Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 337 of 378
Found at i:102310305 original size:19 final size:19
Alignment explanation
Indices: 102310283--102310371 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
102310273 ACATGTAAAA
102310283 ATTATTATATATTATTTTT
1 ATTATTATATATTATTTTT
*
102310302 ATTATT-TATCAGGTTATTTGT
1 ATTATTATAT-A--TTATTTTT
*
102310323 ATT-TTAT-TA-TA-TATT
1 ATTATTATATATTATTTTT
*
102310338 -TTATTACATATTATATTTT
1 ATTATTATATATTAT-TTTT
102310357 ATTA-TATATATTATT
1 ATTATTATATATTATT
102310372 CCCTATATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 21
0.67 0.07 0.26
Matches are distributed among these distances:
14 2 0.04
15 5 0.09
16 4 0.07
17 2 0.04
18 4 0.07
19 20 0.37
20 6 0.11
21 11 0.20
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTATTATATATTATTTTT
Found at i:102310352 original size:17 final size:17
Alignment explanation
Indices: 102310332--102310365 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
102310322 TATTTTATTA
102310332 TATATTTTATTACATAT
1 TATATTTTATTACATAT
*
102310349 TATATTTTATTATATAT
1 TATATTTTATTACATAT
102310366 ATTATTCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTTTATTACATAT
Found at i:102310403 original size:7 final size:7
Alignment explanation
Indices: 102310389--102310424 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
102310379 TTATCTTCAT
102310389 TTTATTA
1 TTTATTA
*
102310396 TATATTA
1 TTTATTA
102310403 TTCTATTA
1 TT-TATTA
102310411 TTTATTA
1 TTTATTA
102310418 TTTATTA
1 TTTATTA
102310425 GTACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:102310421 original size:29 final size:29
Alignment explanation
Indices: 102310315--102310424 Score: 75
Period size: 29 Copynumber: 3.6 Consensus size: 29
102310305 ATTTATCAGG
* *
102310315 TTATTTGTATTTTATTATATATTTTATTACATA
1 TTATTTTTA-TTTATTATATA--TTATT-CCTA
102310348 TTATATTTTA-TTA-TATATATTATTCCCTA
1 TTAT-TTTTATTTATTATATATTATT-CCTA
102310377 -TATTATCTTCATTTTATTATATATTATT-CTA
1 TTATT-T-TT-A-TTTATTATATATTATTCCTA
102310408 TTATTTATTATTTATTA
1 TTATTT-TTATTTATTA
102310425 GTACATATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.02
28 4 0.06
29 17 0.26
30 2 0.03
31 12 0.18
32 10 0.15
33 15 0.23
34 4 0.06
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (29 bp):
TTATTTTTATTTATTATATATTATTCCTA
Found at i:102310585 original size:20 final size:18
Alignment explanation
Indices: 102310554--102310608 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
102310544 ATATTATTAT
*
102310554 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
102310572 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
102310592 TTTTATATATATATTAA
1 TTTTATATATATATTAA
102310609 TTGTTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:102310613 original size:20 final size:19
Alignment explanation
Indices: 102310554--102310614 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
102310544 ATATTATTAT
*
102310554 TTTTATAAATATATTAA-G
1 TTTTATATATATATTAATG
*
102310572 TTATTATATCATATAGT-ATG
1 TT-TTATAT-ATATATTAATG
102310592 TTTTATATATATATTAATTG
1 TTTTATATATATATTAA-TG
102310612 TTT
1 TTT
102310615 AAAAAATTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 8 0.23
19 13 0.37
20 14 0.40
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
TTTTATATATATATTAATG
Found at i:102310795 original size:18 final size:18
Alignment explanation
Indices: 102310774--102310808 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
102310764 ATCTTATAAA
*
102310774 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
102310792 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
102310809 ATATTCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:102310964 original size:106 final size:106
Alignment explanation
Indices: 102310847--102311046 Score: 262
Period size: 106 Copynumber: 1.9 Consensus size: 106
102310837 TTGATTTAAG
* * * *
102310847 TTATATTTGCATGAAATATT-AT-TATA-TATGTAATTTATGTTGTTATATTCATTATTTTCTAT
1 TTATATCTGCATGAAAGATTAATGTATATTATATAATTTATGTTG-T-TATTCATCATTTTCTAT
* * * *
102310909 GTTATATTTTGCATGAAATATTAATGCATGTATATTTATGTTAT
64 ATTATA-GTTGCATAAAATATTAAAGCATGTATATTTATGTTAT
*
102310953 TTATATCTGCATGAAAGGTTAATGTATATTATATAATTTATGTTGTTATTCATCATTTTCTATAT
1 TTATATCTGCATGAAAGATTAATGTATATTATATAATTTATGTTGTTATTCATCATTTTCTATAT
*
102311018 TATAGTTGCATAAAATGTTAAAGCATGTA
66 TATAGTTGCATAAAATATTAAAGCATGTA
102311047 GTTTATATTG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
106 38 0.47
107 23 0.28
108 5 0.06
109 15 0.19
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.50
Consensus pattern (106 bp):
TTATATCTGCATGAAAGATTAATGTATATTATATAATTTATGTTGTTATTCATCATTTTCTATAT
TATAGTTGCATAAAATATTAAAGCATGTATATTTATGTTAT
Found at i:102322527 original size:44 final size:44
Alignment explanation
Indices: 102322480--102323321 Score: 1022
Period size: 44 Copynumber: 19.1 Consensus size: 44
102322470 TCTAGAAAGT
* * *
102322480 AGATTTGGTGTCTCTGTATTGACAGGGAGCAGATCAAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* *
102322524 AGATTTGACGTCTCTGTATCGAC-GGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGG-GAGCAGATCGAAGATAGC
* *
102322568 AGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* *
102322612 AGATTTGGCGTCTCTGTATTGATAGAGG-GCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAGC
* *
102322656 AGATTTGGCGTCTCTGTATTGATAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* * * *
102322700 AGATTTGGCGTCTCTGTATCGACAGGGAACAGATCGGAGAT-GAT
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* *
102322744 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATTGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
102322788 AGATTTGGCGTTTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* * **
102322832 AGATTTGGGGTCTCTGTATTAACAGAGG-GCAGATCGAAGATATT
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAGC
* * * *
102322876 GGCTTTGGCGTCTCTATATTGACAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* *
102322920 AAATTTGGCGTCTCTGTATTGACAGAGG-GCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAGC
* *
102322964 AGATTTGGCGTTTCTGTATTGACAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* * *
102323008 GGATTTGGCATCTCTGTATCGACAGGGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
102323052 AAATTTGGCATCTCTGTATTGACAAGAGG-GCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGAC-AG-GGAGCAGATCGAAGATAGC
* * * *
102323097 AGATTTGGCGTCTCTGTATTGACAGAGAACAGATCAAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* *
102323141 AGATTTGGCGTCTCTGTATCGACGGGGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* *
102323185 AGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* *
102323229 AGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * * *
102323273 AGATTTGACGTCTCTGTATTAGCCGGGGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATT-GACAGGGAGCAGATCGAAGATAGC
102323318 AGAT
1 AGAT
102323322 CTGACATTCG
Statistics
Matches: 693, Mismatches: 87, Indels: 35
0.85 0.11 0.04
Matches are distributed among these distances:
43 9 0.01
44 617 0.89
45 64 0.09
46 3 0.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
Found at i:102323230 original size:21 final size:21
Alignment explanation
Indices: 102323204--102323275 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
102323194 ATCTCTGTAT
102323204 TGACAGAGAGCAGATCGAAGA
1 TGACAGAGAGCAGATCGAAGA
** * *
102323225 TGACAGATTTG-GCATCTCTGTA-T
1 TGACAGA---GAGCAGATC-GAAGA
102323248 TGACAGAGAGCAGATCGAAGA
1 TGACAGAGAGCAGATCGAAGA
102323269 TGACAGA
1 TGACAGA
102323276 TTTGACGTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 3 0.08
21 19 0.51
23 12 0.32
24 3 0.08
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.19
Consensus pattern (21 bp):
TGACAGAGAGCAGATCGAAGA
Found at i:102324842 original size:18 final size:18
Alignment explanation
Indices: 102324811--102324853 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
102324801 TTACATACAA
* *
102324811 TTTATTTATTTTAAATAT
1 TTTATATATATTAAATAT
*
102324829 TTTATATATATTAATTAT
1 TTTATATATATTAAATAT
102324847 TTT-TATA
1 TTTATATA
102324854 AACATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATATTAAATAT
Found at i:102324967 original size:7 final size:7
Alignment explanation
Indices: 102324953--102324988 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
102324943 TTATCTTCAT
102324953 TTTATTA
1 TTTATTA
*
102324960 TATATTA
1 TTTATTA
102324967 TTCTATTA
1 TT-TATTA
102324975 TTTATTA
1 TTTATTA
102324982 TTTATTA
1 TTTATTA
102324989 GTACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:102324975 original size:15 final size:14
Alignment explanation
Indices: 102324953--102324988 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
102324943 TTATCTTCAT
102324953 TTTATTATATATTA
1 TTTATTATATATTA
*
102324967 TTCTATTATTTATTA
1 TT-TATTATATATTA
102324982 TTTATTA
1 TTTATTA
102324989 GTACATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTATATATTA
Found at i:102325149 original size:20 final size:18
Alignment explanation
Indices: 102325118--102325172 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
102325108 ATATTATTAT
*
102325118 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
102325136 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
102325156 TTTTATATATATATTAA
1 TTTTATATATATATTAA
102325173 TCGTTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:102325245 original size:23 final size:22
Alignment explanation
Indices: 102325198--102325262 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
102325188 TCCTTTATCA
*
102325198 TTTTTATATTAT-TT-TAAATAT
1 TTTTTA-ATTATATTATATATAT
102325219 TTTTTAATTATA-TATATATAT
1 TTTTTAATTATATTATATATAT
* *
102325240 ATTTTTACTTATATTTTATATAT
1 -TTTTTAATTATATTATATATAT
102325263 GTTCATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.16
21 12 0.32
22 11 0.30
23 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTAATTATATTATATATAT
