Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009118.1 Hibiscus syriacus cultivar Beakdansim tig00112605_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 353132
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:10736 original size:2 final size:2
Alignment explanation
Indices: 10729--10753 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10719 AATAATACTG
10729 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10754 ATAACTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10836 original size:21 final size:20
Alignment explanation
Indices: 10798--10840 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
10788 AATAAGTTTA
10798 AAATAAAAATAATAATAACAG
1 AAATAAAAATAATAATAA-AG
*
10819 AAATAAAAGA-AATTATAAAG
1 AAATAAAA-ATAATAATAAAG
10839 AA
1 AA
10841 TATGAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 15 0.75
22 1 0.05
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (20 bp):
AAATAAAAATAATAATAAAG
Found at i:12846 original size:14 final size:14
Alignment explanation
Indices: 12827--12853 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12817 AATATGCATG
12827 TCTGGAATCTTGAC
1 TCTGGAATCTTGAC
12841 TCTGGAATCTTGA
1 TCTGGAATCTTGA
12854 AGTTATGATC
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:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (14 bp):
TCTGGAATCTTGAC
Found at i:12961 original size:198 final size:199
Alignment explanation
Indices: 12621--13019 Score: 674
Period size: 198 Copynumber: 2.0 Consensus size: 199
12611 GATCTCCGAT
* * * * *
12621 TGCATGTTTGGAATCTTGAGTATGAAATTTTGAAGTTTTGATCTCTGATCTCGAATTCTTCAAAT
1 TGCATGTCTGGAATCTTGACTATGAAATCTTGAAGTTATGATCCCTGATCTCGAATTCTTCAAAT
* *
12686 ATTCAAATCTGATGTGTACATTCTATTTGTTTCTTGATTTGGGAAATGCTTCTCAACCAATCTCA
66 ATTCAAATATGA-GTGCACATTCTATTTGTTTCTTGATTTGGGAAATGCTTCTCAACCAATCTCA
*
12751 AGTATGAGCCTTGATCGGCTTCCGAGTACATGTACTTTTCAATGAATCTTTGTACAGTAATCTGC
130 AGTATGAGCCTTGATCGGCTTCCGAGTACATGTACTTTTCAATGAATCTTTATACAGTAATCTGC
12816 GAATA
195 GAATA
* *
12821 TGCATGTCTGGAATCTTGACTCTGGAATCTTGAAGTTATGATCCCTGATCTCGAATTCTTCAAAT
1 TGCATGTCTGGAATCTTGACTATGAAATCTTGAAGTTATGATCCCTGATCTCGAATTCTTCAAAT
12886 ATTCAAATATGA-TGCACATTCTATTTGTTTCTTGATTTGGGAAATGCTTCTCAACCAATCTCAA
66 ATTCAAATATGAGTGCACATTCTATTTGTTTCTTGATTTGGGAAATGCTTCTCAACCAATCTCAA
* *
12950 GTATGAGCCTTGATCGGCTTCCGAGTACCTGTACTTTTCAATGAATCTTTATACAGTAATCTGTG
131 GTATGAGCCTTGATCGGCTTCCGAGTACATGTACTTTTCAATGAATCTTTATACAGTAATCTGCG
13015 AATA
196 AATA
13019 T
1 T
13020 CTTTTGCATA
Statistics
Matches: 187, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
198 118 0.63
200 69 0.37
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (199 bp):
TGCATGTCTGGAATCTTGACTATGAAATCTTGAAGTTATGATCCCTGATCTCGAATTCTTCAAAT
ATTCAAATATGAGTGCACATTCTATTTGTTTCTTGATTTGGGAAATGCTTCTCAACCAATCTCAA
GTATGAGCCTTGATCGGCTTCCGAGTACATGTACTTTTCAATGAATCTTTATACAGTAATCTGCG
AATA
Found at i:24246 original size:8 final size:7
Alignment explanation
Indices: 24222--24291 Score: 69
Period size: 6 Copynumber: 10.3 Consensus size: 7
24212 TAATAACAAA
*
24222 AATAAAT
1 AATATAT
24229 AATA-AT
1 AATATAT
24235 AATACTAT
1 AATA-TAT
24243 AATATAT
1 AATATAT
24250 -ATATAT
1 AATATAT
24256 -ATATAT
1 AATATAT
24262 -ATATAT
1 AATATAT
24268 ATATATAT
1 A-ATATAT
24276 ATATATAT
1 A-ATATAT
24284 AATA-AT
1 AATATAT
24290 AA
1 AA
24292 CTTATAAACA
Statistics
Matches: 59, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
6 28 0.47
7 10 0.17
8 21 0.36
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (7 bp):
AATATAT
Found at i:24246 original size:14 final size:13
Alignment explanation
Indices: 24222--24291 Score: 56
Period size: 16 Copynumber: 5.2 Consensus size: 13
24212 TAATAACAAA
*
24222 AATAAATAATAAT
1 AATATATAATAAT
24235 AATACTATAAT-AT
1 AATA-TATAATAAT
24248 -ATATAT-ATATAT
1 AATATATAATA-AT
24260 ATATATATATATATAT
1 A-ATATATA-ATA-AT
24276 ATATATATAATAAT
1 A-ATATATAATAAT
24290 AA
1 AA
24292 CTTATAAACA
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
10 2 0.04
11 3 0.06
12 5 0.10
13 7 0.14
14 14 0.29
15 3 0.06
16 15 0.31
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (13 bp):
AATATATAATAAT
Found at i:24251 original size:2 final size:2
Alignment explanation
Indices: 24240--24284 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
24230 ATAATAATAC
24240 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24281 TA TA
1 TA TA
24285 ATAATAACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:24420 original size:20 final size:21
Alignment explanation
Indices: 24395--24433 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24385 AAGTAATATA
24395 TATAAAT-AAAAAAAATAAAG
1 TATAAATGAAAAAAAATAAAG
*
24415 TATAAATGAAATAAAATAA
1 TATAAATGAAAAAAAATAA
24434 TAATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
TATAAATGAAAAAAAATAAAG
Found at i:27347 original size:19 final size:18
Alignment explanation
Indices: 27314--27349 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27304 TCTCGAATTC
27314 TCTCTCACATTCTCTCTT
1 TCTCTCACATTCTCTCTT
*
27332 TCTCTCACCCTTCTCTCT
1 TCTCTCA-CATTCTCTCT
27350 CCTCTCACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.47
Consensus pattern (18 bp):
TCTCTCACATTCTCTCTT
Found at i:28483 original size:13 final size:13
Alignment explanation
Indices: 28462--28622 Score: 192
Period size: 13 Copynumber: 12.9 Consensus size: 13
28452 ACTTTGTGAA
28462 TTGTGTCTCAAAG
1 TTGTGTCTCAAAG
*
28475 TTGTCTCTCAAAG
1 TTGTGTCTCAAAG
* *
28488 TTATTTCTCAAAG
1 TTGTGTCTCAAAG
*
28501 TTGTCTCTCAAAG
1 TTGTGTCTCAAAG
*
28514 TTGTTTCTCAAAG
1 TTGTGTCTCAAAG
28527 TTGTGTCTCAAAG
1 TTGTGTCTCAAAG
* *
28540 -T-TCTCTCTAAG
1 TTGTGTCTCAAAG
28551 TTGTGTCT-AAAG
1 TTGTGTCTCAAAG
28563 TTGTGTCTCAAAG
1 TTGTGTCTCAAAG
*
28576 -T-TCTCTCAAAG
1 TTGTGTCTCAAAG
28587 TTGTGTCTCAAAG
1 TTGTGTCTCAAAG
28600 TTGTGTCT--AAG
1 TTGTGTCTCAAAG
*
