Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 43 of 171
Found at i:18624283 original size:34 final size:35
Alignment explanation
Indices: 18624214--18624289 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 35
18624204 TGTTTTAAAA
* * **
18624214 TTAAATTTATTTTAAATTTAAATTTACTTAAAA-T
1 TTAAATTTATTATAAATTTAAATTCACAAAAAATT
*
18624248 TTAAATTTATTATAAATTTAAGTTCA-AAAATAATT
1 TTAAATTTATTATAAATTTAAATTCACAAAA-AATT
18624283 TTAAATT
1 TTAAATT
18624290 AAATGTCCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 2 0.06
34 25 0.71
35 8 0.23
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (35 bp):
TTAAATTTATTATAAATTTAAATTCACAAAAAATT
Found at i:18626152 original size:29 final size:30
Alignment explanation
Indices: 18626060--18626266 Score: 135
Period size: 30 Copynumber: 7.0 Consensus size: 30
18626050 TACCATGGAG
* * *
18626060 ACCCCTAAACTTTTCCAAAATTATATTTTG
1 ACCCCTAAACTTTTCAAAAATTACATTTTT
* * * * *
18626090 A-CCCTCGAACTTCTCTAAAATTATATTTTG
1 ACCCCT-AAACTTTTCAAAAATTACATTTTT
18626120 ACCCCTAAACTTTTC-AAAATTACATTTTT
1 ACCCCTAAACTTTTCAAAAATTACATTTTT
** * *
18626149 ACCCCCGAAC-TTTCCAAAATTCCATTTTT
1 ACCCCTAAACTTTTCAAAAATTACATTTTT
18626178 GA--CCTAAA-TTTTCCCAAAAATTACATTTTT
1 -ACCCCTAAACTTTT--CAAAAATTACATTTTT
* *
18626208 ATCCCC-AAAC-TTCCAAAAATTCCATTTTT
1 A-CCCCTAAACTTTTCAAAAATTACATTTTT
* * *
18626237 GATCCCGAAAC-TTCCAAAAATTACCATTTT
1 -ACCCCTAAACTTTTCAAAAATTA-CATTTT
18626267 ACACCCGGAT
Statistics
Matches: 145, Mismatches: 18, Indels: 27
0.76 0.09 0.14
Matches are distributed among these distances:
28 11 0.08
29 56 0.39
30 61 0.42
31 15 0.10
32 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.37
Consensus pattern (30 bp):
ACCCCTAAACTTTTCAAAAATTACATTTTT
Found at i:18626158 original size:59 final size:60
Alignment explanation
Indices: 18626059--18626375 Score: 224
Period size: 59 Copynumber: 5.4 Consensus size: 60
18626049 TTACCATGGA
* * * *
18626059 GACCCCTAAACTTTTCCAAAATTATATTTTGACCCTCGAACTTCTCTAAAATT-ATATTTT
1 GACCCCTAAACTTTTCCAAAATTACATTTTTACCCCCGAACTTCTCAAAAATTCAT-TTTT
*
18626119 GACCCCTAAACTTTT-CAAAATTACATTTTTACCCCCGAACTT-TCCAAAATTCCATTTTT
1 GACCCCTAAACTTTTCCAAAATTACATTTTTACCCCCGAACTTCTCAAAAATT-CATTTTT
* *
18626178 GA--CCTAAA-TTTTCCCAAAAATTACATTTTTATCCCCAAACTTC-CAAAAATTCCATTTTT
1 GACCCCTAAACTTTT-CC-AAAATTACATTTTTACCCCCGAACTTCTCAAAAATT-CATTTTT
* * * *
18626237 GATCCCGAAAC--TTCCAAAAATTACCA-TTTTACACCCGGA-TGTC-CAAAAATTCTATTTTT
1 GACCCCTAAACTTTTCC-AAAATTA-CATTTTTACCCCCGAACT-TCTCAAAAATTC-ATTTTT
* * **
18626296 GA-TCCT-GA-TTTTCCTAAAATTACCGTTTTACCCCC-AGA-TGTCT--AAAATATCATTTTT
1 GACCCCTAAACTTTTCC-AAAATTACATTTTTACCCCCGA-ACT-TCTCAAAAAT-TCATTTTT
* *
18626353 AACCCC-AAATTTTTCCAAAATTA
1 GACCCCTAAACTTTTCCAAAATTA
18626376 TTATTTTGCC
Statistics
Matches: 214, Mismatches: 22, Indels: 44
0.76 0.08 0.16
Matches are distributed among these distances:
56 4 0.02
57 20 0.09
58 50 0.23
59 114 0.53
60 21 0.10
61 5 0.02
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (60 bp):
GACCCCTAAACTTTTCCAAAATTACATTTTTACCCCCGAACTTCTCAAAAATTCATTTTT
Found at i:18626248 original size:30 final size:30
Alignment explanation
Indices: 18626135--18626300 Score: 125
Period size: 29 Copynumber: 5.6 Consensus size: 30
18626125 TAAACTTTTC
* *
18626135 AAAATTACATTTTT-ACCCCCG-AACTTTCC-
1 AAAATTCCATTTTTGA-TCCCGAAAC-TTCCA
* *
18626164 AAAATTCCATTTTTGA--CCTAAATTTTCCCA
1 AAAATTCCATTTTTGATCCCGAAA-CTT-CCA
* *
18626194 AAAATTACATTTTT-ATCCCCAAACTTCCA
1 AAAATTCCATTTTTGATCCCGAAACTTCCA
18626223 AAAATTCCATTTTTGATCCCGAAACTTCCA
1 AAAATTCCATTTTTGATCCCGAAACTTCCA
** *
18626253 AAAATTACCATTTTACA-CCCG-GA-TGTCCA
1 AAAATT-CCATTTTTGATCCCGAAACT-TCCA
*
18626282 AAAATTCTATTTTTGATCC
1 AAAATTCCATTTTTGATCC
18626301 TGATTTTCCT
Statistics
Matches: 112, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
27 2 0.02
28 12 0.11
29 45 0.40
30 40 0.36
31 13 0.12
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAATTCCATTTTTGATCCCGAAACTTCCA
Found at i:18631892 original size:1 final size:1
Alignment explanation
Indices: 18631886--18631916 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
18631876 AAAGTTCCAA
*
18631886 TTTTTTTTTTTTTTTTTTTTTTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18631917 CTATATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:18640936 original size:33 final size:34
Alignment explanation
Indices: 18640881--18640979 Score: 84
Period size: 33 Copynumber: 2.9 Consensus size: 34
18640871 ATCTAATTAC
* *
18640881 AATATTTAATGATTATATTTAAATATTTAAAAT-AT
1 AATATTT-ATTATT-TAATTAAATATTTAAAATAAT
18640916 -A-ATTTATATATTCTAATTAAAT-TTTATAAATAAAT
1 AATATTTAT-TATT-TAATTAAATATTTA-AAAT-AAT
18640951 AATATTTATTATTTAA--AAATATTTAAAAT
1 AATATTTATTATTTAATTAAATATTTAAAAT
18640980 TTATGTTTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
32 6 0.11
33 27 0.50
34 5 0.09
35 5 0.09
36 5 0.09
37 6 0.11
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (34 bp):
AATATTTATTATTTAATTAAATATTTAAAATAAT
Found at i:18641902 original size:21 final size:21
Alignment explanation
Indices: 18641862--18641902 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18641852 TCGTTAACTC
**
18641862 GACTCGATTCGAAATTTTTTT
1 GACTCGATTCGAAAAATTTTT
*
18641883 GACTCGATTTGAAAAATTTT
1 GACTCGATTCGAAAAATTTT
18641903 CAAATTGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (21 bp):
GACTCGATTCGAAAAATTTTT
Found at i:18642447 original size:9 final size:9
Alignment explanation
Indices: 18642396--18642447 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
18642386 ATTTTAGAAA
*
18642396 TTTTTAAAT
1 TTTTTAATT
*
18642405 TTTTAAATT
1 TTTTTAATT
18642414 TTTTGTATATT
1 TTTT-TA-ATT
*
18642425 ATTTTAATT
1 TTTTTAATT
*
18642434 ATTTTAATT
1 TTTTTAATT
18642443 TTTTT
1 TTTTT
18642448 TAAAAATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 27 0.75
10 3 0.08
11 6 0.17
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTTAATT
Found at i:18653364 original size:30 final size:31
Alignment explanation
Indices: 18653330--18653388 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
18653320 TTTAATTTGA
* *
18653330 TCAATTTTAGTCT-TTTACTTTTTGAATTGG
1 TCAATTTTAGTCTCTATACTCTTTGAATTGG
18653360 TCAATTTTAGTCTCTATACTCTTTGAATT
1 TCAATTTTAGTCTCTATACTCTTTGAATT
18653389 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (31 bp):
TCAATTTTAGTCTCTATACTCTTTGAATTGG
Found at i:18653673 original size:15 final size:16
Alignment explanation
Indices: 18653635--18653676 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
18653625 TTGAAATTTT
*
18653635 AAAATTTAAAAAGAAC
1 AAAATTAAAAAAGAAC
*
18653651 AAAGATTAAAAAAGATC
1 AAA-ATTAAAAAAGAAC
18653668 -AAATTAAAA
1 AAAATTAAAA
18653677 TATGAAGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.30
16 5 0.22
17 11 0.48
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (16 bp):
AAAATTAAAAAAGAAC
Found at i:18654040 original size:16 final size:15
Alignment explanation
Indices: 18654021--18654050 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
18654011 TTATGGTAAT
18654021 TTTTTTTCTTAAATGA
1 TTTTTTT-TTAAATGA
18654037 TTTTTTTTTAAATG
1 TTTTTTTTTAAATG
18654051 GCATATATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTTTTTTAAATGA
Found at i:18654832 original size:18 final size:18
Alignment explanation
Indices: 18654798--18654848 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
18654788 AATTTTTAAT
*
18654798 ATTTATATTTATTAATTTG
1 ATTTTTATTT-TTAATTTG
18654817 ATTTTTATTTTTAA-TTG
1 ATTTTTATTTTTAATTTG
* *
18654834 AATTTTATTATTAAT
1 ATTTTTATTTTTAAT
18654849 CTTTCAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 15 0.54
18 4 0.14
19 9 0.32
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (18 bp):
ATTTTTATTTTTAATTTG
Found at i:18658262 original size:28 final size:29
Alignment explanation
Indices: 18658180--18658253 Score: 141
Period size: 28 Copynumber: 2.6 Consensus size: 29
18658170 TCAACTTAGG
18658180 AAAAAAAAGTTTAAGTACTGCTTATGAC-
1 AAAAAAAAGTTTAAGTACTGCTTATGACA
18658208 AAAAAAAAGTTTAAGTACTGCTTATGACA
1 AAAAAAAAGTTTAAGTACTGCTTATGACA
18658237 AAAAAAAAGTTTAAGTA
1 AAAAAAAAGTTTAAGTA
18658254 TCAAGATGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 28 0.62
29 17 0.38
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (29 bp):
AAAAAAAAGTTTAAGTACTGCTTATGACA
Found at i:18658267 original size:28 final size:29
Alignment explanation
Indices: 18658180--18658268 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
18658170 TCAACTTAGG
** *
18658180 AAAAAAAAGTTTAAGTACTGCTTATG-AC
1 AAAAAAAAGTTTAAGTACTGCAGATGAAA
** *
18658208 AAAAAAAAGTTTAAGTACTGCTTATGACA
1 AAAAAAAAGTTTAAGTACTGCAGATGAAA
18658237 AAAAAAAAGTTTAAGTA-T-CAAGATGAAA
1 AAAAAAAAGTTTAAGTACTGC-AGATGAAA
18658265 AAAA
1 AAAA
18658269 GAATAAATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.02
28 36 0.67
29 17 0.31
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.25
Consensus pattern (29 bp):
AAAAAAAAGTTTAAGTACTGCAGATGAAA
Found at i:18662953 original size:29 final size:29
Alignment explanation
Indices: 18662895--18662960 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
18662885 GCTGTTAAAT
* *
18662895 TGACTTAAAATTGTTATTTTCACCAGTGA
1 TGACTTAAAATTATTATTTTCACCAATGA
* **
18662924 TGACTTAAACTTATTATTTTTGCCAATGA
1 TGACTTAAAATTATTATTTTCACCAATGA
18662953 TGCACTTA
1 TG-ACTTA
18662961 TTTAAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (29 bp):
TGACTTAAAATTATTATTTTCACCAATGA
Found at i:18666702 original size:18 final size:18
Alignment explanation
Indices: 18666662--18666699 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18666652 ATTAACATTT
18666662 AAATTATTTAGGTATATA
1 AAATTATTTAGGTATATA
* *
18666680 TAATTATTT-TGTATATA
1 AAATTATTTAGGTATATA
18666697 AAA
1 AAA
18666700 ATTCAAACCA
Statistics
Matches: 17, Mismatches: 3, Indels: 1
0.81 0.14 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
AAATTATTTAGGTATATA
Found at i:18666992 original size:18 final size:17
Alignment explanation
Indices: 18666965--18667005 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
18666955 AATAACCTTT
*
18666965 TAATACAATTATAATATC
1 TAATAAAATTATAA-ATC
*
18666983 TAATAAAATTATAAATG
1 TAATAAAATTATAAATC
18667000 TAATAA
1 TAATAA
18667006 TTTAAATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (17 bp):
TAATAAAATTATAAATC
Found at i:18671089 original size:26 final size:26
Alignment explanation
Indices: 18671060--18671122 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
18671050 TTTTAAAATC
18671060 TCAACTTTTTTAAACCTTCTCTTATT
1 TCAACTTTTTTAAACCTTCTCTTATT
** *
18671086 TCAAAATTTTTAAACTTTCTCTTATT
1 TCAACTTTTTTAAACCTTCTCTTATT
**
18671112 TCTTCTTTTTT
1 TCAACTTTTTT
18671123 TTTTTCGAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (26 bp):
TCAACTTTTTTAAACCTTCTCTTATT
Found at i:18671326 original size:136 final size:138
Alignment explanation
Indices: 18671079--18671344 Score: 362
Period size: 136 Copynumber: 1.9 Consensus size: 138
18671069 TTAAACCTTC
* * *
18671079 TCTTATTTCAAAATTTTTAAACTTTCTCTTATTTCTTCTTTTTTTTTTTCGAAGCCCTAAATAGC
1 TCTTATTTCAAAATTTTTAAACTTTCTCTTATTTATTC-TTTTTTTTTTCGAAACCCTAAATAAC
* * *
18671144 AACTATTTTATTCTTAAATTTTATGGATTTCAAGTTCTTCCAGTCACATGTTGTATATTGTTTTC
65 AACTACTTTATTCTTAAATTTTATGGACTTCAAGTTCTTCCAGTCACATGTTGTATAGTGTTTTC
18671209 AAGTTCTTT
130 AAGTTCTTT
* * * *
18671218 TCTTATTTCAAATTTTTTTAACCTTT-TGTTATTTATTC-TTTTTTTTT-GAAACCCTAAATAAT
1 TCTTATTTCAAA-ATTTTTAAACTTTCTCTTATTTATTCTTTTTTTTTTCGAAACCCTAAATAAC
*
18671280 AGA-TACTTTATT-TCTAAGTTTTATGGACTTCAAGTTCTTCCAGTCACATGTTGTATAGTGTTT
65 A-ACTACTTTATTCT-TAAATTTTATGGACTTCAAGTTCTTCCAGTCACATGTTGTATAGTGTTT
18671343 TC
128 TC
18671345 TAATACTAAA
Statistics
Matches: 113, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
135 1 0.01
136 69 0.61
137 10 0.09
139 22 0.19
140 11 0.10
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (138 bp):
TCTTATTTCAAAATTTTTAAACTTTCTCTTATTTATTCTTTTTTTTTTCGAAACCCTAAATAACA
ACTACTTTATTCTTAAATTTTATGGACTTCAAGTTCTTCCAGTCACATGTTGTATAGTGTTTTCA
AGTTCTTT