Found at i:102325533 original size:106 final size:106
Alignment explanation
Indices: 102325412--102325611 Score: 262
Period size: 106 Copynumber: 1.9 Consensus size: 106
102325402 TTGATTTAAG
* * * * *
102325412 TTATATTTGCATGAAATATT-AT-TATA-TATGTAATTTATGTTGTTATATTCATTATTTTCTAT
1 TTATATCTGCATGAAAGATTAATGTATATTATATAATATATGTTG-T-TATTCATCATTTTCTAT
* * *
102325474 GTTATATTTTGCATGAAATATTAATGCATGTATATTTATGTTAT
64 ATTATA-GTTGCATGAAATATTAAAGCATGTATATTTATGTTAT
*
102325518 TTATATCTGCATGAAAGGTTAATGTATATTATATAATATATGTTGTTATTCATCATTTTCTATAT
1 TTATATCTGCATGAAAGATTAATGTATATTATATAATATATGTTGTTATTCATCATTTTCTATAT
*
102325583 TATAGTTGCATGAAATGTTAAAGCATGTA
66 TATAGTTGCATGAAATATTAAAGCATGTA
102325612 GTTTATATTG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
106 39 0.48
107 23 0.28
108 5 0.06
109 14 0.17
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (106 bp):
TTATATCTGCATGAAAGATTAATGTATATTATATAATATATGTTGTTATTCATCATTTTCTATAT
TATAGTTGCATGAAATATTAAAGCATGTATATTTATGTTAT
Found at i:102327718 original size:30 final size:28
Alignment explanation
Indices: 102327674--102327834 Score: 133
Period size: 31 Copynumber: 5.7 Consensus size: 28
102327664 TTGGTAAGCC
*
102327674 TAAAAATTACAAAAATATATGAAAGTGTAAAA
1 TAAAAATT-TAAAAATATATG-AA-T-TAAAA
* * *
102327706 -AAAAATTTAAAAATATTAT-AAAT-GAC
1 TAAAAATTTAAAAATA-TATGAATTAAAA
102327732 TCAAAAA-TTAAAAA-AT-T--ATTAAAA
1 T-AAAAATTTAAAAATATATGAATTAAAA
102327756 TAAAAATTATAAAAATTATATGAATTAAAAA
1 TAAAAATT-TAAAAA-TATATGAATT-AAAA
102327787 TAAAAATTTAAAAAATATATGAATTAAAA
1 TAAAAATTT-AAAAATATATGAATTAAAA
102327816 TAAAAATTTAAAAA-ATATG
1 TAAAAATTTAAAAATATATG
102327835 GAAAATTTTA
Statistics
Matches: 109, Mismatches: 7, Indels: 31
0.74 0.05 0.21
Matches are distributed among these distances:
23 7 0.06
24 4 0.04
25 7 0.06
26 2 0.02
27 15 0.14
28 11 0.10
29 15 0.14
30 21 0.19
31 27 0.25
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (28 bp):
TAAAAATTTAAAAATATATGAATTAAAA
Found at i:102327762 original size:15 final size:15
Alignment explanation
Indices: 102327742--102327866 Score: 53
Period size: 15 Copynumber: 8.0 Consensus size: 15
102327732 TCAAAAATTA
*
102327742 AAAAATTATTAAAAT
1 AAAAATTATAAAAAT
102327757 AAAAATTATAAAAATT
1 AAAAATTATAAAAA-T
*
102327773 ATATGAA-T-TAAAAAT
1 A-A-AAATTATAAAAAT
102327788 AAAAATT-TAAAAA-
1 AAAAATTATAAAAAT
* * * *
102327801 ATATATGAATTAAAAT
1 AAAAAT-TATAAAAAT
102327817 AAAAATT-TAAAAAAT
1 AAAAATTAT-AAAAAT
*
102327832 ATGGAAAATTTTAAAATAT
1 A---AAAATTATAAAA-AT
*
102327851 AGAAAATTATTAAAAT
1 A-AAAATTATAAAAAT
102327867 TATTATAAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
13 6 0.07
14 9 0.11
15 26 0.31
16 14 0.17
17 13 0.15
18 12 0.14
19 4 0.05
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (15 bp):
AAAAATTATAAAAAT
Found at i:102327816 original size:29 final size:29
Alignment explanation
Indices: 102327749--102327833 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
102327739 TTAAAAAATT
*
102327749 ATTAAAATAAAAATTATAAAAATTATATGA
1 ATTAAAATAAAAATT-TAAAAAATATATGA
102327779 ATTAAAAATAAAAATTTAAAAAATATATGA
1 ATT-AAAATAAAAATTTAAAAAATATATGA
102327809 ATTAAAATAAAAATTTAAAAAATAT
1 ATTAAAATAAAAATTTAAAAAATAT
102327834 GGAAAATTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
29 22 0.42
30 19 0.36
31 12 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (29 bp):
ATTAAAATAAAAATTTAAAAAATATATGA
Found at i:102327849 original size:17 final size:18
Alignment explanation
Indices: 102327827--102327866 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
102327817 AAAAATTTAA
*
102327827 AAAATATGGAAAATT-TT
1 AAAATATAGAAAATTATT
102327844 AAAATATAGAAAATTATT
1 AAAATATAGAAAATTATT
102327862 AAAAT
1 AAAAT
102327867 TATTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
AAAATATAGAAAATTATT
Found at i:102328150 original size:2 final size:2
Alignment explanation
Indices: 102328145--102328173 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
102328135 AAAAATTGTT
102328145 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
102328174 TTCAAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102328324 original size:28 final size:28
Alignment explanation
Indices: 102328283--102328359 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
102328273 TCATAATTCA
* *
102328283 TATAAT-TTTATAATTTTTT-ACACTTTT
1 TATAATATTTTTAAGTTTTTTACAC-TTT
* *
102328310 TATAATATTTTTAATTATTTTTGCACTTT
1 TATAATATTTTTAAGT-TTTTTACACTTT
102328339 TAT-ATATTTTTATAGTTTTTT
1 TATAATATTTTTA-AGTTTTTT
102328360 TAATTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 6 0.14
28 22 0.51
29 12 0.28
30 3 0.07
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (28 bp):
TATAATATTTTTAAGTTTTTTACACTTT
Found at i:102331720 original size:3 final size:3
Alignment explanation
Indices: 102331712--102331773 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
102331702 TCATTTAAGC
102331712 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
102331760 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
102331774 TTGTTTCTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:102335715 original size:24 final size:24
Alignment explanation
Indices: 102335688--102335752 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
102335678 AAAAGAAATA
102335688 TGAATTCAATATGCAATGTCCGAT
1 TGAATTCAATATGCAATGTCCGAT
*
102335712 TGAATTCAATATGCAATGTCCGGT
1 TGAATTCAATATGCAATGTCCGAT
102335736 TGAATTCAATATGCAAT
1 TGAATTCAATATGCAAT
102335753 ATGGATAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (24 bp):
TGAATTCAATATGCAATGTCCGAT
Found at i:102335805 original size:16 final size:15
Alignment explanation
Indices: 102335776--102335812 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
102335766 TTTAATTTTG
102335776 TTTTTA-TTATTTAA
1 TTTTTATTTATTTAA
102335790 TTTTTATTTGATTTAA
1 TTTTTATTT-ATTTAA
102335806 TTTTTAT
1 TTTTTAT
102335813 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.29
15 2 0.10
16 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTTATTTATTTAA
Found at i:102342505 original size:4 final size:5
Alignment explanation
Indices: 102342477--102342516 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
102342467 CTAATTTAAC
102342477 ATAAA ATCAAA ATAAA ATAAA AT-AA ATAAA ACTAAA ATAA
1 ATAAA AT-AAA ATAAA ATAAA ATAAA ATAAA A-TAAA ATAA
102342517 GATTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.12
5 18 0.56
6 10 0.31
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:102342514 original size:15 final size:14
Alignment explanation
Indices: 102342486--102342516 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
102342476 CATAAAATCA
102342486 AAATAAAATAAAAT
1 AAATAAAATAAAAT
102342500 AAATAAAACTAAAAT
1 AAATAAAA-TAAAAT
102342515 AA
1 AA
102342517 GATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:102347818 original size:12 final size:12
Alignment explanation
Indices: 102347779--102347809 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
102347769 CAGGTTTGGT
102347779 ACGGCCTAGCAC
1 ACGGCCTAGCAC
102347791 ACGGCCTAGCAC
1 ACGGCCTAGCAC
102347803 ACGGCCT
1 ACGGCCT
102347810 GGCGCACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.42, G:0.26, T:0.10
Consensus pattern (12 bp):
ACGGCCTAGCAC
Found at i:102357851 original size:25 final size:25
Alignment explanation
Indices: 102357818--102357867 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
102357808 CATATCAAAA
102357818 TATACCATTTATCAAGCATTAATAT
1 TATACCATTTATCAAGCATTAATAT
*
102357843 TATACCATTTCTCAAGCATTAATAT
1 TATACCATTTATCAAGCATTAATAT
102357868 ATCAACTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (25 bp):
TATACCATTTATCAAGCATTAATAT
Found at i:102361820 original size:27 final size:27
Alignment explanation
Indices: 102361790--102361853 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
102361780 TCCCCGTGTT
** *
102361790 TAGTGTCTTGACGGACCTCATTTTATC
1 TAGTGTCTTGACAAACCTCACTTTATC
* *
102361817 TAGTGTCTTGACAAACCTCCCTTTGTC
1 TAGTGTCTTGACAAACCTCACTTTATC
102361844 TAGTGTCTTG
1 TAGTGTCTTG
102361854 GTGGACTTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (27 bp):
TAGTGTCTTGACAAACCTCACTTTATC
Found at i:102362184 original size:45 final size:46
Alignment explanation
Indices: 102362057--102362187 Score: 167
Period size: 45 Copynumber: 2.9 Consensus size: 46
102362047 ATGCTTCCAT
* * *
102362057 ATGATGCCATAGTGTCTTTCAGTTATGATCTTACT-AATTCCAGTC
1 ATGATGCCATAGTGTCTTTCAGCTATGATCTTACTCATTTTCAGTC
* *
102362102 ATGATGCCATAGTGTCTTTCAGCTATAATCTTACTCATTTTTA-TC
1 ATGATGCCATAGTGTCTTTCAGCTATGATCTTACTCATTTTCAGTC
* ** *
102362147 CTGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTT
1 ATGATGCCATAGTGTCTTTCAGCTATGATCTTACTCATTTT
102362188 AGGCGAATAG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
45 71 0.95
46 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (46 bp):
ATGATGCCATAGTGTCTTTCAGCTATGATCTTACTCATTTTCAGTC
Found at i:102366481 original size:40 final size:40
Alignment explanation
Indices: 102366420--102366592 Score: 251
Period size: 40 Copynumber: 4.3 Consensus size: 40
102366410 CCTGCTGAAC
* * * *
102366420 TTTAAGCCCAGATAT--AGTACCAACACTAAGCCTGTGGGA
1 TTTAA-CCCAGATATACATTACCAGCACGAAGCCTGCGGGA
102366459 TTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGA
* * *
102366499 TTTAACCCGGATATACATTACCAGCACAAAGCCTGTGGGA
1 TTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGA
102366539 TTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGA
*
102366579 TTTAACCCGGATAT
1 TTTAACCCAGATAT
102366593 TTAATATATC
Statistics
Matches: 121, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 9 0.07
39 5 0.04
40 107 0.88
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (40 bp):
TTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGA
Found at i:102366521 original size:80 final size:80
Alignment explanation
Indices: 102366437--102366592 Score: 294
Period size: 80 Copynumber: 1.9 Consensus size: 80
