19689394 ATCACTTTGAACTAAAATAAAT
384 ATCACTCTGAACGAAAATAAAC
* * *
19689416 GAATAAACAAACAAACAAATAGTAATAACGTCAAATGAAAAGTGAAAAAAAAGAATGCTTTGACC
1 GAATAAACAAACAAATAAATAGTAATAACGTCAAATGAAAAATGAAAAAAAAGAATGTTTTGACC
* *
19689481 CTTGGATGGAAAACTAATTGTATAAACAACTATATCGAAAAATGAAAAGCAAAAAAAAAAATGTA
66 CTTGGATGGAAAAATAATTGTATAAACAACTATATCGAAAAATGAAAAGCAAAAAAAAAAATGTG
* *** * * * * *
19689546 GGGTGCAACTTGAGAACTTCCAAAGAGGTCACCTATCTTAGAACTACTTTCGCCTAAACATAATT
131 GGGCGCAACACAAGAACTTCCAAAGAGGTCACCCATCCTAGAACTACTTTCACCCAAACACAATT
*** ** * * **** * *
19689611 AACTACAAAATCCTGATGGGATTTGATGCTTTAGTGCTAGTATGATTGCACTTTTCACTTAATGT
196 AACTACAAAATCCTGATGGGATCCAACACTTTAATGCTAGTATGATCGCACACAACACTTAACGC
* * * * * * * *
19689676 GCAAATAATATTCTTGACCCTTTCTTCTTTGTGCATTGCTCTATATATCACATATGGCTCCTGTC
261 ACAAATAATATACATAACCCTTCCTTCTTCGTGCATTGCTCTACATATCACATAGGGCTCCTGTC
* * * * *
19689741 TCCAAAATTCGCGTTATGCCTTAAATAGTTGATCGATTTCTCGAGCTATTACAAATTAATCACTC
326 CCCAAAATTCGCATTACGCCTAAAAAAGTTGATCGATTTCTCGAGCTATTACAAATTAATCACTC
* *
19689806 TGAACGATAATCAAC
391 TGAACGAAAATAAAC
* * *
19689821 AAATAAATAAACAAATAAATAGTAATATCGAT-AAATGAAAAATGAAAAAGAAA-AATGTTTTG-
1 GAATAAACAAACAAATAAATAGTAATAACG-TCAAATGAAAAATGAAAAA-AAAGAATGTTTTGA
** * * *
19689883 CGTTTTGGATGGAAAAATAATTGTATGAACAACTATATAGACAAATGAAAAGCAAAAAATAAAAA
64 C-CCTTGGATGGAAAAATAATTGTATAAACAACTATATCGAAAAATGAAAAGC-AAAAA-AAAAA
19689948 ATGTG
126 ATGTG
19689953 AAGTGCAATA
Statistics
Matches: 440, Mismatches: 86, Indels: 21
0.80 0.16 0.04
Matches are distributed among these distances:
404 2 0.00
405 171 0.39
406 179 0.41
407 85 0.19
408 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (405 bp):
GAATAAACAAACAAATAAATAGTAATAACGTCAAATGAAAAATGAAAAAAAAGAATGTTTTGACC
CTTGGATGGAAAAATAATTGTATAAACAACTATATCGAAAAATGAAAAGCAAAAAAAAAAATGTG
GGGCGCAACACAAGAACTTCCAAAGAGGTCACCCATCCTAGAACTACTTTCACCCAAACACAATT
AACTACAAAATCCTGATGGGATCCAACACTTTAATGCTAGTATGATCGCACACAACACTTAACGC
ACAAATAATATACATAACCCTTCCTTCTTCGTGCATTGCTCTACATATCACATAGGGCTCCTGTC
CCCAAAATTCGCATTACGCCTAAAAAAGTTGATCGATTTCTCGAGCTATTACAAATTAATCACTC
TGAACGAAAATAAAC
Found at i:19691064 original size:18 final size:17
Alignment explanation
Indices: 19691013--19691076 Score: 83
Period size: 17 Copynumber: 3.7 Consensus size: 17
19691003 CTCTTGAATG
*
19691013 GAATATGAAATTCTTGT
1 GAATATGAAATTCTTGC
* * *
19691030 GAATCTAAAAGTCTTGC
1 GAATATGAAATTCTTGC
19691047 GAATATGAATATTCTTGC
1 GAATATGAA-ATTCTTGC
19691065 GAATATGAAATT
1 GAATATGAAATT
19691077 TTTACGAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (17 bp):
GAATATGAAATTCTTGC
Found at i:19691085 original size:35 final size:34
Alignment explanation
Indices: 19691013--19691085 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
19691003 CTCTTGAATG
* * *
19691013 GAATATGAAATTCTTGTGAATCTAAAAGTCTTGC
1 GAATATGAAATTCTTGCGAATATAAAAGTCTTAC
* * *
19691047 GAATATGAATATTCTTGCGAATATGAAATTTTTAC
1 GAATATGAA-ATTCTTGCGAATATAAAAGTCTTAC
19691082 GAAT
1 GAAT
19691086 TTCACTTCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 9 0.28
35 23 0.72
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (34 bp):
GAATATGAAATTCTTGCGAATATAAAAGTCTTAC
Found at i:19691132 original size:17 final size:17
Alignment explanation
Indices: 19691020--19691156 Score: 73
Period size: 17 Copynumber: 8.2 Consensus size: 17
19691010 ATGGAATATG
*
19691020 AAATTCTTGTGAATCTA
1 AAATTCTTGCGAATCTA
* *
19691037 AAAGTCTTGCGAATATGA
1 AAATTCTTGCGAATCT-A
* * *
19691055 ATATTCTTGCGAATATG
1 AAATTCTTGCGAATCTA
* * *
19691072 AAATTTTTACGAAT-TT
1 AAATTCTTGCGAATCTA
* *
19691088 CACTTCTTGCGAATCT-
1 AAATTCTTGCGAATCTA
* * *
19691104 AAGTTTTTGTGAATCTA
1 AAATTCTTGCGAATCTA
* *
19691121 AAATTCTTGTGAAT-TT
1 AAATTCTTGCGAATCTA
* * *
19691137 GAGTTCTTACGAATCTA
1 AAATTCTTGCGAATCTA
19691154 AAA
1 AAA
19691157 ATTTTGTGAA
Statistics
Matches: 88, Mismatches: 28, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
16 34 0.39
17 39 0.44
18 15 0.17
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (17 bp):
AAATTCTTGCGAATCTA
Found at i:19691340 original size:22 final size:22
Alignment explanation
Indices: 19691268--19691340 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
19691258 AAATCTTACG
* *
19691268 AACCTTTGAATATCAAAATGTA
1 AACCTTTGAATTTCAAATTGTA
*
19691290 AACCTTTGAATTT--AATTGCA
1 AACCTTTGAATTTCAAATTGTA
*
19691310 AATGC-TTGAATTTCAAATTGTA
1 AA-CCTTTGAATTTCAAATTGTA
*
19691332 AACCATTGA
1 AACCTTTGA
19691341 TTTTTAAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
20 15 0.37
21 2 0.05
22 24 0.59
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (22 bp):
AACCTTTGAATTTCAAATTGTA
Found at i:19696616 original size:48 final size:47
Alignment explanation
Indices: 19696493--19696637 Score: 195
Period size: 48 Copynumber: 3.1 Consensus size: 47
19696483 ATTTTACAAG
* *
19696493 TTTT-ATTTCTAAATTTTTCACTATTTGGGCTAATTTAGAAAGTTTTT
1 TTTTGATTTCTAAATTTTTCACTATTTGGGTTTATTTAGAAA-TTTTT
* *
19696540 TATTTGATTTCTAAATTTTTCACAATTTGGTTTTATTTAGAAATTTTCT
1 T-TTTGATTTCTAAATTTTTCACTATTTGGGTTTATTTAGAAATTTT-T
* *
19696589 TTTTGATTTCTAAATTTTTCAGTATTTGGGTCTATTTAG-AATTTTT
1 TTTTGATTTCTAAATTTTTCACTATTTGGGTTTATTTAGAAATTTTT
19696635 TTT
1 TTT
19696638 ATTTTTTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
46 4 0.05
47 7 0.08
48 41 0.47
49 35 0.40
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (47 bp):
TTTTGATTTCTAAATTTTTCACTATTTGGGTTTATTTAGAAATTTTT
Found at i:19697242 original size:4 final size:4
Alignment explanation
Indices: 19697233--19697263 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
19697223 AAAAATACTT
19697233 AATA AATA AATA AATA AATA AATA AA-A AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA
19697264 CCAAGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:19697509 original size:21 final size:19
Alignment explanation
Indices: 19697485--19697524 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
19697475 TTTTCATCAA
*
19697485 ATTTTCTTCTCTTTCTCTCTC
1 ATTTTC-TCT-TTTCACTCTC
19697506 ATTTTCTCTTTTCACTCTC
1 ATTTTCTCTTTTCACTCTC
19697525 TATCTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTCTCTTTTCACTCTC
Found at i:19697726 original size:12 final size:13
Alignment explanation
Indices: 19697705--19697735 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19697695 ACTAGAATCT
*
19697705 AAAAATTTTCCAA
1 AAAAATTTCCCAA
19697718 AAAAATTTCCCAA
1 AAAAATTTCCCAA
19697731 AAAAA
1 AAAAA
19697736 ATCTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAATTTCCCAA
Found at i:19698278 original size:88 final size:90
Alignment explanation
Indices: 19698168--19698548 Score: 379
Period size: 88 Copynumber: 4.3 Consensus size: 90
19698158 CATAAAAATT
* * * ** *
19698168 CTTCTAAACAGAGGCTTC-ACAACTTTTGAGAAGTAAATAAGGTTTTTTTAAGCAGAGGCTGAAT
1 CTTCTAAACAGAGAC-TCAACGACTTTTGAGAAGTAAATAAGGCTCCTTTAAGCAGAGGCTTAAT
19698232 GACTTTTGAAAAGA-AAATAAAGCTC
65 GACTTTTGAAAAGATAAATAAAGCTC
* * * * * * * *
19698257 CTT-TAAGCAGAGACTCAACAACTTTTTGAAAAGTGAATAAGGCTCTTTTAAGTAGAGGCTCAAC
1 CTTCTAAACAGAGACTCAACGAC-TTTTGAGAAGTAAATAAGGCTCCTTTAAGCAGAGGCTTAAT
* *
19698321 GACTTTTGAAAAG-TAAAT-AAGATT
65 GACTTTTGAAAAGATAAATAAAGCTC
* * * * *
19698345 CTTCTAAACAGATG-CTCAATGACTTTAGAGAAATAAATAAGGCTTCTTTATGCAGAGGCTTAAT
1 CTTCTAAACAGA-GACTCAACGACTTTTGAGAAGTAAATAAGGCTCCTTTAAGCAGAGGCTTAAT
*
19698409 GACTTTT-AAAAAATAAATAAAGCTC
65 GACTTTTGAAAAGATAAATAAAGCTC
* * * * *
19698434 C-TCTAAACAGATACTAAATGACTTTTGA-AAGTAAATAAAGCTCCTCTAAGCAGAGGCTTAATG
1 CTTCTAAACAGAGACTCAACGACTTTTGAGAAGTAAATAAGGCTCCTTTAAGCAGAGGCTTAATG
19698497 ACTTTTGAAAA-ATAAATAAAGCT-
66 ACTTTTGAAAAGATAAATAAAGCTC
* ** *
19698520 TTTCTAAGTAGAGACTCAACGACATTTGA
1 CTTCTAAACAGAGACTCAACGACTTTTGA
19698549 AAATATCATG
Statistics
Matches: 240, Mismatches: 42, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
87 75 0.31
88 91 0.38
89 73 0.30
90 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (90 bp):
CTTCTAAACAGAGACTCAACGACTTTTGAGAAGTAAATAAGGCTCCTTTAAGCAGAGGCTTAATG
ACTTTTGAAAAGATAAATAAAGCTC
Found at i:19698307 original size:45 final size:44
Alignment explanation
Indices: 19698167--19698551 Score: 240
Period size: 44 Copynumber: 8.8 Consensus size: 44
19698157 ACATAAAAAT
* * * *
19698167 TCTTCTAAACAGAGGCTTC-ACAACTTTTGAGAAGTAAATAAGGT
1 TCTTTTAAGCAGAGGC-TCAACAACTTTTGAAAAGTAAATAAGGC
* * ** * *
19698211 TTTTTTAAGCAGAGGCTGAATGACTTTTGAAAAGAAAATAAAGC
1 TCTTTTAAGCAGAGGCTCAACAACTTTTGAAAAGTAAATAAGGC
* * *
19698255 TCCTTTAAGCAGAGACTCAACAACTTTTTGAAAAGTGAATAAGGC
1 TCTTTTAAGCAGAGGCTCAACAAC-TTTTGAAAAGTAAATAAGGC
* * **
19698300 TCTTTTAAGTAGAGGCTCAACGACTTTTGAAAAGTAAATAAGAT
1 TCTTTTAAGCAGAGGCTCAACAACTTTTGAAAAGTAAATAAGGC
* * * ** *
19698344 TCTTCTAAACAGATGCTCAATGACTTTAGAGAAA-TAAATAAGGC
1 TCTTTTAAGCAGAGGCTCAACAACTTTTGA-AAAGTAAATAAGGC
* * ** * * *
19698388 T-TCTTTATGCAGAGGCTTAATGACTTTTAAAAAATAAATAAAGC
1 TCT-TTTAAGCAGAGGCTCAACAACTTTTGAAAAGTAAATAAGGC