28611 TTGTTTCTCAAA
1 TTGTGTCTCAAA
28623 AGGTTAGGAT
Statistics
Matches: 127, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
11 27 0.21
12 15 0.12
13 85 0.67
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (13 bp):
TTGTGTCTCAAAG
Found at i:28776 original size:35 final size:35
Alignment explanation
Indices: 28723--28791 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
28713 AAATAAAAAA
*
28723 TAAGTCCATACACCAAGTGACATGACTTATTATAT
1 TAAGTCCATACACAAAGTGACATGACTTATTATAT
* * *
28758 TAAGTCTATTCACAAAGTGGCATGACTTATTATA
1 TAAGTCCATACACAAAGTGACATGACTTATTATA
28792 AATAGCATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (35 bp):
TAAGTCCATACACAAAGTGACATGACTTATTATAT
Found at i:34988 original size:23 final size:21
Alignment explanation
Indices: 34936--34997 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
34926 TTTTGGTGCA
*
34936 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
34956 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
34977 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
34998 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:35018 original size:20 final size:21
Alignment explanation
Indices: 34979--35023 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
34969 CCCCCTTTGA
*
34979 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATTACCCCCAC
* *
35000 AGGGGAATCGA-TACCCCCAT
1 AGGGGAACCGATTACCCCCAC
35020 AGGG
1 AGGG
35024 TTCTGGTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.33, G:0.29, T:0.11
Consensus pattern (21 bp):
AGGGGAACCGATTACCCCCAC
Found at i:40549 original size:3 final size:3
Alignment explanation
Indices: 40541--40574 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
40531 TTAATCTGAG
40541 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
40575 ATATAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:40937 original size:13 final size:13
Alignment explanation
Indices: 40916--41010 Score: 127
Period size: 13 Copynumber: 7.3 Consensus size: 13
40906 ACTTTGTGAA
*
40916 TTGTGTCTCAAAG
1 TTGTCTCTCAAAG
40929 TTGTCTCTCAAAG
1 TTGTCTCTCAAAG
*
40942 TTGTGTCTCAAAG
1 TTGTCTCTCAAAG
*
40955 TTGTCTCTCTAAG
1 TTGTCTCTCAAAG
* *
40968 TTTTCTCCCAAAG
1 TTGTCTCTCAAAG
*
40981 TTGTTTCTCAAAG
1 TTGTCTCTCAAAG
*
40994 TTGTATCTCAAAG
1 TTGTCTCTCAAAG
41007 TTGT
1 TTGT
41011 GTCTAAGATT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (13 bp):
TTGTCTCTCAAAG
Found at i:41217 original size:35 final size:35
Alignment explanation
Indices: 41166--41233 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
41156 AATAAAAAAA
*
41166 AAGTCCATTCATCAAGTGACATGACTTATTATATT
1 AAGTCCATTCACCAAGTGACATGACTTATTATATT
* *
41201 AAGTCTATTCACCAAGTGGCATGACTTATTATA
1 AAGTCCATTCACCAAGTGACATGACTTATTATA
41234 AATAGCATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (35 bp):
AAGTCCATTCACCAAGTGACATGACTTATTATATT
Found at i:44328 original size:24 final size:24
Alignment explanation
Indices: 44278--44342 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 24
44268 ACTTTGTGAA
*
44278 TTGTGTCTCAAAGTTTTTTCTCAAAG
1 TTGTGTCTCAAAG--TTCTCTCAAAG
44304 TTGTGTCTCAAAGTTCTCTCAAAG
1 TTGTGTCTCAAAGTTCTCTCAAAG
* *
44328 TTGTTTCTAAAAGTT
1 TTGTGTCTCAAAGTT
44343 GTGTCTAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 23 0.64
26 13 0.36
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (24 bp):
TTGTGTCTCAAAGTTCTCTCAAAG
Found at i:44350 original size:13 final size:13
Alignment explanation
Indices: 44278--44348 Score: 83
Period size: 13 Copynumber: 5.6 Consensus size: 13
44268 ACTTTGTGAA
44278 TTGTGTCTCAAAG
1 TTGTGTCTCAAAG
* *
44291 TTTTTTCTCAAAG
1 TTGTGTCTCAAAG
44304 TTGTGTCTCAAAG
1 TTGTGTCTCAAAG
*
44317 -T-TCTCTCAAAG
1 TTGTGTCTCAAAG
* *
44328 TTGTTTCTAAAAG
1 TTGTGTCTCAAAG
44341 TTGTGTCT
1 TTGTGTCT
44349 AAGATTGTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.19
12 2 0.04
13 37 0.77
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (13 bp):
TTGTGTCTCAAAG
Found at i:46332 original size:23 final size:24
Alignment explanation
Indices: 46281--46333 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
46271 ACATGTTTGT
* *
46281 GAACACGTTCGTGAACATATAAAC
1 GAACACGTTCGCGAACATATAAAA
*
46305 GAACACGTTCGCGAATAT-TAAAA
1 GAACACGTTCGCGAACATATAAAA
*
46328 TAACAC
1 GAACAC
46334 TAAATGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (24 bp):
GAACACGTTCGCGAACATATAAAA
Found at i:48622 original size:23 final size:22
Alignment explanation
Indices: 48596--48686 Score: 67
Period size: 23 Copynumber: 4.0 Consensus size: 22
48586 GAGTCGATGG
*
48596 TTCTATGCGGTCCTTCAGGACAA
1 TTCTACGCGGTCCTTC-GGACAA
* *
48619 TTCTACGTGGT-CTATCGGGACAT
1 TTCTACGCGGTCCT-TC-GGACAA
*
48642 TTCTACGCGGTTCTTCGGAACAA
1 TTCTACGCGGTCCTTCGG-ACAA
* * *
48665 TACTATGTGGTCCTTCGAGACA
1 TTCTACGCGGTCCTTCG-GACA
48687 TTTATATGTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 4 0.07
23 47 0.87
24 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (22 bp):
TTCTACGCGGTCCTTCGGACAA
Found at i:48665 original size:46 final size:46
Alignment explanation
Indices: 48596--48689 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 46
48586 GAGTCGATGG
* * *
48596 TTCTATGCGGTCCTTCAGGACAATTCTACGTGGT-CTATCGGGACAT
1 TTCTACGCGGTCCTTCAGGACAATACTACGTGGTCCT-TCGAGACAT
* *
48642 TTCTACGCGGTTCTTC-GGAACAATACTATGTGGTCCTTCGAGACAT
1 TTCTACGCGGTCCTTCAGG-ACAATACTACGTGGTCCTTCGAGACAT
48688 TT
1 TT
48690 ATATGTGGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.05
46 37 0.90
47 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (46 bp):
TTCTACGCGGTCCTTCAGGACAATACTACGTGGTCCTTCGAGACAT
Found at i:48718 original size:24 final size:24
Alignment explanation
Indices: 48686--48740 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
48676 CCTTCGAGAC
* *
48686 ATTTATATGTGGCACTTCGGTGGA
1 ATTTATATGTGGCACATCGGTGCA
*
48710 ATTTCTATGTGGCACATCGGTGCA