102366427 CCAGATATAG
*
102366437 TACCAACACTAAGCCTGTGGGATTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGATTT
1 TACCAACACAAAGCCTGTGGGATTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGATTT
102366502 AACCCGGATATACAT
66 AACCCGGATATACAT
*
102366517 TACCAGCACAAAGCCTGTGGGATTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGATTT
1 TACCAACACAAAGCCTGTGGGATTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGATTT
102366582 AACCCGGATAT
66 AACCCGGATAT
102366593 TTAATATATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (80 bp):
TACCAACACAAAGCCTGTGGGATTTAACCCAGATATACATTACCAGCACGAAGCCTGCGGGATTT
AACCCGGATATACAT
Found at i:102370027 original size:83 final size:85
Alignment explanation
Indices: 102369859--102370030 Score: 224
Period size: 83 Copynumber: 2.0 Consensus size: 85
102369849 TTTCGGCTGA
* * * *
102369859 TTAACAAGATTTTATTCGATTTTAATTTTATTTCCAAATTAGAATTAATTTAAATAAAATATGTT
1 TTAACAAGATTTTATTCAATATTAATTTTATTTCCAAATAAGAATTAATTCAAATAAAATATGTT
*
102369924 TCGGGATTTATTCCCACCGT
66 TCGAGATTTATTCCCACCGT
* * * * *
102369944 TTAAGAAGATTTTATTCAATATTAA-TTTGTTTCCAAATGAAGACTTAA-TCAAAT-AATTTTGT
1 TTAACAAGATTTTATTCAATATTAATTTTATTTCCAAAT-AAGAATTAATTCAAATAAAATATGT
102370006 TTCGAGATTTATTCCCACCGT
65 TTCGAGATTTATTCCCACCGT
102370027 TTAA
1 TTAA
102370031 TAGAATTTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
83 30 0.39
84 17 0.22
85 29 0.38
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (85 bp):
TTAACAAGATTTTATTCAATATTAATTTTATTTCCAAATAAGAATTAATTCAAATAAAATATGTT
TCGAGATTTATTCCCACCGT
Found at i:102370051 original size:59 final size:59
Alignment explanation
Indices: 102369988--102370107 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 59
102369978 AAATGAAGAC
* * * *
102369988 TTAATCAAATAATTTTGTTTCGAGATTTATTCCCACCGTTTAATAGAATTTATTTTGAT
1 TTAATCAAATAATTTTGTTTCGAGATTTAGTCCCACCGTTTAACAAAATTGATTTTGAT
* * * * **
102370047 TTAATTACATGATTTTGTTTCGGGATTTAGTCCTGCCGTTTAACAAAATTGATTTTGAT
1 TTAATCAAATAATTTTGTTTCGAGATTTAGTCCCACCGTTTAACAAAATTGATTTTGAT
102370106 TT
1 TT
102370108 TGTTTCAGAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (59 bp):
TTAATCAAATAATTTTGTTTCGAGATTTAGTCCCACCGTTTAACAAAATTGATTTTGAT
Found at i:102375065 original size:14 final size:13
Alignment explanation
Indices: 102375042--102375074 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
102375032 TAAATAATTC
102375042 TATTTATATATTT
1 TATTTATATATTT
102375055 TA-TTATATATATT
1 TATTTATATAT-TT
102375068 TATTTAT
1 TATTTAT
102375075 TTTGTTCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 6 0.33
14 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTTATATATTT
Found at i:102375316 original size:17 final size:17
Alignment explanation
Indices: 102375294--102375328 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
102375284 TAAAATATGT
* *
102375294 TTTATATTTTTATAAAA
1 TTTATAATTTTAAAAAA
102375311 TTTATAATTTTAAAAAA
1 TTTATAATTTTAAAAAA
102375328 T
1 T
102375329 AAAATTATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTATAATTTTAAAAAA
Found at i:102375444 original size:3 final size:3
Alignment explanation
Indices: 102375436--102375490 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
102375426 AAAATGTTAC
102375436 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
102375484 TAT TAT T
1 TAT TAT T
102375491 TTGTTGGAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:102377239 original size:2 final size:2
Alignment explanation
Indices: 102377234--102377263 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
102377224 TGGGGACGGC
*
102377234 GA GA GA GA GA TA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
102377264 ATGAAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:102377916 original size:2 final size:2
Alignment explanation
Indices: 102377909--102377935 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
102377899 CTAATGTGTT
102377909 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
102377936 TAATTATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102378427 original size:30 final size:30
Alignment explanation
Indices: 102378383--102378445 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
102378373 ACTTAACAAG
*
102378383 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAAGTAA
* *
102378413 CAAATGTCTTTAAAATAATAACAAAAGTAA
1 CAAATGCCTCTAAAATAATAACAAAAGTAA
102378443 CAA
1 CAA
102378446 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAAGTAA
Found at i:102378886 original size:21 final size:21
Alignment explanation
Indices: 102378846--102378886 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
102378836 AAACAAATCA
*
102378846 ATAATAATTTTTATTTTTTGT
1 ATAATAATTTTTATTATTTGT
102378867 ATAA-AATTTTTATTGATTTG
1 ATAATAATTTTTATT-ATTTG
102378887 AAAATTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (21 bp):
ATAATAATTTTTATTATTTGT
Found at i:102381434 original size:10 final size:10
Alignment explanation
Indices: 102381407--102381446 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
102381397 TTAAATTCTA
102381407 AAAGATAAAT
1 AAAGATAAAT
102381417 ACAA-ATAAAT
1 A-AAGATAAAT
*
102381427 AAAGATAATT
1 AAAGATAAAT
102381437 AAAGATAAAT
1 AAAGATAAAT
102381447 GATAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:102381634 original size:17 final size:17
Alignment explanation
Indices: 102381612--102381644 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
102381602 AATTTGCACT
102381612 TTTTGCCTTAAATTTTC
1 TTTTGCCTTAAATTTTC
*
102381629 TTTTGCCTTCAATTTT
1 TTTTGCCTTAAATTTT
102381645 AGTCCCTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTGCCTTAAATTTTC
Found at i:102382806 original size:17 final size:18
Alignment explanation
Indices: 102382773--102382815 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
102382763 CGCTCCATAG
102382773 TCAGATACAGACAGAATA
1 TCAGATACAGACAGAATA
*
102382791 TCAGATATAG-CAGAATA
1 TCAGATACAGACAGAATA
*
102382808 ACAGATAC
1 TCAGATAC
102382816 TAGAATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (18 bp):
TCAGATACAGACAGAATA
Found at i:102387746 original size:19 final size:20
Alignment explanation
Indices: 102387722--102387759 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
102387712 GGTACCACCA
102387722 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
102387741 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
102387760 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:102388146 original size:46 final size:46
Alignment explanation
Indices: 102387983--102388153 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
102387973 AACCCGCCCC
* * * *
102387983 TAAGTGAACTC-GACTCAACTCAATGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
102388027 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
102388075 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
102388120 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
102388154 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 12 0.11
45 21 0.20
46 29 0.28
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:102388152 original size:93 final size:91
Alignment explanation
Indices: 102387988--102388156 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 91
102387978 GCCCCTAAGT
* *
102387988 GAACTCGACTCAACTCAATGAGCTCGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAACG
1 GAACTCGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAACG
102388053 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
* * *
102388079 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCAA
102388144 CGAGTTCGGATGC
64 CGAGTTCGGATGC
102388157 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 6 0.08
92 19 0.27
93 46 0.65
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (91 bp):
GAACTCGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:102388172 original size:46 final size:45
Alignment explanation
Indices: 102388031--102388172 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
102388021 CATCCATAAA
102388031 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
102388078 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
102388124 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
102388170 TGA
1 TGA
102388173 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:102395548 original size:71 final size:71
Alignment explanation
Indices: 102395427--102395560 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
102395417 GTTTTCCAAG
* * *
102395427 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
102395492 GTTTCA
66 GTTTCA
* * *
102395498 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
102395561 TTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:102395600 original size:160 final size:160
Alignment explanation
Indices: 102395336--102396042 Score: 1292
Period size: 160 Copynumber: 4.4 Consensus size: 160
102395326 TTGTTTTTTC
*
102395336 CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
102395401 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
102395466 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
102395496 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
102395561 TTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
102395626 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
102395656 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
102395721 CTGCCTTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 CTG-CTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA
102395786 AGACACGTTGAGGTAATTTCAATTTATGTTT
130 AGACACGTTGAGGTAATTTCAATTTATGTTT
102395817 CAAAAATCAACTCATATTGCGAGAAGT-AGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
102395881 TTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
*
102395946 GACACGTTAAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* * * *