* * * ** * ** *
19698432 TCCTCTAAACAGATACTAAATGACTTTTG-AAAGTAAATAAAGC
1 TCTTTTAAGCAGAGGCTCAACAACTTTTGAAAAGTAAATAAGGC
* * * ** * *
19698475 TCCTCTAAGCAGAGGCTTAATGACTTTTGAAAAATAAATAAAGC
1 TCTTTTAAGCAGAGGCTCAACAACTTTTGAAAAGTAAATAAGGC
* * * *
19698519 T-TTTCTAAGTAGAGACTCAACGACATTTGAAAA
1 TCTTT-TAAGCAGAGGCTCAACAACTTTTGAAAA
19698552 TATCATGCCT
Statistics
Matches: 270, Mismatches: 63, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
43 44 0.16
44 186 0.69
45 40 0.15
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (44 bp):
TCTTTTAAGCAGAGGCTCAACAACTTTTGAAAAGTAAATAAGGC
Found at i:19699194 original size:331 final size:326
Alignment explanation
Indices: 19698558--19703744 Score: 1366
Period size: 332 Copynumber: 15.7 Consensus size: 326
19698548 AAAATATCAT
* ** * * **
19698558 GCCTTCACTGATTAATCACTATGAACGGTAGTCAACGAGTAAACATATAGTAATAACGATGAATG
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACA
* * * ** ** * * *
19698623 GAAAGTGAAAAATAAAAAAATGTGTGGTGCAACAAGAGGGCTTTCTCAGATGGCCACCCATTCTA
66 AAAAGT-AAAAATAAAAAAATGTGAGGTGCAACATGAGAAC-TTCAAAGA-AGTCA-CTATTCTA
** * * * * * * * * * *
19698688 AAACT-ACTATCACCTAAGCATGCTTAATTGCAGAGTTCTAATGGGAACTAATGCTTTAGTGTTG
127 GTACTCACT-T-GCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCTGATGCTTTAGTGCTA
* * * ** * * * * * * * *
19698752 GTCTAATCACAACTATCATTTGTTGTACAAATTATGTATCTTACCTTTCTTTTCTTGTATGCTAC
190 GTATGATCACACCCGTCATTCGTTGCACAAATTATGTATCCTACCCTTCCTTTCTCGTACGCTGC
* ** * * * * ** * * * *
19698817 TTGATGTATCCCATGCGATCCCTCGTCCT-GTAATTTTCATTACACCAAAAAAAGAGTTGATCAA
255 -TCAAATATCTCATGTGAGCCCCCGTCCTCAAAATTTTTACTATACCAAAAAAAGGGTTGATCAA
19698881 TTTCTCAA
319 TTTCTCAA
* * *
19698889 GCCTTCACCGATTAATCACTATGAATGGCT-GTCAATGAATAAACATATAGTAATAATGACGAAC
1 GCCTTCACCGATTAATCACTATGAATAG-TAGTCAACGAATAAACATATAGTAATAACGACGAAC
* *
19698953 AAAAAGCTAAAAATAAAAAAAATGTGAGGTGCAACACGAGAACTTCAAAGGAGGTCACTAATTCT
65 AAAAAG-TAAAAAT-AAAAAAATGTGAGGTGCAACATGAGAACTTCAAA-GAAGTCACT-ATTCT
** * * * * *
19699018 AGTACTGCACTTGCCTAAGCATGCTTAACTGTAAAGTTCTAATGGGATCTAATGATTCAGTGCTA
126 AGTACT-CACTTGCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCTGATGCTTTAGTGCTA
* * *
19699083 GCATGATCGCACCCATCATTCGTTGCACAAATTATGTATCCTACCCTTCCTTTCTCGTACGCTGC
190 GTATGATCACACCCGTCATTCGTTGCACAAATTATGTATCCTACCCTTCCTTTCTCGTACGCTGC
* *
19699148 TCAAATATCTCATGTGAGCCCCCGTCCTCAAAATTTTTGCTACACC-AAAAAA------AT-AAT
255 TCAAATATCTCATGTGAGCCCCCGTCCTCAAAATTTTTACTATACCAAAAAAAGGGTTGATCAAT
* ***
19699205 TTTTTGT
320 TTCTCAA
* * * * *
19699212 GCTTTCACCGATTAATCATTA-GAA-ACGATAGTCAACGAATAAACACATAGTAATAATGACAAA
1 GCCTTCACCGATTAATCACTATGAATA-G-TAGTCAACGAATAAACATATAGTAATAACGACGAA
* * * ** * * * * * * *
19699275 CGAAAAGTGAAAATAAAAAAAAGCAATGTGCAACA-CAAAGACTTTCCAATAGGTCACCTATTTT
64 CAAAAAGTAAAAATAAAAAAATGTGAGGTGCAACATGAGA-AC-TTCAAAGAAGTCA-CTATTCT
* * * * * *
19699339 AATACTACTCTTGCCCAAGCATGCTTAACTACGAAGTTTTGAT-AGGATCTGATGCTTTATTG-T
126 AGTACT-CACTTGCCTAAGCATGCTTAACTACAAAGTTCTGATGA-GATCTGATGCTTTAGTGCT
* * * * * * * * * * ** *
19699402 TGATATCAAT-ACACCTGTCATGT-ATTTCACAAATTATGTGTCCGATCCTTTCTTTTTTATATG
189 AG-TAT-GATCACACCCGTCAT-TCGTTGCACAAATTATGTATCCTACCCTTCCTTTCTCGTACG
* * * ** * * *
19699465 TTGCTCAATATATCCCATGCG-GCCTTTCGTCCTTAAAATTTTTATTATGACAAAAAAAAGGGTT
251 CTGCTCAA-ATATCTCATGTGAGCC-CCCGTCCTCAAAATTTTTACTAT-ACCAAAAAAAGGGTT
** * ***
19699529 GATTGATTTTTTGT
313 GATCAATTTCTCAA
* * * * *
19699543 GCCTTAACCGATAAATCACTATGAATAGTAGTCAACAAATAAACATATAATAATAACGACAAACG
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAAC-
* * * * * * *
19699608 AAAAA-TGAAAAATAAAAAAATGTGGGGTGCAATATAAGGACTTTTCAAA-ATGTCACCCATTTT
65 AAAAAGT-AAAAATAAAAAAATGTGAGGTGCAACATGAGAAC--TTCAAAGAAGTCA-CTATTCT
* * * * * * *
19699671 AGTAC-AACTTTCATCGAAGTATGCTTAACTGA-AGAGTTCTAATAAGATCTGATGCTTTAGTG-
126 AGTACTCACTTGC--CTAAGCATGCTTAACT-ACAAAGTTCTGATGAGATCTGATGCTTTAGTGC
* * * * * * *
19699733 TTGATATGATCACACCCGTCACTT-ATTGTGA-AAAATATGTAT-TTGACCTTTTCTTT-TCGGT
188 TAG-TATGATCACACCCGTCA-TTCGTTG-CACAAATTATGTATCCT-ACCCTTCCTTTCTC-GT
** ** *
19699794 ACGCTATTCAATATATCTCAT-TCGAGCCTTCGTCCTC-AAATTTTTCACTATGTTA-AAAAAAA
248 ACGCTGCTCAA-ATATCTCATGT-GAGCCCCCGTCCTCAAAATTTTT-ACTA---TACCAAAAAA
* *
19699856 AAGGTTGATCAATTTCTTC-T
307 AGGGTTGATCAATTTC-TCAA
* ** *
19699876 GCCTTCATCGATTAATCACTACAAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACG
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACA
* * * * *
19699941 AAAAGTGAAACATAAAAAAATGTTG-GATGCAACATGAAAACTTCACAAGAAGTCTCTTATCCTA
66 AAAAGT-AAAAATAAAAAAATG-TGAGGTGCAACATGAGAACTTCA-AAGAAGTCAC-TATTCTA
* * * * *
19700005 GTACTACTCTTATCC-AAGCATGTTTAACTACAAAGTTCTGATGAGATCCGATGTTTTAGTGCTC
127 GTACT-CACTT-GCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCTGATGCTTTAGTGCT-
* * * * *
19700069 A-TATGATCACTCTCATCATTCGTT-CTACAAATTATGTATCCTACCC-TCCTTTCTCGTATGCG
189 AGTATGATCACACCCGTCATTCGTTGC-ACAAATTATGTATCCTACCCTTCCTTTCTCGTACGCT
* * ** * * * * *
19700131 GCTTGATATATCTCATGCAAGCTCCTGTCC-CTAAAATTTTTGCTATGCCAAAAAAGGGGTTGAT
253 GC-TCAAATATCTCATGTGAGCCCCCGTCCTC-AAAATTTTTACTATACCAAAAAAAGGGTTGAT
19700195 CAATTTCT-AA
316 CAATTTCTCAA
* * * * * *
19700205 TGCCTTCACTGATTAATCACTACGAACAGTAGTTAATGAATAAACATATAGTAATAACGATGAAC
1 -GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAAC
* * ** * **
19700270 AAAAAGCCAAAAATAAAAAATTGT-ACGGTGCAACATGAGAACTTCCTTAGAAATCACCTACCCT
65 AAAAAG-TAAAAATAAAAAAATGTGA-GGTGCAACATGAGAACTT-CAAAGAAGTCA-CTATTCT
* * **** * * * * * * *
19700334 AGCACTAATCTCATTTAAGCACGCTTAACTACAAAGTTTTGATGAGATTTAATGCTTTATTACTG
126 AGTACTCA-CTTGCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCTGATGCTTTAGTGCTA
* ** * * * * *
19700399 GTATGAT-AGTACTTGCCACTCGTTGCATAAATTATGTAT-CTGACCCTTCATTTCTCGTACACT
190 GTATGATCA-CACCCGTCATTCGTTGCACAAATTATGTATCCT-ACCCTTCCTTTCTCGTACGCT
* * * * * * * *
19700462 ACTCGATATATCCCACGT-AGGCCCCCATCC-CTGAAATTTTTACTATGCCAAAAAAGGGGTTGA
253 GCTC-AAATATCTCATGTGA-GCCCCCGTCCTC-AAAATTTTTACTATACCAAAAAAAGGGTTGA
*
19700525 TCGATTTCTCAA
315 TCAATTTCTCAA
** * * *
19700537 GCCTTCATTGATTAATCACTATGAATGGTAGTCAA-GAAATAAACATATAGTAATAATGACGAAT
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACG-AATAAACATATAGTAATAACGACGAAC
* * * * *
19700601 GAAAAGTAAAAAGTAAAAAAATTTGAGGTGCAATATGATG-ACTTCATAAGAGGTCAACCA-TCT
65 AAAAAGTAAAAA-TAAAAAAATGTGAGGTGCAACATGA-GAACTTCA-AAGAAGTC-ACTATTC-
* ** ** * * * ** ** * *
19700664 TAGTA-TTACCTAACGCTCAAGCACACTTAACTGCTGAA-TTTTGACAAGATCCAATGTTTTAGA
125 TAGTACTCA-CTTGC-CT-AAGCATGCTTAACTAC-AAAGTTCTGATGAGATCTGATGCTTTAGT
* * * * * ** * * * * *
19700727 GTTGGTATGATCCCACCCATCACTT-ATTGCGTAAATTATATATCCAACCATTCCTTTC-C-CAT
186 GCTAGTATGATCACACCCGTCA-TTCGTTGCACAAATTATGTATCCTACCCTTCCTTTCTCGTAC
* * * * *** ** * * * * * ***
19700789 GTTGCTTGATATATCCCA-CACAGGCCCCTATCCTTAGAATTTTTGCTACA-AAAAAAAAAAATT
250 GCTGC-TCAAATATCTCATGTGA-GCCCCCGTCCTCAAAATTTTTACTATACCAAAAAAAGGGTT
* * *
19700852 GATCGATTTTTCAT
313 GATCAATTTCTCAA
* * * * * * * *
19700866 GCCTTTACTGATTAATCACTACGAA-CGATAGTCAACGAATAAACATATAATAATAATGATGAAT
1 GCCTTCACCGATTAATCACTATGAATAG-TAGTCAACGAATAAACATATAGTAATAACGACGAAC
* * * **
19700930 AAAAAGTAAAAATTAAAAAAATTTGGGGTGCAACATGA-AGACTTCCTAAG-AGATCACCTAACC
65 AAAAAGTAAAAA-TAAAAAAATGTGAGGTGCAACATGAGA-ACTT-CAAAGAAG-TCA-CTATTC
* * * ** *** * * * *
19700993 TAATACT-ACCTTCACCCAAGCGCGCTTAACTGTGAAGTTCTAATGGGATTTGGTGCTTTAGTGC
125 TAGTACTCA-CTT-GCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCTGATGCTTTAGTGC
* * * * * * * * * **
19701057 TATTTTGATCGCACCCATTATTTGTTGCACAAATTATGTAT-CTGACACTTTCTTTC-CTATATA
188 TAGTATGATCACACCCGTCATTCGTTGCACAAATTATGTATCCT-ACCCTTCCTTTCTC-GTACG
* * * * *** * * *
19701120 CTGCT-AGATATATCCCACGCGGGCCTTAGTCTTCAAAATTTTTACTATGCCAAAAAAAAGGTTG
251 CTGCTCA-A-ATATCTCATGTGAGCCCCCGTCCTCAAAATTTTTACTATACCAAAAAAAGGGTTG
* *
19701184 ATCGATTTCTCAT
314 ATCAATTTCTCAA
** ** * ** *
19701197 GCCTTCACCGATTAATCACTACCAACGGTAGTCAACGAATAAACATATAATAATAATTATGAACA
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACA
* * ** * * * *
19701262 AAAAGT-----GAAAAAAATGTGGGGTGCAATGTGAGAACTTTCAAGGAGGTCACCCATCCTAGT
66 AAAAGTAAAAATAAAAAAATGTGAGGTGCAACATGAGAAC-TTCAAAGAAGTCA-CTATTCTAGT
* * *** * * * *
19701322 ACTACTCTTGCCTAAGCAAGCTTAACTGTGAAGTTTTGAT-AGAATC-CAGTGCTTTACTACTAG
129 ACT-CACTTGCCTAAGCATGCTTAACTACAAAGTTCTGATGAG-ATCTGA-TGCTTTAGTGCTAG
* * * * * * *
19701385 TATGATCACACCTC-TTATTTGTTACAAAAATTGTGTATCCTACCTTTCCTTTCCCGTACGCTGC
191 TATGATCACACC-CGTCATTCGTTGCACAAATTATGTATCCTACCCTTCCTTTCTCGTACGCTGC
* * * **** * *** * *
19701449 AT-AATATACCCCATACTG-GCCTTTATCATTGGAATTTTTGCTATGCCAAAAATAA--GTTGAT
255 -TCAA-ATATCTCAT-GTGAGCCCCCGTCCTCAAAATTTTTACTATACCAAAAA-AAGGGTTGAT
*
19701510 CAATTTCTCAT
316 CAATTTCTCAA
* * * * * * * **
19701521 GCTTTTACTGATTAATCACTATGAATAATAGTCAACAAATAAACATATAATAATAAAGACGAATG
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACA
* *
19701586 AAAAGTGAAAAATAAAAAAA-ATGAGGTGGAA-A-G-G----TC-----A--CAC-ATTCTAGTA