Found at i:18671640 original size:47 final size:47
Alignment explanation
Indices: 18671588--18671681 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
18671578 TCAACTTCAT
*
18671588 GTCCATCCAAACAGTCATCAACCATATAATATCAAGATATTCAGGAA
1 GTCCATCCAAACAGTCATCAACCATATAATATCAACATATTCAGGAA
18671635 GTCCATCCAAACAGTCATCAACCATATAATATCAACATATTCAGGAA
1 GTCCATCCAAACAGTCATCAACCATATAATATCAACATATTCAGGAA
18671682 AGACAAACGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.23
Consensus pattern (47 bp):
GTCCATCCAAACAGTCATCAACCATATAATATCAACATATTCAGGAA
Found at i:18675655 original size:15 final size:15
Alignment explanation
Indices: 18675632--18675678 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
18675622 ATTGAAAATA
18675632 TAAATAAAAAAAAAGT
1 TAAA-AAAAAAAAAGT
18675648 TAAAAAAAAAAAAGT
1 TAAAAAAAAAAAAGT
18675663 TAAAAAAAAAAAAGT
1 TAAAAAAAAAAAAGT
18675678 T
1 T
18675679 TGGGGGTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 27 0.87
16 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (15 bp):
TAAAAAAAAAAAAGT
Found at i:18681699 original size:20 final size:19
Alignment explanation
Indices: 18681674--18681723 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 19
18681664 ATTTAGTAAG
*
18681674 TGGCAAAATTGTATGGAAAA
1 TGGCAAAATT-AATGGAAAA
18681694 TGGCAATGAATTAATGGAAAA
1 TGGCAA--AATTAATGGAAAA
18681715 TGGCCAAAA
1 TGG-CAAAA
18681724 CAGGAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.31
21 11 0.42
22 7 0.27
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (19 bp):
TGGCAAAATTAATGGAAAA
Found at i:18684803 original size:6 final size:6
Alignment explanation
Indices: 18684792--18684816 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18684782 GAATGAGGAG
18684792 GATGAA GATGAA GATGAA GATGAA G
1 GATGAA GATGAA GATGAA GATGAA G
18684817 GGGGTGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GATGAA
Found at i:18685353 original size:2 final size:2
Alignment explanation
Indices: 18685346--18685375 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18685336 GTGAGTCTCA
18685346 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
18685376 GAGCAAACAA
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:18688875 original size:58 final size:58
Alignment explanation
Indices: 18688811--18688923 Score: 174
Period size: 58 Copynumber: 1.9 Consensus size: 58
18688801 AGTTGTTTAC
*
18688811 GAGTGTTATTT-AGGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAGTTCAT
1 GAGTGTT-TTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAGTTCAT
* * *
18688869 GAGTGTTTTTGAATAATGAAATTATATTTGGGTTTAAAAATATTTGGGTTTAGTT
1 GAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAGTT
18688924 TGTTGATGGG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 3 0.06
58 47 0.94
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (58 bp):
GAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAGTTCAT
Found at i:18689751 original size:2 final size:2
Alignment explanation
Indices: 18689744--18689805 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
18689734 AACGTTATTT
18689744 TA TA TA TA TA TA TA TA TA TA TA TA TA T- 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
18689785 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
18689806 GTTAGTGGAG
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18690761 original size:37 final size:37
Alignment explanation
Indices: 18690720--18690899 Score: 272
Period size: 37 Copynumber: 4.9 Consensus size: 37
18690710 TGCATCTATA
*
18690720 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG
1 TATTCGGGCTGTGTGCCTAGCAGGCTTTGTGCCGGTG
*
18690757 TATTCGGGCTGTGTGCCTAGCAGGCTTTGAGCCGGTG
1 TATTCGGGCTGTGTGCCTAGCAGGCTTTGTGCCGGTG
* **
18690794 TATTTGGGCTGTGTGCCTAGCAAACTTTGTGCCGGTG
1 TATTCGGGCTGTGTGCCTAGCAGGCTTTGTGCCGGTG
* *
18690831 TATTCAGGCTGTGTGCCTAGCAGGCTTTGTGCCGATG
1 TATTCGGGCTGTGTGCCTAGCAGGCTTTGTGCCGGTG
* *
18690868 TATTCAGGCTAT-TGCCTAGCAGGCTTTGTGCC
1 TATTCGGGCTGTGTGCCTAGCAGGCTTTGTGCC
18690900 AGTGGTCCAA
Statistics
Matches: 131, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 20 0.15
37 111 0.85
ACGTcount: A:0.13, C:0.22, G:0.33, T:0.33
Consensus pattern (37 bp):
TATTCGGGCTGTGTGCCTAGCAGGCTTTGTGCCGGTG
Found at i:18690875 original size:21 final size:20
Alignment explanation
Indices: 18690818--18690877 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
18690808 GCCTAGCAAA
18690818 CTTTGTGCCGGTGTATTCAGG
1 CTTTGTGCC-GTGTATTCAGG
* *
18690839 CTGTGTGCC---TA-GCAGG
1 CTTTGTGCCGTGTATTCAGG
18690855 CTTTGTGCCGATGTATTCAGG
1 CTTTGTGCCG-TGTATTCAGG
18690876 CT
1 CT
18690878 ATTGCCTAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 12 0.40
17 2 0.07
20 2 0.07
21 14 0.47
ACGTcount: A:0.12, C:0.22, G:0.32, T:0.35
Consensus pattern (20 bp):
CTTTGTGCCGTGTATTCAGG
Found at i:18691369 original size:22 final size:23
Alignment explanation
Indices: 18691339--18691383 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18691329 AAGATTATCG
18691339 AAAGAGA-TTTTATGAAACTTTA
1 AAAGAGATTTTTATGAAACTTTA
* *
18691361 AAAGTGATTTTTATGAAATTTTA
1 AAAGAGATTTTTATGAAACTTTA
18691384 CAGAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (23 bp):
AAAGAGATTTTTATGAAACTTTA
Found at i:18692184 original size:31 final size:31
Alignment explanation
Indices: 18692126--18692184 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
18692116 AGTTTGAGTT
* *
18692126 AATCGAGTTATTTGGATCAACTCGAATAAAA
1 AATCAAGTTATTTGGATCAACTAGAATAAAA
* * *
18692157 AATCAAGTTTTTTGGTTTAACTAGAATA
1 AATCAAGTTATTTGGATCAACTAGAATA
18692185 TGAATTACAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (31 bp):
AATCAAGTTATTTGGATCAACTAGAATAAAA
Found at i:18692999 original size:27 final size:27
Alignment explanation
Indices: 18692963--18693031 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
18692953 GACCAAAACC
18692963 ATTTTAAATTTACTTTGAAATT-AAATTT
1 ATTTT-AATTTA-TTTGAAATTCAAATTT
* *
18692991 ATTTTAATTTATTTTAAATTCAATTTT
1 ATTTTAATTTATTTGAAATTCAAATTT
*
18693018 AATTTAATATTATT
1 ATTTTAAT-TTATT
18693032 GTAAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 8 0.22
27 18 0.50
28 10 0.28
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (27 bp):
ATTTTAATTTATTTGAAATTCAAATTT
Found at i:18693031 original size:38 final size:39
Alignment explanation
Indices: 18692963--18693040 Score: 88
Period size: 38 Copynumber: 2.0 Consensus size: 39
18692953 GACCAAAACC
* * *
18692963 ATTTTAAATTTACTTTGAAATTAAATTTATT-TTAATTT
1 ATTTTAAATTCAATTTGAAATTAAATTTATTGTAAATTT
* *
18693001 ATTTTAAATTCAATTT-TAATTTAATATTATTGTAAATTT
1 ATTTTAAATTCAATTTGAAATTAAAT-TTATTGTAAATTT
18693040 A
1 A
18693041 ATAAAATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
37 7 0.21
38 19 0.58
39 7 0.21
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (39 bp):
ATTTTAAATTCAATTTGAAATTAAATTTATTGTAAATTT
Found at i:18693871 original size:21 final size:21
Alignment explanation
Indices: 18693845--18693890 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
18693835 TAACTGATGT
* *
18693845 TAATAAATTTTTTGATAATAA
1 TAATAAATATTTTAATAATAA
18693866 TAATAAATATTTTAATAATAA
1 TAATAAATATTTTAATAATAA
18693887 TAAT
1 TAAT
18693891 GCTTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAATAAATATTTTAATAATAA
Found at i:18694972 original size:29 final size:30
Alignment explanation
Indices: 18694887--18695140 Score: 178
Period size: 29 Copynumber: 8.5 Consensus size: 30
18694877 CCCTAGAGGT
* *
18694887 CCCAAAACTGTCCAAAAATTATA-TTTTGAC
1 CCCAAAACT-TCCAAAAATTACATTTTTAAC
* * *
18694917 CCCCAACCTTCTCTAAAATTACA-TTTTAAC
1 CCCAAAACTTC-CAAAAATTACATTTTTAAC
*
18694947 CCCAAAACTTCC-AAAATTACATTTTTGAC
1 CCCAAAACTTCCAAAAATTACATTTTTAAC
** *
18694976 CTTAAAACCTCCAAAAATTACATTTTTACATC
1 CCCAAAACTTCCAAAAATTACATTTTTA-A-C
*** * *
18695008 CCTTGAACTTTC-AAAATTACATTTTTGAC
1 CCCAAAACTTCCAAAAATTACATTTTTAAC
** *
18695037 CATAAAACTTCCAACAATTACATTTTT-AC
1 CCCAAAACTTCCAAAAATTACATTTTTAAC
* *
18695066 CCCCAAACTTCCAAAAATTCCATTTTTAAAC
1 CCCAAAACTTCCAAAAATTACATTTTT-AAC
*** * * *
18695097 CTTGAAACTTTCAAAAATTCCA-TTTTGAC
1 CCCAAAACTTCCAAAAATTACATTTTTAAC
* *
18695126 CCCGACACTTCCAAA
1 CCCAAAACTTCCAAA
18695141 TTACCATTTT
Statistics
Matches: 179, Mismatches: 37, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
28 9 0.05
29 64 0.36
30 63 0.35
31 35 0.20
32 8 0.04
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (30 bp):
CCCAAAACTTCCAAAAATTACATTTTTAAC
Found at i:18695079 original size:90 final size:89
Alignment explanation
Indices: 18694931--18695150 Score: 250
Period size: 90 Copynumber: 2.5 Consensus size: 89
18694921 AACCTTCTCT
* * **
18694931 AAAATTACATTTTAACCCCAAAACTTCCAAAATTACATTTTTGACCTTAAAACCTCCAAAAATTA
1 AAAATTACATTTTGACCACAAAACTTCCAAAATTACATTTTTGACCCCAAAACCTCCAAAAATTA
*
18694996 CATTTTTACATCCCTTG-AACTTTC-
66 CATTTTTA-A-ACCTTGAAACTTTCA
* * *
18695020 AAAATTACATTTTTGACCATAAAACTTCCAACAATTACATTTTT-ACCCCCAAACTTCCAAAAAT
1 AAAATTACA-TTTTGACCACAAAACTTCCAA-AATTACATTTTTGACCCCAAAACCTCCAAAAAT
*
18695084 TCCATTTTTAAACCTTGAAACTTTCA
64 TACATTTTTAAACCTTGAAACTTTCA
* * * *
18695110 AAAATTCCATTTTGACCCCGACACTTCC-AAATTACCATTTT
1 AAAATTACATTTTGACCACAAAACTTCCAAAATTA-CATTTT
18695151 ACCCCCGGAT
Statistics
Matches: 112, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
87 5 0.04
88 12 0.11
89 32 0.29
90 51 0.46
91 12 0.11
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (89 bp):
AAAATTACATTTTGACCACAAAACTTCCAAAATTACATTTTTGACCCCAAAACCTCCAAAAATTA
CATTTTTAAACCTTGAAACTTTCA
Found at i:18700800 original size:13 final size:12
Alignment explanation
Indices: 18700775--18700845 Score: 60
Period size: 12 Copynumber: 5.8 Consensus size: 12
18700765 TTCAATGAGC
18700775 AAAAGAAAAGAA
1 AAAAGAAAAGAA
18700787 AAAAGAAGAAGAA
1 AAAAGAA-AAGAA
*
18700800 AAACA-AAAACAA
1 AAA-AGAAAAGAA
18700812 AAAA-AACAA-AA
1 AAAAGAA-AAGAA
18700823 AGAAA-AAAAGATA
1 A-AAAGAAAAGA-A
18700836 AAAAGAAAAG
1 AAAAGAAAAG
18700846 GAGAGGTCGA
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
11 8 0.16
12 25 0.49
13 17 0.33
14 1 0.02
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.01
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:18700818 original size:15 final size:15
Alignment explanation
Indices: 18700798--18700831 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18700788 AAAGAAGAAG
18700798 AAAAACAAAAACAAA
1 AAAAACAAAAACAAA
*
18700813 AAAAACAAAAAGAAA
1 AAAAACAAAAACAAA
18700828 AAAA
1 AAAA
18700832 GATAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAACAAAAACAAA
Found at i:18700829 original size:16 final size:16
Alignment explanation
Indices: 18700786--18700844 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
18700776 AAAGAAAAGA
18700786 AAAAAGAAGAAGAAAAAC
1 AAAAAGAA-AA-AAAAAC
*
18700804 AAAAA-CAAAAAAAAC
1 AAAAAGAAAAAAAAAC
* *
18700819 AAAAAGAAAAAAAGAT
1 AAAAAGAAAAAAAAAC
18700835 AAAAAGAAAA
1 AAAAAGAAAA
18700845 GGAGAGGTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.31
16 19 0.53
17 1 0.03
18 5 0.14
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAC
Found at i:18702283 original size:50 final size:50
Alignment explanation
Indices: 18702125--18702385 Score: 169
Period size: 50 Copynumber: 5.2 Consensus size: 50
18702115 ATTTAAAGGG
* * * *
18702125 AAAGGTCTAAGTCGTAACGGCGGACCGTGTACCTCAGAAG--ACGAC-GA
1 AAAGATCTAAGTCGTAACGGCGGATCGTATACCTCAGAAGACACAACGGA
* * * * * * * * *
18702172 GAAAGATCTAAGACCGCAACGGTGGATC-TAGTATCGCAAAAAGATA-AAAGGG
1 -AAAGATCTAAG-TCGTAACGGCGGATCGTA-TACCTC-AGAAGACACAACGGA
* * *
18702224 AAAGGTCTAAGTCGCAACGGCGGATCGTATACCTCAGAAGACACGACGGA
1 AAAGATCTAAGTCGTAACGGCGGATCGTATACCTCAGAAGACACAACGGA
* * * * *
18702274 AAAGATCTAAGATCATAACGACGGAT--TCAGTACCGTAAAAAGACA-AAAGGA
1 AAAGATCTAAG-TCGTAACGGCGGATCGT-A-TACC-TCAGAAGACACAACGGA
* * * *
18702325 AAAGGTCTAAGTCGTAACGGCGGACCGTGTACCTCAGAAGACACAACGGG
1 AAAGATCTAAGTCGTAACGGCGGATCGTATACCTCAGAAGACACAACGGA
18702375 AAAGATCTAAG
1 AAAGATCTAAG
18702386 ACAAAAGGGA
Statistics
Matches: 158, Mismatches: 40, Indels: 28