102395976 CAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCT-TGCGGCACGCTAAGGTATTTTCAAAT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-GGCACGCTGAGGTATTTTCAATT
102396040 TCT
65 TCT
102396043 ATTTTCAAAA
Statistics
Matches: 531, Mismatches: 13, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
159 117 0.22
160 296 0.56
161 118 0.22
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:102395708 original size:71 final size:71
Alignment explanation
Indices: 102395587--102395720 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
102395577 GTTTTCCAAG
* * *
102395587 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
102395652 GTTTCA
66 GTTTCA
* * *
102395658 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
102395721 CTGCCTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:102395852 original size:70 final size:70
Alignment explanation
Indices: 102395748--102395880 Score: 196
Period size: 70 Copynumber: 1.9 Consensus size: 70
102395738 GTTTTCCAAG
* * *
102395748 AAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAAACAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
102395813 GTTTC
66 GTTTC
* * *
102395818 AAAAATCAACTCATATTGCGAGAAGT-AGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAAA-CAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
102395881 TTGCTTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 38 0.68
71 18 0.32
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (70 bp):
AAAAACAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTC
Found at i:102396028 original size:71 final size:72
Alignment explanation
Indices: 102395907--102396152 Score: 233
Period size: 71 Copynumber: 3.5 Consensus size: 72
102395897 GTTTTCCAAG
* * *
102395907 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTC-AATT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGCTAAGGTAATTTCAAATTCT
102395970 ATGTTTCA
66 AT-TTTCA
* * ** * *
102395978 AAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGCTAAGGTAATTTCAAATTCT
102396043 ATTTTCA
66 ATTTTCA
* * * ****
102396050 AAAGTTAATTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCG-T----T--TTTCAAA-TC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTAAGACACGCTAAGGTAATTTCAAATTC
102396107 TACTTTTCA
65 TA-TTTTCA
* *
102396116 AAGATCAACTCACATTGCGAGAGGTGAGTTGAGCCTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
102396153 TAATTTTCGT
Statistics
Matches: 146, Mismatches: 25, Indels: 14
0.79 0.14 0.08
Matches are distributed among these distances:
65 6 0.04
66 43 0.29
68 1 0.01
71 49 0.34
72 40 0.27
73 7 0.05
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGCTAAGGTAATTTCAAATTCT
ATTTTCA
Found at i:102396224 original size:67 final size:65
Alignment explanation
Indices: 102396031--102396486 Score: 402
Period size: 66 Copynumber: 6.9 Consensus size: 65
102396021 CGCTAAGGTA
*
102396031 TTTTCAAATTCTA-TTTTCAAAAGTTAATTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
1 TTTTCAAA-TCTACTTTTCAAAA-TTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
102396095 GT
64 GT
* *
102396097 TTTTCAAATCTACTTTTCAAAGATCAACTCACATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCG
1 TTTTCAAATCTACTTTTCAAA-ATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCG
102396162 T
65 T
*
102396163 TTTTCGAAATCTACTTTTCAAAATTAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCT
1 TTTTC-AAATCTACTTTTCAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCC-TTTAATTT-T
102396228 ACGT
63 -CGT
*** * * * * * * * * * * **
102396232 TTCAAAAATCAAC---TC-ATATT--GTGAGA---AGTGAGTTGAACCTTGCGGCACGCTAA---
1 TTTTCAAATCTACTTTTCAAAATTAACTCATATTGCGAGAGGTG-A-GTTG-AGC-CTTTAATTT
*
102396285 -GGT
62 TCGT
* *
102396288 ATTTTCAAATTCTA-TTTTCAAAAGTTAATTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTT
1 -TTTTCAAA-TCTACTTTTC-AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTT
102396352 CGT
63 CGT
* *
102396355 TTTTCAAAATCTACTTTTCAAATATCAACTCACATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
1 TTTTC-AAATCTACTTTTCAAA-ATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
102396420 GT
64 GT
*
102396422 TTTTCGAAATCTACTTTTCAAATTATTAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTT
1 TTTTC-AAATCTACTTTTCAAA--ATTAACTCATATTGCGAGAGGTGAGTTGAGCC-TTTAATTT
102396487 CTACGTCTCA
Statistics
Matches: 311, Mismatches: 48, Indels: 59
0.74 0.11 0.14
Matches are distributed among these distances:
56 2 0.01
57 5 0.02
58 3 0.01
59 6 0.02
60 3 0.01
61 3 0.01
62 10 0.03
63 5 0.02
64 9 0.03
65 9 0.03
66 103 0.33
67 102 0.33
68 38 0.12
69 13 0.04
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (65 bp):
TTTTCAAATCTACTTTTCAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCGT
Found at i:102397706 original size:14 final size:14
Alignment explanation
Indices: 102397687--102397714 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
102397677 GCCCTCTCTC
102397687 CTCCCCTCTCCTTT
1 CTCCCCTCTCCTTT
102397701 CTCCCCTCTCCTTT
1 CTCCCCTCTCCTTT
102397715 TCTCTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (14 bp):
CTCCCCTCTCCTTT
Found at i:102398458 original size:11 final size:11
Alignment explanation
Indices: 102398404--102398463 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
102398394 ATGTTTAATA
102398404 TTATATAT-TT
1 TTATATATATT
*
102398414 TTCATATATGTT
1 TT-ATATATATT
* *
102398426 ATATATAAGTCTT
1 TTATAT-A-TATT
102398439 TTAATATATATT
1 TT-ATATATATT
102398451 TTATATATATT
1 TTATATATATT
102398462 TT
1 TT
102398464 TAAATGTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (11 bp):
TTATATATATT
Found at i:102399505 original size:3 final size:3
Alignment explanation
Indices: 102399497--102399742 Score: 151
Period size: 3 Copynumber: 79.7 Consensus size: 3
102399487 ACGTCGCTAC
*
102399497 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
102399545 ATA ATA AGA CCATA ATA ATA ATA AAA AGAA ATA ATA GCAT- GTAA ATA
1 ATA ATA ATA --ATA ATA ATA ATA ATA A-TA ATA ATA --ATA AT-A ATA
* * *
102399592 ATA ATA ATA ATA ATA ATA ATA ATA TATA TTA ATA ATG ACA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * * * ** *
102399637 AGA AT- ATA ATA AAA ACA A-A TATA CTA TGTCA ATA AGG ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA -AT-A ATA ATA ATA ATA ATA
* * * * *
102399683 GTA ATA GTA ATA AAA ACA ATA ATA ATA A-A TATA ATA ATA GAAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA
*
102399729 ATA ATA AAA ATA AT
1 ATA ATA ATA ATA AT
102399743 TAATTTGAAA
Statistics
Matches: 190, Mismatches: 36, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
2 6 0.03
3 166 0.87
4 13 0.07
5 5 0.03
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:102399731 original size:13 final size:13
Alignment explanation
Indices: 102399700--102399770 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
102399690 TAATAAAAAC
102399700 AATAATAATA-AA
1 AATAATAATAGAA
*
102399712 TATAATAATAGAA
1 AATAATAATAGAA
102399725 AATAATAATA-AA
1 AATAATAATAGAA
*
102399737 AATAATTAATTTGAA
1 AATAA-TAA-TAGAA
102399752 AATAA-AATAGTAA
1 AATAATAATAG-AA
102399765 AATAAT
1 AATAAT
102399771 GAAAAAAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
12 18 0.37
13 23 0.47
14 1 0.02
15 7 0.14
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (13 bp):
AATAATAATAGAA
Found at i:102399735 original size:25 final size:27
Alignment explanation
Indices: 102399700--102399770 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
102399690 TAATAAAAAC
*
102399700 AATAATAATAAATATAA-TAA-TAGAA
1 AATAATAATAAAAATAATTAATTAGAA
*
102399725 AATAATAATAAAAATAATTAATTTGAA
1 AATAATAATAAAAATAATTAATTAGAA
102399752 AATAA-AATAGTAAAATAAT
1 AATAATAATA--AAAATAAT
102399771 GAAAAAAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 16 0.40
26 7 0.17
27 9 0.22
28 8 0.20
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (27 bp):
AATAATAATAAAAATAATTAATTAGAA
Found at i:102402298 original size:40 final size:39
Alignment explanation
Indices: 102402254--102402379 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
102402244 GGGACTCAAC
*
102402254 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
102402294 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
102402334 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
102402374 CCGGAT
1 CCGGAT
102402380 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:102402338 original size:80 final size:80
Alignment explanation
Indices: 102402193--102402379 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
102402183 GCTACACATT
* * *
102402193 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
102402257 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
102402273 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
102402336 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
102402354 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
102402380 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:102410371 original size:40 final size:39
Alignment explanation
Indices: 102410327--102410452 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
102410317 GGGACTCAAC
*
102410327 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
102410367 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
102410407 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
102410447 CCGGAT
1 CCGGAT
102410453 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:102410411 original size:80 final size:80
Alignment explanation
Indices: 102410266--102410452 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
102410256 GCTACACATT
* * *
102410266 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
102410330 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
102410346 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
102410409 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
102410427 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
102410453 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:102412644 original size:44 final size:44