66 AAAAGT-AAAAATAAAAAAATGTGAGGTGCAACATGAGAACTTCAAAGAAGTCACTATTCTAGTA
* * ** *** * * *
19701635 CT-ATTCTCGCCCAAGCACACTTAACTGTGAAGTTCTGATGGGATCTGATGCTTTAATGCTGGTA
130 CTCA--CTTGCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCTGATGCTTTAGTGCTAGTA
* ** ** * * * * *
19701699 TGGTCACACCTATCACACGTTGCACAAATTATGTATCC-ACCATT-TTTTTTCCTATATGCTGCT
193 TGATCACACCCGTCATTCGTTGCACAAATTATGTATCCTACCCTTCCTTTCT-C-GTACGCTGC-
* * * **** * * * * ** * *
19701762 TGATATATC-CAATATGAGTGTTCATCCTTAAAATTTATGTTACAAAAAAAAAAAAAAAGGTTAA
255 TCAAATATCTC-ATGTGAGCCCCCGTCCTCAAAA-TT-T-TTAC-TATACCAAAAAAAGGGTTGA
* *
19701826 TCGATTTCTCAT
315 TCAATTTCTCAA
** ** ** * * *
19701838 GCCTTCACTTATTAATTGCTATGAACGGTAGTCAATGAATAAACATATAGTAATAATGACAAACA
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACA
* ** * * *
19701903 AAAAGCGAAAAATAAAAAAATGTGAGGTGCAACATGA-AGACTTCTCAGAAGGTTACCCATCCTA
66 AAAAG-TAAAAATAAAAAAATGTGAGGTGCAACATGAGA-ACTTCAAAGAA-GTCA-CTATTCTA
* * * * * * *
19701967 GTACT-ACTTTCGTCCAGC-TCGTTTAATTACAGAGTTCTGATGAGAT-TCGATGCTTTAATG-T
127 GTACTCACTTGCCT-AAGCAT-GCTTAACTACAAAGTTCTGATGAGATCT-GATGCTTTAGTGCT
* ** * * ** * * * *
19702028 TGATATGATCACAATCATCATTCATTGCGTAAATTATGTAT-ATGACCATTCCTTTCTCGTATGT
189 AG-TATGATCACACCCGTCATTCGTTGCACAAATTATGTATCCT-ACCCTTCCTTTCTCGTACGC
* * * ** * * **
19702092 TGCTCGATATATCCCACGTGAGCCTTCATCCTTAAAACTTTTGCTACGTA-AAAAAAAAAAGGGT
252 TGCTC-AAATATCTCATGTGAGCCCCCGTCCTCAAAA-TTTT--TAC-TATACCAAAAAAAGGGT
* **
19702156 TGATCGATTTCTCGT
312 TGATCAATTTCTCAA
** * * * * * *
19702171 GCCTTCACTTATTAATCACTATGAATGGTAGTCAACAAATAAAAATAAAGTAATAACGATGAACG
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACA
* * * ** * * * *
19702236 AAAAGTGAAAAATAAAAAATTTTG-GGTACAACACAAGGATTTCCTAA-AAGATCACTAATCTTA
66 AAAAGT-AAAAATAAAAAAATGTGAGGTGCAACATGAGAACTT-CAAAGAAG-TCACTATTC-TA
* ** * * ** * *
19702299 GTACTAATCTCACCCAAGAATGCTTAACTGTAGAGTTCTGATGAGATCTGATGCTTTAGTGCTGG
127 GTACTCA-CTTGCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCTGATGCTTTAGTGCTAG
** ** * * * * * * * *
19702364 TATGATTGCACCTATCATTTGTTGCATAAATTTTGTATTCTACCCTT-TTTTTTCTTTACGCGGC
191 TATGATCACACCCGTCATTCGTTGCACAAATTATGTATCCTACCCTTCCTTTCTC-GTACGCTGC
** ** * *
19702428 TCAATATATC-C---T-ACGCCCAAGTTCTATCTTTGAAATTTTTACTATGCCAAAAAAAGGATT
255 TCAA-ATATCTCATGTGA-GCCCCCG-TC---C-TCAAAATTTTTACTATACCAAAAAAAGGGTT
** **
19702488 GATTGATTTCTCGT
313 GATCAATTTCTCAA
* * * * **
19702502 GGCTTCACCAATTAATCACTATGAACAGTAGTCAACGAATAAACATATAGAAATAACGATTAACA
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACA
* * * * * * *
19702567 AAAAATAAAAAATAAAAAAATATG-GAGTGCAACACGAGGACTTTTTAAATG--GTTACCCA-TC
66 AAAAGT-AAAAATAAAAAAATGTGAG-GTGCAACATGAGAAC--TTCAAA-GAAGTCA-CTATTC
* * ** * * * *
19702628 ATAGTACTAATCTCGTCC-AAATACGCTTAACTATGAAA-TTTTGATGGGATCTGATGCTTTAGT
125 -TAGTACTCA-CTTG-CCTAAGCATGCTTAACTA-CAAAGTTCTGATGAGATCTGATGCTTTAGT
* * ** ** * * * *
19702691 GTTAGTATGATCACATCTATCACTT-GTTGCGTAAATTATGTA-ACTGACTCTTTC-TTCTCCAT
186 GCTAGTATGATCACACCCGTCA-TTCGTTGCACAAATTATGTATCCT-ACCCTTCCTTTCT-CGT
** * * ** * * ** * ** * **
19702753 ACATTGCTCAATATATCCCGTACGGGTCCCTATTCTTGAAATTTTTACTACACCAAAAAAATATG
248 ACGCTGCTCAA-ATATCTCATGTGAGCCCCCGTCCTCAAAATTTTTACTATACCAAAAAAA-GGG
* *
19702818 TTGATCGATTTCTCAT
311 TTGATCAATTTCTCAA
* * ** * * *
19702834 GCCTTCATCGATTAATCACTACGAACGGTAGTCAACGAACAAACATATTGTAATAACGATGAACA
1 GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACA
** * * *
19702899 AAAAGTGAAAAATAAAAAAAAATG-GTGTGCAACATGAGAACTTCTTAA-AAGATCACCCATCCT
66 AAAAGT-AAAAATAAAAAAATGTGAG-GTGCAACATGAGAACTTC-AAAGAAG-TCA-CTATTCT
* * * ** * ** * *
19702962 AGTACT-ACTAT-CATCTAAGTATGTTTAATTGTAAAGTTTTGAT-AGTATCCAATGCCTTAATG
126 AGTACTCACT-TGC--CTAAGCATGCTTAACTACAAAGTTCTGATGAG-ATCTGATGCTTTAGTG
* * * * ** * * ** *
19703024 CTGGTATGCTCACATCCGTTATTTATTGCATAAATTATGTCTCCTACCCTTTTTTTCCCCGTACG
187 CTAGTATGATCACACCCGTCATTCGTTGCACAAATTATGTATCCTACCCTTCCTTT-CTCGTACG
* * * * * * * *** * * ** *
19703089 ATACTTAATATATCCCATGTGGGCCCCTGTCTTTGGAATTTTCATTACTAAAAAAAAAAAGGTTG
251 CTGCTCAA-ATATCTCATGTGAGCCCCCGTCCTCAAAATTTTTACTA-TACCAAAAAAAGGGTTG
* * *
19703154 ATCAAGTTATCGTA
314 ATCAATTTCTC-AA
* * * * * * * *
19703168 -CTTTCACCGCTTAATC-CTTATGAA-CGACAGTCAATGAATAAACATATAGCAATAATGACGAG
1 GCCTTCACCGATTAATCAC-TATGAATAG-TAGTCAACGAATAAACATATAGTAATAACGACGAA
* * * * * *
19703230 CGAGAAGCGAAAAATAAAAAAAATGTTGA-GTGCAACATGATAACTTCCCAAA-AGGTCACCATT
64 CAAAAAG-TAAAAAT-AAAAAAATG-TGAGGTGCAACATGAGAACTT--CAAAGAAGTCACTATT
* * ** * * * *
19703293 -TAATACT-ACCTTCGCCCAAGCACACTTAATTACAAAGTTCTGATAAAAT-TCGATGCTTTAAT
124 CTAGTACTCA-CTT-GCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCT-GATGCTTTAGT
* * * * * ** * * * **
19703355 GTTGGTATAATCACACCCATAACTT-GTTGTGCAAATTATGTAT-CTAAACCTTTCTTTCCCAAA
186 GCTAGTATGATCACACCCGTCA-TTCGTTGCACAAATTATGTATCCT-ACCCTTCCTTTCTCGTA
* * * *** * * * * ** * *
19703418 TC-TTGCTTGATATATCTCACACGAGCTCGCATCTTTGAAATTTTCT-CTACGTA-AAAAAAAAA
249 -CGCTGC-TCAAATATCTCATGTGAGCCCCCGTCCTCAAAATTTT-TACTA--TACCAAAAAAAG
* *
19703480 TGTTCATCAATTTCTCATA
309 GGTTGATCAATTTCTCA-A
* * ** *
19703499 -CCTTCACC-ATTTAATCACTACGAATGGTAGTCAATAAATAAACATATAGTAATAACAACGAAC
1 GCCTTCACCGA-TTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAAC
* * * * * * * * * *
19703562 AAAAAGTGAAACATAAAAAAAAGT-AGGGCGCAACACGAGGACTTCCCAGGAGGTCACCCATCCT
65 AAAAAGT-AAAAATAAAAAAATGTGA-GGTGCAACATGAGAACTT-CAAAGAAGTCA-CTATTCT
* * * ** * * *
19703626 AGTACT-ACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCTTTAGTGCT
126 AGTACTCACT-T-GCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCTGATGCTTTAGTGCT
* * * *
19703690 GGTATGATCGCACCCGTCACTTC-TTGCGCAAATTATGTATCCGACCCTTCCTTTC
189 AGTATGATCACACCCGTCA-TTCGTTGCACAAATTATGTATCCTACCCTTCCTTTC
19703745 CTGTATGCTA
Statistics
Matches: 3664, Mismatches: 914, Indels: 555
0.71 0.18 0.11
Matches are distributed among these distances:
310 3 0.00
311 9 0.00
312 107 0.03
313 6 0.00
314 3 0.00
315 5 0.00
316 6 0.00
317 83 0.02
318 9 0.00
319 1 0.00
320 5 0.00
321 128 0.03
322 48 0.01
323 63 0.02
324 82 0.02
325 162 0.04
326 17 0.00
327 7 0.00
328 73 0.02
329 152 0.04
330 361 0.10
331 780 0.21
332 806 0.22
333 549 0.15
334 159 0.04
335 30 0.01
336 10 0.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (326 bp):
GCCTTCACCGATTAATCACTATGAATAGTAGTCAACGAATAAACATATAGTAATAACGACGAACA
AAAAGTAAAAATAAAAAAATGTGAGGTGCAACATGAGAACTTCAAAGAAGTCACTATTCTAGTAC
TCACTTGCCTAAGCATGCTTAACTACAAAGTTCTGATGAGATCTGATGCTTTAGTGCTAGTATGA
TCACACCCGTCATTCGTTGCACAAATTATGTATCCTACCCTTCCTTTCTCGTACGCTGCTCAAAT
ATCTCATGTGAGCCCCCGTCCTCAAAATTTTTACTATACCAAAAAAAGGGTTGATCAATTTCTCA
A
Found at i:19700065 original size:333 final size:332
Alignment explanation
Indices: 19699469--19700078 Score: 730
Period size: 333 Copynumber: 1.8 Consensus size: 332
19699459 TATATGTTGC
* * **
19699469 TCAATATATCCCATGCGGCCTTTCGTCCTTAAAATTTTTATTATGACAAAAAAAAGGGTTGATTG
1 TCAATATATCCCATGCGGCCTTTCGTCCTTAAAATTTTTACTATGACAAAAAAAAAGGTTGATCA
* * **
19699534 ATTTTTTGTGCCTTAACCGATAAATCACTATGAATAGTAGTCAACAAATAAACATATAATAATAA
66 ATTTCTTCTGCCTTAACCGATAAATCACTACAAATAGTAGTCAACAAATAAACATATAATAATAA
* * * **
19699599 CGACAAACGAAAAATGAAAAATAAAAAAATGTGGGGTGCAATATAAGGACTTTTCAAAATGTCAC
131 CGACAAACGAAAAATGAAAAATAAAAAAATGTGGGATGCAACATAAGAACTTCACAAAATGTCAC
** * * * *
19699664 CCATTTTAGTACAACTTTCATCGAAGTATGCTTAACTGAAGAGTTCTAATAAGATCTGATGCTTT
196 CCATCCTAGTACAACTTTCATCCAAGCATGCTTAACTGAAAAGTTCTAATAAGATCCGATGCTTT
* *
19699729 AGTGTTGATATGATCACACCCGTCACTTATTGTGAAAAATATGTATTTGACCTTTTCTTTTCGGT
261 AGTGCTCATATGATCACACCCGTCACTTATTGTGAAAAATATGTATTTGACCTTTTCTTTTCGGT
19699794 ACGCTAT
326 ACGCTAT
* * *
19699801 TCAATATATCTCATTCGAGCC-TTCGTCC-TCAAATTTTTCACTATGTTA-AAAAAAAAAGGTTG
1 TCAATATATCCCATGCG-GCCTTTCGTCCTTAAAATTTTT-ACTATG--ACAAAAAAAAAGGTTG
* * * * *
19699863 ATCAATTTCTTCTGCCTTCATCGATTAATCACTACAAATAGTAGTCAACGAATAAACATATAGTA
62 ATCAATTTCTTCTGCCTTAACCGATAAATCACTACAAATAGTAGTCAACAAATAAACATATAATA
* * * *
19699928 ATAACGACGAACGAAAAGTGAAACATAAAAAAATGTTGGATGCAACATGAA-AACTTCACAAGAA
127 ATAACGACAAACGAAAAATGAAAAATAAAAAAATGTGGGATGCAACAT-AAGAACTTCACAA-AA
* ** * * * *
19699992 -GTCTCTTATCCTAGTACTACTCTT-ATCCAAGCATGTTTAACT-ACAAAGTTCTGATGAGATCC
190 TGTCACCCATCCTAGTACAACT-TTCATCCAAGCATGCTTAACTGA-AAAGTTCTAATAAGATCC
*
19700054 GATGTTTTAGTGCTCATATGATCAC
253 GATGCTTTAGTGCTCATATGATCAC
19700079 TCTCATCATT
Statistics
Matches: 229, Mismatches: 41, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
331 9 0.04
332 28 0.12
333 185 0.81
334 7 0.03
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (332 bp):
TCAATATATCCCATGCGGCCTTTCGTCCTTAAAATTTTTACTATGACAAAAAAAAAGGTTGATCA
ATTTCTTCTGCCTTAACCGATAAATCACTACAAATAGTAGTCAACAAATAAACATATAATAATAA
CGACAAACGAAAAATGAAAAATAAAAAAATGTGGGATGCAACATAAGAACTTCACAAAATGTCAC
CCATCCTAGTACAACTTTCATCCAAGCATGCTTAACTGAAAAGTTCTAATAAGATCCGATGCTTT