0.70 0.18 0.12
Matches are distributed among these distances:
48 11 0.07
49 30 0.19
50 64 0.41
51 42 0.27
52 11 0.07
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (50 bp):
AAAGATCTAAGTCGTAACGGCGGATCGTATACCTCAGAAGACACAACGGA
Found at i:18702335 original size:101 final size:101
Alignment explanation
Indices: 18702119--18702387 Score: 366
Period size: 101 Copynumber: 2.7 Consensus size: 101
18702109 ATGAAAATTT
18702119 AAAGGGAAAGGTCTAAGTCGTAACGGCGGACCGTGTACCTCAGAAG--ACGAC-GAGAAAGATCT
1 AAAGGGAAAGGTCTAAGTCGTAACGGCGGACCGTGTACCTCAGAAGACACGACGGA-AAAGATCT
* ** * *
18702181 AAGACCGCAACGGTGGATCTAGTATCGCAAAAAGATA
65 AAGACCACAACGACGGATCTAGTACCGCAAAAAGACA
* * *
18702218 AAAGGGAAAGGTCTAAGTCGCAACGGCGGATCGTATACCTCAGAAGACACGACGGAAAAGATCTA
1 AAAGGGAAAGGTCTAAGTCGTAACGGCGGACCGTGTACCTCAGAAGACACGACGGAAAAGATCTA
* * *
18702283 AGATCATAACGACGGAT-TCAGTACCGTAAAAAGACA
66 AGACCACAACGACGGATCT-AGTACCGCAAAAAGACA
* * *
18702319 AAAGGAAAAGGTCTAAGTCGTAACGGCGGACCGTGTACCTCAGAAGACACAACGGGAAAGATCTA
1 AAAGGGAAAGGTCTAAGTCGTAACGGCGGACCGTGTACCTCAGAAGACACGACGGAAAAGATCTA
18702384 AGAC
66 AGAC
18702388 AAAAGGGAAA
Statistics
Matches: 148, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
99 43 0.29
100 1 0.01
101 102 0.69
102 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (101 bp):
AAAGGGAAAGGTCTAAGTCGTAACGGCGGACCGTGTACCTCAGAAGACACGACGGAAAAGATCTA
AGACCACAACGACGGATCTAGTACCGCAAAAAGACA
Found at i:18702554 original size:92 final size:92
Alignment explanation
Indices: 18702397--18702898 Score: 896
Period size: 92 Copynumber: 5.5 Consensus size: 92
18702387 CAAAAGGGAA
18702397 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCT
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCT
18702462 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * *
18702489 AAGTCATTATCTCTCCGATGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCT
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCT
*
18702554 CTTGAAGTTGTAGTAAAGTTGGATAGG
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
18702581 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCT
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCT
18702646 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
18702673 AAGTCTTTATCTCTCCGAAGTTGTAGCAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCT
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCT
*
18702738 CTTGAAGTTGTAGTAAAGTTGGATAAC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
18702765 AAGTCTTTATCTCTTTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTTCTATCCT
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCT
*
18702830 CTTGAAGTTGTAGTAAAGTTGGATAGG
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
18702857 AAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAG
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAG
18702899 CCTCGACATC
Statistics
Matches: 389, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 389 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (92 bp):
AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCT
CTTGAAGTTGTAGTAAAGTTGGATAGC
Found at i:18703178 original size:17 final size:16
Alignment explanation
Indices: 18703156--18703196 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
18703146 CCAAACCATT
18703156 TTAAATTTACTTTGAAA
1 TTAAATTTA-TTTGAAA
*
18703173 TTAAATTTATTTTAAA
1 TTAAATTTATTTGAAA
*
18703189 TTCAATTT
1 TTAAATTT
18703197 TAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTATTTGAAA
Found at i:18703185 original size:28 final size:28
Alignment explanation
Indices: 18703153--18703208 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18703143 GGCCCAAACC
* *
18703153 ATTTTAAATTTACTTTGAAATTAAATTT
1 ATTTTAAATTCAATTTGAAATTAAATTT
* *
18703181 ATTTTAAATTCAATTTTAATTTAAATTT
1 ATTTTAAATTCAATTTGAAATTAAATTT
18703209 GAATTTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (28 bp):
ATTTTAAATTCAATTTGAAATTAAATTT
Found at i:18703189 original size:11 final size:11
Alignment explanation
Indices: 18703173--18703228 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
18703163 TACTTTGAAA
*
18703173 TTAAATTTATT
1 TTAAATTTAAT
*
18703184 TTAAATTCAAT
1 TTAAATTTAAT
*
18703195 TTTAATTTAAAT
1 TTAAATTT-AAT
*
18703207 TTGAATTTAAT
1 TTAAATTTAAT
18703218 TTAAATTTAAT
1 TTAAATTTAAT
18703229 ATTATTGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:18703207 original size:6 final size:6
Alignment explanation
Indices: 18703155--18703227 Score: 57
Period size: 6 Copynumber: 12.8 Consensus size: 6
18703145 CCCAAACCAT
* * * *
18703155 TTTAAA TTT-AC TTTGAAA -TTAAA TTT-AT TTTAAA -TTCAA TTTTAA
1 TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
18703200 TTTAAA TTTGAA TTT-AA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
18703228 TATTATTGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 20 0.38
6 32 0.60
7 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:18703240 original size:17 final size:16
Alignment explanation
Indices: 18703159--18703228 Score: 77
Period size: 17 Copynumber: 4.2 Consensus size: 16
18703149 AACCATTTTA
* *
18703159 AATTTACTTTGAAATTA
1 AATTTAATTT-AAATTT
* *
18703176 AATTTATTTTAAATTC
1 AATTTAATTTAAATTT
18703192 AATTTTAATTTAAATTT
1 AA-TTTAATTTAAATTT
18703209 GAATTTAATTTAAATTT
1 -AATTTAATTTAAATTT
18703226 AAT
1 AAT
18703229 ATTATTGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
16 10 0.21
17 35 0.74
18 2 0.04
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:18703240 original size:34 final size:34
Alignment explanation
Indices: 18703176--18703240 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
18703166 TTTGAAATTA
* *
18703176 AATTTATTTTAAATTCAATTTTAATTTAAATTTG
1 AATTTAATTTAAATTCAATATTAATTTAAATTTG
*
18703210 AATTTAATTTAAATTTAATATT-ATTGTAAAT
1 AATTTAATTTAAATTCAATATTAATT-TAAAT
18703241 GTAATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (34 bp):
AATTTAATTTAAATTCAATATTAATTTAAATTTG
Found at i:18705172 original size:29 final size:29
Alignment explanation
Indices: 18705129--18705404 Score: 238
Period size: 29 Copynumber: 9.4 Consensus size: 29
18705119 AAATTTCTTT
** *
18705129 AAAATTACATTTTTAACCTTAAAACTTTCA
1 AAAATTACA-TTTTAACCTCCAAACTTCCA
* * *
18705159 AAAATTACATTTTAACCTCAAAACTTTCT
1 AAAATTACATTTTAACCTCCAAACTTCCA
** * *
18705188 AAAATTACATTTTTGCCCCCAAACTTTCA
1 AAAATTACATTTTAACCTCCAAACTTCCA
* *
18705217 AAAATTATATTTTTGACC-CCAAAACTTCCA
1 AAAATTACA-TTTTAACCTCC-AAACTTCCA
* * *
18705247 ATAATTACATTTTTACCCCCAAACTTCCA
1 AAAATTACATTTTAACCTCCAAACTTCCA
** *
18705276 AAAATTACATTTT-TGCTCTCGAACTTCCA
1 AAAATTACATTTTAACCTC-CAAACTTCCA
* * *
18705305 AAAATTCCATTTTTAACCTCGAAACTTTCA
1 AAAATTACA-TTTTAACCTCCAAACTTCCA
*
18705335 AAAATTACATTTTTACC-CTCAAACTTCCA
1 AAAATTACATTTTAACCTC-CAAACTTCCA
*
18705364 AAAATTACATTTTTAACCT-CGAACTTCC-
1 AAAATTACA-TTTTAACCTCCAAACTTCCA
*
18705392 AAAATTCCATTTT
1 AAAATTACATTTT
18705405 TGACCCCGAT
Statistics
Matches: 205, Mismatches: 32, Indels: 21
0.79 0.12 0.08
Matches are distributed among these distances:
27 4 0.02
28 11 0.05
29 129 0.63
30 58 0.28
31 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTAACCTCCAAACTTCCA
Found at i:18705240 original size:59 final size:59
Alignment explanation
Indices: 18705129--18705428 Score: 283
Period size: 59 Copynumber: 5.1 Consensus size: 59
18705119 AAATTTCTTT
*** * * *
18705129 AAAATTACATTTTTAACCTTAAAACTTTCAAAAATTACA-TTTTAACCTCAAAACTTTCT
1 AAAATTACATTTTTAACCCCCAAACTTTCAAAAATTACATTTTTGACC-CCAAACTTTCA
* * *
18705188 AAAATTACATTTTT-GCCCCCAAACTTTCAAAAATTATATTTTTGACCCCAAAACTTCCA
1 AAAATTACATTTTTAACCCCCAAACTTTCAAAAATTACATTTTTGACCCC-AAACTTTCA
* * * * *
18705247 ATAATTACATTTTT-ACCCCCAAACTTCCAAAAATTACATTTTTG-CTCTCGAACTTCCA
1 AAAATTACATTTTTAACCCCCAAACTTTCAAAAATTACATTTTTGAC-CCCAAACTTTCA
* * * *
18705305 AAAATTCCATTTTTAACCTCGAAACTTTCAAAAATTACATTTTT-ACCCTCAAACTTCCA
1 AAAATTACATTTTTAACCCCCAAACTTTCAAAAATTACATTTTTGACCC-CAAACTTTCA
* * * * * *
18705364 AAAATTACATTTTTAA-CCTCGAAC-TTCCAAAATTCCATTTTTGACCCCGATAC-TTCC
1 AAAATTACATTTTTAACCCCCAAACTTTCAAAAATTACATTTTTGACCCC-AAACTTTCA
18705421 AAAATTAC
1 AAAATTAC
18705429 CATCTTACCC
Statistics
Matches: 201, Mismatches: 32, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
57 27 0.13
58 53 0.26
59 121 0.60
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.36
Consensus pattern (59 bp):
AAAATTACATTTTTAACCCCCAAACTTTCAAAAATTACATTTTTGACCCCAAACTTTCA
Found at i:18705253 original size:88 final size:87
Alignment explanation
Indices: 18705129--18705428 Score: 325
Period size: 88 Copynumber: 3.4 Consensus size: 87
18705119 AAATTTCTTT
** * * *
18705129 AAAATTACATTTTTAACCTTAAAACTTTCAAAAATTACATTTTAACCTCAAAACTTTCTAAAATT
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACATTTTAACCTC-AAACTTCCAAAAATT
* *
18705194 ACATTTTTGCCCCCAAACTTTCA
65 ACATTTTTGCCCTCGAACTTTCA
* * * * *
18705217 AAAATTATATTTTTGACCCCAAAACTTCCAATAATTACATTTTTACCCCCAAACTTCCAAAAATT
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACA-TTTTAACCTCAAACTTCCAAAAATT
* *
18705282 ACATTTTTGCTCTCGAACTTCCA
65 ACATTTTTGCCCTCGAACTTTCA
* * * * *
18705305 AAAATTCCATTTTTAACCTCGAAACTTTCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATT
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACA-TTTTAACCTCAAACTTCCAAAAATT
** *
18705370 ACATTTTTAACCTCGAAC-TTCC
65 ACATTTTTGCCCTCGAACTTTCA
* * * *
18705392 AAAATTCCATTTTTGACCCCGATACTTCC-AAAATTAC
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTAC
18705429 CATCTTACCC
Statistics
Matches: 180, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
86 8 0.04
87 27 0.15
88 137 0.76
89 8 0.04
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.36
Consensus pattern (87 bp):
AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACATTTTAACCTCAAACTTCCAAAAATTA
CATTTTTGCCCTCGAACTTTCA
Found at i:18705441 original size:29 final size:29
Alignment explanation
Indices: 18705229--18705439 Score: 96
Period size: 29 Copynumber: 7.3 Consensus size: 29
18705219 AATTATATTT
* * *
18705229 TTGACCCCAAAACTTCCAATAATTACATT-
1 TTGACCCCGATACTTCCAA-AATTCCATTC
* * * * *
18705258 TTTACCCCCAAACTTCCAAAAATTACATTT
1 TTGACCCCGATACTTCC-AAAATTCCATTC
* *
18705288 TTG-CTCTCGA-ACTTCCAAAAATTCCATTT
1 TTGAC-CCCGATACTTCC-AAAATTCCATTC
* * * * *
18705317 TTAACCTCGAAACTTTCAAAAATTACATT-
1 TTGACCCCGATAC-TTCCAAAATTCCATTC
* * * *
18705346 TTTACCCTC-AAACTTCCAAAAATTACATTT
1 TTGACCC-CGATACTTCC-AAAATTCCATTC
* * *
18705376 TTAACCTCGA-ACTTCCAAAATTCCATTT
1 TTGACCCCGATACTTCCAAAATTCCATTC
18705404 TTGACCCCGATACTTCCAAAATTACCA-TC
1 TTGACCCCGATACTTCCAAAATT-CCATTC
18705433 TT-ACCCC
1 TTGACCCC
18705440 CGGATGTTTC
Statistics
Matches: 152, Mismatches: 18, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
28 27 0.18
29 92 0.61
30 30 0.20
31 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (29 bp):
TTGACCCCGATACTTCCAAAATTCCATTC
Found at i:18705590 original size:28 final size:29
Alignment explanation
Indices: 18705539--18705599 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
18705529 AATTTTTTCT
*
18705539 AAAATTACCATTTTTGCCCTCGAG-AGTCC
1 AAAATTACCATTTTTGCCCCCGAGTA-TCC
18705568 AAAATTACCA-TTTTGCCCCCGAGTATCC
1 AAAATTACCATTTTTGCCCCCGAGTATCC
18705596 AAAA
1 AAAA
18705600 GTCTCATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (29 bp):
AAAATTACCATTTTTGCCCCCGAGTATCC
Found at i:18705607 original size:28 final size:28
Alignment explanation
Indices: 18705539--18705609 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
18705529 AATTTTTTCT
* *
18705539 AAAATTACCATTTTTGCCCTCGAGAGTCC
1 AAAAGTACCA-TTTTGCCCCCGAGAGTCC
*
18705568 AAAATTACCATTTTGCCCCCGAGTA-TCC
1 AAAAGTACCATTTTGCCCCCGAG-AGTCC
18705596 AAAAGT-CTCATTTT
1 AAAAGTAC-CATTTT
18705610 CAACCCCGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 1 0.03
28 26 0.68
29 11 0.29
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (28 bp):
AAAAGTACCATTTTGCCCCCGAGAGTCC
Found at i:18705699 original size:28 final size:29
Alignment explanation