1 ATTTATATGTGGCACATCGGTGCA
48734 ATTTATA
1 ATTTATA
48741 CGAGCTGTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (24 bp):
ATTTATATGTGGCACATCGGTGCA
Found at i:50494 original size:16 final size:16
Alignment explanation
Indices: 50466--50531 Score: 78
Period size: 16 Copynumber: 3.9 Consensus size: 16
50456 AATTTGGAGT
50466 ACAAAAAGAAAGAAAAG
1 ACAAAAAG-AAGAAAAG
*
50483 ACAAAAAGAAGAAAAAA
1 ACAAAAAGAAG-AAAAG
50500 ATCAAAAAAGAAGAAAAG
1 A-C-AAAAAGAAGAAAAG
*
50518 AAAAAAAGAAGAAA
1 ACAAAAAGAAGAAA
50532 TTCAAAAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
16 15 0.35
17 13 0.30
18 6 0.14
19 9 0.21
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.02
Consensus pattern (16 bp):
ACAAAAAGAAGAAAAG
Found at i:50529 original size:19 final size:19
Alignment explanation
Indices: 50475--50530 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 19
50465 TACAAAAAGA
*
50475 AAGAAAAGACAAAAAGAAG
1 AAGAAAAGAAAAAAAGAAG
**
50494 AA-AAAA-ATCAAAA-AAG
1 AAGAAAAGAAAAAAAGAAG
50510 AAGAAAAGAAAAAAAGAAG
1 AAGAAAAGAAAAAAAGAAG
50529 AA
1 AA
50531 ATTCAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.17
17 9 0.30
18 9 0.30
19 7 0.23
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.02
Consensus pattern (19 bp):
AAGAAAAGAAAAAAAGAAG
Found at i:50538 original size:15 final size:17
Alignment explanation
Indices: 50520--50553 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
50510 AAGAAAAGAA
50520 AAAAAGAA-G-AAATTC
1 AAAAAGAATGCAAATTC
50535 AAAAAGAATGCAAATTC
1 AAAAAGAATGCAAATTC
50552 AA
1 AA
50554 GGACAATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAAAGAATGCAAATTC
Found at i:50538 original size:16 final size:16
Alignment explanation
Indices: 50486--50539 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
50476 AGAAAAGACA
*
50486 AAAAGAAGAAAAAAATC
1 AAAA-AAGAAGAAAATC
**
50503 AAAAAAGAAGAAAAGA
1 AAAAAAGAAGAAAATC
*
50519 AAAAAAGAAGAAATTC
1 AAAAAAGAAGAAAATC
50535 AAAAA
1 AAAAA
50540 GAATGCAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
16 27 0.87
17 4 0.13
ACGTcount: A:0.78, C:0.04, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAAAAGAAGAAAATC
Found at i:53976 original size:20 final size:20
Alignment explanation
Indices: 53956--53994 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53946 CTTTTATTTA
*
53956 TATTCTTTCTATTTTCATTAT
1 TATTCTTT-TATTCTCATTAT
*
53977 TATTGTTTTATTCTCATT
1 TATTCTTTTATTCTCATT
53995 CTATCAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (20 bp):
TATTCTTTTATTCTCATTAT
Found at i:63259 original size:6 final size:6
Alignment explanation
Indices: 63250--63321 Score: 126
Period size: 6 Copynumber: 12.0 Consensus size: 6
63240 TCTTTTTGTT
* *
63250 TAATTT TAATTT TAATTC TAATTC TAATTC TAATTC TAATTC TAATTC
1 TAATTC TAATTC TAATTC TAATTC TAATTC TAATTC TAATTC TAATTC
63298 TAATTC TAATTC TAATTC TAATTC
1 TAATTC TAATTC TAATTC TAATTC
63322 AAATCCTTCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (6 bp):
TAATTC
Found at i:76910 original size:23 final size:23
Alignment explanation
Indices: 76880--76995 Score: 112
Period size: 23 Copynumber: 5.0 Consensus size: 23
76870 AGTGCCACAT
76880 ATTTGTCCCGAAAGACCACATAG
1 ATTTGTCCCGAAAGACCACATAG
*
76903 ATTTGTCCCGAAGGACCACATAG
1 ATTTGTCCCGAAAGACCACATAG
* ** * *
76926 GTTTGTCCCGAGTGGCCACATAAA
1 ATTTGTCCCGAAAGACCACAT-AG
*
76950 ATTT-TCCCGAAGGACCACATATG
1 ATTTGTCCCGAAAGACCACATA-G
*
76973 -TTTGTCCC-AAAGGATCACATAG
1 ATTTGTCCCGAAA-GACCACATAG
76995 A
1 A
76996 ACCCTCGACT
Statistics
Matches: 75, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
22 7 0.09
23 64 0.85
24 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
ATTTGTCCCGAAAGACCACATAG
Found at i:76958 original size:46 final size:45
Alignment explanation
Indices: 76853--76993 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 45
76843 CACCATCGCT
76853 CACAT-AATTTG-CACCGAAGTG-CCACATA-TTTGTCCCGAAAGAC
1 CACATAAATTTGTC-CCGAAG-GACCACATAGTTTGTCCCGAAAGAC
* ** *
76896 CACATAGATTTGTCCCGAAGGACCACATAGGTTTGTCCCGAGTGGC
1 CACATAAATTTGTCCCGAAGGACCACATA-GTTTGTCCCGAAAGAC
*
76942 CACATAAAATTT-TCCCGAAGGACCACATATGTTTGTCCC-AAAGGAT
1 CACAT-AAATTTGTCCCGAAGGACCACATA-GTTTGTCCCGAAA-GAC
76988 CACATA
1 CACATA
76994 GAACCCTCGA
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.07
44 18 0.22
45 3 0.04
46 49 0.60
47 5 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (45 bp):
CACATAAATTTGTCCCGAAGGACCACATAGTTTGTCCCGAAAGAC
Found at i:77510 original size:2 final size:2
Alignment explanation
Indices: 77503--77546 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
77493 AGAAATCTTC
77503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77545 AT
1 AT
77547 TCATAGCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79245 original size:22 final size:19
Alignment explanation
Indices: 79199--79252 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 19
79189 TGCAAAATTT
*
79199 GTATCGATACTATATTAGA
1 GTATCGATACCATATTAGA
79218 GTATCGATACCATAGTATAGTA
1 GTATCGATACCATA-T-TAG-A
79240 GTATCGATACCAT
1 GTATCGATACCAT
79253 GGTAGGGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 13 0.42
20 1 0.03
21 3 0.10
22 14 0.45
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (19 bp):
GTATCGATACCATATTAGA
Found at i:79658 original size:54 final size:54
Alignment explanation
Indices: 79590--79942 Score: 467
Period size: 54 Copynumber: 6.5 Consensus size: 54
79580 TTACCCAATA
* *
79590 GCACTAAGTATGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCG
1 GCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCATTTCG
* * * * * *
79644 ACACTAAGTGTGCAATTCATGAAATTTATCATATATTGATAAATAACCGTTTCG
1 GCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCATTTCG
* * *
79698 GCACTAAGTGTGCAATGCACGAAATTCATCACATGTTGATGAATAACCATTTCA
1 GCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCATTTCG
*