AGTGCTCATATGATCACACCCGTCACTTATTGTGAAAAATATGTATTTGACCTTTTCTTTTCGGT
ACGCTAT
Found at i:19700288 original size:330 final size:329
Alignment explanation
Indices: 19699858--19700622 Score: 799
Period size: 330 Copynumber: 2.3 Consensus size: 329
19699848 AAAAAAAAAA
** *
19699858 GGTTGATCAATTTCTTCTGCCTTCATCGATTAATCACTACAAATAGTAGTCAACGAATAAACATA
1 GGTTGATCAATTTCTAATGCCTTCAT-GATTAATCACTACGAATAGTAGTCAA-GAATAAACATA
* ** * *
19699923 TAGTAATAACGACGAACGAAAAGTGAAACATAAAAAAATGT-TGGATGCAACATGAAAACTTCAC
64 TAGTAATAACGACGAACAAAAAGCCAAAAATAAAAAAATGTACGG-TGCAACATGAAAACTTC-C
* * * * * * * * *
19699987 -AAGAAGTCTCTTATCCTAGTACTACTCTTATCCAAGCATGTTTAACTACAAAGTTCTGATGAGA
127 TAAGAAATCACCTACCCTAGCACTAATCTCATCCAAGCACGCTTAACTACAAAGTTCTGATGAGA
* * * * *
19700051 TCCGATGTTTTAGTGCTCATATGATCACT-CTCATCATTCGTT-CTACAAATTATGTATCCT-AC
192 TCCAATGCTTTAGTACTCATATGAT-ACTACTCACCACTCGTTGC-ACAAATTATGTAT-CTGAC
* ** * * * * * ** *
19700113 CC-TCCTTTCTCGTATGCGGCTTGATATATCTCATGCAAGCTCCTGTCCCTAAAATTTTTGCTAT
254 CCTTCATTTCTCGTACACGACTCGATATATCCCACGCAAGCCCCCATCCCTAAAATTTTTACTAT
19700177 GCCAAAAAAGG
319 GCCAAAAAAGG
* *
19700188 GGTTGATCAATTTCTAATGCCTTCACTGATTAATCACTACGAACAGTAGTTAATGAATAAACATA
1 GGTTGATCAATTTCTAATGCCTTCA-TGATTAATCACTACGAATAGTAGTCAA-GAATAAACATA
* * * *
19700253 TAGTAATAACGATGAACAAAAAGCCAAAAATAAAAAATTGTACGGTGCAACATGAGAACTTCCTT
64 TAGTAATAACGACGAACAAAAAGCCAAAAATAAAAAAATGTACGGTGCAACATGAAAACTTCCTA
** * *
19700318 AGAAATCACCTACCCTAGCACTAATCTCATTTAAGCACGCTTAACTACAAAGTTTTGATGAGATT
129 AGAAATCACCTACCCTAGCACTAATCTCATCCAAGCACGCTTAACTACAAAGTTCTGATGAGATC
* * ** * ** *
19700383 TAATGCTTTATTACTGGTATGATAGTACTTGCCACTCGTTGCATAAATTATGTATCTGACCCTTC
194 CAATGCTTTAGTACTCATATGATACTACTCACCACTCGTTGCACAAATTATGTATCTGACCCTTC
* * * *
19700448 ATTTCTCGTACACTACTCGATATATCCCACGTAGGCCCCCATCCCTGAAATTTTTACTATGCCAA
259 ATTTCTCGTACACGACTCGATATATCCCACGCAAGCCCCCATCCCTAAAATTTTTACTATGCCAA
19700513 AAAAGG
324 AAAAGG
* * *
19700519 GGTTGATCGATTTCTCAA-GCCTTCATTGATTAATCACTATGAATGGTAGTCAAGAAATAAACAT
1 GGTTGATCAATTTCT-AATGCCTTCA-TGATTAATCACTACGAATAGTAGTCAAG-AATAAACAT
* ** *
19700583 ATAGTAATAATGACGAATGAAAAG-TAAAAAGTAAAAAAAT
63 ATAGTAATAACGACGAACAAAAAGCCAAAAA-TAAAAAAAT
19700623 TTGAGGTGCA
Statistics
Matches: 357, Mismatches: 68, Indels: 19
0.80 0.15 0.04
Matches are distributed among these distances:
329 5 0.01
330 207 0.58
331 143 0.40
332 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (329 bp):
GGTTGATCAATTTCTAATGCCTTCATGATTAATCACTACGAATAGTAGTCAAGAATAAACATATA
GTAATAACGACGAACAAAAAGCCAAAAATAAAAAAATGTACGGTGCAACATGAAAACTTCCTAAG
AAATCACCTACCCTAGCACTAATCTCATCCAAGCACGCTTAACTACAAAGTTCTGATGAGATCCA
ATGCTTTAGTACTCATATGATACTACTCACCACTCGTTGCACAAATTATGTATCTGACCCTTCAT
TTCTCGTACACGACTCGATATATCCCACGCAAGCCCCCATCCCTAAAATTTTTACTATGCCAAAA
AAGG
Found at i:19701352 original size:325 final size:325
Alignment explanation
Indices: 19700841--19701576 Score: 781
Period size: 325 Copynumber: 2.2 Consensus size: 325
19700831 TTGCTACAAA
* *
19700841 AAAAAAAAATTGATCGATTTTTCATGCCTTTACTGATTAATCACTACGAACGATAGTCAACGAAT
1 AAAAAAAAGTTGATCGATTTCTCATGCCTTTACTGATTAATCACTACGAACGATAGTCAACGAAT
* * *
19700906 AAACATATAATAATAATGATGAATAAAAAGTAAAAATTAAAAAAATTTGGGGTGCAACATGAAGA
66 AAACATATAATAATAATGATGAACAAAAAG-----ATGAAAAAAATGTGGGGTGCAACATGAAGA
* **
19700971 CTTCCTAAGAGATCACCTAACCTAATACTACCTTCACCCAAGCGCGCTTAACTGTGAAGTTCTAA
126 CTTCCTAAGAGATCACCCAACCTAATACTACCTTCACCCAAGCAAGCTTAACTGTGAAGTTCTAA
* * *** * * * * * * *
19701036 TGGGATTTGGTGCTTTAGTGCTATTTTGATCGCACC-CATTATTTGTTGCACAAATTATGTAT-C
191 TAGAATCCAGTGCTTTACTACTAGTATGATCACACCTC-TTATTTGTTACAAAAATTATGTATCC
* * * *
19701099 TGACACTTT-CTTTCCTATATACTGC-TAGATATATCCCACGCGGGCC-TTAGTC-TTCAAAATT
255 T-AC-CTTTCCTTTCCCATACACTGCATA-ATATACCCCACACGGGCCTTTA-TCATT-AAAATT
19701160 TTTACTATGCC
315 TTTACTATGCC
* * * *
19701171 AAAAAAAAGGTTGATCGATTTCTCATGCCTTCACCGATTAATCACTACCAACGGTAGTCAACGAA
1 AAAAAAAA-GTTGATCGATTTCTCATGCCTTTACTGATTAATCACTACGAACGATAGTCAACGAA
* **
19701236 TAAACATATAATAATAATTATGAACAAAAAG-TGAAAAAAATGTGGGGTGCAATGTG-AGAACTT
65 TAAACATATAATAATAATGATGAACAAAAAGATGAAAAAAATGTGGGGTGCAACATGAAG-ACTT
* * * * * * * *
19701299 TC-AAGGAGGTCACCCATCCTAGTACTACTCTT-GCCTAAGCAAGCTTAACTGTGAAGTTTTGAT
129 CCTAA-GAGATCACCCAACCTAATACTAC-CTTCACCCAAGCAAGCTTAACTGTGAAGTTCTAAT
*
19701362 AGAATCCAGTGCTTTACTACTAGTATGATCACACCTCTTATTTGTTACAAAAATTGTGTATCCTA
192 AGAATCCAGTGCTTTACTACTAGTATGATCACACCTCTTATTTGTTACAAAAATTATGTATCCTA
* * * * ** *
19701427 CCTTTCCTTTCCCGTACGCTGCATAATATACCCCATACTGGCCTTTATCATTGGAATTTTTGCTA
257 CCTTTCCTTTCCCATACACTGCATAATATACCCCACACGGGCCTTTATCATTAAAATTTTTACTA
19701492 TGCC
322 TGCC
* * * * ** *
19701496 AAAAATAAGTTGATCAATTTCTCATGCTTTTACTGATTAATCACTATGAATAATAGTCAACAAAT
1 AAAAAAAAGTTGATCGATTTCTCATGCCTTTACTGATTAATCACTACGAACGATAGTCAACGAAT
19701561 AAACATATAATAATAA
66 AAACATATAATAATAA
19701577 AGACGAATGA
Statistics
Matches: 338, Mismatches: 58, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
324 71 0.21
325 167 0.49
326 13 0.04
330 8 0.02
331 79 0.23
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (325 bp):
AAAAAAAAGTTGATCGATTTCTCATGCCTTTACTGATTAATCACTACGAACGATAGTCAACGAAT
AAACATATAATAATAATGATGAACAAAAAGATGAAAAAAATGTGGGGTGCAACATGAAGACTTCC
TAAGAGATCACCCAACCTAATACTACCTTCACCCAAGCAAGCTTAACTGTGAAGTTCTAATAGAA
TCCAGTGCTTTACTACTAGTATGATCACACCTCTTATTTGTTACAAAAATTATGTATCCTACCTT
TCCTTTCCCATACACTGCATAATATACCCCACACGGGCCTTTATCATTAAAATTTTTACTATGCC
Found at i:19704168 original size:375 final size:376
Alignment explanation
Indices: 19703472--19704193 Score: 889
Period size: 375 Copynumber: 1.9 Consensus size: 376
19703462 CTCTACGTAA
* * **
19703472 AAAAAAAATGTTCATCAATTTCTCATACCTTCACCATTTAATCACTACGAATGGTAGTCAATAAA
1 AAAAAAAATGTTCACCAATTTCTCATACATTCACCATTTAATCACTACGAACAGTAGTCAATAAA
* *
19703537 TAAACATATAGTAATAACAACGAACAAAAAGTGAAACATAAAAAAAAGTAGGGCGCAACACGAGG
66 TAAACATATAGTAATAACAACGAACAAAAAGTGAAACATAAAAAAAACTAGGGCGCAACACGAAG
** * * * *
19703602 ACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTG
131 ACTTCCCAAAAGGTCACCCATCCTAATACTACTCTCGCCCAAACACGATTAACTACGGAGTTCTG
** * * ** * *
19703667 ATGGGATCCGGTGCTTTAGTGCTGGTATGATCGCACCCGTCACTTCTTGCGCAAATTATGTATCC
196 ATGGGATCCAATGCTTTAGTGCTGATATGACCGCACCCAACACTTATTCCGCAAATTATGTATCC
* * * * *
19703732 GACCCTTCCTTTCCTGTATGCTACTCAATATATCCCATATGGGCCATCATCCCTTAAATTTTCGC
261 AACCATTCCTTTCCTGTATGCTACTCAATATATCACATATGAGCCATCATCCCTGAAATTTTCGC
*
19703797 TATG-CTAAAAAAAAGGTTGATCGACTTCGTCTTTGGAATTTTTGCTATGCT
326 TATGAC-AAAAAAAAGCTTGATCGACTTCGTCTTTGGAATTTTTGCTATGCT
* * * * *
19703848 AAAAAAAA-GTTGACCAATTTCTCATGCATTCAACGA-TTAATCACTACGAACAGTAGTTAATGA
1 AAAAAAAATGTTCACCAATTTCTCATACATTC-ACCATTTAATCACTACGAACAGTAGTCAATAA
* * * * * * *
19703911 ATAAACATATAGTAATAACGATGAATGAAAAA-TGCAAA-ATAAAAAAATCTAGGGTGTAACATG
65 ATAAACATATAGTAATAACAACGAA-CAAAAAGTG-AAACATAAAAAAAACTAGGGCGCAACACG
** * * *
19703974 AAGACTTCTTAAAAGGTCACCCATCCTAATACTACTCTCGTCCAAACACGATTAATTATGGAGTT
128 AAGACTTCCCAAAAGGTCACCCATCCTAATACTACTCTCGCCCAAACACGATTAACTACGGAGTT
* *
19704039 CTGATGGGATCCAATGCTTTAGTGCTTATATGACCGCACCCAACACTTATTCCGCTAATTATGTA
193 CTGATGGGATCCAATGCTTTAGTGCTGATATGACCGCACCCAACACTTATTCCGCAAATTATGTA
* * * * * *
19704104 TCTAACTATTCCTTTCTTGTATGCTGCTCGATATATCACATGTGAGCC-TCCATCCCTGAAATTT
258 TCCAACCATTCCTTTCCTGTATGCTACTCAATATATCACATATGAGCCAT-CATCCCTGAAATTT
*
19704168 TCGCTATGACAAAAAAATGCTTGATC
322 TCGCTATGACAAAAAAAAGCTTGATC
19704194 AATTCTCATG
Statistics
Matches: 289, Mismatches: 52, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
374 1 0.00
375 268 0.93
376 20 0.07
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (376 bp):
AAAAAAAATGTTCACCAATTTCTCATACATTCACCATTTAATCACTACGAACAGTAGTCAATAAA
TAAACATATAGTAATAACAACGAACAAAAAGTGAAACATAAAAAAAACTAGGGCGCAACACGAAG
ACTTCCCAAAAGGTCACCCATCCTAATACTACTCTCGCCCAAACACGATTAACTACGGAGTTCTG
ATGGGATCCAATGCTTTAGTGCTGATATGACCGCACCCAACACTTATTCCGCAAATTATGTATCC
AACCATTCCTTTCCTGTATGCTACTCAATATATCACATATGAGCCATCATCCCTGAAATTTTCGC
TATGACAAAAAAAAGCTTGATCGACTTCGTCTTTGGAATTTTTGCTATGCT
Found at i:19705610 original size:330 final size:324
Alignment explanation
Indices: 19703833--19705623 Score: 1103
Period size: 331 Copynumber: 5.4 Consensus size: 324
19703823 TCGTCTTTGG
* * * * *
19703833 AATTTTTGCTATGCTAAAAAAAAGTTGACCAATTTCTCATGCATTCAACGATTAATCACTACGAA
1 AATTTTTGCTATGCCAAAAAAAAGTTGATCAATTTTTCATGCCTTCACCGATTAATCACTACGAA
* * * * *
19703898 CAGTAGTTAATGAATAAACATATAGTAATAACGATGAATGAAAAATGC--AAAAT-AAAAAAATC
66 TAGTAGTCAACGAATAAACATATAGTAATAACGATGAACG-AAAA-GCAAAAAATAAAAAAAATG
* * * * * * *
19703960 T-AGGGTGTAACATGAAG-ACTTCTTAAAAGGTCACCCATCCTAATACTACTCTCGTCCAAACAC
129 TGA-GGTGCAACA-CAAGAACTTCCTAAAAAGTCA-CCATCCTAATACTACTCTCATCTAAGCAC
* * * * * * ** ** ** * * **
19704023 GATTAATTATGGAGTTCTGATGGGATCCAATGCTTTAGTGCTTATATGACCGCACCC-AACACTT
191 -CTTAACTACGAAGTTTTAATGAAATCTGATGCTTTAGTGCTGGTATGATCAC-CCCTGTCA-TT
* * ** * ** * * ****