Alignment explanation
Indices: 102412546--102413034 Score: 248
Period size: 44 Copynumber: 10.9 Consensus size: 44
102412536 GGACTTGTCA
* * *
102412546 CTTTAATCCGCTCCACTGCAACTTCACGGAGATAGGATTAGTAG-
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGT
* *
102412590 CTCTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGT-GT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGT
* * * * *
102412634 CTTTAGTCTGCTCCTCTGCAATTTTAGGGAGATAAGACTTGTAAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGT
* * * * * * * *
102412679 -TTCAACCTACTCTATTGCAACTTCAGAGAGATAAGGTTAGT-GG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGT
* * * *
102412722 CTGTAATCTGTTCCACTGTAACTTCAAGGAGATAAGATTCGTCA-T
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GT-AGT
* * * * *
102412767 CTTTAGTTTGCTCCACTACAACTTCAGGGAGATAAGGCTTGT-GG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTAGT
* * **
102412811 CTTAAATCTGCTCCACTGTAACTTCTTGGAGATAAGATT-TACAATGGT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGT---A--GT
* * * * * * *
102412859 AGATTTGATCCGAC-CTACTGCAACTTCAGAGG-TATAGGATCCGTCA-T
1 --CTTTAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGAT-TGT-AGT
* * *
102412906 -TTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTAGCT-GT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAGT
* * * * * * *
102412950 CTTCAGTTTGCTCCGCTGCAACTTTAGGGAGATAAGATTTTA-A
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGT
* *
102412993 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGT
102413035 GAATTCACCG
Statistics
Matches: 330, Mismatches: 86, Indels: 58
0.70 0.18 0.12
Matches are distributed among these distances:
42 1 0.00
43 42 0.13
44 190 0.58
45 64 0.19
46 3 0.01
47 1 0.00
48 1 0.00
50 24 0.07
51 3 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGT
Found at i:102412755 original size:132 final size:133
Alignment explanation
Indices: 102412562--102412808 Score: 329
Period size: 132 Copynumber: 1.9 Consensus size: 133
102412552 TCCGCTCCAC
* *
102412562 TGCAACTTCACGGAGATAGGATTAGTAGCTCTAATCTGCTCCACTGCAACTTTAGGGAGATAAGA
1 TGCAACTTCACGGAGATAGGATTAGTAGCTCTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
* * * * * *
102412627 TTGGT-GTCTTTAGTCTGCTCCTCTGCAATTTTAGGGAGATAAGACTTGTAATTTCAACCTACTC
66 TTCGTCATCTTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAATTTCAACCTACTC
102412691 TAT
131 TAT
* * * *
102412694 TGCAACTTCA-GAGAGATAAGG-TTAGTGGCTGTAATCTGTTCCACTGTAACTTCAAGGAGATAA
1 TGCAACTTCACG-GAGAT-AGGATTAGTAGCTCTAATCTGCTCCACTGCAACTTCAAGGAGATAA
* *
102412757 GATTCGTCATCTTTAGTTTGCTCCACTACAACTTCAGGGAGATAAGGCTTGT
64 GATTCGTCATCTTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGT
102412809 GGCTTAAATC
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
131 1 0.01
132 57 0.58
133 40 0.41
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (133 bp):
TGCAACTTCACGGAGATAGGATTAGTAGCTCTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
TTCGTCATCTTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAATTTCAACCTACTC
TAT
Found at i:102428263 original size:13 final size:13
Alignment explanation
Indices: 102428245--102428284 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
102428235 GAAATAATCA
102428245 CACACGGGCGTGT
1 CACACGGGCGTGT
102428258 CACACGGGCGTGT
1 CACACGGGCGTGT
102428271 CACACGGGCGTGT
1 CACACGGGCGTGT
102428284 C
1 C
102428285 CCTGCCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.33, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:102434383 original size:14 final size:16
Alignment explanation
Indices: 102434357--102434395 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
102434347 AAATAAAAAT
102434357 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
102434372 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
102434387 ATAATAATA
1 ATAA-AATA
102434396 ATAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 11 0.52
16 2 0.10
17 1 0.05
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:102434391 original size:3 final size:3
Alignment explanation
Indices: 102434383--102434701 Score: 150
Period size: 3 Copynumber: 105.0 Consensus size: 3
102434373 TAAAAATGAC
* * *
102434383 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * * **
102434431 AGT AGT AGT AGT AGT AGT AGT AAA AAT AAT AAT GAT GGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
102434479 AGT AAT AAT AAT AAG ACCAT AAT AA- AAA AAT GA- AAT AAT AGCAT -GT
1 AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT A--AT AAT
* *
102434525 AAAT AAT AAT AAT AAT AAC AAT AAT AAT -AT ATT AAT AAT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
102434570 AGT ATAT ATT AAT AAT GAC AAT AAT AGAA AAT AAT AAA AAT AA- ATAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT
* * * * * * * *
102434617 ACT ATGT CGAT AAG GAT AAT AGT AGT AAT AGT AAT AA- AAT AAT AAT
1 AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
102434663 AAT AAT GAAT -AT AAT AAT GAA- AAT AAT AAT AAA AAT AAT
1 AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
102434702 TAATTTGAAA
Statistics
Matches: 248, Mismatches: 48, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
2 13 0.05
3 218 0.88
4 13 0.05
5 4 0.02
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:102434692 original size:24 final size:26
Alignment explanation
Indices: 102434652--102434729 Score: 77
Period size: 30 Copynumber: 2.8 Consensus size: 26
102434642 TAATAGTAAT
*
102434652 AAAATAATAATAATAATGAATATAATAATG
1 AAAATAATAATAAAAAT-AAT-TAAT--TG
102434682 AAAATAATAATAAAAATAATTAATTTG
1 AAAATAATAATAAAAATAATTAA-TTG
102434709 AAAATAA-AATAGCAAAATAAT
1 AAAATAATAATA--AAAATAAT
102434730 GAAAAATGAC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
26 4 0.09
27 9 0.20
28 11 0.25
29 4 0.09
30 16 0.36
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.28
Consensus pattern (26 bp):
AAAATAATAATAAAAATAATTAATTG
Found at i:102435308 original size:26 final size:24
Alignment explanation
Indices: 102435268--102435327 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
102435258 TTATTTTATT
* * *
102435268 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
102435292 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
102435318 AAATAAATAT
1 AAATAAATAT
102435328 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:102435339 original size:22 final size:22
Alignment explanation
Indices: 102435298--102435356 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
102435288 ATAATAAATC
* *
102435298 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
102435318 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
102435340 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
102435357 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:102436629 original size:20 final size:20
Alignment explanation
Indices: 102436582--102436646 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
102436572 TTTTATATTT
102436582 TTTTTAAAAATATAAGTTTTAGAA
1 TTTTTAAAAAT-T-A-TTTTA-AA
*
102436606 TTTTTATAAA-TATTTTAAA
1 TTTTTAAAAATTATTTTAAA
*
102436625 TTTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTAAA
102436645 TT
1 TT
102436647 ATTTTGTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.30
20 15 0.41
21 1 0.03
22 1 0.03
24 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTAAA
Found at i:102446373 original size:3 final size:3
Alignment explanation
Indices: 102446365--102446603 Score: 159
Period size: 3 Copynumber: 80.7 Consensus size: 3
102446355 TAATGAAATG
* * *
102446365 ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA GTG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
102446413 GTA A-A A-A ATA ATA ATA CTA ATG ATA ATA ATA ATA GTA ATA ATA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
102446459 ATA TTA ATA TTA GTA TTA ATA ATA ATG ATA ATA GTA ATA GAAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * * *
102446505 ACA ATA A-A ATA GT- ATA GTA ATA GTA ATA A-A GTA A-A ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
102446549 CTA ATA ATG GTA ATA ATAA ATA GTA ATA ATA ACA ATA ATA CA-A ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA
102446595 ATAA ATA AT
1 AT-A ATA AT
102446604 CTAATGTTTG
Statistics
Matches: 179, Mismatches: 47, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
2 11 0.06
3 159 0.89
4 9 0.05
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:102446773 original size:3 final size:3
Alignment explanation
Indices: 102446765--102446938 Score: 81
Period size: 3 Copynumber: 58.7 Consensus size: 3
102446755 GAAAGAAAAT
* * * * *
102446765 ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA A-A AGGGA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA
* * *
102446810 ATA AT- ATA TTA GATA GTA AAA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
102446855 ATA ATA ACA GTA ATA A-A A-A ATG ATA ATA GTG ATA TTA GTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
102446901 ATA ATA ACA AT- GTA TTA ATA ATA GTA TATA TTA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA AT
102446939 GACAGTAATA
Statistics
Matches: 125, Mismatches: 37, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
2 10 0.08
3 110 0.88
4 4 0.03
5 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:102446787 original size:14 final size:14
Alignment explanation
Indices: 102446770--102446796 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
102446760 AAAATATAAT
102446770 AATAGTAATAATAC
1 AATAGTAATAATAC
102446784 AATAGTAATAATA
1 AATAGTAATAATA
102446797 ATAAAAGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
AATAGTAATAATAC
Found at i:102450206 original size:23 final size:22
Alignment explanation
Indices: 102450174--102450216 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
102450164 AATAAAACAA
*
102450174 AAGTTGTTTTGAATATTTTGTAC
1 AAGTTATTTT-AATATTTTGTAC
*
102450197 AAGTTATTTTTATATTTTGT