79752 GCATTAAGTGTGCAATTCAC-ATAATTCATCATATGTTGATGAATAACCATTTCG
1 GCACTAAGTGTGCAATTCACGA-AATTCATCATATGTTGATGAATAACCATTTCG
* * * *
79806 GCACTAAGTGTGCAATTCACGAAATTCATCATATATTGATGAATATCCGTTTTG
1 GCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCATTTCG
* * *
79860 GCATTAAGTGTGCAAAGT-ACGAAATTCATCATATGTTGATGAATAACCGTTTCG
1 GCACTAAGTGTGC-AATTCACGAAATTCATCATATGTTGATGAATAACCATTTCG
* ** *
79914 GCACTATGTGTGCAACCCACAAAATTCAT
1 GCACTAAGTGTGCAATTCACGAAATTCAT
79943 AATGAGTTTA
Statistics
Matches: 259, Mismatches: 36, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
53 3 0.01
54 252 0.97
55 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (54 bp):
GCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCATTTCG
Found at i:79870 original size:162 final size:162
Alignment explanation
Indices: 79589--79942 Score: 528
Period size: 162 Copynumber: 2.2 Consensus size: 162
79579 ATTACCCAAT
* **
79589 AGCACTAAGTATGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCGACACTAAGTG
1 AGCACTAAGTGTGCAATTCACAAAATTCATCATATGTTGATGAATAACCATTTCGACACTAAGTG
* * *
79654 TGCAATTCATGAAATTTATCATATATTGATAAATAACCGTTTCGGCACTAAGTGTGCAATGCACG
66 TGCAATTCACGAAATTCATCATATATTGATAAATAACCGTTTCGGCACTAAGTGTGCAAAGCACG
79719 AAATTCATCACATGTTGATGAATAACCATTTC
131 AAATTCATCACATGTTGATGAATAACCATTTC
* * *
79751 AGCATTAAGTGTGCAATTCACATAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTG
1 AGCACTAAGTGTGCAATTCACAAAATTCATCATATGTTGATGAATAACCATTTCGACACTAAGTG
* * * * *
79816 TGCAATTCACGAAATTCATCATATATTGATGAATATCCGTTTTGGCATTAAGTGTGCAAAGTACG
66 TGCAATTCACGAAATTCATCATATATTGATAAATAACCGTTTCGGCACTAAGTGTGCAAAGCACG
* *
79881 AAATTCATCATATGTTGATGAATAACCGTTTC
131 AAATTCATCACATGTTGATGAATAACCATTTC
* * **
79913 GGCACTATGTGTGCAACCCACAAAATTCAT
1 AGCACTAAGTGTGCAATTCACAAAATTCAT
79943 AATGAGTTTA
Statistics
Matches: 171, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
162 171 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (162 bp):
AGCACTAAGTGTGCAATTCACAAAATTCATCATATGTTGATGAATAACCATTTCGACACTAAGTG
TGCAATTCACGAAATTCATCATATATTGATAAATAACCGTTTCGGCACTAAGTGTGCAAAGCACG
AAATTCATCACATGTTGATGAATAACCATTTC
Found at i:82664 original size:19 final size:20
Alignment explanation
Indices: 82639--82683 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
82629 CCGTTTCTTA
82639 ATATTTAAAATAAATAT-TAT
1 ATATTTAAAA-AAATATATAT
*
82659 -TATTTAATAAAATATATAT
1 ATATTTAAAAAAATATATAT
82678 ATATTT
1 ATATTT
82684 GTGTGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTTAAAAAAATATATAT
Found at i:84039 original size:3 final size:3
Alignment explanation
Indices: 84031--84079 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
84021 AATATTTATT
*
84031 TAA TAA TAA TAA TAA TATA TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
84077 TAA
1 TAA
84080 GATTGAGACA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:84454 original size:22 final size:22
Alignment explanation
Indices: 84429--84495 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
84419 CCCGAAGGCT
84429 TTAACATCTTACACTGAAGGTC
1 TTAACATCTTACACTGAAGGTC
* **
84451 TTAA-ATATTAC-CCAAAGG-C
1 TTAACATCTTACACTGAAGGTC
*
84470 TTTAACATCTTGCACTGAAGGTC
1 -TTAACATCTTACACTGAAGGTC
84493 TTA
1 TTA
84496 CAGATGATCC
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.26
21 11 0.32
22 12 0.35
23 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (22 bp):
TTAACATCTTACACTGAAGGTC
Found at i:84516 original size:42 final size:42
Alignment explanation
Indices: 84390--84688 Score: 173
Period size: 42 Copynumber: 7.0 Consensus size: 42
84380 TCCTTTGAAG
* **
84390 ACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTA
1 ACATCTTGCACTGAAGGTCTTAAAGATGACCCGAAGGCTTTA
* * * *
84432 ACATCTTACACTGAAGGTCTTAAATATTACCCAAAGGCTTTA
1 ACATCTTGCACTGAAGGTCTTAAAGATGACCCGAAGGCTTTA
* * * *
84474 ACATCTTGCACTGAAGGTCTTACAGATGATCCGAATGTTTTA
1 ACATCTTGCACTGAAGGTCTTAAAGATGACCCGAAGGCTTTA
* * ** ** **
84516 A-AT-TAAGAAACCCCTGAAGGT-TT--AG-T-TTCTAAAATCTCAATTGAAA
1 ACATCT-TG----CACTGAAGGTCTTAAAGATGACCCGAAGGCT---TT---A
* **
84562 ACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTA
1 ACATCTTGCACTGAAGGTCTTAAAGATGACCCGAAGGCTTTA
* * ** *
84604 ACATCTTGCACTGAAGGTCTTACAGATAACATGAAGGCTTTG
1 ACATCTTGCACTGAAGGTCTTAAAGATGACCCGAAGGCTTTA
* *
84646 ACATCTTGCACTGAAGGTCTTACAA-ATGACCCAAAGGATTTA
1 ACATCTTGCACTGAAGGTCTTA-AAGATGACCCGAAGGCTTTA
84688 A
1 A
84689 ATTAAGAAAC
Statistics
Matches: 191, Mismatches: 47, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
40 6 0.03
41 4 0.02
42 142 0.74
43 12 0.06
44 4 0.02
45 11 0.06
46 3 0.02
47 4 0.02
48 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (42 bp):
ACATCTTGCACTGAAGGTCTTAAAGATGACCCGAAGGCTTTA
Found at i:84579 original size:88 final size:87
Alignment explanation
Indices: 84473--84776 Score: 268
Period size: 88 Copynumber: 3.5 Consensus size: 87
84463 CAAAGGCTTT
* * *
84473 AACATCTTGCACTGAAGGTCTTACAGATGATCCGAATGTTTTAAATTAAGAAACCCCTGAAGGTT
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCTGAAGGTT
84538 TAGTTTCTAAAATCTCAATTGAA
66 TAGTTTCTAAAATCTC-ATTGAA
* ** * * *
84561 AACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTAACATCT-TG----CACTGAAGG
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAA-AT-TAAGAAACCCCTGAAGG
** * **
84621 TCTTACAGATAACATGAAGGCT--TTG--
64 T-TT--AG-TTTC-TAAAATCTCATTGAA
* * **
84646 -ACATCTTGCACTGAAGGTCTTACAAATGACCCAAAGGATTTAAATTAAGAAACCCCCAAAGGTT
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCTGAAGGTT
84710 TAGTTTCTAAAATCTCATTTGAA
66 TAGTTTCTAAAATCTCA-TTGAA
** *
84733 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTAA
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAA
84777 CATCTTGCAC
Statistics
Matches: 165, Mismatches: 33, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
82 6 0.04
83 5 0.03
84 39 0.24
85 12 0.07
86 4 0.02
87 10 0.06
88 78 0.47