19704087 ATTCCG-CTAATTATGTAT-CTAACTATTCCTTTCTTGTATGCTGCTCGATATATCACATGTGAG
253 GTT--GACAAATTATGTATCCT-ACCCTT-CTTT-TTATAAACTGCTCAATATATCCCACACAAG
*
19704150 CCTCCATC-CCTGA
313 TC-CCATCTCC-GA
* * * * * * *
19704163 AATTTTCGCTATGACAAAAAAATGCTTGATCAA-TTCTCATGCCTTCACCAATTAATTACTACAA
1 AATTTTTGCTATGCCAAAAAAAAG-TTGATCAATTTTTCATGCCTTCACCGATTAATCACTACGA
* * * * *
19704227 ATGGTAATTAACAAATAAACATATAGTAATAACAATGAACGAAAAGCAAAAAATAAAAAAAATGT
65 ATAGTAGTCAACGAATAAACATATAGTAATAACGATGAACGAAAAGCAAAAAATAAAAAAAATGT
* ** * * * * * ** * *
19704292 GGGGTGCAACAGGAGAACTTCCCAAAAAGTTATCCATCCTAATATTATTTTTGTCCAAGCATGCT
130 GAGGTGCAACACAAGAACTTCCTAAAAAGTCA-CCATCCTAATACTACTCTCATCTAAGCA-CCT
* * * * * *
19704357 TAACTACGAAATTTTAAT-AGGATC-CAGTGTTTTAATGCTGGTATGATTGCACCCATCTTTCAT
193 TAACTACGAAGTTTTAATGA-AATCTGA-TGCTTTAGTGCTGGTATGA-T-CACCC--CTGTCAT
* * *** * * * *** * * * **
19704420 TG--CATAAATTATGTATTAGATCTTTCTTTTCTTGTATGTTGCTCGATCTATCCCATAC--GGG
252 TGTTGACAAATTATGTATCCTACCCTTC-TTT-TTATAAACTGCTCAATATATCCCACACAAGTC
*
19704481 CCATCATCCCCA
315 CCATC-T-CCGA
* * * * * * *
19704493 GAATTTTCGTTACGTCAAAAAAAAAGTTGATCAAATTTTCGTGCCTTCACCGATTAATTACTAC-
1 -AATTTTTGCTATG-CCAAAAAAAAGTTGATCAATTTTTCATGCCTTCACCGATTAATCACTACG
* * *
19704557 AACCTA-TAGTTAACGAATAAACATATACTAATAACGATGAACG--AAGCGAAAAATAAAAAAAA
64 AA--TAGTAGTCAACGAATAAACATATAGTAATAACGATGAACGAAAAGCAAAAAAT-AAAAAAA
* * * * * *
19704619 ATGTGGGGTGCAACACAA-AGACTTTC-AAGAAAGTCACCCATCTTAATACTACTTTCGTCCAAG
126 ATGTGAGGTGCAACACAAGA-ACTTCCTAA-AAAGTCA-CCATCCTAATACTACTCTCATCTAAG
* * ** * * *
19704682 CATGCTTAACTACAAAGTTTTAATGGGATCTGGTGCTTTAGTGCTGGTATGATTACACCC-ATCA
188 CA-CCTTAACTACGAAGTTTTAATGAAATCTGATGCTTTAGTGCTGGTATGATCAC-CCCTGTCA
* *
19704746 TTTGTTGAGCAAATTATGTATCCTACCCTT-TTTTTACCACACACTGCTCAATATATCCCATACA
251 -TTGTTGA-CAAATTATGTATCCTACCCTTCTTTTTA-TA-A-ACTGCTCAATATATCCCACACA
*
19704810 AGTCTCTATCTCCGA
311 AGTC-CCATCTCCGA
* ** * * * *
19704825 AATTTTTGCTATGCC-AAAAAAAGTTTTGATTAATTTTTTGTGCTTTCATCGAGTAATCACTATG
1 AATTTTTGCTATGCCAAAAAAAAG--TTGATCAATTTTTCATGCCTTCACCGATTAATCACTACG
* *
19704889 AATGGTAGTCAACGAATAAACATATAGTAATAAC-AGTGAACGAGAAGCAAAAAAT-AAAAAAAT
64 AATAGTAGTCAACGAATAAACATATAGTAATAACGA-TGAACGAAAAGCAAAAAATAAAAAAAAT
* * * * *
19704952 GTGAGGTGCAACACAAGGACTTCCTAAGAGGTCACCATTCCTAATACTACTCTTATCTAAGCACG
128 GTGAGGTGCAACACAAGAACTTCCTAAAAAGTCACCA-TCCTAATACTACTCTCATCTAAGCACC
* * * * * * * * *
19705017 TTAACGACGGAGTTCTAAT-AAGATCTGATGCTTTAATGTTGGTCTAATCACACATGTCACTTGT
192 TTAACTACGAAGTTTTAATGAA-ATCTGATGCTTTAGTGCTGGTATGATCACCCCTGTCA-TTGT
* * * *** ** **
19705081 TGCACAAATTATGTATTCGACCCTTGCTTTCTCATATGTTGCTTGATATATCCCACACGGGTTCC
255 TG-ACAAATTATGTATCCTACCCTT-CTTT-TTATAAACTGCTCAATATATCCCACACAAG-TCC
19705146 CATC-CTCGA
316 CATCTC-CGA
* * * * **
19705155 AATTTCTGCTA-CCCAAAAAAAAGTTGATCAATTTTTCATGCCTTCATCGATTAATCATTGTGAA
1 AATTTTTGCTATGCCAAAAAAAAGTTGATCAATTTTTCATGCCTTCACCGATTAATCACTACGAA
* *
19705219 T-GGAGTCAACGAATAAACATATAGTAATAATGATGAACGAAAAGCAAAAAATAAAAAAAAATGT
66 TAGTAGTCAACGAATAAACATATAGTAATAACGATGAACGAAAAGCAAAAAAT-AAAAAAAATGT
* * * *
19705283 GAAGTGCAACACAAGAACTTCCTAATAAGTCACTCATCGTAATACTACTCTCA-CTTAAGCACAT
130 GAGGTGCAACACAAGAACTTCCTAAAAAGTCAC-CATCCTAATACTACTCTCATC-TAAGCAC-C
* * *
19705347 TTAACTATGAAGTTTTGATGAAATCTGATGCTTTAGTGCTGGTATGATGACCCCTGTCATATGTT
192 TTAACTACGAAGTTTTAATGAAATCTGATGCTTTAGTGCTGGTATGATCACCCCTGTCAT-TGTT
* * * *
19705412 GTACAAATTATATATCCTACCCTTCCCTTTTTGTAAACTGCTCAATATATCCTACGCAAGCTCCC
256 G-ACAAATTATGTATCCTACCCTT--CTTTTTATAAACTGCTCAATATATCCCACACAAG-TCCC
*
19705477 GTCTCCGA
317 ATCTCCGA
* * * * *
19705485 AATTTTTACAATGCCAAAAAAAGGTTGATCAATTTCTCATGCCTTCACCAATTAATCACTACGAA
1 AATTTTTGCTATGCCAAAAAAAAGTTGATCAATTTTTCATGCCTTCACCGATTAATCACTACGAA
* * * ***
19705550 TAGTAGTCAACGAATAAATATATAGTAATAACGACGAACAAAAAATGAAAAAT-AAAAAAAT-TG
66 TAGTAGTCAACGAATAAACATATAGTAATAACGATGAACGAAAAGCAAAAAATAAAAAAAATGTG
19705613 AGGGTGCAACA
131 A-GGTGCAACA
19705624 TGATGACTTC
Statistics
Matches: 1146, Mismatches: 242, Indels: 146
0.75 0.16 0.10
Matches are distributed among these distances:
327 49 0.04
328 50 0.04
329 88 0.08
330 344 0.30
331 466 0.41
332 123 0.11
333 17 0.01
334 7 0.01
335 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (324 bp):
AATTTTTGCTATGCCAAAAAAAAGTTGATCAATTTTTCATGCCTTCACCGATTAATCACTACGAA
TAGTAGTCAACGAATAAACATATAGTAATAACGATGAACGAAAAGCAAAAAATAAAAAAAATGTG
AGGTGCAACACAAGAACTTCCTAAAAAGTCACCATCCTAATACTACTCTCATCTAAGCACCTTAA
CTACGAAGTTTTAATGAAATCTGATGCTTTAGTGCTGGTATGATCACCCCTGTCATTGTTGACAA
ATTATGTATCCTACCCTTCTTTTTATAAACTGCTCAATATATCCCACACAAGTCCCATCTCCGA
Found at i:19706132 original size:21 final size:21
Alignment explanation
Indices: 19706106--19706152 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
19706096 AAATTATTCT
19706106 AGTATGATCTCACCCATCAAG
1 AGTATGATCTCACCCATCAAG
*
19706127 AGTATGATCTCACCTATCAAG
1 AGTATGATCTCACCCATCAAG
19706148 AGTAT
1 AGTAT
19706153 TTGTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (21 bp):
AGTATGATCTCACCCATCAAG
Found at i:19707856 original size:7 final size:7
Alignment explanation
Indices: 19707844--19707903 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
19707834 ATTTTTTTTA
19707844 TATATTT
1 TATATTT
19707851 TATATTT
1 TATATTT
* *
19707858 AATA-AT
1 TATATTT
19707864 TA-ATTT
1 TATATTT
*
19707870 AATAATTTTT
1 TAT-A-TT-T
19707880 TATATTT
1 TATATTT
19707887 TATATTT
1 TATATTT
19707894 TATATTT
1 TATATTT
19707901 TAT
1 TAT
19707904 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
5 1 0.02
6 4 0.10
7 28 0.67
8 3 0.07
9 3 0.07
10 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
TATATTT
Found at i:19707908 original size:16 final size:16
Alignment explanation
Indices: 19707877--19707923 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
19707867 TTTAATAATT
19707877 TTTTATATTTTA--TA
1 TTTTATATTTTATTTA
19707891 TTTTATATTTTATTTA
1 TTTTATATTTTATTTA
* *
19707907 TTTAAAATTTTCATTTA
1 TTTTATATTTT-ATTTA
19707924 ATAACATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.43
16 11 0.39
17 5 0.18
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATATTTTATTTA
Found at i:19707994 original size:17 final size:17
Alignment explanation
Indices: 19707972--19708005 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19707962 ACATTTCTCA
19707972 GACCTTTTATCATTCTT
1 GACCTTTTATCATTCTT
19707989 GACCTTTTATCATTCTT
1 GACCTTTTATCATTCTT
19708006 TGGAATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.53
Consensus pattern (17 bp):
GACCTTTTATCATTCTT
Found at i:19708169 original size:19 final size:19
Alignment explanation
Indices: 19708145--19708182 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19708135 CAAATCCAAA
19708145 TTAAAAAAATAAAATATCT
1 TTAAAAAAATAAAATATCT
*
19708164 TTAAAAAAATTAAATATCT
1 TTAAAAAAATAAAATATCT
19708183 ACATATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAAAAATAAAATATCT
Found at i:19721019 original size:2 final size:2
Alignment explanation
Indices: 19721012--19721058 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
19721002 CTTATATGTG
19721012 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19721054 TA TA T
1 TA TA T
19721059 CCCGGAATGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19724545 original size:16 final size:16
Alignment explanation
Indices: 19724524--19724554 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19724514 AGATTAATTT
19724524 TTTAAAAATAATTAAA
1 TTTAAAAATAATTAAA
*
19724540 TTTAAAAATTATTAA
1 TTTAAAAATAATTAA
19724555 TGAATTATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAAAATAATTAAA
Found at i:19725545 original size:2 final size:2
Alignment explanation
Indices: 19725538--19725570 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19725528 AGCTCAAGAC
19725538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19725571 GTAAAAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19727081 original size:31 final size:31
Alignment explanation
Indices: 19727046--19727108 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
19727036 CAATACTTAC
19727046 AATCATTTCTTCTATTCCCAGATCCATTGTA
1 AATCATTTCTTCTATTCCCAGATCCATTGTA
19727077 AATCATTTCTTCTATTCCCAGATCCATTGTA
1 AATCATTTCTTCTATTCCCAGATCCATTGTA
19727108 A
1 A
19727109 TAATCAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.41
Consensus pattern (31 bp):
AATCATTTCTTCTATTCCCAGATCCATTGTA
Found at i:19749304 original size:13 final size:13
Alignment explanation
Indices: 19749286--19749311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19749276 TTGGTAACTG
19749286 AGAATTGCATTAC
1 AGAATTGCATTAC
19749299 AGAATTGCATTAC
1 AGAATTGCATTAC
19749312 TTCTCTAATA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
AGAATTGCATTAC
Found at i:19753082 original size:4 final size:4
Alignment explanation
Indices: 19753073--19753107 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
19753063 TATATGCTAT
* *