1 AAGTTATTTTAATATTTTGT
102450217 CCTATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (22 bp):
AAGTTATTTTAATATTTTGTAC
Found at i:102451876 original size:49 final size:47
Alignment explanation
Indices: 102451716--102451937 Score: 206
Period size: 50 Copynumber: 4.7 Consensus size: 47
102451706 TGTGTGTGCT
*
102451716 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATG-T-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGATATGATAGTC
* * * *
102451760 AGTATAAGACCATGTCTAGGACATGGCATCGGCACGAATAT-ATGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCG-ATATGAT-AG-TC
*
102451809 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGA-TATGATAGTC
* * * *
102451859 AGTGTAAGACCATGTCTGAGG-CATGGCATCGACTTGAT-GGATGAGCC
1 AGTGTAAGACCATGTCTG-GGACATGGCATCGGCTCGATATGAT-AGTC
* *
102451906 TGTGTAAGACCATGTCTGGGACATGGAATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
102451938 TATTATACCC
Statistics
Matches: 147, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
44 8 0.05
45 15 0.10
46 17 0.12
47 30 0.20
48 5 0.03
49 29 0.20
50 34 0.23
51 7 0.05
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATATGATAGTC
Found at i:102451927 original size:96 final size:96
Alignment explanation
Indices: 102451714--102451937 Score: 264
Period size: 96 Copynumber: 2.4 Consensus size: 96
102451704 TATGTGTGTG
102451714 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGTGTCAGTATAAGACCATGTCT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTATAAGACCATGTCT
* * *
102451777 AGGACATGGCATCGGCACGAATATATGAGAG
66 AGGACATGGCATCGACACGAATAGATGAGAC
** *
102451808 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATTTTGATAGTCAGTGTAAGACCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACGA-GATG-T-GTCAGTATAAGACCAT
** *
102451872 GTCTGAGG-CATGGCATCGACTTG-ATGGATGAG-C
62 GTCT-AGGACATGGCATCGACACGAATAGATGAGAC
*
102451905 CT-GTGTAAGACCATGTCTGGGACATGGAATCGG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG
102451938 TATTATACCC
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
94 11 0.10
95 14 0.12
96 40 0.35
97 6 0.05
98 8 0.07
99 31 0.27
100 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (96 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTATAAGACCATGTCT
AGGACATGGCATCGACACGAATAGATGAGAC
Found at i:102455234 original size:10 final size:10
Alignment explanation
Indices: 102455202--102455260 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
102455192 TTAAATTCTA
102455202 AAAGATAAAT
1 AAAGATAAAT
*
102455212 ACAA-ATTAAT
1 A-AAGATAAAT
*
102455222 AAAGATAATT
1 AAAGATAAAT
102455232 AAAGATAAAT
1 AAAGATAAAT
*
102455242 AAGGATAAAT
1 AAAGATAAAT
102455252 AAAGATAAA
1 AAAGATAAA
102455261 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:102456450 original size:25 final size:23
Alignment explanation
Indices: 102456398--102456452 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
102456388 TATAAATAGT
102456398 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
102456421 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
102456446 AATAGTG
1 AATAGTG
102456453 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:102456552 original size:25 final size:23
Alignment explanation
Indices: 102456514--102456575 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 23
102456504 ATAGATATAA
**
102456514 AAAAAATATGTACATAATATAGTGT
1 AAAAAATACATACATAATATA-T-T
102456539 AAAAAATACATACATAATATATT
1 AAAAAATACATACATAATATATT
102456562 AAAATATATACATA
1 AAAA-A-ATACATA
102456576 AGATAACATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 5 0.15
24 2 0.06
25 26 0.79
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (23 bp):
AAAAAATACATACATAATATATT
Found at i:102456594 original size:29 final size:30
Alignment explanation
Indices: 102456562--102456636 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
102456552 ATAATATATT
102456562 AAAATATATACATAAGATAACAT-GTAGAAA
1 AAAATATATACATAA-ATAACATAGTAGAAA
* * **
102456592 AAAATATATATATAAATAATATAGTA-TTA
1 AAAATATATACATAAATAACATAGTAGAAA
*
102456621 AAGATATATACATAAA
1 AAAATATATACATAAA
102456637 ATAGTATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (30 bp):
AAAATATATACATAAATAACATAGTAGAAA
Found at i:102456627 original size:25 final size:24
Alignment explanation
Indices: 102456601--102456728 Score: 99
Period size: 25 Copynumber: 5.5 Consensus size: 24
102456591 AAAAATATAT
*
102456601 ATATAAATAATATAGTATTAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
102456625 TATATACATAAAATAGTA-TAATATA
1 -ATATACATAATATAGTATTAA-AGA
* *
102456650 TATATACATAATATAGAATT-TAGA
1 -ATATACATAATATAGTATTAAAGA
* *
102456674 ATATACCTAATATA-T-TAAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
102456696 ATATATAT-ATATAATATTAAA-A
1 ATATACATAATATAGTATTAAAGA
102456718 ATATA-ATAATA
1 ATATACATAATA
102456729 ACAAAAAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
21 8 0.10
22 19 0.23
23 17 0.20
24 5 0.06
25 33 0.40
26 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAAGA
Found at i:102456720 original size:22 final size:22
Alignment explanation
Indices: 102456671--102456729 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
102456661 TATAGAATTT
*
102456671 AGAATATACCTAAT-ATATTAAA
1 AGAATATA-ATAATAATATTAAA
102456693 AGAATATATATATATAATATT-AA
1 AGAATATA-ATA-ATAATATTAAA
102456716 A-AATATAATAATAA
1 AGAATATAATAATAA
102456730 CAAAAAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 16 0.48
23 5 0.15
24 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
AGAATATAATAATAATATTAAA
Found at i:102457048 original size:16 final size:16
Alignment explanation
Indices: 102457010--102457048 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
102457000 AATCTCCAAA
*
102457010 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
102457026 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
102457042 AATAACT
1 AAAAACT
102457049 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:102457241 original size:30 final size:30
Alignment explanation
Indices: 102457205--102457302 Score: 169
Period size: 30 Copynumber: 3.3 Consensus size: 30
102457195 AGGTACAAGT
*
102457205 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
102457235 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
102457265 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
102457295 GGCGGTGG
1 GGTGGTGG
102457303 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.18, C:0.07, G:0.51, T:0.23
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:102457262 original size:18 final size:18
Alignment explanation
Indices: 102457239--102457292 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
102457229 GGAGTAGGTG
102457239 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
102457257 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
102457269 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
102457287 GTGGAG
1 GTGGAG
102457293 TTGGCGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:102458086 original size:86 final size:87
Alignment explanation
Indices: 102457939--102458143 Score: 245
Period size: 86 Copynumber: 2.4 Consensus size: 87
102457929 TCCTGAGCTT
* * *
102457939 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
1 AACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
* *
102458004 GCTCAGCACGTGAGCCAAGGCTC
65 CCTCAGCACGTGACCCAAGGCTC
**
102458027 AACTCA-TTCTCGCAATATGAGTTGATTTTTAAAAC-AAA-ATTTATAAAACAGATTTTGAAAAT
1 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-TTA-AAAACAGAAATTGAAAAT
* * * *
102458089 ACCTCGGTATGTGACCCGAGGCTC
64 ACCTCAGCACGTGACCCAAGGCTC
* *
102458113 AACTCACCTCTCGTAATATGAGTTGATTTTT
1 AACTCACTTCTCGCAATATGAGTTGATTTTT
102458144 GCAAAGCATA
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
84 1 0.01
85 6 0.06
86 49 0.48
87 40 0.39
88 6 0.06
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (87 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATAC
CTCAGCACGTGACCCAAGGCTC
Found at i:102458245 original size:102 final size:103
Alignment explanation
Indices: 102458081--102458269 Score: 285
Period size: 102 Copynumber: 1.8 Consensus size: 103
102458071 AAAACAGATT
* * *
102458081 TTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG
1 TTGAAAATACATCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
102458145 -CAAAGCATAAATTGAAAAAAAATAAAAATAAAAATCAA
66 ACAAA-CATAAATTGAAAAAAAATAAAAATAAAAATCAA
* * *
102458183 TTGAAAATACATCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT-AGTTGATTTTTTT
1 TTGAAAATACATCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
102458247 GACAAACATAAATTGAAAAAAAA
65 GACAAACATAAATTGAAAAAAAA
102458270 AAGAAATTGA
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
101 6 0.08
102 45 0.58
103 23 0.29
104 4 0.05
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (103 bp):
TTGAAAATACATCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
ACAAACATAAATTGAAAAAAAATAAAAATAAAAATCAA
Found at i:102458269 original size:91 final size:88
Alignment explanation
Indices: 102458240--102458449 Score: 169
Period size: 91 Copynumber: 2.3 Consensus size: 88
102458230 ATATAGTTGA
* *
102458240 TTTTTTTGACAAACATAAATTGAAAAAAAAAAGAAATTGAAAATATCTCAGCGTGT--CCTGAGG
1 TTTTTT-GA-AAACA-AAATTG--AAAAAAAA-TAATTGAAAATA-CTCAGCGTGTGATCTGAGG
*
102458303 CTGAACTCACCTCTCGCAATATGAGTTGAT
59 CTCAACTCACCTCTCGCAATATGAGTTGAT
* * *
102458333 TTTTTGGAAAAACAAAATTTGAAAAACAGAAT--TTGAAAATACCTCAGCTTGTGAGTC-AAGGC
1 TTTTTTG-AAAACAAAA-TTGAAAAA-A-AATAATTGAAAATA-CTCAGCGTGTGA-TCTGAGGC
* *
102458395 TCAACTCACCACTCGCAATATGAGCTGATT
60 TCAACTCACCTCTCGCAATATGAGTTGA-T
102458425 TTTTTTGAAAGACAGAAATTGAAAA
1 TTTTTTGAAA-ACA-AAATTGAAAA
102458450 TACCTCAACG
Statistics
Matches: 97, Mismatches: 10, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
89 18 0.19
90 5 0.05
91 36 0.37
92 29 0.30
93 9 0.09
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (88 bp):