89 5 0.03
90 6 0.04
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (87 bp):
AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCTGAAGGTT
TAGTTTCTAAAATCTCATTGAA
Found at i:84643 original size:172 final size:172
Alignment explanation
Indices: 84351--84802 Score: 724
Period size: 172 Copynumber: 2.6 Consensus size: 172
84341 GATAATTAGT
* * *
84351 AAACCCCCGAAGGTTTGGTTTCTAAAATCTCCTTTGAAGACATCCTGCACTGAAGGTCTTATGGA
1 AAACCCCCGAAGGTTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGA
* * * * *
84416 TGACCCGAAGGCTTTAACATCTTACACTGAAGGTCTTAAATATTACCCAAAGGCTTTAACATCTT
66 TGACCCGAAGGCTTTAACATCTTGCACTGAAGGTCTTACAGATAACACAAAGGCTTTAACATCTT
* * * * *
84481 GCACTGAAGGTCTTACAGATGATCCGAATGTTTTAAATTAAG
131 GCACTGAAGGTCTTACAAATGACCCAAAGGATTTAAATTAAG
* *
84523 AAACCCCTGAAGGTTTAGTTTCTAAAATCTCAATTGAAAACATCCTGCACTGAAGGTCTTATGGA
1 AAACCCCCGAAGGTTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGA
** *
84588 TGACCCGAAGGCTTTAACATCTTGCACTGAAGGTCTTACAGATAACATGAAGGCTTTGACATCTT
66 TGACCCGAAGGCTTTAACATCTTGCACTGAAGGTCTTACAGATAACACAAAGGCTTTAACATCTT
84653 GCACTGAAGGTCTTACAAATGACCCAAAGGATTTAAATTAAG
131 GCACTGAAGGTCTTACAAATGACCCAAAGGATTTAAATTAAG
* *
84695 AAACCCCCAAAGGTTTAGTTTCTAAAATCTCATTTGAAAACATCTTGCACTGAAGGTCTTATGGA
1 AAACCCCCGAAGGTTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGA
84760 TGACCCGAAGGCTTTAACATCTTGCACTGAAGGTCTTACAGAT
66 TGACCCGAAGGCTTTAACATCTTGCACTGAAGGTCTTACAGAT
84803 GACCCGAAGG
Statistics
Matches: 258, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
172 258 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (172 bp):
AAACCCCCGAAGGTTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGA
TGACCCGAAGGCTTTAACATCTTGCACTGAAGGTCTTACAGATAACACAAAGGCTTTAACATCTT
GCACTGAAGGTCTTACAAATGACCCAAAGGATTTAAATTAAG
Found at i:84737 original size:130 final size:130
Alignment explanation
Indices: 84603--85044 Score: 607
Period size: 130 Copynumber: 3.3 Consensus size: 130
84593 CGAAGGCTTT
** * **
84603 AACATCTTGCACTGAAGGTCTTACAGATAACATGAAGGCTTTGACATCTTGCACTGAAGGTCTTA
1 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTGACATCTTGCACTGAAGGTCTTA
* * *
84668 CAAATGACCCAAAGGATTTAAATTAAGAAACCCCCAAAGGTTTAGTTTCTAAAATCTCATTTGAA
66 CAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAA
*
84733 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTAACATCTTGCACTGAAGGTCTTA
1 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTGACATCTTGCACTGAAGGTCTTA
84798 CAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAA
66 CAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAA
* * * *
84863 AATATCCTACACTAAAGGTC-TATTGGATGACCCGAAGGCTTTAACATCTTGCACTTAACATCTT
1 AACATCTTGCACTGAAGGTCTTA-TGGATGACCCGAAGG------C-T-TTG------ACATCTT
84927 GCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGGCTTAGTTTCT
51 GCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGGCTTAGTTTCT
84992 AAAATCTCATTTGAA
116 AAAATCTCATTTGAA
* *
85007 AACATCTTGTATTGAAGGTCTTATGGATGACCCGAAGG
1 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGG
85045 ACTTAACATC
Statistics
Matches: 276, Mismatches: 20, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
129 2 0.01
130 152 0.55
136 1 0.00
137 1 0.00
138 2 0.01
144 116 0.42
145 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (130 bp):
AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTGACATCTTGCACTGAAGGTCTTA
CAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAA
Found at i:84780 original size:42 final size:42
Alignment explanation
Indices: 84733--84818 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
84723 CTCATTTGAA
** *
84733 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTT
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTT
84775 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTT
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTT
84817 AA
1 AA
84819 ATTAAGAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTT
Found at i:84922 original size:14 final size:14
Alignment explanation
Indices: 84903--84931 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
84893 CCCGAAGGCT
84903 TTAACATCTTGCAC
1 TTAACATCTTGCAC
84917 TTAACATCTTGCAC
1 TTAACATCTTGCAC
84931 T
1 T
84932 GAAGGTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (14 bp):
TTAACATCTTGCAC
Found at i:85034 original size:144 final size:144
Alignment explanation
Indices: 84773--85056 Score: 482
Period size: 144 Copynumber: 2.0 Consensus size: 144
84763 CCCGAAGGCT
84773 TTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGG
1 TTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGG
*
84838 CTTAGTTTCTAAAATCTCATTTGAAAATATCCTACACTAAAGGTCTATTGGATGACCCGAAGG-C
66 CTTAGTTTCTAAAATCTCATTTGAAAACATCCTACACTAAAGGTCTATTGGATGACCCGAAGGAC
84902 TTTAACATCTTGCAC
131 -TTAACATCTTGCAC
84917 TTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGG
1 TTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGG
* ** * *
84982 CTTAGTTTCTAAAATCTCATTTGAAAACATCTTGTATTGAAGGTCT-TATGGATGACCCGAAGGA
66 CTTAGTTTCTAAAATCTCATTTGAAAACATCCTACACTAAAGGTCTAT-TGGATGACCCGAAGGA
85046 CTTAACATCTT
130 CTTAACATCTT
85057 CGGGAAATAG
Statistics
Matches: 132, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
143 1 0.01
144 130 0.98
145 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (144 bp):
TTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTAAATTAAGAAACCCCCAAAGG
CTTAGTTTCTAAAATCTCATTTGAAAACATCCTACACTAAAGGTCTATTGGATGACCCGAAGGAC
TTAACATCTTGCAC
Found at i:85795 original size:22 final size:22
Alignment explanation
Indices: 85718--85799 Score: 105
Period size: 22 Copynumber: 3.7 Consensus size: 22
85708 AATAAAGCTT
* *
85718 TCATCTTTGAA-AAGAGAATTTA
1 TCATCTTTGAAGAA-TGAATCTA
85740 TCATCTTTGAAGAGA-GAATCTA
1 TCATCTTTGAAGA-ATGAATCTA
85762 TCATCTTTGAAGAATGAATCTA
1 TCATCTTTGAAGAATGAATCTA
*
85784 TCATTTTTGAAGAATG
1 TCATCTTTGAAGAATG