19753073 ATAC ATAC ATGC ATAC ATAT ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
19753108 TATATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:19753093 original size:20 final size:20
Alignment explanation
Indices: 19753070--19753115 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
19753060 CACTATATGC
*
19753070 TATATACATACATGCATACA
1 TATATACATACATACATACA
*
19753090 TATATACATACATACATATA
1 TATATACATACATACATACA
19753110 TATATA
1 TATATA
19753116 TATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (20 bp):
TATATACATACATACATACA
Found at i:19753094 original size:2 final size:2
Alignment explanation
Indices: 19753089--19753128 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
19753079 ACATGCATAC
* * *
19753089 AT AT AT AC AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19753129 CAGTTACAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:19753096 original size:16 final size:16
Alignment explanation
Indices: 19753077--19753127 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
19753067 TGCTATATAC
*
19753077 ATACATGCATACATAT
1 ATACATACATACATAT
19753093 ATACATACATACATAT
1 ATACATACATACATAT
* * *
19753109 ATATATATATATATAT
1 ATACATACATACATAT
19753125 ATA
1 ATA
19753128 TCAGTTACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (16 bp):
ATACATACATACATAT
Found at i:19758092 original size:11 final size:11
Alignment explanation
Indices: 19758044--19758129 Score: 56
Period size: 10 Copynumber: 7.8 Consensus size: 11
19758034 TGAATATTAA
*
19758044 ATAAATATATTT
1 ATAAATA-AATT
*
19758056 ATAAAT-AATA
1 ATAAATAAATT
19758066 ATAAATTATAA-T
1 ATAAA-TA-AATT
19758078 -TAAATAAATT
1 ATAAATAAATT
*
19758088 ATAAAT-AAGT
1 ATAAATAAATT
19758098 ATAAATAAATT
1 ATAAATAAATT
*
19758109 TTAAAATAAAATT
1 AT-AAAT-AAATT
19758122 A-AAATAAA
1 ATAAATAAA
19758130 AAATAAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
9 2 0.03
10 22 0.37
11 18 0.31
12 10 0.17
13 7 0.12
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (11 bp):
ATAAATAAATT
Found at i:19759324 original size:14 final size:15
Alignment explanation
Indices: 19759299--19759327 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19759289 CCCTTAATTG
19759299 TAAACAAAAAGTTGA
1 TAAACAAAAAGTTGA
19759314 TAAAC-AAAAGTTGA
1 TAAACAAAAAGTTGA
19759328 AGGACATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (15 bp):
TAAACAAAAAGTTGA
Found at i:19759607 original size:19 final size:19
Alignment explanation
Indices: 19759576--19759626 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
19759566 TAATATAAAA
19759576 TTTTC-ATTA-AACTTTATCT
1 TTTTCAATTATAACTTT-T-T
19759595 TTTT-AATT-TAACTTTTT
1 TTTTCAATTATAACTTTTT
19759612 TTTTCAATTATAACT
1 TTTTCAATTATAACT
19759627 ATAATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 5 0.18
18 5 0.18
19 18 0.64
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTCAATTATAACTTTTT
Found at i:19763005 original size:21 final size:21
Alignment explanation
Indices: 19762980--19763019 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19762970 TATTTGATAG
19762980 TTAAAAATGAAAA-TAAAATTT
1 TTAAAAAT-AAAAGTAAAATTT
*
19763001 TTAAAGATAAAAGTAAAAT
1 TTAAAAATAAAAGTAAAAT
19763020 AGATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
TTAAAAATAAAAGTAAAATTT
Found at i:19763797 original size:24 final size:23
Alignment explanation
Indices: 19763764--19763833 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 23
19763754 TAAATATGAA
*
19763764 ATATATTTTTTATTTTTTAAATAT
1 ATATAATTTTTATTTTTTAAAT-T
19763788 ATATAATTTTTATTAAAATTTTAAATT
1 ATATAATTTTTATT----TTTTAAATT
*
19763815 ATATTATTTTTATATTTTT
1 ATATAATTTTTAT-TTTTT
19763834 TACTTGTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
24 17 0.44
27 13 0.33
28 9 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATAATTTTTATTTTTTAAATT
Found at i:19766030 original size:66 final size:66
Alignment explanation
Indices: 19765948--19766073 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 66
19765938 TTAATTAGGG
*
19765948 TTTTATAAATCCCAAATTGTTTTCATTCAAGT-GGGGTTTAGGGTTTTAGAATTCAAGCTTCGTG
1 TTTTATAAATCCCAAATTATTTTCATTC-AGTAGGGGTTTAGGGTTTTAGAATTCAAGCTTCGTG
19766012 CT
65 CT
* **
19766014 TTTTATAAATTCCAAATTATTTTCATTCCTTAGGGGTTTAGGGTTTTAGAATTCAAGCTT
1 TTTTATAAATCCCAAATTATTTTCATTCAGTAGGGGTTTAGGGTTTTAGAATTCAAGCTT
19766074 TTGCCTTTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 1 0.02
66 54 0.98
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (66 bp):
TTTTATAAATCCCAAATTATTTTCATTCAGTAGGGGTTTAGGGTTTTAGAATTCAAGCTTCGTGC
T
Found at i:19767347 original size:22 final size:22
Alignment explanation
Indices: 19767320--19767363 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19767310 TTTTTTGTCC
*
19767320 TTAATTCTAGGGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
*
19767342 TTAATTTTAGAGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
19767364 AAATATACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAT
Found at i:19771666 original size:21 final size:22
Alignment explanation
Indices: 19771627--19771667 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19771617 ATTTTTTGTC
*
19771627 CTTAATTCTAGGGATACAAAAA
1 CTTAATTCTAGGAATACAAAAA
19771649 CTTAATTCTA-GAATACAAA
1 CTTAATTCTAGGAATACAAA
19771668 TATAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (22 bp):
CTTAATTCTAGGAATACAAAAA
Found at i:19779640 original size:2 final size:2
Alignment explanation
Indices: 19779633--19779669 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
19779623 TATGAAAATG
19779633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19779670 TCAACTGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19789261 original size:2 final size:2
Alignment explanation
Indices: 19789256--19789287 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
19789246 GTGTGTGTGT
*
19789256 GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
19789288 CGGACGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19792380 original size:34 final size:33
Alignment explanation
Indices: 19792337--19792401 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
19792327 TACTCAAGAC
*
19792337 TTTTTGAAAATAGATATTTAAAAAATTTTGAGT
1 TTTTTGAAAATAAATATTTAAAAAATTTTGAGT
*
19792370 TTTTTCGAAAATAAATATTTTAAAAATTTTGA
1 TTTTT-GAAAATAAATATTTAAAAAATTTTGA
19792402 AAAATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 5 0.17
34 24 0.83
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (33 bp):
TTTTTGAAAATAAATATTTAAAAAATTTTGAGT
Found at i:19792419 original size:24 final size:25
Alignment explanation
Indices: 19792377--19792428 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
19792367 AGTTTTTTCG
*
19792377 AAAATAAATATTTTAAAAATTTTGA
1 AAAATAAATATTCTAAAAATTTTGA
* *
19792402 AAAATAAATA-TCTGAAAATTTTTA
1 AAAATAAATATTCTAAAAATTTTGA
19792426 AAA
1 AAA
19792429 TTTTTTGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (25 bp):
AAAATAAATATTCTAAAAATTTTGA
Found at i:19797769 original size:15 final size:15
Alignment explanation
Indices: 19797749--19797794 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
19797739 ATTTTTAAAT
19797749 ATAAATATAAAATAA
1 ATAAATATAAAATAA
*
19797764 ATAAATA-ATAA-AA
1 ATAAATATAAAATAA
*
19797777 ATATATATAAAATCAA
1 ATAAATATAAAAT-AA
19797793 AT
1 AT
19797795 TAAGATCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 8 0.32
14 6 0.24
15 7 0.28
16 4 0.16
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAATATAAAATAA
Found at i:19799602 original size:2 final size:2
Alignment explanation
Indices: 19799590--19799619 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19799580 AAGATAGACT
*
19799590 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19799620 ATCAAAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:19802076 original size:12 final size:12
Alignment explanation
Indices: 19802053--19802097 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
19802043 ATCATATAAA
19802053 ATATTATA-TTT
1 ATATTATATTTT
19802064 ATATTATATTTT
1 ATATTATATTTT
* *
19802076 ATATTATAATTA
1 ATATTATATTTT
19802088 ATATTGATAT
1 ATATT-ATAT
19802098 AAAAATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 8 0.28
12 18 0.62
13 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
ATATTATATTTT
Found at i:19802087 original size:18 final size:19
Alignment explanation
Indices: 19802056--19802092 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
19802046 ATATAAAATA
19802056 TTATATTTATATT-ATATT
1 TTATATTTATATTAATATT
19802074 TTATA-TTATAATTAATATT
1 TTATATTTAT-ATTAATATT
19802093 GATATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATATTTATATTAATATT
Found at i:19802352 original size:25 final size:25
Alignment explanation
Indices: 19802323--19802396 Score: 121
Period size: 25 Copynumber: 3.0 Consensus size: 25
19802313 CCGTGCATTA
19802323 GTTGTCTTGATGTTGGCTTTGCATG
1 GTTGTCTTGATGTTGGCTTTGCATG
* *