TTTTTTGAAAACAAAATTGAAAAAAAATAATTGAAAATACTCAGCGTGTGATCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGAT
Found at i:102458371 original size:13 final size:14
Alignment explanation
Indices: 102458339--102458371 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
102458329 TGATTTTTTG
102458339 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
102458353 GAAAAACAGAATTT
1 GAAAAACAAAATTT
102458367 GAAAA
1 GAAAA
102458372 TACCTCAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:102458806 original size:218 final size:218
Alignment explanation
Indices: 102458350--102458936 Score: 839
Period size: 218 Copynumber: 2.7 Consensus size: 218
102458340 AAAAACAAAA
* * ** ** *
102458350 TTTGAAAAACAGAATTTGAAAATACCTCAGCTTGTGAGTCAAGGCTCAACTCACCACTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAAC--GTGTCTTGAGGCTCAACTCACCTCTCGCAATA
102458415 TGAGCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
64 TGAGCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTG-C-TGAGGCTCAACTCAC
*
102458480 CTCTCGCAATATGAGTTGATTTTTGAAAACAAAATTGAAATTACCTCAGCATCTTGAGGTTCAAC
127 CTCTCGCAATATGAGTTGATTTTTGAAAACAAAATTGAAATTACCTCAGCATCTTGAGGCTCAAC
*
102458545 TCACCTATCGCAATATGAGTTGATTTT
192 TCACCTATCGCAATATGAGTTGAGTTT
*
102458572 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
102458637 AGCTGATTTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTG-TGAGGCTCAACACACCTCT
66 AGCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGCTGAGGCTCAACTCACCTCT
* *
102458701 CGCAATATGAGTTGATTTTTGACAAACAAAATTGAAATTACCTCAGCGTGTCTGAGGCTCAA-TC
131 CGCAATATGAGTTGATTTTTGA-AAACAAAATTGAAATTACCTCAGCATCT-TGAGGCTCAACTC
102458765 ACCTATCGCAATATGAGTTGAGTTT
194 ACCTATCGCAATATGAGTTGAGTTT
* *
102458790 TTTGAAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * * * *
102458855 AGTTGA---GTTTTGACAA-ACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACT
66 AGCTGATTTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTG--CTGAGGCTCAACTCACC
*
102458915 TCTCACAATAT-AGTTGATTTTT
128 TCTCGCAATATGAGTTGATTTTT
102458937 TTAGAAACAT
Statistics
Matches: 334, Mismatches: 25, Indels: 18
0.89 0.07 0.05
Matches are distributed among these distances:
214 20 0.06
215 8 0.02
216 13 0.04
217 64 0.19
218 119 0.36
219 9 0.03
220 72 0.22
222 29 0.09
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (218 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGAAAACAAAATTGAAATTACCTCAGCATCTTGAGGCTCAACTCAC
CTATCGCAATATGAGTTGAGTTT
Found at i:102458834 original size:145 final size:148
Alignment explanation
Indices: 102458350--102459022 Score: 728
Period size: 145 Copynumber: 4.5 Consensus size: 148
102458340 AAAAACAAAA
* * ** ** *
102458350 TTTGAAAAACAGAATTTGAAAATACCTCAGCTTGTGAGTCAAGGCTCAACTCACCACTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAAC--GTGTCTTGAGGCTCAACTCACCTCTCGCAATA
*
102458415 TGAGCTGATTTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
64 TGAGTTGA---TTTTTGACAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
102458479 CCTCTCGCAATATGAGTTGA--TT
125 CCTCTCGCAATATGAGTTGATTTT
* ** * *
102458501 TTTG-AAAACA-AAATTGAAATTACCTC-A-GCATCTTGAGGTTCAACTCACCTATCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
102458562 AGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTC
66 AGTTGA--TTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
*
102458627 TCGCAATATGAGCTGATTTTT
129 TCGCAATATGAGTTGA-TTTT
* * *
102458648 TTTTAAAGACAGAAATTGAAAATACCTCAACGTG---TGAGGCTCAACACACCTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * *
102458710 AGTTGATTTTTGACAAACA-AAATTGAAATTACCTCAGCGTGTC-TGAGGCTCAA-TCACCTATC
66 AGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
*
102458772 GCAATATGAGTTGAGTTT
131 GCAATATGAGTTGATTTT
* *
102458790 TTTGAAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * * * *
102458855 AGTTGAGTTTTGACAAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTC
66 AGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
*
102458919 ACAATAT-AGTTGATTTT
131 GCAATATGAGTTGATTTT
* * * *
102458936 TTTAGAAACATAAATTAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAT
1 TTT-G--------A--AAAACA-G-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
102459001 CTCTCGCAATATGAGTTGATTT
53 CTCTCGCAATATGAGTTGATTT
102459023 GAAAAGCAGA
Statistics
Matches: 451, Mismatches: 45, Indels: 44
0.84 0.08 0.08
Matches are distributed among these distances:
142 34 0.08
143 21 0.05
144 79 0.18
145 122 0.27
146 34 0.08
147 19 0.04
148 36 0.08
149 29 0.06
150 7 0.02
151 5 0.01
155 1 0.00
157 6 0.01
158 1 0.00
159 57 0.13
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (148 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTT
Found at i:102459258 original size:14 final size:13
Alignment explanation
Indices: 102459223--102459266 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
102459213 TTGATTTTTG
* *
102459223 AAAAATAGAAGTT
1 AAAAACAGAAATT
*
102459236 AAAAGCAGAAATT
1 AAAAACAGAAATT
102459249 GAAAAACAGAAATT
1 -AAAAACAGAAATT
102459263 AAAA
1 AAAA
102459267 TACCTCGGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.66, C:0.05, G:0.14, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:102459267 original size:99 final size:99
Alignment explanation
Indices: 102458947--102459408 Score: 587
Period size: 99 Copynumber: 4.8 Consensus size: 99
102458937 TTAGAAACAT
* * *
102458947 AAATTAAAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAAT
1 AAATTGAAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAAT
* *
102459011 ATGAGTTGATTTGAAAAGCAGAATTTGTAAGGCAA
65 ATGAGTTGATTTGAAAAGCAGAATTTGAAAAGCAA
102459046 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
* *
102459110 TGAGTTGATTTGAAAAGCAGAATTTGTAAGGCAA
66 TGAGTTGATTTGAAAAGCAGAATTTGAAAAGCAA
*
102459144 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
** * *
102459209 TGAGTTGATTTTTGAAAAATAGAAGTT-AAAAGCAG
66 TGAGTTGA--TTTGAAAAGCAGAATTTGAAAAGCAA
* * *
102459244 AAATTGAAAAACAGAAATT-AAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
*
102459308 TGAGTTGATTT-----------TTT-AAAAGCAT
66 TGAGTTGATTTGAAAAGCAGAATTTGAAAAGCAA
* * *
102459330 AAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACTTCTCGCA
1 AAATTG-AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCA
102459395 ATATGAGTTGATTT
63 ATATGAGTTGATTT
102459409 TTTTGAAAGA
Statistics
Matches: 334, Mismatches: 21, Indels: 25
0.88 0.06 0.07
Matches are distributed among these distances:
86 15 0.04
87 13 0.04
88 12 0.04
90 38 0.11
97 3 0.01
98 97 0.29
99 117 0.35
100 25 0.07
101 14 0.04
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (99 bp):
AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTGAAAAGCAGAATTTGAAAAGCAA
Found at i:102459397 original size:90 final size:86
Alignment explanation
Indices: 102459234--102459411 Score: 257
Period size: 90 Copynumber: 2.0 Consensus size: 86
102459224 AAAATAGAAG
* * *
102459234 TTAAAAGCAGAAATTGAAAAACAGAAATTAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCT
1 TTAAAAGCAGAAATTGAAAAACAGAAATTAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCT
102459299 CTCGCAATATGAGTTGATTTT
66 CTCGCAATATGAGTTGATTTT
* * *
102459320 TTAAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTC
1 TTAAAAGCAGAAATTG-AAAAACAGAAATT-AAAATACCTC-G-GCGTGACCCGAGGCCCAACTC
*
102459385 ACTTCTCGCAATATGAGTTGATTTT
62 ACCTCTCGCAATATGAGTTGATTTT
102459410 TT
1 TT
102459412 TGAAAGATAG
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 15 0.19
87 13 0.16
88 10 0.12
89 1 0.01
90 42 0.52
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (86 bp):
TTAAAAGCAGAAATTGAAAAACAGAAATTAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCT
CTCGCAATATGAGTTGATTTT
Found at i:102471443 original size:25 final size:24
Alignment explanation
Indices: 102471414--102471546 Score: 103
Period size: 27 Copynumber: 5.5 Consensus size: 24
102471404 GTAGAAAAAA
*
102471414 AATATAAATAATATAGTATTAAAG
1 AATATACATAATATAGTATTAAAG
* *
102471438 ATATATACATAAAATAGTATAATATAG
1 A-ATATACATAATATAGTAT--TAAAG
* * *
102471465 ATATATACGTAATATAGAATT-TAG
1 A-ATATACATAATATAGTATTAAAG
* *
102471489 AATATACCTAATATA-T-TAAAAG
1 AATATACATAATATAGTATTAAAG
* * *
102471511 AATATATATAATATAATATTAAAA
1 AATATACATAATATAGTATTAAAG
102471535 AATATA-ATAATA
1 AATATACATAATA
102471547 ACAAAAAAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
21 1 0.01
22 15 0.17
23 20 0.22
24 15 0.17
25 17 0.19
27 21 0.24
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
AATATACATAATATAGTATTAAAG
Found at i:102471449 original size:29 final size:27
Alignment explanation
Indices: 102471362--102471450 Score: 78
Period size: 26 Copynumber: 3.3 Consensus size: 27
102471352 AGTGTAAAAA
*
102471362 ATACATACATAATAT-TATTAAAATAT
1 ATACATAAATAATATGTATTAAAATAT
* *
102471388 ATACATAAGATAACATGTA-GAAAA-A-
1 ATACATAA-ATAATATGTATTAAAATAT
* *
102471413 AAATATAAATAATATAGTATTAAAGATAT
1 ATACATAAATAATAT-GTATTAAA-ATAT
102471442 ATACATAAA
1 ATACATAAA
102471451 ATAGTATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
24 6 0.13
25 9 0.19
26 11 0.23
27 11 0.23
28 3 0.06
29 7 0.15
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (27 bp):
ATACATAAATAATATGTATTAAAATAT
Found at i:102471466 original size:27 final size:25
Alignment explanation
Indices: 102471337--102471546 Score: 107
Period size: 25 Copynumber: 8.6 Consensus size: 25
102471327 TATAAAAAAA
* * * *
102471337 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
102471362 ATACATACATAATAT--TATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
102471384 ATATATACATAAGATAACATGTAGAAAAA
1 ATATATACAT-A-AT-ATA-GTATTAAAG
* *
102471413 AAATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
102471438 ATATATACATAAAATAGTATAATATAG
1 ATATATACATAATATAGTAT--TAAAG
* * *
102471465 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
102471489 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