85800 TAGATGTAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.02
22 52 0.95
23 1 0.02
24 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (22 bp):
TCATCTTTGAAGAATGAATCTA
Found at i:86286 original size:54 final size:54
Alignment explanation
Indices: 86151--86357 Score: 283
Period size: 54 Copynumber: 3.9 Consensus size: 54
86141 ATAATCACTG
* *
86151 GTTCGTAGAA-CATTTGACAAAACATTCATCCTTTCCTGTGGCTTCTG-CCGGAT
1 GTTCGTA-AAGCATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
* * * * *
86204 TTTCATAAAACATTTGACAACACATTCATCATTTCCCGTGGCTTCTGCCCAGAT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
* * *
86258 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCCTTTGTCTTCTACCCAGAT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
* *
86312 GTTCGTAAAGTATTTGACAACACATTCATCCTTTCCTATGGCTTCT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCCTGTGGCTTCT
86358 TCCTAGATTT
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
52 2 0.01
53 39 0.29
54 94 0.70
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAGCATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
Found at i:88205 original size:8 final size:8
Alignment explanation
Indices: 88192--88249 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
88182 CTTGATTCAA
88192 TTTCTTTT
1 TTTCTTTT
88200 TTTC--TT
1 TTTCTTTT
88206 TTTCTTTT
1 TTTCTTTT
*
88214 TCATCTCTTT
1 T-TTCT-TTT
88224 TTTC---T
1 TTTCTTTT
88229 TTTCTTTT
1 TTTCTTTT
88237 TTTCTTTT
1 TTTCTTTT
88245 TTTCT
1 TTTCT
88250 GATGAATGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
5 5 0.12
6 6 0.15
8 21 0.51
9 5 0.12
10 4 0.10
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTCTTTT
Found at i:94993 original size:3 final size:3
Alignment explanation
Indices: 94985--95035 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
94975 AATATTTATT
*
94985 TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95033 TAA
1 TAA
95036 GATCGGGACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:95969 original size:69 final size:74
Alignment explanation
Indices: 95823--95975 Score: 181
Period size: 69 Copynumber: 2.1 Consensus size: 74
95813 CAAGTTGTTA
*
95823 AATTTTAAAATAAATAAGATCTTAAAAAGTAATTAAATAATAAGAAATTAAGAGATTGATAATAT
1 AATTTTAAAATAAATAAGATCTTAAAAAGTAATTAAATAATAAGAAATTAAGAGATTAATAATAT
95888 AATTCTACT
66 AATTCTACT
** * * * ** *
95897 AATTTTAAAATTTA-AATATCTTAAAAA-TAATTAAATCAT-ATAAATTTTG-GATTAAT-ATTT
1 AATTTTAAAATAAATAAGATCTTAAAAAGTAATTAAATAATAAGAAATTAAGAGATTAATAATAT
*
95957 AATTCTATT
66 AATTCTACT
95966 AATTTTAAAA
1 AATTTTAAAA
95976 CTGATAGTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
69 21 0.30
70 6 0.09
71 7 0.10
72 11 0.16
73 12 0.17
74 12 0.17
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (74 bp):
AATTTTAAAATAAATAAGATCTTAAAAAGTAATTAAATAATAAGAAATTAAGAGATTAATAATAT
AATTCTACT
Found at i:103958 original size:135 final size:136
Alignment explanation
Indices: 103621--104023 Score: 506
Period size: 135 Copynumber: 3.0 Consensus size: 136
103611 ATTTGATGAC
* * * * *
103621 AACATGGTTCCTACATGATGAGGAAATCTGGTTATCTAAGGGTGACACTG-CTCCTATGTAATGA
1 AACATGGTTCCTACGTGATGA-GAAATCTGGCTATCTAAGGATGACAC-GACTCCTACGTGATGA
* * * ** * * * *
103685 GGAGGTCTCGTCGGTAGATGACATTGTTCCTAAGTGGTGAGGACGTCTAGCCATCTTTAGGGATA
64 GGAGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGACATCTGGCCATCTTTAGGGAT-
*
103750 AATTGAGAT
128 AATGGAGAT
* * * * * *
103759 AACATGGTTTCTATGCGATAAGAAATTATGGCTATCTAAGGATGATACGACTCCTACGTGATGAG
1 AACATGGTTCCTACGTGATGAGAAA-TCTGGCTATCTAAGGATGACACGACTCCTACGTGATGAG
*
103824 GAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACAT-TGGCCATCTTTAGGGATAA
65 GAGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGACATCTGGCCATCTTTAGGGATAA
103888 TGGAGAT
130 TGGAGAT
* * * *
103895 AACACGGTTCCTACGTGATGAGAAGTCTGGCTATCTAAGGATGACGCGACTCCTACGTGATGAGA
1 AACATGGTTCCTACGTGATGAGAAATCTGGCTATCTAAGGATGACACGACTCCTACGTGATGAGG
*
103960 AGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGACATCTGGCCAT-TTTTGGGATAAT
66 AGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGACATCTGGCCATCTTTAGGGATAAT
104024 TTGTTTTTAA
Statistics
Matches: 229, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
135 90 0.39
136 34 0.15
137 21 0.09
138 84 0.37
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (136 bp):
AACATGGTTCCTACGTGATGAGAAATCTGGCTATCTAAGGATGACACGACTCCTACGTGATGAGG
AGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGACATCTGGCCATCTTTAGGGATAAT
GGAGAT
Found at i:104155 original size:30 final size:29
Alignment explanation
Indices: 104062--104159 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 29
104052 AGACAAAATT
104062 TGTTTCAAGGGAAACAATCTCAATGTTTA
1 TGTTTCAAGGGAAACAATCTCAATGTTTA
* ** * ***
104091 TGTTTCAAGAGAAACTGTCAGACAAAACTT-
1 TGTTTCAAGGGAAACAATC--TCAATGTTTA
104121 TGTTTCAAGGGAAACAATCTCAATGTTTTA
1 TGTTTCAAGGGAAACAATCTCAATG-TTTA
104151 TGTTTCAAG
1 TGTTTCAAG
104160 ACAAACTGTC
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
28 3 0.06
29 18 0.35
30 25 0.49
31 5 0.10
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (29 bp):
TGTTTCAAGGGAAACAATCTCAATGTTTA
Found at i:104208 original size:36 final size:34
Alignment explanation
Indices: 104151--104277 Score: 98
Period size: 36 Copynumber: 3.7 Consensus size: 34
104141 CAATGTTTTA
* **
104151 TGTTTCAAGACAAACTGTCTCAAATGAGACAAAACT
1 TGTTTCAAGAGAAACAATCTCAAA--AGACAAAACT
*****
104187 TGTTTCAAGAGAAACAATCTC-AAAGTTTTTA--
1 TGTTTCAAGAGAAACAATCTCAAAAGACAAAACT
**
104218 TGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAACT
1 TGTTTCAAGAGAAACAATCTCAA--AAGACAAAACT
*
104254 TGTTTCAAGAGAAACAATATCAAA
1 TGTTTCAAGAGAAACAATCTCAAA
104278 GTTTTTATGT
Statistics
Matches: 68, Mismatches: 18, Indels: 12
0.69 0.18 0.12
Matches are distributed among these distances:
31 19 0.28
32 1 0.01
33 3 0.04
34 5 0.07
35 2 0.03
36 38 0.56