19802348 GTTGTCCTGATGTTGGTTTTGCATG
1 GTTGTCTTGATGTTGGCTTTGCATG
*
19802373 GTTGTCTTGATGTTGTCTTTGCAT
1 GTTGTCTTGATGTTGGCTTTGCAT
19802397 TATTAACAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.08, C:0.12, G:0.30, T:0.50
Consensus pattern (25 bp):
GTTGTCTTGATGTTGGCTTTGCATG
Found at i:19802389 original size:11 final size:11
Alignment explanation
Indices: 19802323--19802391 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 11
19802313 CCGTGCATTA
19802323 GTTGTCTTGAT
1 GTTGTCTTGAT
*
19802334 GTTGGCTTTGCAT
1 GTTGTC-TTG-AT
*
19802347 GGTTGTCCTGAT
1 -GTTGTCTTGAT
*
19802359 GTTGGTTTTGCAT
1 GTT-GTCTTG-AT
19802372 GGTTGTCTTGAT
1 -GTTGTCTTGAT
19802384 GTTGTCTT
1 GTTGTCTT
19802392 TGCATTATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
11 16 0.35
12 11 0.24
13 11 0.24
14 8 0.17
ACGTcount: A:0.07, C:0.12, G:0.30, T:0.51
Consensus pattern (11 bp):
GTTGTCTTGAT
Found at i:19803331 original size:22 final size:23
Alignment explanation
Indices: 19803296--19803347 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
19803286 CTTGAAATTA
* *
19803296 ATAAA-ATATTATTTTTTAA-AT
1 ATAAATATATAATTTTATAATAT
19803317 ATAAATATATAATTTTATAATTAT
1 ATAAATATATAATTTTATAA-TAT
19803341 ATAAATA
1 ATAAATA
19803348 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.19
22 12 0.46
24 9 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAATATATAATTTTATAATAT
Found at i:19803927 original size:3 final size:3
Alignment explanation
Indices: 19803919--19803952 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
19803909 ATAATACTAG
19803919 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19803953 TCAACAATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19806484 original size:30 final size:31
Alignment explanation
Indices: 19806431--19806490 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 31
19806421 AGAGTGGTTT
19806431 GGATCTTGAAATTCATGAGACAAATTAACGTAA
1 GGATCTTGAAATTCA--AGACAAATTAACGTAA
19806464 GGATCTTGAAATTC-AGACAAATTAACG
1 GGATCTTGAAATTCAAGACAAATTAACG
19806491 GAAGTAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 13 0.48
33 14 0.52
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (31 bp):
GGATCTTGAAATTCAAGACAAATTAACGTAA
Found at i:19806883 original size:24 final size:24
Alignment explanation
Indices: 19806856--19806922 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 24
19806846 TCTTTAATTT
19806856 CTATCAATGATTTTAATTTTATTA
1 CTATCAATGATTTTAATTTTATTA
19806880 C--T--ATGATTTCTAATTTTATTA
1 CTATCAATGATTT-TAATTTTATTA
* * * *
19806901 GTATCATTGTTTTTAATCTTAT
1 CTATCAATGATTTTAATTTTAT
19806923 CAAAATCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
20 7 0.21
21 11 0.32
22 1 0.03
23 1 0.03
24 9 0.26
25 5 0.15
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (24 bp):
CTATCAATGATTTTAATTTTATTA
Found at i:19806887 original size:20 final size:21
Alignment explanation
Indices: 19806862--19806900 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19806852 ATTTCTATCA
19806862 ATGATTT-TAATTTTATTACT
1 ATGATTTCTAATTTTATTACT
19806882 ATGATTTCTAATTTTATTA
1 ATGATTTCTAATTTTATTA
19806901 GTATCATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
ATGATTTCTAATTTTATTACT
Found at i:19808181 original size:14 final size:15
Alignment explanation
Indices: 19808157--19808344 Score: 67
Period size: 14 Copynumber: 12.9 Consensus size: 15
19808147 TTAAAAATTT
*
19808157 AGATCTTTAGGTTTTG
1 AGAT-TTTAGGGTTTG
19808173 -GATTTTAGGGTTTG
1 AGATTTTAGGGTTTG
* *
19808187 AGATTTT-GGATTTT
1 AGATTTTAGGGTTTG
** *
19808201 A-AGGTTAGGGTTTC
1 AGATTTTAGGGTTTG
* **
19808215 A-AGTTTCAGATTTTG
1 AGA-TTTTAGGGTTTG
* *
19808230 GGA-TTTA-GGTTTT
1 AGATTTTAGGGTTTG
*
19808243 TGATTTTAGGGTTTG
1 AGATTTTAGGGTTTG
*
19808258 AGA-TTTGGGGTTTG
1 AGATTTTAGGGTTTG
* * *
19808272 AGGTTTTAAGTTTTG
1 AGATTTTAGGGTTTG
19808287 -G-TTTTAGGGTTTAG
1 AGATTTTAGGGTTT-G
*
19808301 AAGA-TTTAAGGTTT-
1 -AGATTTTAGGGTTTG
* *
19808315 TGCTTTTAGGGTTTTG
1 AGATTTTAGGG-TTTG
19808331 ATG-TTTTAGGGTTT
1 A-GATTTTAGGGTTT
19808345 AAAGAAAACG
Statistics
Matches: 124, Mismatches: 33, Indels: 31
0.66 0.18 0.16
Matches are distributed among these distances:
13 18 0.15
14 50 0.40
15 36 0.29
16 19 0.15
17 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (15 bp):
AGATTTTAGGGTTTG
Found at i:19808344 original size:30 final size:29
Alignment explanation
Indices: 19808268--19808340 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 29
19808258 AGATTTGGGG
* * *
19808268 TTTGAGGTTTTAAGTTTTGGTTTTAGGGT
1 TTTGAAGTTTTAGGTTTTGCTTTTAGGGT
* *
19808297 TTAGAAGATTTAAGGTTTTGCTTTTAGGGT
1 TTTGAAG-TTTTAGGTTTTGCTTTTAGGGT
*
19808327 TTTGATGTTTTAGG
1 TTTGAAGTTTTAGG
19808341 GTTTAAAGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.18, C:0.01, G:0.29, T:0.52
Consensus pattern (29 bp):
TTTGAAGTTTTAGGTTTTGCTTTTAGGGT
Found at i:19808463 original size:3 final size:3
Alignment explanation
Indices: 19808455--19808511 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
19808445 ATGAAAGTTC
19808455 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19808503 ATT ATT ATT
1 ATT ATT ATT
19808512 CTCATCATCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19808679 original size:9 final size:9
Alignment explanation
Indices: 19808665--19808703 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
19808655 TATTCAATTA
19808665 TTATTATTT
1 TTATTATTT
19808674 TTATTATTT
1 TTATTATTT
*
19808683 TTAGATTATTA
1 TT--ATTATTT
19808694 TTATTATTT
1 TTATTATTT
19808703 T
1 T
19808704 AGCATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
TTATTATTT
Found at i:19808718 original size:20 final size:19
Alignment explanation
Indices: 19808675--19808723 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
19808665 TTATTATTTT
*
19808675 TATTATTTTTAGATTATTAT
1 TATTA-TTTTAGATTATTAG
*
19808695 TATTATTTTAGCATTTTTAG
1 TATTATTTTAG-ATTATTAG
*
19808715 TATTGTTTT
1 TATTATTTT
19808724 TTTAGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.65
Consensus pattern (19 bp):
TATTATTTTAGATTATTAG
Found at i:19808832 original size:17 final size:16
Alignment explanation
Indices: 19808812--19808857 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
19808802 TATCATGCAT
*
19808812 AAATATTAAAAATAAAA
1 AAATAATAAAAA-AAAA
*
19808829 AAATAATAATAAAAAA
1 AAATAATAAAAAAAAA
19808845 AAAT--TAAAAAAAA
1 AAATAATAAAAAAAA
19808858 CCTGAATCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 8 0.31
16 8 0.31
17 10 0.38
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAATAAAAAAAAA
Found at i:19809940 original size:14 final size:14
Alignment explanation
Indices: 19809921--19809947 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19809911 TGTCATTTTT
19809921 TTATTTTTTTTAAA
1 TTATTTTTTTTAAA
19809935 TTATTTTTTTTAA
1 TTATTTTTTTTAA
19809948 TTTTAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTTTTTAAA
Found at i:19810812 original size:110 final size:110
Alignment explanation
Indices: 19810629--19810844 Score: 276
Period size: 110 Copynumber: 2.0 Consensus size: 110
19810619 ATTATACCCG
* *
19810629 GAGGTCTTAAAAATCATGTCCGAAGATCTTACAGAATCGACTGAGATAACACTGCAAGTCAAAAA
1 GAGGTATTAAAAATCATGTCCGAAGATCTTACAGAATCGACCGAGATAACACTGCAAGTCAAAAA
* *
19810694 ATTAAAAATTAATCGAGATAACATCGCGAATCAAAATTATGCCTA
66 ATTAAAAATCAATCGAGACAACATCGCGAATCAAAATTATGCCTA
* * * *
19810739 GAGGTATTAGAAATCATGTCC-AGAGGTCTTACTA-AATCGACCGGGATAACA-TAGTAAGTCAA
1 GAGGTATTAAAAATCATGTCCGA-AGATCTTAC-AGAATCGACCGAGATAACACT-GCAAGTCAA
* * * *
19810801 AAAATTAAAAATCGATCGGGACAACATTGCGAATCGAAATTATG
63 AAAATTAAAAATCAATCGAGACAACATCGCGAATCAAAATTATG
19810845 TCCGAAGCTC
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
109 2 0.02
110 88 0.97
111 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (110 bp):
GAGGTATTAAAAATCATGTCCGAAGATCTTACAGAATCGACCGAGATAACACTGCAAGTCAAAAA
ATTAAAAATCAATCGAGACAACATCGCGAATCAAAATTATGCCTA
Found at i:19810871 original size:22 final size:22
Alignment explanation
Indices: 19810839--19810881 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19810829 GCGAATCGAA
*
19810839 ATTATGTCCGAAGCTCTTAAAG
1 ATTATGCCCGAAGCTCTTAAAG
*
19810861 ATTATGCCCGAAGGTCTTAAA
1 ATTATGCCCGAAGCTCTTAAA
19810882 AATCACGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (22 bp):
ATTATGCCCGAAGCTCTTAAAG
Found at i:19810876 original size:110 final size:109
Alignment explanation
Indices: 19810633--19810879 Score: 268
Period size: 110 Copynumber: 2.2 Consensus size: 109
19810623 TACCCGGAGG
* *
19810633 TCTTAAAAATCATGTCCGAAGATCTTACAGAATCGACTGAGATAACACTGCAAGTCAAAAAATTA
1 TCTT-AAAATCATGTCCGAAGGTCTTACAGAATCGACCGAGATAACACTGCAAGTCAAAAAATTA
* * * *
19810698 AAAATTAATCGAGATAACATCGCGAATCAAAATTATGCCTAGAGG
65 AAAATCAATCGAGACAACATCGCGAATCAAAATTATGCCGAGAGC
* * *
19810743 TATTAGAAATCATGTCC-AGAGGTCTTACTA-AATCGACCGGGATAACA-TAGTAAGTCAAAAAA
1 TCTTA-AAATCATGTCCGA-AGGTCTTAC-AGAATCGACCGAGATAACACT-GCAAGTCAAAAAA