Indices: 18705648--18705707 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
18705638 TATCATTTCA
*
18705648 AAAATTACCATTTTTTCCCTCGAG-AGTCC
1 AAAATTACCATTTTTGCCCTCGAGTA-TCC
18705677 AAAATTACCA-TTTTGCCCTCGAGTATCC
1 AAAATTACCATTTTTGCCCTCGAGTATCC
18705705 AAA
1 AAA
18705708 TCTCATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (29 bp):
AAAATTACCATTTTTGCCCTCGAGTATCC
Found at i:18705903 original size:28 final size:28
Alignment explanation
Indices: 18705833--18705906 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
18705823 CCCAAATTTT
* *
18705833 TCCAAAATTACCATTTTTGCCCCCGAAAG
1 TCCAAAAGTATCA-TTTTGCCCCCGAAAG
* *
18705862 TCCAAAATTATCATTTTGCCCCCGAGTA-
1 TCCAAAAGTATCATTTTGCCCCCGA-AAG
*
18705890 TCCAAAAGTCTCATTTT
1 TCCAAAAGTATCATTTT
18705907 CAACCCCGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.68
29 13 0.32
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.32
Consensus pattern (28 bp):
TCCAAAAGTATCATTTTGCCCCCGAAAG
Found at i:18707684 original size:13 final size:13
Alignment explanation
Indices: 18707653--18707700 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
18707643 AATTTATATT
18707653 TAAAATAATATATAA
1 TAAAATAATA-A-AA
*
18707668 TAAAATAATGAAA
1 TAAAATAATAAAA
18707681 TAAAATAATAAAA
1 TAAAATAATAAAA
18707694 TTAAAAT
1 -TAAAAT
18707701 GTACAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 14 0.47
14 7 0.23
15 9 0.30
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:18710788 original size:59 final size:59
Alignment explanation
Indices: 18710714--18711002 Score: 325
Period size: 59 Copynumber: 4.9 Consensus size: 59
18710704 TCGAGGGTCA
* * * * **
18710714 AAATGTGATTTTGGAAAATTTTAGGGGCAAAAATGTGATTTTGGAATAGTTTGGGGGTT
1 AAATGTGATTTTGGAAAAGTTTAGGGGCTAAAATGTAATTTTGGAAAAGTTTAAGGGTT
* * *
18710773 AAATATGATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTT
1 AAATGTGATTTTGGAAAAGTTTAGGGGCTAAAATGTAATTTTGGAAAAGTTTAAGGGTT
* * * **
18710832 AAAATGTAATTTTGGAAAAGTTTAGTGGTTAAAATGTAATTTTGGAAAAGTTT-ACTGTT
1 -AAATGTGATTTTGGAAAAGTTTAGGGGCTAAAATGTAATTTTGGAAAAGTTTAAGGGTT
* * *
18710891 AAATGTGATTTTGGAAAAGTTTGAGGGTC-AAAATATAATTTTGGAAGAGTTT-AGGTGTT
1 AAATGTGATTTTGGAAAAGTTT-AGGGGCTAAAATGTAATTTTGGAAAAGTTTAAGG-GTT
* * * *
18710950 AAAATGTGATTTTAGAAAGGTTTA-GGGTTAAAATGTAATTTTAGAAAAGTTTA
1 -AAATGTGATTTTGGAAAAGTTTAGGGGCTAAAATGTAATTTTGGAAAAGTTTA
18711003 GGGATCTCTT
Statistics
Matches: 194, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
58 45 0.23
59 81 0.42
60 68 0.35
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.38
Consensus pattern (59 bp):
AAATGTGATTTTGGAAAAGTTTAGGGGCTAAAATGTAATTTTGGAAAAGTTTAAGGGTT
Found at i:18710990 original size:29 final size:29
Alignment explanation
Indices: 18710683--18711005 Score: 337
Period size: 30 Copynumber: 10.9 Consensus size: 29
18710673 ACTCGAGATG
* * * * *
18710683 AAAATGAAATTTTAGAGAAGTTCGAGGGTC
1 AAAATGTAATTTTGGAAAAGTT-TAGGGTT
* * **
18710713 AAAATGTGATTTTGGAAAATTTTAGGGGCA
1 AAAATGTAATTTTGGAAAAGTTTA-GGGTT
* * *
18710743 AAAATGTGATTTTGGAATAGTTTGGGGGTT
1 AAAATGTAATTTTGGAAAAGTTT-AGGGTT
*
18710773 AAATATG--ATTTTGGAAAAGTTTGGGGGTT
1 AAA-ATGTAATTTTGGAAAAGTTT-AGGGTT
18710802 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGGAAAAGTTT-AGGGTT
18710832 AAAATGTAATTTTGGAAAAGTTTAGTGGTT
1 AAAATGTAATTTTGGAAAAGTTTAG-GGTT
**
18710862 AAAATGTAATTTTGGAAAAGTTTACTGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGTT
* *
18710891 -AAATGTGATTTTGGAAAAGTTTGAGGGTC
1 AAAATGTAATTTTGGAAAAGTTT-AGGGTT
* *
18710920 AAAATATAATTTTGGAAGAGTTTAGGTGTT
1 AAAATGTAATTTTGGAAAAGTTTAGG-GTT
* * *
18710950 AAAATGTGATTTTAGAAAGGTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGTT
*
18710979 AAAATGTAATTTTAGAAAAGTTTAGGG
1 AAAATGTAATTTTGGAAAAGTTTAGGG
18711006 ATCTCTTGAG
Statistics
Matches: 251, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
28 24 0.10
29 64 0.25
30 160 0.64
31 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGTT
Found at i:18711907 original size:14 final size:14
Alignment explanation
Indices: 18711888--18711934 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
18711878 TTTTAATATG
*
18711888 TTTTTACATTTTTA
1 TTTTTACTTTTTTA
18711902 TTTTTATCTTTTTTTA
1 TTTTTA-C-TTTTTTA
18711918 TTTCTTA-TTTTTTA
1 TTT-TTACTTTTTTA
18711932 TTT
1 TTT
18711935 AAAAGCCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 16 0.55
15 1 0.03
16 9 0.31
17 3 0.10
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTACTTTTTTA
Found at i:18711917 original size:16 final size:16
Alignment explanation
Indices: 18711896--18711930 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18711886 TGTTTTTACA
18711896 TTTTTATTT-TTATCTT
1 TTTTTATTTCTTAT-TT
18711912 TTTTTATTTCTTATTT
1 TTTTTATTTCTTATTT
18711928 TTT
1 TTT
18711931 ATTTAAAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTATTTCTTATTT
Found at i:18712585 original size:13 final size:12
Alignment explanation
Indices: 18712554--18712593 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
18712544 TGGACTTTTT
*
18712554 AAATTAAATTTA
1 AAATTTAATTTA
18712566 AAATTTAATTTA
1 AAATTTAATTTA
18712578 AAACTTT-ATTTA
1 AAA-TTTAATTTA
18712590 AAAT
1 AAAT
18712594 GTAAATGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 1 0.04
12 22 0.85
13 3 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATTTAATTTA
Found at i:18713117 original size:42 final size:41
Alignment explanation
Indices: 18713069--18713211 Score: 180
Period size: 42 Copynumber: 3.4 Consensus size: 41
18713059 CTCTTGACTA
* *
18713069 GGGGTAAAAGATTGGATGAGGTTTTCAATCTGCCCTACGATC
1 GGGGTAAGAGATTGGATGAGGTTTTCAATCTGCCC-ATGATC
* *
18713111 GGGGTAAGAGATTGTATGATGG-TTGCAATCTGCCCATGATC
1 GGGGTAAGAGATTGGATGA-GGTTTTCAATCTGCCCATGATC
* * *
18713152 GAGGTAAGAGATTGGATGATGTTTTCAATCTGCCCCATGATT
1 GGGGTAAGAGATTGGATGAGGTTTTCAATCTG-CCCATGATC
*
18713194 AGGGTAAGAGATTGGATG
1 GGGGTAAGAGATTGGATG
18713212 GTGACGTAAC
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
40 1 0.01
41 31 0.36
42 53 0.61
43 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (41 bp):
GGGGTAAGAGATTGGATGAGGTTTTCAATCTGCCCATGATC
Found at i:18713560 original size:49 final size:49
Alignment explanation
Indices: 18713471--18713983 Score: 421
Period size: 49 Copynumber: 10.5 Consensus size: 49
18713461 TATAAGATTT
* ** * * * * * *
18713471 GCCGTTGCGACTTCAAT-TTTTTCGTCATGCTTCTAAGGTACTAGTTTT
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTC
*
18713519 GTCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTC
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTC
* * * * * ** *
18713568 GCCGTTGCAACTTAAACCTTTCCCTCCATATCTTC-GTGGTATTAGATTC
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGT-TTCTGAGGTACAAGGTTC
* * *
18713617 GCCGTTGCAACTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTT
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTC
* ** * * * * *
18713666 ACTATTGCGACTTAAACCTTTCCCTTCATATTT-TCGTGGTACTAGATTC
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCT-GAGGTACAAGGTTC
* * *
18713715 GCCATTGTGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTC
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTC
* * * * * *
18713764 GCCGTTGTGACTTAAACCTTTCCCTCCATATCTT-TGTGGTAC-TGGATTC
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGT-TTCTGAGGTACAAGG-TTC
*
18713813 GCCGTTGCGACTTAAATCTTTCCCTTCATGTTTTTGAGGTACAAGGTTC
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTC
* * * ** * *
18713862 GCCGTCGCGACTTAAACCTTTCCCTCCACATCTTC-GTGGTAC-TGGATTC
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGT-TTCTGAGGTACAAGG-TTC
* * ** * * *
18713911 GTCGTTGTGGTTTAAATCTTTCCCATCAT-ATCCTGAGGTACAAGGTTC
1 GCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTC
**
18713959 ATCGTTGCGACTTAAATCTTTCCCT
1 GCCGTTGCGACTTAAATCTTTCCCT
18713984 CCATATCTTC
Statistics
Matches: 365, Mismatches: 87, Indels: 26
0.76 0.18 0.05
Matches are distributed among these distances:
47 2 0.01
48 54 0.15
49 299 0.82
50 10 0.03
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (49 bp):
GCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTC
Found at i:18713690 original size:98 final size:98
Alignment explanation
Indices: 18713507--18714013 Score: 701
Period size: 98 Copynumber: 5.2 Consensus size: 98
18713497 ATGCTTCTAA
* * *
18713507 GGTACTAGTTTTGTCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCG
1 GGTACTAGATTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCG
*
18713572 TTGCAACTTAAACCTTTCCCTCCATATCTTCGT
66 TTGCGACTTAAACCTTTCCCTCCATATCTTCGT
* * * ** **
18713605 GGTATTAGATTCGCCGTTGCAACTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTTACTA
1 GGTACTAGATTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCG
* *
18713670 TTGCGACTTAAACCTTTCCCTTCATATTTTCGT
66 TTGCGACTTAAACCTTTCCCTCCATATCTTCGT
* * *
18713703 GGTACTAGATTCGCCATTGTGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCG
1 GGTACTAGATTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCG
* *
18713768 TTGTGACTTAAACCTTTCCCTCCATATCTTTGT
66 TTGCGACTTAAACCTTTCCCTCCATATCTTCGT
* *
18713801 GGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTTTTTGAGGTACAAGGTTCGCCG
1 GGTACTAGATTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCG
* *
18713866 TCGCGACTTAAACCTTTCCCTCCACATCTTCGT
66 TTGCGACTTAAACCTTTCCCTCCATATCTTCGT
* * * ** * * * **
18713899 GGTACTGGATTCGTCGTTGTGGTTTAAATCTTTCCCATCAT-ATCCTGAGGTACAAGGTTCATCG
1 GGTACTAGATTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCG
* *
18713963 TTGCGACTTAAATCTTTCCCTCCATATCTTCAT
66 TTGCGACTTAAACCTTTCCCTCCATATCTTCGT
18713996 GGTACTAGATTCGCCGTT
1 GGTACTAGATTCGCCGTT
18714014 ACGGATTAAC
Statistics
Matches: 357, Mismatches: 52, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
97 63 0.18
98 294 0.82
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (98 bp):
GGTACTAGATTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCG
TTGCGACTTAAACCTTTCCCTCCATATCTTCGT
Found at i:18716078 original size:9 final size:8
Alignment explanation
Indices: 18716066--18716109 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
18716056 TGACCTTTTC
18716066 TTTCTTTCT
1 TTTC-TTCT
18716075 TTTCTTCT
1 TTTCTTCT
18716083 TCTTCTTCT
1 T-TTCTTCT
*
18716092 TTT-TTTT
1 TTTCTTCT
18716099 TTTCTTCT
1 TTTCTTCT
18716107 TTT
1 TTT
18716110 AATAACGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 6 0.19
8 13 0.42
9 12 0.39
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTCTTCT
Found at i:18716091 original size:21 final size:21
Alignment explanation
Indices: 18716067--18716107 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18716057 GACCTTTTCT
18716067 TTCTTTCTTTTCTTCTTCTTC
1 TTCTTTCTTTTCTTCTTCTTC
* *
18716088 TTCTTTTTTTTTTTCTTCTT
1 TTCTTTCTTTTCTTCTTCTT
18716108 TTAATAACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTCTTTCTTTTCTTCTTCTTC
Found at i:18720341 original size:30 final size:30
Alignment explanation
Indices: 18720307--18720571 Score: 158
Period size: 29 Copynumber: 8.9 Consensus size: 30
18720297 ACTCGGGATG
* * *
18720307 AAAATGAAATTTTAGAGAAGTTTGAGGGTC
1 AAAATGAGATTTTGGAAAAGTTTGAGGGTC
* * *
18720337 AAAAT-ATGATTTTGAAAAAGGTT-AGGGGC
1 AAAATGA-GATTTTGGAAAAGTTTGAGGGTC
* *
18720366 TAAAATGTGATTTTGGAATAGTTTGGAGGGTC
1 -AAAATGAGATTTTGGAAAAGTTT-GAGGGTC
* * *
18720398 AAAAT-ATGATCTTGGAAAAGTTTAAGGGTT
1 AAAATGA-GATTTTGGAAAAGTTTGAGGGTC
**
18720428 AAAATGTA-ATTTTATAAAAGTTTG-GGGTC
1 AAAATG-AGATTTTGGAAAAGTTTGAGGGTC
* * *
18720457 AAAATGTGATTTTGGAAAAGTTTAAGGGTA
1 AAAATGAGATTTTGGAAAAGTTTGAGGGTC
* * * *
18720487 AAAAT-ATAATTTTGG--AATTTTTAGGGGTT
1 AAAATGA-GATTTTGGAAAAGTTTGA-GGGTC
* *
18720516 AAAAT-ATGATTTTGGAAAGGTTTG-GGGTT
1 AAAATGA-GATTTTGGAAAAGTTTGAGGGTC
*
18720545 AAAATGTA-ATTTTAGAAAAGTTT-AGGG
1 AAAATG-AGATTTTGGAAAAGTTTGAGGG
18720572 ACCTCTTGAG
Statistics
Matches: 181, Mismatches: 37, Indels: 35
0.72 0.15 0.14
Matches are distributed among these distances:
28 6 0.03
29 73 0.40
30 72 0.40
31 24 0.13
32 6 0.03
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (30 bp):
AAAATGAGATTTTGGAAAAGTTTGAGGGTC