102471511 A-ATATATATAATATAATATTAAA-
1 ATATATACATAATATAGTATTAAAG
*
102471534 AAATATA-ATAATA
1 ATATATACATAATA
102471547 ACAAAAAAAA
Statistics
Matches: 144, Mismatches: 28, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 24 0.17
23 27 0.19
24 15 0.10
25 38 0.26
26 2 0.01
27 23 0.16
28 6 0.04
29 8 0.06
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:102472046 original size:30 final size:30
Alignment explanation
Indices: 102472010--102472107 Score: 178
Period size: 30 Copynumber: 3.3 Consensus size: 30
102472000 AGGTACAAGT
*
102472010 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
102472040 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
102472070 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
102472100 GGTGGTGG
1 GGTGGTGG
102472108 CAAAGGCTAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:102472067 original size:18 final size:18
Alignment explanation
Indices: 102472044--102472097 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
102472034 GGAGTAGGTG
102472044 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
102472062 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
102472074 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
102472092 GTGGAG
1 GTGGAG
102472098 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:102474871 original size:25 final size:25
Alignment explanation
Indices: 102474843--102474914 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
102474833 CAACTTATAC
* *
102474843 CTTCTCAATTTCTTCAATTTTTATT
1 CTTCTAAACTTCTTCAATTTTTATT
102474868 CTTCTAAACTTCTTCAATTTTTATT
1 CTTCTAAACTTCTTCAATTTTTATT
*
102474893 CTTCTGAACTTCTTCAATTTTT
1 CTTCTAAACTTCTTCAATTTTT
102474915 CTTGCTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.21, C:0.21, G:0.01, T:0.57
Consensus pattern (25 bp):
CTTCTAAACTTCTTCAATTTTTATT
Found at i:102475419 original size:23 final size:24
Alignment explanation
Indices: 102475391--102475437 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
102475381 TACCTATTAA
102475391 AAAACCCTAAACCCT-ATTTTTTT
1 AAAACCCTAAACCCTAATTTTTTT
102475414 AAAACCCTAAACCCTAATTTTTTT
1 AAAACCCTAAACCCTAATTTTTTT
102475438 TCCAAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAACCCTAAACCCTAATTTTTTT
Found at i:102479391 original size:30 final size:31
Alignment explanation
Indices: 102479346--102479415 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 31
102479336 AAAATAGTTT
* *
102479346 TTAAATTATACCA-TTTTCTTAATTTGGTAC
1 TTAAACTATACCATTTTTCTTAAGTTGGTAC
*
102479376 TTAAACTATATCATTTTTTTCTTAAGTTGGTAC
1 TTAAACTATACCA--TTTTTCTTAAGTTGGTAC
102479409 TTAAACT
1 TTAAACT
102479416 TTTTTTAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 11 0.32
33 23 0.68
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (31 bp):
TTAAACTATACCATTTTTCTTAAGTTGGTAC
Found at i:102480815 original size:7 final size:7
Alignment explanation
Indices: 102480805--102480837 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
102480795 AAAAATTTTA
102480805 AATATTC
1 AATATTC
102480812 AATATTC
1 AATATTC
102480819 AATATTC
1 AATATTC
102480826 AATATTC
1 AATATTC
102480833 AATAT
1 AATAT
102480838 GAAATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:102485179 original size:24 final size:23
Alignment explanation
Indices: 102485134--102485186 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
102485124 AATTTTGAAA
* *
102485134 TCTGAAAAGTAAAAATATTAAAAT
1 TCTGAAAAGTAAAAAGACT-AAAT
102485158 TCTGAAAA-TAAAAAGGACTAAAT
1 TCTGAAAAGTAAAAA-GACTAAAT
102485181 TCTGAA
1 TCTGAA
102485187 TCTACAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (23 bp):
TCTGAAAAGTAAAAAGACTAAAT
Found at i:102485553 original size:20 final size:20
Alignment explanation
Indices: 102485514--102485553 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
102485504 ATGTATTAAT
*
102485514 GTTGAAAAAATATTTTAAAA
1 GTTGAAAAAATATTTAAAAA
*
102485534 GTTGTAAAAATATTTAAAAA
1 GTTGAAAAAATATTTAAAAA
102485554 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (20 bp):
GTTGAAAAAATATTTAAAAA
Found at i:102486493 original size:3 final size:3
Alignment explanation
Indices: 102486485--102486521 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
102486475 TTTTACAGCC
102486485 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
102486522 TTGCTATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:102493446 original size:16 final size:17
Alignment explanation
Indices: 102493425--102493457 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
102493415 CATATTTAAG
102493425 CACATA-AATTGAAAAC
1 CACATATAATTGAAAAC
*
102493441 CACATATATTTGAAAAC
1 CACATATAATTGAAAAC
102493458 TTTTTCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
CACATATAATTGAAAAC
Found at i:102493745 original size:9 final size:9
Alignment explanation
Indices: 102493731--102493768 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
102493721 CACCAATATG
102493731 TTATTCAAA
1 TTATTCAAA
102493740 TTATTCAAA
1 TTATTCAAA
102493749 TTATTCAAA
1 TTATTCAAA
*
102493758 TTATTCGAA
1 TTATTCAAA
102493767 TT
1 TT
102493769 GTAAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (9 bp):
TTATTCAAA
Found at i:102494602 original size:14 final size:13
Alignment explanation
Indices: 102494583--102494613 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
102494573 AATTTGTGTG
102494583 TTTTTTATTTTAAT
1 TTTTTTATTTT-AT
102494597 TTTTTTATTTTAT
1 TTTTTTATTTTAT
102494610 TTTT
1 TTTT
102494614 CACAAATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:102496854 original size:58 final size:58
Alignment explanation
Indices: 102496764--102496876 Score: 226
Period size: 58 Copynumber: 1.9 Consensus size: 58
102496754 GTCCTAAAAA
102496764 TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAAC
1 TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAAC
102496822 TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCT
1 TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCT
102496877 TACTTATCTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (58 bp):
TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAAC
Found at i:102500080 original size:17 final size:19
Alignment explanation
Indices: 102500058--102500095 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
102500048 ATATGTTTAA
102500058 AATTCTA-TTTA-AATAAT
1 AATTCTATTTTACAATAAT
102500075 AATTCTATTTTACAATAAT
1 AATTCTATTTTACAATAAT
102500094 AA
1 AA
102500096 AATTAGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCTATTTTACAATAAT
Found at i:102507982 original size:30 final size:30
Alignment explanation
Indices: 102507896--102507983 Score: 135
Period size: 31 Copynumber: 2.9 Consensus size: 30
102507886 AATTTTTTAT
*
102507896 TTTTCCCC-AAAA-TTTTCACTCCCTCCCAC
1 TTTTCCCCTAAAACTTTT-ACTCCCTTCCAC
102507925 TTTTCCCCTAAAACTTTTACTTCCCTTCCAC
1 TTTTCCCCTAAAACTTTTAC-TCCCTTCCAC
102507956 TTTTCCCCTAAAACTTTTACTCCCTTCC
1 TTTTCCCCTAAAACTTTTACTCCCTTCC
102507984 CATCCCACCT
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
29 8 0.15
30 14 0.25
31 33 0.60
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCAC
Found at i:102508390 original size:86 final size:86
Alignment explanation
Indices: 102508300--102508473 Score: 303
Period size: 86 Copynumber: 2.0 Consensus size: 86
102508290 ATTAAAATTG
* *
102508300 AATTATTAATTATGCCATAAAATATTTATGTTAAAATTTTATATTAGTATCAATTTCACATTTTA
1 AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATAAATTTCACATTTTA
*
102508365 TCTTTAAAATAACTTTTATTA
66 TCTTTAAAATAAATTTTATTA
* *
102508386 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
1 AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATAAATTTCACATTTTA
102508451 TCTTTAAAATAAATTTTATTA
66 TCTTTAAAATAAATTTTATTA
102508472 AA
1 AA
102508474 AAATCACATT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (86 bp):
AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATAAATTTCACATTTTA
TCTTTAAAATAAATTTTATTA
Found at i:102512369 original size:18 final size:18
Alignment explanation
Indices: 102512343--102512382 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
102512333 ATGGTAGGCG
*
102512343 TAAAGTGTAGCCTTTCTT
1 TAAACTGTAGCCTTTCTT
102512361 TAAACTGTAGCCTTTCTT
1 TAAACTGTAGCCTTTCTT
102512379 TAAA
1 TAAA
102512383 ACATTGTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (18 bp):
TAAACTGTAGCCTTTCTT
Found at i:102518182 original size:21 final size:21
Alignment explanation
Indices: 102518156--102518195 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
102518146 AAAGTTTTTC
102518156 CTTCCTAATCCTCGTACTCCG
1 CTTCCTAATCCTCGTACTCCG
**
102518177 CTTCCTCTTCCTCGTACTC
1 CTTCCTAATCCTCGTACTC
102518196 ATCTTCATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.45, G:0.07, T:0.38
Consensus pattern (21 bp):
CTTCCTAATCCTCGTACTCCG
Found at i:102528481 original size:17 final size:16
Alignment explanation
Indices: 102528417--102528480 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 16
102528407 AAAATGAAAT
* *
102528417 AATAAAATTGAAATGAA
1 AATAAAAAT-AAAAGAA
102528434 AATAAAAATCAAAAGAAA
1 AATAAAAAT-AAAAG-AA
102528452 AATAAAAATAAAAGAA
1 AATAAAAATAAAAGAA
*
102528468 AACAAAAATAAAA
1 AATAAAAATAAAA
102528481 ATAAGACTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
16 14 0.33
17 17 0.40
18 11 0.26
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (16 bp):
AATAAAAATAAAAGAA
Found at i:102528482 original size:6 final size:6
Alignment explanation
Indices: 102528427--102528484 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
102528417 AATAAAATTG
* * * * *
102528427 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAA-GA AAACAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
102528473 AAATAA AAATAA
1 AAATAA AAATAA
102528485 GACTAAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
5 8 0.19
6 35 0.81
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.12
Consensus pattern (6 bp):
AAATAA
Done.