* * * *
19810805 TTAAAAATCGATCGGGACAACATTGCGAATCGAAATTATGTCCGA-AGC
62 TTAAAAATCAATCGAGACAACATCGCGAATCAAAATTATG-CCGAGAGC
* *
19810853 TCTTAAAGATTATGCCCGAAGGTCTTA
1 TCTTAAA-ATCATGTCCGAAGGTCTTA
19810880 AAAATCACGT
Statistics
Matches: 114, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
109 5 0.04
110 104 0.91
111 5 0.04
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (109 bp):
TCTTAAAATCATGTCCGAAGGTCTTACAGAATCGACCGAGATAACACTGCAAGTCAAAAAATTAA
AAATCAATCGAGACAACATCGCGAATCAAAATTATGCCGAGAGC
Found at i:19810893 original size:22 final size:22
Alignment explanation
Indices: 19810844--19810901 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
19810834 TCGAAATTAT
* * * *
19810844 GTCCGAAGCTCTTAAAGATTAT
1 GTCCGAAGGTCTTAAAAATCAC
*
19810866 GCCCGAAGGTCTTAAAAATCAC
1 GTCCGAAGGTCTTAAAAATCAC
19810888 GTCCGAAGGTCTTA
1 GTCCGAAGGTCTTA
19810902 CTGAATCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (22 bp):
GTCCGAAGGTCTTAAAAATCAC
Found at i:19810966 original size:132 final size:132
Alignment explanation
Indices: 19810740--19811066 Score: 404
Period size: 132 Copynumber: 2.5 Consensus size: 132
19810730 TTATGCCTAG
* * * * *
19810740 AGGTATTAGAAATCATGTCC-AGAGGTCTTACTAAATCGACCGGGATAACATAGTAAGTCAAAAA
1 AGGTCTTAAAAATCATGTCCGA-AGGTCTTACTAAATCGATCGGGATAACATCGTAAATCAAAAA
** * *
19810804 ATTAAAAATCGATCGGGACAACATTGCGAATCGAAATTATGTCCGAAGCTCTTAAAGATTATGCC
65 ATTAAAAATCGATCGGGACAACACCGCGAATCAAAATTATGCCCGAAGCTCTTAAAGATTATGCC
19810869 CGA
130 CGA
* * * * *
19810872 AGGTCTTAAAAATCACGTCCGAAGGTCTTACTGAATCAATCGGGATAACACCTTAAATCAAAAAA
1 AGGTCTTAAAAATCATGTCCGAAGGTCTTACTAAATCGATCGGGATAACATCGTAAATCAAAAAA
* * * * * *
19810937 TTAAAAATTGATCGGGACAATACCGCGAATCAAAATTATGCCCGTAGGTCTTAAAGATTGTGTCC
66 TTAAAAATCGATCGGGACAACACCGCGAATCAAAATTATGCCCGAAGCTCTTAAAGATTATGCCC
19811002 GA
131 GA
* * * * * *
19811004 AGGTCTTAAAAATAATATTCGGAGGTCTTACAAAATCGATCGAGATAACATCGTAAATCAAAA
1 AGGTCTTAAAAATCATGTCCGAAGGTCTTACTAAATCGATCGGGATAACATCGTAAATCAAAA
19811067 TTATCTCAGA
Statistics
Matches: 163, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
132 162 0.99
133 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (132 bp):
AGGTCTTAAAAATCATGTCCGAAGGTCTTACTAAATCGATCGGGATAACATCGTAAATCAAAAAA
TTAAAAATCGATCGGGACAACACCGCGAATCAAAATTATGCCCGAAGCTCTTAAAGATTATGCCC
GA
Found at i:19811102 original size:22 final size:22
Alignment explanation
Indices: 19811076--19811131 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
19811066 ATTATCTCAG
*
19811076 AGATCTTAAAGATTATGTCCAA
1 AGATCTTAAAGATCATGTCCAA
*
19811098 AGATCTTAGAA-ATCATGTCCGA
1 AGATCTTA-AAGATCATGTCCAA
19811120 AGATCTTAAAGA
1 AGATCTTAAAGA
19811132 ATCGACCGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 2 0.07
22 26 0.87
23 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (22 bp):
AGATCTTAAAGATCATGTCCAA
Found at i:19811159 original size:94 final size:94
Alignment explanation
Indices: 19810985--19811160 Score: 210
Period size: 94 Copynumber: 1.9 Consensus size: 94
19810975 TGCCCGTAGG
* * * * * * *
19810985 TCTTAAAGATTGTGTCCGAAGGTCTTAAAAATAATATTCGGAGGTCTTACAAAATCGATCGAGAT
1 TCTTAAAGATTATGTCCAAAGATCTTAAAAATAATATCCGAAGATCTTACAAAATCGACCGAGAT
* **
19811050 AACATCGTAAATCAAAATTATCTCAGAGA
66 AACACCACAAATCAAAATTATCTCAGAGA
* * *
19811079 TCTTAAAGATTATGTCCAAAGATCTTAGAAATCATGTCCGAAGATCTTA-AAGAATCGACCGAGA
1 TCTTAAAGATTATGTCCAAAGATCTTAAAAATAATATCCGAAGATCTTACAA-AATCGACCGAGA
*
19811143 TAACACCACAAGTCAAAA
65 TAACACCACAAATCAAAA
19811161 AATAAAGACT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
93 2 0.03
94 65 0.97
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (94 bp):
TCTTAAAGATTATGTCCAAAGATCTTAAAAATAATATCCGAAGATCTTACAAAATCGACCGAGAT
AACACCACAAATCAAAATTATCTCAGAGA
Found at i:19811465 original size:3 final size:3
Alignment explanation
Indices: 19811457--19811532 Score: 134
Period size: 3 Copynumber: 24.7 Consensus size: 3
19811447 ATGAAAGTTC
19811457 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
19811503 ATT ATT ATT ATT ATT ATTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT AT
19811533 CCTTTTTATA
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 65 0.92
4 6 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19812994 original size:20 final size:19
Alignment explanation
Indices: 19812957--19812994 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
19812947 TTTCTACCAC
*
19812957 TTTTTTATTTTTTTAATTA
1 TTTTTTATTTTTTAAATTA
19812976 TTTTTTATTTTTTCAAATT
1 TTTTTTATTTTTT-AAATT
19812995 TTAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTATTTTTTAAATTA
Found at i:19816231 original size:10 final size:10
Alignment explanation
Indices: 19816216--19816245 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19816206 ATTGAGTTTT
19816216 TATATTTTAA
1 TATATTTTAA
19816226 TATATTTTAA
1 TATATTTTAA
19816236 T-TATTTTAA
1 TATATTTTAA
19816245 T
1 T
19816246 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:19816242 original size:9 final size:9
Alignment explanation
Indices: 19816218--19816247 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
19816208 TGAGTTTTTA
19816218 TATTTTAAT
1 TATTTTAAT
19816227 ATATTTTAAT
1 -TATTTTAAT
19816237 TATTTTAAT
1 TATTTTAAT
19816246 TA
1 TA
19816248 ATAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:19818350 original size:12 final size:12
Alignment explanation
Indices: 19818330--19818365 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
19818320 CTCCCATAAA
19818330 TAATTTTATTTT
1 TAATTTTATTTT
*
19818342 TATTTTTATTTT
1 TAATTTTATTTT
*
19818354 TAATATTATTTT
1 TAATTTTATTTT
19818366 ATACAATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TAATTTTATTTT
Found at i:19818858 original size:26 final size:26
Alignment explanation
Indices: 19818822--19818875 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
19818812 TAAATAAAGA
19818822 TAGCATAAATTTCAACCATGCAAACT
1 TAGCATAAATTTCAACCATGCAAACT
19818848 TAGCATAAATTTCAACCATGCAAACT
1 TAGCATAAATTTCAACCATGCAAACT
19818874 TA
1 TA
19818876 CTTATAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (26 bp):
TAGCATAAATTTCAACCATGCAAACT
Found at i:19824655 original size:78 final size:78
Alignment explanation
Indices: 19824511--19824666 Score: 251
Period size: 78 Copynumber: 2.0 Consensus size: 78
19824501 CATTAGCAAA
* * *
19824511 TGTGTAGTGCGAAAAAGATGTTGCAAAAACTGAGTTTCAAGGTAAACTTATATGCTTCCTTAAGA
1 TGTGTAGTGAGAAAAAGATGTTGCAAAAACTGAGTTTCAAGGTAAACTTAAATGCTTCCTCAAGA
*
19824576 ATGAAAAATCAAT
66 ATGAAAAACCAAT
*
19824589 TGTGTAGTGAGAAAAAGATGTTGCAAAAACTGAGTTTCAAGGTAAACTTAAATGCGTT-CTCGAG
1 TGTGTAGTGAGAAAAAGATGTTGCAAAAACTGAGTTTCAAGGTAAACTTAAATGC-TTCCTCAAG
19824653 AATGAAAAACCAAT
65 AATGAAAAACCAAT
19824667 CAGTATGCAG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 70 0.97
79 2 0.03
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (78 bp):
TGTGTAGTGAGAAAAAGATGTTGCAAAAACTGAGTTTCAAGGTAAACTTAAATGCTTCCTCAAGA
ATGAAAAACCAAT
Found at i:19837509 original size:29 final size:27
Alignment explanation
Indices: 19837453--19837509 Score: 62
Period size: 29 Copynumber: 2.0 Consensus size: 27
19837443 ATATATAACT
**
19837453 TATAATCATTTATTTTAAATTATTAAA
1 TATAATCATTTATTTTAAATTAAAAAA
19837480 TATAATACATCTTATTTT-AATATAAAAAA
1 TATAAT-CAT-TTATTTTAAAT-TAAAAAA
19837509 T
1 T
19837510 TAAATAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 6 0.24
28 6 0.24
29 13 0.52
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (27 bp):
TATAATCATTTATTTTAAATTAAAAAA
Found at i:19842329 original size:12 final size:12
Alignment explanation
Indices: 19842296--19842350 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
19842286 GTGTAAGTTT
* *
19842296 TTATTATTATTA
1 TTATTATTGTTG
*
19842308 TTTTTATTGTTG
1 TTATTATTGTTG
*
19842320 TTATTGTTGTTG
1 TTATTATTGTTG
* *
19842332 CTATTATTATTG
1 TTATTATTGTTG
19842344 TTATTAT
1 TTATTAT
19842351 CTTGAAAATA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (12 bp):
TTATTATTGTTG
Found at i:19842464 original size:25 final size:25
Alignment explanation
Indices: 19842414--19842463 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
19842404 GAGCTCGAAC
19842414 TCGAGCATAAATAATCGAGTTTTTT
1 TCGAGCATAAATAATCGAGTTTTTT
* *
19842439 TCGAGTATAAA-AATTGAGTTTTTT
1 TCGAGCATAAATAATCGAGTTTTTT
19842463 T
1 T
19842464 TTTTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (25 bp):
TCGAGCATAAATAATCGAGTTTTTT
Found at i:19843145 original size:23 final size:22
Alignment explanation
Indices: 19843106--19843148 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
19843096 ATGTTTTTTA
19843106 TAAAATAAAATAACCTTTAAAG
1 TAAAATAAAATAACCTTTAAAG
19843128 TAAAACTAATAAT-ACCTTTAA
1 TAAAA-TAA-AATAACCTTTAA
19843149 GAGTGGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 11 0.58
24 3 0.16
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAAATAAAATAACCTTTAAAG
Done.