Found at i:18720462 original size:29 final size:30
Alignment explanation
Indices: 18720315--18720571 Score: 193
Period size: 30 Copynumber: 8.6 Consensus size: 30
18720305 TGAAAATGAA
* *
18720315 ATTTTAGAGAAGTTT-GAGGGTCAAAATATG
1 ATTTTAGAAAAGTTTAG-GGGTCAAAATGTG
*
18720345 ATTTT-GAAAAAGGTTAGGGG-CTAAAATGTG
1 ATTTTAG-AAAAGTTTAGGGGTC-AAAATGTG
* * * *
18720375 ATTTTGGAATAGTTTGGAGGGTCAAAATATG
1 ATTTTAGAAAAGTTTAG-GGGTCAAAATGTG
* * * * *
18720406 ATCTTGGAAAAGTTTAAGGGTTAAAATGTA
1 ATTTTAGAAAAGTTTAGGGGTCAAAATGTG
*
18720436 ATTTTATAAAAGTTT-GGGGTCAAAATGTG
1 ATTTTAGAAAAGTTTAGGGGTCAAAATGTG
* * * * *
18720465 ATTTTGGAAAAGTTTAAGGGTAAAAATATA
1 ATTTTAGAAAAGTTTAGGGGTCAAAATGTG
* ** * *
18720495 ATTTT-GGAATTTTTAGGGGTTAAAATATG
1 ATTTTAGAAAAGTTTAGGGGTCAAAATGTG
* * * *
18720524 ATTTTGGAAAGGTTT-GGGGTTAAAATGTA
1 ATTTTAGAAAAGTTTAGGGGTCAAAATGTG
18720553 ATTTTAGAAAAGTTTAGGG
1 ATTTTAGAAAAGTTTAGGG
18720572 ACCTCTTGAG
Statistics
Matches: 179, Mismatches: 39, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
29 74 0.41
30 79 0.44
31 25 0.14
32 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (30 bp):
ATTTTAGAAAAGTTTAGGGGTCAAAATGTG
Found at i:18720478 original size:59 final size:61
Alignment explanation
Indices: 18720307--18720569 Score: 295
Period size: 59 Copynumber: 4.4 Consensus size: 61
18720297 ACTCGGGATG
* * * * * *
18720307 AAAATGAAATTTTAGAGAAGTTT-GAGGGTCAAAATATGATTTTGAAAAAGGTTAGGGGCT
1 AAAATGTAATTTTAGAAAAGTTTAGAGGGTCAAAATATGATTTTGGAAAAGTTTAAGGGTT
* * * * *
18720367 AAAATGTGATTTTGGAATAGTTTGGAGGGTCAAAATATGATCTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGAGGGTCAAAATATGATTTTGGAAAAGTTTAAGGGTT
* * *
18720428 AAAATGTAATTTTATAAAAGTTT-G-GGGTCAAAATGTGATTTTGGAAAAGTTTAAGGGTA
1 AAAATGTAATTTTAGAAAAGTTTAGAGGGTCAAAATATGATTTTGGAAAAGTTTAAGGGTT
* * ** * * *
18720487 AAAATATAATTTT-GGAATTTTTAG-GGGTTAAAATATGATTTTGGAAAGGTTT-GGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGAGGGTCAAAATATGATTTTGGAAAAGTTTAAGGGTT
18720545 AAAATGTAATTTTAGAAAAGTTTAG
1 AAAATGTAATTTTAGAAAAGTTTAG
18720570 GGACCTCTTG
Statistics
Matches: 169, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
58 21 0.12
59 78 0.46
60 19 0.11
61 51 0.30
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (61 bp):
AAAATGTAATTTTAGAAAAGTTTAGAGGGTCAAAATATGATTTTGGAAAAGTTTAAGGGTT
Found at i:18725509 original size:3 final size:3
Alignment explanation
Indices: 18725501--18725541 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
18725491 CAATCCAATT
18725501 TTC TTC TTC TTC TTC TTC TT- TTC TTC TTC TT- TTC -TC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
18725542 AAACCCTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:18725524 original size:20 final size:21
Alignment explanation
Indices: 18725499--18725541 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
18725489 CCCAATCCAA
18725499 TTTTCTTCTTCTTCT-TCTTC
1 TTTTCTTCTTCTTCTCTCTTC
*
18725519 TTTTCTTCTTCTTTTCTCTTC
1 TTTTCTTCTTCTTCTCTCTTC
18725540 TT
1 TT
18725542 AAACCCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCTTCTTCTTCTCTCTTC
Found at i:18725526 original size:11 final size:11
Alignment explanation
Indices: 18725501--18725541 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
18725491 CAATCCAATT
18725501 TTCTTCTTCTTC
1 TTCTTCTT-TTC
18725513 TTCTTCTTTTC
1 TTCTTCTTTTC
18725524 TTCTTCTTTTC
1 TTCTTCTTTTC
18725535 -TCTTCTT
1 TTCTTCTT
18725542 AAACCCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 7 0.24
11 14 0.48
12 8 0.28
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TTCTTCTTTTC
Found at i:18726233 original size:2 final size:2
Alignment explanation
Indices: 18726226--18726250 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18726216 ATAAATGTAT
18726226 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 T
18726251 GTCATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18727789 original size:28 final size:28
Alignment explanation
Indices: 18727753--18727807 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18727743 AAGATTCCAC
*
18727753 AAAAAAAAAAAAACTTTA-ATTGAAAAA
1 AAAAAAAAAAAAACTTGAGATTGAAAAA
*
18727780 AAAAGAAAAAAAATCTTGAGATTGAAAA
1 AAAA-AAAAAAAAACTTGAGATTGAAAA
18727808 GCAGATCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 12 0.50
29 8 0.33
ACGTcount: A:0.69, C:0.04, G:0.09, T:0.18
Consensus pattern (28 bp):
AAAAAAAAAAAAACTTGAGATTGAAAAA
Found at i:18727803 original size:29 final size:26
Alignment explanation
Indices: 18727753--18727807 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
18727743 AAGATTCCAC
*
18727753 AAAAAAAAAAAAACTTTAATTGAAAA
1 AAAAAAAAAAAAACTTGAATTGAAAA
18727779 AAAAAGAAAAAAAATCTTGAGATTGAAAA
1 AAAAA-AAAAAAAA-CTTGA-ATTGAAAA
18727808 GCAGATCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 5 0.20
27 8 0.32
28 4 0.16
29 8 0.32
ACGTcount: A:0.69, C:0.04, G:0.09, T:0.18
Consensus pattern (26 bp):
AAAAAAAAAAAAACTTGAATTGAAAA
Found at i:18731566 original size:6 final size:6
Alignment explanation
Indices: 18731555--18731585 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
18731545 TGTGCTGTAT
*
18731555 TTTTTG TTTTTG TTTTTT TTTTTG TTTTTG T
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG T
18731586 GTCCATAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:18732299 original size:26 final size:26
Alignment explanation
Indices: 18732254--18732315 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
18732244 TTTTTTTAAT
*
18732254 AAAT-CAAATATATATTAATATGATA
1 AAATACAAATATATATTAATATGACA
* *
18732279 AAATACAAATAT-TGTTGAATATTACA
1 AAATACAAATATATATT-AATATGACA
18732305 ACAATACAAAT
1 A-AATACAAAT
18732316 TGAATTTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 7 0.23
26 15 0.48
27 9 0.29
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (26 bp):
AAATACAAATATATATTAATATGACA
Found at i:18736506 original size:140 final size:139
Alignment explanation
Indices: 18736124--18736506 Score: 506
Period size: 140 Copynumber: 2.7 Consensus size: 139
18736114 CTTACTTGTC
18736124 AACATACGCTTTAGCCAACTCTTTGTATAAGGGTT-GAGATATGCATGCCTAAGACAACGCTTAA
1 AACATACGCTTTAGCCAACTCTTTGTATAAGGGTTGGA-ATATGCATGCCTAAGACAACGCTTAA
* * ** * *
18736188 ATAAGAGTTGCCTTTGTCCAACACTATGACGA-TTTTTTGGGGCGACATTTTCCTAAGTGTTGGG
65 ATAAGAGTTGGCTTTGTCCAACACTATG-CGACCTTTTTACGCCGACACTTTCCTAAGTGTTGGG
18736252 ATAGACTTGCT
129 ATAGACTTGCT
* * **
18736263 AACATACGCTTTTA-CCAACTCTTTTGTGTAAGGGTTGGGATATGCATGCCTAAGGTAACGCTT-
1 AACATACGC-TTTAGCCAACTC-TTTGTATAAGGGTTGGAATATGCATGCCTAAGACAACGCTTA
**
18736326 AATAAGAGTCAGCTTTGTCCAACACTATAGCGACAC-TTTTACGCCGACACTTTCCTAAGTGTTG
64 AATAAGAGTTGGCTTTGTCCAACACTAT-GCGAC-CTTTTTACGCCGACACTTTCCTAAGTGTTG
18736390 GGATAGACTTGCT
127 GGATAGACTTGCT
** * * *
18736403 GGCATACACTTTGGCCAACTCTTTGTATAAGGGTTGGAATATGCATGCCTAAGACAATGCTTAAA
1 AACATACGCTTTAGCCAACTCTTTGTATAAGGGTTGGAATATGCATGCCTAAGACAACGCTTAAA
*
18736468 TAAGAGTTGGCTTTGTCCAACACTATGCCAACCTTTTTA
66 TAAGAGTTGGCTTTGTCCAACACTATG-CGACCTTTTTA
18736507 AGGTTTCCTT
Statistics
Matches: 210, Mismatches: 24, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
139 85 0.40
140 124 0.59
141 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (139 bp):
AACATACGCTTTAGCCAACTCTTTGTATAAGGGTTGGAATATGCATGCCTAAGACAACGCTTAAA
TAAGAGTTGGCTTTGTCCAACACTATGCGACCTTTTTACGCCGACACTTTCCTAAGTGTTGGGAT
AGACTTGCT
Found at i:18736542 original size:36 final size:36
Alignment explanation
Indices: 18736490--18736753 Score: 264
Period size: 36 Copynumber: 7.3 Consensus size: 36
18736480 TTGTCCAACA
* * * *
18736490 CTATGCCAACCTTTTTAAGGTTTCCTTAGATAAGGT
1 CTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
*
18736526 TTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
1 CTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
** *
18736562 CTATCCCAACCCTTTTAAAAGGTTGCCTTAGACAAAGT
1 CTATCCCAA--CTTTTTTAAGGTTGCCTTAGACAAGGT
* *
18736600 CTATCCCAACCTTTTT-AGGTTGCCTCA-ACAAGGT
1 CTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
* * * *
18736634 TTATCCCAACCTTTTTTAAAAGTTGCCTCAAACAAGGT
1 CTATCCCAA-CTTTTTT-AAGGTTGCCTTAGACAAGGT
* * * *
18736672 CTATACCAACCTTTTTAAGGTTGCCTTAGACATGAT
1 CTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
* * * *
18736708 TTATCCCAACTTTTTTAAAGTTGCCTTATAC-GGGT
1 CTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
*
18736743 CTATCTCAACT
1 CTATCCCAACT
18736754 GTAGAAGCCC
Statistics
Matches: 188, Mismatches: 34, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
34 14 0.07
35 27 0.14
36 84 0.45
37 16 0.09
38 47 0.25
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (36 bp):
CTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
Found at i:18736640 original size:72 final size:73
Alignment explanation
Indices: 18736495--18736752 Score: 301
Period size: 72 Copynumber: 3.6 Consensus size: 73
18736485 CAACACTATG
* * * * *
18736495 CCAACCTTTTT-AAGGTTTCCTTAGATAAGGTTTATCCCAACTTTTTTAAGGTTGCCTTAGACAA
1 CCAACCTTTTTAAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
*
18736559 GGTCTATC
66 GGTTTATC
* * *
18736567 CCAACCCTTTTAAAAGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTT-AGGTTGCCTCA-ACA
1 CCAACCTTTTTAAAA-GTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACA
18736630 AGGTTTATC
65 AGGTTTATC
* * *
18736639 CCAACCTTTTTTAAAAGTTGCCTCAAACAAGGTCTATACCAACCTTTTTAAGGTTGCCTTAGACA
1 CCAACC-TTTTTAAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACA
* *
18736704 TGATTTATC
65 AGGTTTATC
* * * *
18736713 CCAA-CTTTTTTAAAGTTGCCTTATAC-GGGTCTATCTCAAC
1 CCAACCTTTTTAAAAGTTGCCTTAGACAAGGTCTATCCCAAC
18736753 TGTAGAAGCC
Statistics
Matches: 158, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
71 11 0.07
72 74 0.47
73 31 0.20
74 42 0.27
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (73 bp):
CCAACCTTTTTAAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
GGTTTATC
Found at i:18736847 original size:15 final size:14
Alignment explanation
Indices: 18736829--18736859 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18736819 ACTTTTATTT
*
18736829 AAAAGTCCATTTAC
1 AAAAATCCATTTAC
18736843 AAAAATCCATTTAC
1 AAAAATCCATTTAC
18736857 AAA
1 AAA
18736860 TACCCAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAAATCCATTTAC
Found at i:18739652 original size:36 final size:35
Alignment explanation
Indices: 18739612--18739903 Score: 291
Period size: 36 Copynumber: 8.1 Consensus size: 35
18739602 GGTTTCGACA
* * * *
18739612 CCAACCATTTTTAAAGCTGCCTTATACGGGTTTATC
1 CCAACC-TTTTTAAAGTTGCCTTAGACAGGTCTATC
* ** *
18739648 CCAACCTTTTTTAAAGGTTGTCTTAGACAAGACCTATT
1 CCAACC-TTTTTAAA-GTTGCCTTAGAC-AGGTCTATC
* * * *
18739686 CCAACTTTTTTAAGGTTACCTTAGATAAGGTCTATC
1 CCAACCTTTTTAAAGTTGCCTTAGA-CAGGTCTATC
* * *
18739722 CCAACCTTTTTAAGGTTGCCTTAAACGGGTCTATC
1 CCAACCTTTTTAAAGTTGCCTTAGACAGGTCTATC
* *
18739757 CCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATC
1 CCAACCTTTTTAAAGTTGCCTTAGACAGGTCTATC
*
18739792 CCAACCTTTTTTAAATGTTGCCTTAGACAAGTCTATC
1 CCAACC-TTTTTAAA-GTTGCCTTAGACAGGTCTATC
*
18739829 CCAATCTTTTTAAAAGTTGCCTTAGACAAGGTCTA-C
1 CCAACCTTTTT-AAAGTTGCCTTAGAC-AGGTCTATC
*
18739865 CCTAACCTTTTTAAAGTTACCTTAGAC-GAGTCTATC
1 CC-AACCTTTTTAAAGTTGCCTTAGACAG-GTCTATC
18739901 CCA
1 CCA
18739904 TCAATAAAGG
Statistics
Matches: 216, Mismatches: 30, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
34 1 0.00
35 54 0.25
36 95 0.44
37 57 0.26
38 9 0.04
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (35 bp):
CCAACCTTTTTAAAGTTGCCTTAGACAGGTCTATC
Found at i:18739888 original size:144 final size:145
Alignment explanation
Indices: 18739612--18739903 Score: 401
Period size: 144 Copynumber: 2.0 Consensus size: 145
18739602 GGTTTCGACA
* * *
18739612 CCAACCATTTTTAAAGCTGCCTTATACGGGTTTATCCCAACCTTTTTTAAAGGTTGTCTTAGACA
1 CCAACCATTTTTAAAGCTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
* * * * * *
18739677 AGACCTATTCCAACTTTTTTAAGGTTACCTTAGATAAGGTCTATCCCAACCTTTTTAAGGTTGCC
66 AGACCTATCCCAACTTTTTAAAAGTTACCTTAGACAAGGTCTATCCCAACCTTTTTAAAGTTACC
*