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
TGTTTCAAGAGAAACAATCTCAAAAGACAAAACT
Found at i:104222 original size:31 final size:31
Alignment explanation
Indices: 104187--104299 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
104177 AGACAAAACT
104187 TGTTTCAAGAGAAACAATCTCAAAGTTTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGTTTTTA
** *****
104218 TGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAA
1 TGTTTCAAGAGAAACAATCTC-A--AAGTTTTTA
*
104252 CTTGTTTCAAGAGAAACAATATCAAAGTTTTTA
1 --TGTTTCAAGAGAAACAATCTCAAAGTTTTTA
104285 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
104300 TGTCTCAAGC
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
31 34 0.55
32 1 0.02
33 4 0.06
34 4 0.06
35 1 0.02
36 18 0.29
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (31 bp):
TGTTTCAAGAGAAACAATCTCAAAGTTTTTA
Found at i:104224 original size:67 final size:68
Alignment explanation
Indices: 104110--104346 Score: 372
Period size: 67 Copynumber: 3.5 Consensus size: 68
104100 AGAAACTGTC
* * *
104110 AGACAAAACTTTGTTTCAAGGGAAACAATCTCAATG-TTTTATGTTTCAAGACAAACTGTCTCAA
1 AGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGTTTTTATGTTTCAAGAGAAACTGTCTCAA
**
104174 ATG
66 GCG
104177 AGACAAAAC-TTGTTTCAAGAGAAACAATCTCAAAGTTTTTATGTTTCAAGAGAAACTGTCTCAA
1 AGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGTTTTTATGTTTCAAGAGAAACTGTCTCAA
*
104241 GCA
66 GCG
*
104244 AGACAAAAC-TTGTTTCAAGAGAAACAATATCAAAGTTTTTATGTTTCAAGAGAAACTGTCTCAA
1 AGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGTTTTTATGTTTCAAGAGAAACTGTCTCAA
104308 GCG
66 GCG
* *
104311 AGATAAAACTTTTTTTCAAGAGAAACAATCTCAAAG
1 AGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAG
104347 GTTTATCAAT
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
66 24 0.15
67 109 0.69
68 24 0.15
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (68 bp):
AGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGTTTTTATGTTTCAAGAGAAACTGTCTCAA
GCG
Found at i:104320 original size:134 final size:127
Alignment explanation
Indices: 104036--104352 Score: 426
Period size: 134 Copynumber: 2.5 Consensus size: 127
104026 GTTTTTAAGG
* *
104036 GAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTC-AA-TGTTTATGTTTCAA
1 GAAACTGTCTCAAGCGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGTGTTTATGTTTCAA
* * *
104099 GAGAAACTGTCAGACAAAACTTTGTTTCAAGGGAAACAATCTCAATGTTTTATGTTTCAAGA
66 GAGAAACTGTCAGACAAAACTTTGTTTCAAGAGAAACAATATCAAAGTTTTATGTTTCAAGA
* ** *
104161 CAAACTGTCTCAAATGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGTTTTTATGTTTCAA
1 GAAACTGTCTCAAGCGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGTGTTTATGTTTCAA
104226 GAGAAACTGTCTCAAGCAAGACAAAAC-TTGTTTCAAGAGAAACAATATCAAAGTTTTTATGTTT
66 GAGAAACTG--T----C-AGACAAAACTTTGTTTCAAGAGAAACAATATCAAAG-TTTTATGTTT
104290 CAAGA
123 CAAGA
* *
104295 GAAACTGTCTCAAGCGAGATAAAACTTTTTTTCAAGAGAAACAATCTCAAAG-GTTTAT
1 GAAACTGTCTCAAGCGAGACAAAAC-TTGTTTCAAGAGAAACAATCTCAAAGTGTTTAT
104353 CAATTTTGTT
Statistics
Matches: 166, Mismatches: 15, Indels: 13
0.86 0.08 0.07
Matches are distributed among these distances:
125 42 0.25
126 2 0.01
127 22 0.13
129 1 0.01
133 24 0.14
134 50 0.30
135 25 0.15
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (127 bp):
GAAACTGTCTCAAGCGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGTGTTTATGTTTCAA
GAGAAACTGTCAGACAAAACTTTGTTTCAAGAGAAACAATATCAAAGTTTTATGTTTCAAGA
Found at i:104416 original size:106 final size:105
Alignment explanation
Indices: 104253--104451 Score: 258
Period size: 106 Copynumber: 1.9 Consensus size: 105
104243 AAGACAAAAC
104253 TTGTTTCAAGAGAAACAATATCAAAGTTTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGATAAA
1 TTGTTTCAAGAGAAACAATATCAAAGTTTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGATAAA
*
104318 ACTTT-TTTTCAAGAGAAACAATCTCAAAGGTTTATCAATT
66 A-TTTGTTTTCAAGAAAAACAATCTCAAAGGTTTATCAATT
* * * * ** * *
104358 TTGTTTCAAGTGAAATAATTTCCAAA-TTTTTTTGTTTTGAGGGAAAACTGTCTCAAGCGAGATG
1 TTGTTTCAAGAGAAACAATAT-CAAAGTTTTTATGTTTCAAGAG-AAACTGTCTCAAGCGAGATA
* *
104422 AAATTTGTTTTTAAGAAAAACTATCTCAAA
64 AAATTTGTTTTCAAGAAAAACAATCTCAAA
104452 TGTTCGTGTC
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
105 34 0.43
106 46 0.57
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (105 bp):
TTGTTTCAAGAGAAACAATATCAAAGTTTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGATAAA
ATTTGTTTTCAAGAAAAACAATCTCAAAGGTTTATCAATT
Found at i:107449 original size:13 final size:16
Alignment explanation
Indices: 107418--107457 Score: 59
Period size: 13 Copynumber: 2.7 Consensus size: 16
107408 CATGTGTTTT
107418 TTTCTTCTTTTATTCC
1 TTTCTTCTTTTATTCC
107434 TTTCTT-TTTTA-T-C
1 TTTCTTCTTTTATTCC
107447 TTTCTTCTTTT
1 TTTCTTCTTTT
107458 TCTCTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 5 0.22
15 5 0.22
16 6 0.26
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTCTTTTATTCC
Found at i:107473 original size:16 final size:16
Alignment explanation
Indices: 107454--107511 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
107444 ATCTTTCTTC
107454 TTTTTCTCTTTGATTT-
1 TTTTTCTCTTT-ATTTG
107470 TTTTAT-TCTTTATTTG
1 TTTT-TCTCTTTATTTG
* * *
107486 CTTTTCACTTTCTTTG
1 TTTTTCTCTTTATTTG
107502 TTTTT-TCTTT
1 TTTTTCTCTTT
107512 GCTTCTTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 9 0.26
16 24 0.71
17 1 0.03
ACGTcount: A:0.07, C:0.14, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTTCTCTTTATTTG
Found at i:110130 original size:15 final size:17
Alignment explanation
Indices: 110106--110142 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
110096 AACGTCCTTT
110106 AAAACAATTTTAAGA-A
1 AAAACAATTTTAAGACA
110122 AAAAC-ATTTTAAGACA
1 AAAACAATTTTAAGACA
110138 AAAAC
1 AAAAC
110143 TGGTCTGCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (17 bp):
AAAACAATTTTAAGACA