18739742 TTAAACGGGTCTATC
131 TTAAACGAGTCTATC
* * *
18739757 CCAACC-TTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAATGTTGCCTTAGACA
1 CCAACCATTTTTAAAGCTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
* *
18739821 AG-TCTATCCCAATCTTTTTAAAAGTTGCCTTAGACAAGGTCTA-CCCTAACCTTTTTAAAGTTA
66 AGACCTATCCCAA-CTTTTTAAAAGTTACCTTAGACAAGGTCTATCCC-AACCTTTTTAAAGTTA
*
18739884 CCTTAGACGAGTCTATC
129 CCTTAAACGAGTCTATC
18739901 CCA
1 CCA
18739904 TCAATAAAGG
Statistics
Matches: 129, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
143 11 0.09
144 112 0.87
145 6 0.05
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (145 bp):
CCAACCATTTTTAAAGCTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
AGACCTATCCCAACTTTTTAAAAGTTACCTTAGACAAGGTCTATCCCAACCTTTTTAAAGTTACC
TTAAACGAGTCTATC
Found at i:18742564 original size:3 final size:3
Alignment explanation
Indices: 18742551--18742591 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
18742541 AGTATCCCCA
*
18742551 TCT TGT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
18742592 ATCATCTTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:18749438 original size:3 final size:3
Alignment explanation
Indices: 18749430--18749456 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18749420 GGAGGGACCC
18749430 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
18749457 CAACATGACA
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:18753168 original size:7 final size:7
Alignment explanation
Indices: 18753156--18753199 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
18753146 AGCCACATTG
18753156 AATATAA
1 AATATAA
18753163 AATATAA
1 AATATAA
18753170 AATATAA
1 AATATAA
18753177 AATATAA
1 AATATAA
18753184 AATATAA
1 AATATAA
18753191 AATATAA
1 AATATAA
18753198 AA
1 AA
18753200 GGGCATCCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AATATAA
Found at i:18767727 original size:3 final size:3
Alignment explanation
Indices: 18767719--18767757 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
18767709 GATAACAATA
18767719 ATG ATG ATG ATG ATG ATG ATG ATG ATTG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG A-TG ATG ATG ATG AT
18767758 AGGTACTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (3 bp):
ATG
Found at i:18774208 original size:26 final size:26
Alignment explanation
Indices: 18774168--18774240 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
18774158 GAACGTTAAC
*
18774168 CCTAAATCATAAACCTAAACCTCGAA
1 CCTAAATCCTAAACCTAAACCTCGAA
* * *
18774194 CCTAAATCCTGAACCCATA-CTCGAA
1 CCTAAATCCTAAACCTAAACCTCGAA
* *
18774219 CCTCAAATTCTAAACTTAAACC
1 CCT-AAATCCTAAACCTAAACC
18774241 CTAAATTTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
25 9 0.25
26 26 0.72
27 1 0.03
ACGTcount: A:0.41, C:0.33, G:0.04, T:0.22
Consensus pattern (26 bp):
CCTAAATCCTAAACCTAAACCTCGAA
Found at i:18782958 original size:16 final size:15
Alignment explanation
Indices: 18782932--18782974 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
18782922 TTAAAACAAT
18782932 AAATTTCTAAATTCTCA
1 AAATTT-TAAATT-TCA
*
18782949 AAATTTTAAAATTTTA
1 AAATTTT-AAATTTCA
18782965 AAATTTTAAA
1 AAATTTTAAA
18782975 ATTGTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 10 0.42
17 11 0.46
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTTAAATTTCA
Found at i:18782959 original size:8 final size:8
Alignment explanation
Indices: 18782948--18782983 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
18782938 CTAAATTCTC
18782948 AAAATTTT
1 AAAATTTT
18782956 AAAATTTT
1 AAAATTTT
18782964 AAAATTTT
1 AAAATTTT
18782972 AAAATTGTT
1 AAAATT-TT
18782981 AAA
1 AAA
18782984 TTATTTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.81
9 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:18784180 original size:22 final size:22
Alignment explanation
Indices: 18784139--18784192 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
18784129 ATAACTAAGC
*
18784139 TTCAAAGAAATAATTAAATTCAT
1 TTCAAA-AAATAAATAAATTCAT
* *
18784162 TTCAAAAATTAAATAAATTTAT
1 TTCAAAAAATAAATAAATTCAT
*
18784184 TTTAAAAAA
1 TTCAAAAAA
18784193 ATATAGTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (22 bp):
TTCAAAAAATAAATAAATTCAT
Found at i:18787433 original size:23 final size:24
Alignment explanation
Indices: 18787394--18787442 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
18787384 TTATTTGAAG
* *
18787394 TTATTTGTTTTGTTTATTTAATTT
1 TTATTTGATTTGTTTATTAAATTT
18787418 TTATTTGATTTG-TTATTAAATTT
1 TTATTTGATTTGTTTATTAAATTT
18787441 TT
1 TT
18787443 TTATTTAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.71
Consensus pattern (24 bp):
TTATTTGATTTGTTTATTAAATTT
Found at i:18787443 original size:24 final size:25
Alignment explanation
Indices: 18787394--18787448 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
18787384 TTATTTGAAG
* *
18787394 TTATTTGTTTTGTTTATTTAA-TTT
1 TTATTTGATTTGTTTATTAAATTTT
18787418 TTATTTGATTTG-TTATTAAATTTTT
1 TTATTTGATTTGTTTATTAAA-TTTT
18787443 TTATTT
1 TTATTT
18787449 AGTAAAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 7 0.26
24 11 0.41
25 9 0.33
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (25 bp):
TTATTTGATTTGTTTATTAAATTTT
Found at i:18788198 original size:6 final size:6
Alignment explanation
Indices: 18788189--18788262 Score: 54
Period size: 6 Copynumber: 13.0 Consensus size: 6
18788179 GATCTTTAGG
* *
18788189 TTTAAA TTT-AT TATTAAA TTTAAA TTT-AT TTTAAA TTTAAA ---AATA
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
18788234 TTTGAAA --TAAA TTTAAA TTTAAA TTTAAA
1 TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
18788263 GTCCAAACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
3 2 0.04
4 4 0.07
5 7 0.13
6 36 0.67
7 3 0.06
8 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:18788224 original size:17 final size:17
Alignment explanation
Indices: 18788189--18788262 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
18788179 GATCTTTAGG
18788189 TTTAAATTTATTATTAAA
1 TTTAAATTTATT-TTAAA
18788207 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
** *
18788224 TTTAAAAATATTTGAAA
1 TTTAAATTTATTTTAAA
*
18788241 --TAAATTTAAATTTAAA
1 TTTAAATTT-ATTTTAAA
18788257 TTTAAA
1 TTTAAA
18788263 GTCCAAACAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
15 5 0.11
16 6 0.13
17 19 0.41
18 16 0.35
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:18790157 original size:29 final size:30
Alignment explanation
Indices: 18790036--18790160 Score: 82
Period size: 29 Copynumber: 4.2 Consensus size: 30
18790026 TACATTCTGA
18790036 CCCCGAAACT-TCCAAAAATTACCATTTTAC
1 CCCCG-AACTCTCCAAAAATTACCATTTTAC
** ** *
18790066 CCCTAAACTCT-TTAAAATT-CCATTTTTAAA
1 CCCCGAACTCTCCAAAAATTACCA-TTTT-AC
* * *
18790096 CCCCG-ATTTTCACTGAAAATTACCATTTTAC
1 CCCCGAACTCTC-C-AAAAATTACCATTTTAC
*
18790127 CCCCGAACTCTCC-AAAATT-CCATTTTAA
1 CCCCGAACTCTCCAAAAATTACCATTTTAC
18790155 CCCCGA
1 CCCCGA
18790161 TTTCATCGAA
Statistics
Matches: 72, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
28 17 0.24
29 23 0.32
30 8 0.11
31 7 0.10
32 14 0.19
33 3 0.04
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.31
Consensus pattern (30 bp):
CCCCGAACTCTCCAAAAATTACCATTTTAC
Found at i:18790182 original size:29 final size:30
Alignment explanation
Indices: 18790079--18790181 Score: 106
Period size: 28 Copynumber: 3.4 Consensus size: 30
18790069 TAAACTCTTT
18790079 AAAATT-CCATTTTTAAACCCCGATTTTCA-CTG
1 AAAATTACCA-TTTT-AACCCCGA-TTTCATC-G
* ** *
18790111 AAAATTACCATTTTACCCCCGAACTC-TCC
1 AAAATTACCATTTTAACCCCGATTTCATCG
18790140 AAAATT-CCATTTTAACCCCGATTTCATCG
1 AAAATTACCATTTTAACCCCGATTTCATCG
18790169 AAAATTACCATTT
1 AAAATTACCATTT
18790182 ACTCCCAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
28 16 0.27
29 14 0.24
30 9 0.15
31 7 0.12
32 10 0.17
33 3 0.05
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (30 bp):
AAAATTACCATTTTAACCCCGATTTCATCG
Found at i:18790203 original size:58 final size:61
Alignment explanation
Indices: 18790050--18790190 Score: 193
Period size: 61 Copynumber: 2.4 Consensus size: 61
18790040 GAAACTTCCA
* **
18790050 AAAATTACCATTTTACCCCTAAACTCTTTAAAATTCCATTTTTAAACCCCGATTTTCACTG
1 AAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTAAACCCCGATTTTCACTG
*
18790111 AAAATTACCATTTTACCCCCGAACTCTCCAAAATTCCA-TTTT-AACCCCGA-TTTCA-TCG
1 AAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTAAACCCCGATTTTCACT-G
*
18790169 AAAATTACCA-TTTACTCCCAAA
1 AAAATTACCATTTTACCCCCAAA
18790191 TTTTCTCGAA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
57 11 0.15
58 16 0.22
59 8 0.11
60 4 0.05
61 34 0.47
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (61 bp):
AAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTAAACCCCGATTTTCACTG
Found at i:18794534 original size:10 final size:10
Alignment explanation
Indices: 18794511--18794568 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
18794501 TATACACATT
18794511 AAAAATAT--
1 AAAAATATAA
18794519 AAAAATATAA
1 AAAAATATAA
18794529 AAAAAT-T-A
1 AAAAATATAA
*
18794537 GAAAATATATA
1 AAAAATATA-A
* *
18794548 TAAAATCTAA
1 AAAAATATAA
18794558 AAAAATATAA
1 AAAAATATAA
18794568 A
1 A
18794569 TTATATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 14 0.35
9 2 0.05
10 16 0.40
11 8 0.20
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAAATATAA
Found at i:18794534 original size:18 final size:18
Alignment explanation
Indices: 18794511--18794568 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
18794501 TATACACATT
18794511 AAAAATATAAAAATATA-A
1 AAAAAT-TAAAAATATATA
18794529 AAAAATTAGAAAATATATA
1 AAAAATTA-AAAATATATA
* *
18794548 TAAAATCTAAAAAAATATA
1 AAAAAT-TAAAAATATATA
18794567 AA
1 AA
18794569 TTATATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 2 0.06
18 14 0.41
19 16 0.47
20 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAATTAAAAATATATA
Found at i:18801604 original size:90 final size:93
Alignment explanation
Indices: 18801359--18801619 Score: 305
Period size: 95 Copynumber: 2.8 Consensus size: 93
18801349 TTAAGAGTGT
* * * * * *
18801359 AAAAAGTCCTCAAAATTTTTCAAAAAAAAGTAATTAAGCCCCTATTTTTATTTTACACTCATTTG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAGCAATTAAGCCCCTAATTTTATTTTGCACTCAATTG
*
18801424 AATACTTGAACTTTCAAAATACATAAAAAAA
66 GATACTTGAACTTTCAAAATACAT---AAAA
* * * * * *
18801455 AAAAAGCTCTCAAACTTTTTC-AAAAAAGGCAATTAGGCCCTTACTTTTATTTTGTACTCAATTG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAGCAATTAAGCCCCTAATTTTATTTTGCACTCAATTG
* * *
18801519 GGTACTTGAACTTTCAAAATGCAT-CAA
66 GATACTTGAACTTTCAAAATACATAAAA
* *
18801546 AAAGA-CCCTCAAACTTTTTCAAAAAAAAGCAATTAAACCCCTAATTTT-TTTTGCACTCAATTG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAGCAATTAAGCCCCTAATTTTATTTTGCACTCAATTG
18801609 GATACTTGAAC
66 GATACTTGAAC
18801620 CGCCCCTAAT
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
90 38 0.27
91 28 0.20
95 56 0.40
96 18 0.13
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (93 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAAGCAATTAAGCCCCTAATTTTATTTTGCACTCAATTG
GATACTTGAACTTTCAAAATACATAAAA
Found at i:18803844 original size:12 final size:12
Alignment explanation
Indices: 18803827--18803861 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18803817 AATTCCTCTT
18803827 CCTCTTCTTCTC
1 CCTCTTCTTCTC
*
18803839 CCTCTTCCTCTC
1 CCTCTTCTTCTC
*
18803851 CCTCTCCTTCT
1 CCTCTTCTTCT
18803862 GTTTCTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (12 bp):
CCTCTTCTTCTC
Found at i:18803856 original size:18 final size:18
Alignment explanation
Indices: 18803821--18803857 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18803811 TTGTTCAATT
* *
18803821 CCTCTTCCTCTTCTTCTC
1 CCTCTTCCTCTCCCTCTC
18803839 CCTCTTCCTCTCCCTCTC
1 CCTCTTCCTCTCCCTCTC
18803857 C
1 C
18803858 TTCTGTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
CCTCTTCCTCTCCCTCTC
Found at i:18806770 original size:2 final size:2
Alignment explanation
Indices: 18806763--18806800 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
18806753 CTCCTTTCAT
*
18806763 TC TC TC TC TC TC TC TC TC TC -C TT TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18806801 TTACCACACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:18808631 original size:9 final size:9
Alignment explanation
Indices: 18808608--18808660 Score: 53
Period size: 8 Copynumber: 6.4 Consensus size: 9
18808598 ATATTTAGTC
18808608 ATATAA-TA
1 ATATAATTA
18808616 A-ATAATTA
1 ATATAATTA
18808624 ATATAATTA
1 ATATAATTA
18808633 ATATAA-TA
1 ATATAATTA
*
18808641 A-ATAATAA
1 ATATAATTA
*
18808649 AT-TATTTA
1 ATATAATTA
18808657 ATAT
1 ATAT
18808661 TTCAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
7 8 0.22
8 15 0.41
9 14 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATAATTA
Found at i:18808751 original size:24 final size:24
Alignment explanation
Indices: 18808693--18808758 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
18808683 ATTTTTAAAA
*
18808693 TAATAATTTTAAATAATATTCTACAC
1 TAAT-ATTTTAAA-AATATTCAACAC
* *
18808719 -ATATTTTTTAAAAATATTCAATAC
1 TA-ATATTTTAAAAATATTCAACAC
*
18808743 TAATATTTTAATAATA
1 TAATATTTTAAAAATA
18808759 AATATTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
24 22 0.67
25 9 0.27
26 2 0.06
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATATTTTAAAAATATTCAACAC
Found at i:18808764 original size:15 final size:15
Alignment explanation
Indices: 18808744--18808800 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
18808734 ATTCAATACT
18808744 AATATTTTAATAATA
1 AATATTTTAATAATA
*
18808759 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
18808778 AATATATTAATAATA
1 AATATTTTAATAATA
18808793 AATATTTT
1 AATATTTT
18808801 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:18818950 original size:72 final size:72
Alignment explanation
Indices: 18818764--18819248 Score: 316
Period size: 72 Copynumber: 6.7 Consensus size: 72
18818754 TCCTTAGGTA
* * * * **
18818764 CCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAGGACTTTCGTCT
1 CCTCTTCAGGTTCCTTACTTTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAGGACTCTCCCCT
18818829 TTGGGTG
66 TTGGGTG
* * * * * *
18818836 CCTCTCCAGGTTCCTT-CTTCTTAACTAATTTTAGTTTCGGTACCTTTTCCTCAGTACTCTCCCC
1 CCTCTTCAGGTTCCTTACTT-TCAACCAACTTTAGTTTTGGTACCTTTTCCTCAGGACTCTCCCC
*
18818900 TTTGGGTT
65 TTTGGGTG
* * * * * *
18818908 CCTCTTCAGGTTCCTTAGTTTCAACCAGCCTTAATTTTGGTACATTTTCCTCA--ACACTCCCCT
1 CCTCTTCAGGTTCCTTACTTTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAGGACTCTCCCC-
*
18818971 TCTTGGGCG
65 T-TTGGGTG
* * * * * *** * **
18818980 CATCTTTAGGTTCCTT-CTTCTCGATCAACTTTGGTTTCCATTCCTTCTT-CTCAATACTCTCCA
1 CCTCTTCAGGTTCCTTACTT-TCAACCAACTTTAGTTTTGGTACCTT-TTCCTCAGGACTCTCC-
* *
18819043 CC-TTAGGTA
63 CCTTTGGGTG
* * * ***
18819052 TCTCTTCAAGTTCCTT-CTTCTCAACCAACTTT-GATTTTGGTACTTTTTCCTCAACCCTCTCCT
1 CCTCTTCAGGTTCCTTACTT-TCAACCAACTTTAG-TTTTGGTACCTTTTCCTCAGGACTCTCC-
18819115 CC-TTGGGTG
63 CCTTTGGGTG
* * * *
18819124 CCTCATCAGGTTTCTT-CTTCTCAACCAACTTTGGTTTTGGTACCTTTTGCTCATCGG--TCTCC
1 CCTCTTCAGGTTCCTTACTT-TCAACCAACTTTAGTTTTGGTACCTTTTCCTCA--GGACTCTCC
*
18819186 ACC-TTGGGTA
63 -CCTTTGGGTG
* *
18819196 CCTCTTTAGGTTCCTT-CTTCTCAACCAACTTT-GATTTTGATACCTTTTCCTCA
1 CCTCTTCAGGTTCCTTACTT-TCAACCAACTTTAG-TTTTGGTACCTTTTCCTCA
18819249 ACACTGACCC
Statistics
Matches: 323, Mismatches: 75, Indels: 30
0.75 0.18 0.07
Matches are distributed among these distances:
70 8 0.02
71 9 0.03
72 293 0.91
73 5 0.02
74 6 0.02
75 2 0.01
ACGTcount: A:0.15, C:0.30, G:0.13, T:0.42
Consensus pattern (72 bp):
CCTCTTCAGGTTCCTTACTTTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAGGACTCTCCCCT
TTGGGTG
Found at i:18819017 original size:144 final size:141
Alignment explanation
Indices: 18818749--18819368 Score: 531
Period size: 144 Copynumber: 4.3 Consensus size: 141
18818739 TTCTCGACAG
* * * * * * * *
18818749 TCTCCTCCTTAGGTACCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCC
1 TCTCCACCTTGGGTTCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACATTTTCC
** ** * * * * * * *
18818814 TCAGGACTTTCGTCTTTGGGTGCCTC-TCCAGGTTCCTTCTTCT-TAACTAATTTTAGTTTCGGT
66 TCAACACTCCCCTC-TTGGGTGCATCAT-CAGGTTCCTTCTTCTCGATC-AACTTTGGTTTCGAT
18818877 ACCTTTTCCTCAGTAC
128 ACCTTTT-CTCA-TAC
* * * *
18818893 TCTCC-CCTTTGGGTTCCTCTTCAGGTTCCTTAGTT-TCAACCAGCCTTAATTTTGGTACATTTT
1 TCTCCACC-TTGGGTTCCTCTTCAGGTTCCTT-CTTCTCAACCAACTTTGATTTTGGTACATTTT
* * * *
18818956 CCTCAACACTCCCCTTCTTGGGCGCATCTTTAGGTTCCTTCTTCTCGATCAACTTTGGTTTCCAT
64 CCTCAACACTCCCC-TCTTGGGTGCATCATCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCGAT
*
18819021 TCCTTCTTCTCAATAC
128 ACCTT-TTCTC-ATAC
* * *
18819037 TCTCCACCTTAGGTAT-CTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACTTTTTC
1 TCTCCACCTTGGGT-TCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACATTTTC
* * * * * * * *
18819101 CTCAACCCTCTCCTCCTTGGGTGCCTCATCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGTA
65 CTCAACACTCCCCT-CTTGGGTGCATCATCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCGATA
18819166 CCTTTTGCTCAT-C
129 CCTTTT-CTCATAC
* * * *
18819179 GGTCTCCACCTTGGGTACCTCTTTAGGTTCCTTCTTCTCAACCAACTTTGATTTTGATACCTTTT
1 --TCTCCACCTTGGGTTCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACATTTT
* * * * * *
18819244 CCTCAACACTGACCC-CTTGGATGCGTCCTCAGTTTCCTTCTTCTCGATCAACTTTGGTTTTGAT
64 CCTCAACACT-CCCCTCTTGGGTGCATCATCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCGAT
*
18819308 ACC--TTCTCACCAC
128 ACCTTTTCTCA-TAC
* * *
18819321 TCTCCACCTTGGGTAT-CACTTCAAGTTCCTTCTTCTCGACCAACTTTG
1 TCTCCACCTTGGGT-TCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTG
18819369 GTAACTCTGA
Statistics
Matches: 390, Mismatches: 67, Indels: 42
0.78 0.13 0.08
Matches are distributed among these distances:
140 46 0.12
141 2 0.01
142 2 0.01
143 53 0.14
144 272 0.70
145 15 0.04
ACGTcount: A:0.15, C:0.31, G:0.13, T:0.41
Consensus pattern (141 bp):
TCTCCACCTTGGGTTCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACATTTTCC
TCAACACTCCCCTCTTGGGTGCATCATCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCGATACC
TTTTCTCATAC
Found at i:18820077 original size:72 final size:72
Alignment explanation
Indices: 18819907--18820391 Score: 228
Period size: 72 Copynumber: 6.8 Consensus size: 72
18819897 TCCTTAGGTA
* * * ** * *
18819907 CCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAGGACTCTCATCT
1 CCTCTTCAGGTTCCTTACTTTCAACCAACTTTAGTTTCAGTACCTTTTCCTCAAGACTCTCACCT
18819972 TTGGGTG
66 TTGGGTG
* * * * *
18819979 CCTCTCCAGGTTCCTT-CTTCTTAACCAATTTTAGTTTCAGTACCTTTTCCTCAATACTCTCCCC
1 CCTCTTCAGGTTCCTTACTT-TCAACCAACTTTAGTTTCAGTACCTTTTCCTCAAGACTCTCACC
* *
18820043 TTTGTGTT
65 TTTGGGTG
* * * * ** * *
18820051 CCTCTTCAGGTTCCTTAGTTTCAACCAGCCTTAATTTTGGTACATTTTCCTCAACACTC-C-CCT
1 CCTCTTCAGGTTCCTTACTTTCAACCAACTTTAGTTTCAGTACCTTTTCCTCAAGACTCTCACC-
*
18820114 TCTTGGGCG
65 T-TTGGGTG
* * * * * * * * *
18820123 CATCTTTA-GTTCCTTCCTCTT-GATCAACTTTGGTTTCCA-TGCCATCTT-CTCAATACTCTCC
1 CCTCTTCAGGTTCCTTACT-TTCAACCAACTTTAGTTT-CAGTACC-TTTTCCTCAAGACTCT-C
* *
18820184 ACC-TTAGGTA
62 ACCTTTGGGTG
* * ** * **
18820194 TCTCTTCAAGTTCCTT-CTTCTCAACCAACTTT-GATTTTGGTACTTTTTCCTCAACCCTCTC-C
1 CCTCTTCAGGTTCCTTACTT-TCAACCAACTTTAG-TTTCAGTACCTTTTCCTCAAGACTCTCAC
*
18820256 TCCTTGGGTG
64 -CTTTGGGTG
* * * ** * * *
18820266 CCTCATCAGGTTTCTT-CTTCTCAACCAACTTTGGTTTTGGTACCTTTTGCTCATCG-GTCTCCA
1 CCTCTTCAGGTTCCTTACTT-TCAACCAACTTTAGTTTCAGTACCTTTTCCTCA-AGACTCT-CA
*
18820329 CC-TTGGGTA
63 CCTTTGGGTG
* * * *
18820338 CCTCTTTAGGTTTCTT-CTTCTCAACCAACTTTGGTTT-TGATACCTTTTCCTCAA
1 CCTCTTCAGGTTCCTTACTT-TCAACCAACTTTAGTTTCAG-TACCTTTTCCTCAA
18820392 CACTGACCCC
Statistics
Matches: 314, Mismatches: 76, Indels: 47
0.72 0.17 0.11
Matches are distributed among these distances:
70 4 0.01
71 51 0.16
72 250 0.80
73 6 0.02
74 3 0.01
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (72 bp):
CCTCTTCAGGTTCCTTACTTTCAACCAACTTTAGTTTCAGTACCTTTTCCTCAAGACTCTCACCT
TTGGGTG
Found at i:18820209 original size:143 final size:143
Alignment explanation
Indices: 18819892--18820395 Score: 398
Period size: 144 Copynumber: 3.5 Consensus size: 143
18819882 TTCTCGACAG
* * * *
18819892 TCTCCTCCTTAGGTACCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCC
1 TCTCC-CCTTAGGTATCTCTTCAAGTTCCTTACTTTCAACCAACTTTGATTTTGGTACATTTTCC
** * * * * * *
18819957 TCAGGACT-CTCATCTTTGGGTGCCTCTCCAGGTTCCTTCTTCTTAACCAATTTTAGTTTCAGTA
65 TCAACACTCCCCTTC-TTGGGCGCATCTCCAGGTTCCTTCCTCTTAACCAACTTTAGTTTCAGTA
*
18820021 CCTTTTCCTCAATAC
129 CCTCTTCCTCAATAC
* * * * * *
18820036 TCTCCCCTTTGTGT-TCCTCTTCAGGTTCCTTAGTTTCAACCAGCCTTAATTTTGGTACATTTTC
1 TCTCCCCTTAG-GTAT-CTCTTCAAGTTCCTTACTTTCAACCAACTTTGATTTTGGTACATTTTC
** * * *
18820100 CTCAACACTCCCCTTCTTGGGCGCATCTTTA-GTTCCTTCCTCTTGATCAACTTTGGTTTCCA-T
64 CTCAACACTCCCCTTCTTGGGCGCATCTCCAGGTTCCTTCCTCTTAACCAACTTTAGTTT-CAGT
*
18820163 GCCATCTT-CTCAATAC
128 ACC-TCTTCCTCAATAC
*
18820179 TCTCCACCTTAGGTATCTCTTCAAGTTCCTT-CTTCTCAACCAACTTTGATTTTGGTACTTTTTC
1 TCTCC-CCTTAGGTATCTCTTCAAGTTCCTTACTT-TCAACCAACTTTGATTTTGGTACATTTTC
* * * * * * * * * **
18820243 CTCAACCCTCTCCTCCTTGGGTGCCTCAT-CAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGT
64 CTCAACACTCCCCTTCTTGGGCGCATC-TCCAGGTTCCTTCCTCTTAACCAACTTTAGTTTCAGT
* *
18820307 ACCTTTTGCTC-AT-C
128 ACCTCTTCCTCAATAC
* * * * * * * *
18820321 GGTCTCCACCTTGGGTACCTCTTTAGGTTTCTT-CTTCTCAACCAACTTTGGTTTTGATACCTTT
1 --TCTCC-CCTTAGGTATCTCTTCAAGTTCCTTACTT-TCAACCAACTTTGATTTTGGTACATTT
18820385 TCCTCAACACT
62 TCCTCAACACT
18820396 GACCCCTTGG
Statistics
Matches: 291, Mismatches: 55, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
142 3 0.01
143 113 0.39
144 171 0.59
145 4 0.01
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (143 bp):
TCTCCCCTTAGGTATCTCTTCAAGTTCCTTACTTTCAACCAACTTTGATTTTGGTACATTTTCCT
CAACACTCCCCTTCTTGGGCGCATCTCCAGGTTCCTTCCTCTTAACCAACTTTAGTTTCAGTACC
TCTTCCTCAATAC
Found at i:18820425 original size:287 final size:283
Alignment explanation
Indices: 18819882--18820510 Score: 694
Period size: 287 Copynumber: 2.2 Consensus size: 283
18819872 TTGAATCATT
* * * * * * *
18819882 TTCTCGACAGTCTCCTCCTTAGGTACCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGG
1 TTCTCAACACTCTCCACCTTAGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGG
** * * *
18819947 TACCTTTTCCTCAGGACTCTCATCTTTGGGTGCCTCTCCAGGTTCCTTCTTCTTAACCAATTTTA
66 TACCTTTTCCTCAACACTCTCATCCTTGGGTGCCTCTCCAGGTTCCTTCTTCTCAACCAACTTTA
* * *
18820012 GTTTCAGTACCTTTTCCTCAATACTCTCCCCTTTGTGTTCCTCTTCAGGTTCCTTAGTTTCAACC
131 GTTTCAGTACCTTTTCCTCAATACTCTCCCCTTTGGGTACCTCTTCAGGTTCCTTACTTTCAACC
* * * * * *
18820077 AGCCTTAATTTTGGTACATTTTCCTCAACACTCCCCTTCTTGGGCGCATCTTTAGTTCCTTCCTC
196 AACCTTAATTTTGATACATTTTCCTCAACACTACCC-TCTTGGACGCATCCTCAGTTCCTTCCTC
* * *
18820142 TTGATCAACTTTGGTTTCCATGCCATC
260 TCGATCAACTTTGGTTT---TGACACC
*
18820169 TTCTCAATACTCTCCACCTTAGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGG
1 TTCTCAACACTCTCCACCTTAGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGG
* * * *
18820234 TACTTTTTCCTCAACCCTCTCCTCCTTGGGTGCCTCAT-CAGGTTTCTTCTTCTCAACCAACTTT
66 TACCTTTTCCTCAACACTCTCATCCTTGGGTGCCTC-TCCAGGTTCCTTCTTCTCAACCAACTTT
* ** * * *
18820298 GGTTTTGGTACCTTTTGCTC-AT-CGGTCTCCACC-TTGGGTACCTCTTTAGGTTTCTT-CTTCT
130 AGTTTCAGTACCTTTTCCTCAATAC--TCTCC-CCTTTGGGTACCTCTTCAGGTTCCTTACTT-T
* ** * * *
18820359 CAACCAACTTTGGTTTTGATACCTTTTCCTCAACACTGACCC-CTTGGATGCGTCCTCAGTTTCC
191 CAACCAACCTTAATTTTGATACATTTTCCTCAACACT-ACCCTCTTGGACGCATCCTCAG-TTCC
* *
18820423 TTCTTCTCGATCAACTTTGGTTTTGATACC
254 TTCCTCTCGATCAACTTTGGTTTTGACACC
* * * *
18820453 TTCTCACCACTCTCCACCTTGGGTATCACTTCAAGTTCCTTCTTCTCGACCAACTTTG
1 TTCTCAACACTCTCCACCTTAGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTG
18820511 GTAACTCTGA
Statistics
Matches: 287, Mismatches: 48, Indels: 17
0.82 0.14 0.05
Matches are distributed among these distances:
284 57 0.20
285 1 0.00
286 16 0.06
287 207 0.72
288 6 0.02
ACGTcount: A:0.16, C:0.31, G:0.13, T:0.41
Consensus pattern (283 bp):
TTCTCAACACTCTCCACCTTAGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGG
TACCTTTTCCTCAACACTCTCATCCTTGGGTGCCTCTCCAGGTTCCTTCTTCTCAACCAACTTTA
GTTTCAGTACCTTTTCCTCAATACTCTCCCCTTTGGGTACCTCTTCAGGTTCCTTACTTTCAACC
AACCTTAATTTTGATACATTTTCCTCAACACTACCCTCTTGGACGCATCCTCAGTTCCTTCCTCT
CGATCAACTTTGGTTTTGACACC
Found at i:18821124 original size:72 final size:72
Alignment explanation
Indices: 18821035--18821653 Score: 491
Period size: 72 Copynumber: 8.7 Consensus size: 72
18821025 CTCGACAGAG
* * * * *
18821035 TCCTCCTTAGGTACCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTC
1 TCCTCCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTC
* * *
18821100 AAGAGTT
66 AACACTC
* * * * * *
18821107 TCGTCTTTGGGTGCCTCTCCAGGTTCCTTCTTCTTAACCAATTTTAGTTTTGGTACCTTTTCCTC
1 TCCTCCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTC
*
18821172 AATACTC
66 AACACTC
* * * * * ** * *
18821179 TCC-CCTTTGGGTTCCTCTTCAGGTTCCTTAGTT-TCGACCAGCCTTAATTCTGGTACATTTTCC
1 TCCTCC-TTGGGTGCCTCTTCAGGTTCCTT-CTTCTCAACCAACTTTGGTTTTGGTACCTTTTCC
*
18821242 TCAACAGTC
64 TCAACACTC
* * * * * *** * *
18821251 -CCTTCTT-GGCGCGTCCTT-AGGTTCCTTCTTCTCGATCAACTTTGGTTTCCATGCCATCTT-C
1 TCCTCCTTGGGTGCCT-CTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACC-TTTTCC
*
18821312 TCAATACTC
64 TCAACACTC
* * * ** * * *
18821321 TCCACCGTAGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACTTTTTCCTC
1 TCCTCCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTC
*
18821386 AACCCTC
66 AACACTC
* * *
18821393 TCCTCCTTGGGTGCCTCATCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTGCTC
1 TCCTCCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTC
* **
18821458 ATCGGTC
66 AACACTC
* * * *
18821465 TCCACCTTGGGTACCTCTTTAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTCCTC
1 TCCTCCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTC
*
18821530 AACACTG
66 AACACTC
* * * * * * * * *
18821537 ACCCCCTTGGATGCTTCCTCAGTTTCCTTCTTCTCAATCAACTTTGGTTTTGATGCC--TT-CTC
1 TCCTCCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTC
*
18821599 ACCACTC
66 AACACTC
* ** * * *
18821606 TCCACCTTGGGTATCACTTCAAGTTCCTTCTTCTCGACCAACTTTGGT
1 TCCTCCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGT
18821654 AATTCTGATT
Statistics
Matches: 421, Mismatches: 116, Indels: 23
0.75 0.21 0.04
Matches are distributed among these distances:
69 46 0.11
70 36 0.09
71 21 0.05
72 316 0.75
73 2 0.00
ACGTcount: A:0.15, C:0.31, G:0.14, T:0.41
Consensus pattern (72 bp):
TCCTCCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTC
AACACTC
Found at i:18821467 original size:144 final size:143
Alignment explanation
Indices: 18821039--18821651 Score: 562
Period size: 144 Copynumber: 4.3 Consensus size: 143
18821029 ACAGAGTCCT
* * * * * *
18821039 CCTTAGGTACCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAAGA
1 CCTTGGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACA
* * * * * * * *
18821104 GTTTCGTCTTTGGGTGCCT-CTCCAGGTTCCTTCTTCTTAACCAATTTTAGTTTTGGTACCTTTT
66 CTCTCCTCCTTGGGTGCCTCCT-CAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTT
18821168 CCTCAATACTCTCC-
130 -CTCAATACTCTCCA
* * * * * * * *
18821182 CCTTTGGGT-TCCTCTTCAGGTTCCTTAGTT-TCGACCAGCCTTAATTCTGGTACATTTTCCTCA
1 CC-TTGGGTAT-CTCTTCAAGTTCCTT-CTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCA
* * * * * * * ** *
18821245 ACAGTC-CCTTCTT-GGCGCGTCCTTAGGTTCCTTCTTCTCGATCAACTTTGGTTTCCATGCCAT
63 ACACTCTCCTCCTTGGGTGCCTCCTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACC-T
*
18821308 CTTCTCAATACTCTCCA
127 TTTCTCAATACTCTCCA
* * * *
18821325 CCGTAGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACTTTTTCCTCAACC
1 CCTTGGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACA
* * *
18821390 CTCTCCTCCTTGGGTGCCTCATCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTG
66 CTCTCCTCCTTGGGTGCCTCCTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTT-
18821455 CTC-AT-CGGTCTCCA
130 CTCAATAC--TCTCCA
* * * * *
18821469 CCTTGGGTACCTCTTTAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTCCTCAACA
1 CCTTGGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACA
** * * * * * *
18821534 CTGACCCCCTTGGATGCTTCCTCAGTTTCCTTCTTCTCAATCAACTTTGGTTTTGATGCC--TTC
66 CTCTCCTCCTTGGGTGCCTCCTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTC
**
18821597 TCACCACTCTCCA
131 TCAATACTCTCCA
* *
18821610 CCTTGGGTATCACTTCAAGTTCCTTCTTCTCGACCAACTTTG
1 CCTTGGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTG
18821652 GTAATTCTGA
Statistics
Matches: 374, Mismatches: 81, Indels: 32
0.77 0.17 0.07
Matches are distributed among these distances:
141 48 0.13
142 98 0.26
143 26 0.07
144 200 0.53
145 2 0.01
ACGTcount: A:0.15, C:0.31, G:0.14, T:0.41
Consensus pattern (143 bp):
CCTTGGGTATCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACA
CTCTCCTCCTTGGGTGCCTCCTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTC
TCAATACTCTCCA
Found at i:18822339 original size:72 final size:72
Alignment explanation
Indices: 18822176--18822800 Score: 497
Period size: 72 Copynumber: 8.7 Consensus size: 72
18822166 TTCTCGACAG
* * * * * *
18822176 TCTCCTCCTTAGGTACCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCC
1 TCTCCACCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCC
** *
18822241 TCAGGAG
66 TCAATAC
* ** * * * * *
18822248 TTTCGTCTTTGGGTGCCTCTCCAGGTTCCTTCTTCTTAACCAATTTTAGTTTTGGTACCTTTTCC
1 TCTCCACCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCC
18822313 TCAATAC
66 TCAATAC
* * * * ** *
18822320 TCTCC-CCTTGGGGTTCCTCTTCAGGTTCCTTAGTT-TCAACCAGCCTTAATTTTGGTACATTTT
1 TCTCCACCTT-GGGTGCCTCTTCAGGTTCCTT-CTTCTCAACCAACTTTGGTTTTGGTACCTTTT
* *
18822383 CTTCAACAC
64 CCTCAATAC
* ** * * * * *** *
18822392 TCCCCTTCTTGGGCGCATCTTTAGGTTCCTTCTTCTCAATCAACTTTGGTTTCCATGCCTTCTT-
1 TCTCCACCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTT-TTC
18822456 CTCAATAC
65 CTCAATAC
* *** * * *
18822464 TCTCCACCTTAGGTATGTCTTCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACTTTTTCC
1 TCTCCACCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCC
*
18822529 TCAATCC
66 TCAATAC
* * * * *
18822536 TCTCCTCCTTGAGTGCCTCATCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTTC
1 TCTCCACCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCC
* **
18822601 TCATTTG
66 TCAATAC
* * *
18822608 TCTCCACCTTGGGTACCTCTTTAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTCC
1 TCTCCACCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCC
*
18822673 TCAACAC
66 TCAATAC
** * * * * * * * *
18822680 TGACCCCCTTGGATTCTTCCTCAGTTTCCTTCTTCTCGATCAACTTTGGTTTTGTAGTACC--TT
1 TCTCCACCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTG--GTACCTTTT
**
18822743 -CTCACCAC
64 CCTCAATAC
** * * *
18822751 TCTCCACCTTGGGTATCACTTCAAGTTCCTTCTTCTCGACCAACTTTGGT
1 TCTCCACCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGT
18822801 AATTCTGATT
Statistics
Matches: 427, Mismatches: 118, Indels: 17
0.76 0.21 0.03
Matches are distributed among these distances:
71 52 0.12
72 364 0.85
73 7 0.02
74 4 0.01
ACGTcount: A:0.15, C:0.30, G:0.13, T:0.42
Consensus pattern (72 bp):
TCTCCACCTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCC
TCAATAC
Found at i:18823526 original size:71 final size:71
Alignment explanation
Indices: 18823335--18823739 Score: 291
Period size: 72 Copynumber: 5.6 Consensus size: 71
18823325 TCCTTAGGTA
* * * * *
18823335 CCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAAGACTCTCATCT
1 CCTCTTCAGGTTCCTT-CTTTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACTCTCACCT
18823400 TTGGGTG
65 TTGGGTG
* * * * *
18823407 CCTCTCCAGGTTCCTTCTTCTTAACCAATTTTAGTTTTGGTACCTTTTCCTCAATACTCTCCCCT
1 CCTCTTCAGGTTCCTTCTT-TCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACTCTCACCT
18823472 TTGGGT-
65 TTGGGTG
* * * * *
18823478 CCTCTTCAGGTTCCTTGGTTTCAACCAGCCTTAATTTTGGTACATTTTCCTCAACACTC-C-CCT
1 CCTCTTCAGGTTCCTT-CTTTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACTCTCACC-
*
18823541 TCTTGGGCG
64 T-TTGGGTG
* * * * * *** * *
18823550 CGTCTTTAGGTTCCTTCTTCTCGATCAACTTTGGTTTCCATTCCTTCTT-CTCAATACTCTCCAC
1 CCTCTTCAGGTTCCTTCTT-TCAACCAACTTTAGTTTTGGTACCTT-TTCCTCAACACTCT-CAC
* *
18823614 C-TTAGGTA
63 CTTTGGGTG
* * * * * * *
18823622 TCTCTTCAAGTTCCTTCTTCTCAACCAACTTTGGTTTTGGCACCTTTTTCTCAACATTTTC-CTC
1 CCTCTTCAGGTTCCTTCTT-TCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACTCTCAC-C
* *
18823686 CTTGGGTA
64 TTTGGGTG
* * * **
18823694 CCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTCAGTACCTT
1 CCTCTTCAGGTTCCTTC-TTTCAACCAACTTTAGTTTTGGTACCTT
18823740 CTCAGCTTCA
Statistics
Matches: 258, Mismatches: 61, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
69 2 0.01
70 3 0.01
71 60 0.23
72 186 0.72
73 4 0.02
74 1 0.00
75 2 0.01
ACGTcount: A:0.15, C:0.30, G:0.12, T:0.42
Consensus pattern (71 bp):
CCTCTTCAGGTTCCTTCTTTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACTCTCACCTT
TGGGTG
Found at i:18823924 original size:135 final size:131
Alignment explanation
Indices: 18823650--18823911 Score: 347
Period size: 135 Copynumber: 2.0 Consensus size: 131
18823640 TCTCAACCAA
* *
18823650 CTTTGGTTTTGGCACCTTTTTCTCAACATTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTT
1 CTTTGGTTTTGGCACCATTTGCTCAACATTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTT
*
18823715 CAGCCAACTTCAGTTTCAGTACCTTCTCAGCTTCAGCTTCAGCTGCAGCTTCAGTCTCCTTTTCA
66 CAGCCAACTTCAGTTTCAGTACCTTCTCAGCTTCAGCTTCAGCT----CTTCAGGCTCCTTTTCA
*
18823780 ACCGG
127 ACCGC
*
18823785 CTTTGGTTTTGGCACCATTTGCTCAACACTTTT-CTCCTTGGGTACCTCTTCTGGTTTCTT-TTC
1 CTTTGGTTTTGGCACCATTTGCTCAACA-TTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTT-
**
18823848 TTCAGCCAACTTCAGTTTTGGTACCTT-TGCAGCTTCAGCTTCAG-T-TTC-GGCATCCTTTTCA
64 TTCAGCCAACTTCAGTTTCAGTACCTTCT-CAGCTTCAGCTTCAGCTCTTCAGGC-TCCTTTTCA
18823909 ACC
127 ACC
18823912 CATTGCTCCT
Statistics
Matches: 117, Mismatches: 6, Indels: 14
0.85 0.04 0.10
Matches are distributed among these distances:
128 2 0.02
129 15 0.13
134 4 0.03
135 92 0.79
136 4 0.03
ACGTcount: A:0.14, C:0.29, G:0.15, T:0.42
Consensus pattern (131 bp):
CTTTGGTTTTGGCACCATTTGCTCAACATTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTT
CAGCCAACTTCAGTTTCAGTACCTTCTCAGCTTCAGCTTCAGCTCTTCAGGCTCCTTTTCAACCG
C
Found at i:18824042 original size:19 final size:19
Alignment explanation
Indices: 18824007--18824070 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 19
18823997 TCTTAGGCTC
18824007 TTCTTGTTCTT-CTTCTTCG
1 TTCTTGTTCTTGC-TCTTCG
18824026 TTCTTGTTCTTGCTCTT-G
1 TTCTTGTTCTTGCTCTTCG
* * *
18824044 GTCTGGTTCTGGCTCTTCG
1 TTCTTGTTCTTGCTCTTCG
18824063 TTC-TGTTC
1 TTCTTGTTC
18824071 CTCAATGGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 19 0.50
19 18 0.47
20 1 0.03
ACGTcount: A:0.00, C:0.25, G:0.19, T:0.56
Consensus pattern (19 bp):
TTCTTGTTCTTGCTCTTCG
Found at i:18827660 original size:25 final size:26
Alignment explanation
Indices: 18827603--18827661 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
18827593 TTAACCATTT
*
18827603 ATAAATATTAAAACTTAATAAATATAA
1 ATAAATA-TAAAACTTAATAAATAAAA
** *
18827630 CGAAATA-AAAACTTGATAAATAAAA
1 ATAAATATAAAACTTAATAAATAAAA
18827655 ATAAATA
1 ATAAATA
18827662 CATCATAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 21 0.81
27 5 0.19
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.27
Consensus pattern (26 bp):
ATAAATATAAAACTTAATAAATAAAA
Found at i:18827864 original size:29 final size:31
Alignment explanation
Indices: 18827831--18827898 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
18827821 TTTAACTTTT
*
18827831 AGTGATAAAATTCAAT-CA-AATAAAAGTAA
1 AGTGATAAAATTCAATAAAGAATAAAAGTAA
* * * *
18827860 AGTGACAAAATTTAATAAAGAATTAAAGTAT
1 AGTGATAAAATTCAATAAAGAATAAAAGTAA
18827891 AGTGATAA
1 AGTGATAA
18827899 TTTTATTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 14 0.45
30 1 0.03
31 16 0.52
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.26
Consensus pattern (31 bp):
AGTGATAAAATTCAATAAAGAATAAAAGTAA
Done.