Found at i:110910 original size:4 final size:4
Alignment explanation
Indices: 110901--110931 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
110891 CTATTACATT
110901 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
110932 ATTTTAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:115622 original size:229 final size:228
Alignment explanation
Indices: 115222--115708 Score: 884
Period size: 229 Copynumber: 2.1 Consensus size: 228
115212 GTAAATTATC
* *
115222 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
* *
115287 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATTAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
115352 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
115417 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTTCAAAAAAGTATA
*
115450 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
115515 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
* *
115580 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
*
115645 GAAACATAAATTACATAACTTTCAAAGAAGTATA
195 GAAACATAAATTACATAACTTTCAAAAAAGTATA
115679 TATCATTTTTATAAAAGTGTCCATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
115709 AAAAGTAGGT
Statistics
Matches: 249, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
228 37 0.15
229 212 0.85
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTCAAAAAAGTATA
Found at i:116009 original size:20 final size:19
Alignment explanation
Indices: 115986--116032 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
115976 CGATATACCA
115986 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
116006 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
116026 GGTAAAA
1 GGTAAAA
116033 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:116150 original size:181 final size:181
Alignment explanation
Indices: 115775--116246 Score: 653
Period size: 181 Copynumber: 2.6 Consensus size: 181
115765 GATCCAAATT
* * * * *
115775 AAAAATTTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
115839 AAAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
115904 CGTGAATTTGAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATAATTTT
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATAATTTA
* *
115956 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
116021 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** * *
116085 GTGAATTTAAAAGAGAAGCA-TTTATAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTT-TAAAGCCTATAAAGTGTCGATAATTT-A
* *
116137 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* * *
116202 AAATCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
116247 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
179 3 0.01
180 59 0.23
181 198 0.76
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATAATTTA
Found at i:116190 original size:20 final size:19
Alignment explanation
Indices: 116167--116213 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
116157 CGATATAACA
116167 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
116187 GGTATCAAAATGATAAAATC
1 GGTA-AAAAATGATAAAACC
116207 GGTAAAA
1 GGTAAAA
116214 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:118350 original size:15 final size:15
Alignment explanation
Indices: 118330--118362 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
118320 TGGTTGTATT
*
118330 GGGGGATGACGGTGA
1 GGGGGACGACGGTGA
118345 GGGGGACGACGGTGA
1 GGGGGACGACGGTGA
118360 GGG
1 GGG
118363 AAAACAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.64, T:0.09
Consensus pattern (15 bp):
GGGGGACGACGGTGA
Found at i:118472 original size:21 final size:21
Alignment explanation
Indices: 118445--118509 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
118435 AAGACAATCA
*
118445 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
118466 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
118487 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
118508 AG
1 AG
118510 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:118585 original size:33 final size:33
Alignment explanation
Indices: 118543--118608 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
118533 AAATAGATGG
*
118543 AGTGGTGAAAGAAGTAGAGGAGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGAGTTAAGGGGTGA
* * *
118576 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGAGTTAAGGGGTGA
118609 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.21
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGAGTTAAGGGGTGA
Found at i:120420 original size:19 final size:19
Alignment explanation
Indices: 120396--120444 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
120386 AATGTAGGGT
120396 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
120415 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
120434 TATTTTTGTAT
1 TAATTTTGTAT
120445 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:121033 original size:198 final size:199
Alignment explanation
Indices: 120553--121904 Score: 2484
Period size: 198 Copynumber: 6.8 Consensus size: 199
120543 GGCAAATTTA
* * * *
120553 CCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCAAAAACCAAAAGTATAA
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC-GAACCCAAAAGTATAA
* *
120618 TGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAGAATATGTCTAA
65 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
*
120683 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACATGG
130 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGG
120748 TGCAC
195 TGCAC
*
120753 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
120818 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
120883 TAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
120947 GCAC
196 GCAC
120951 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
121016 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
121081 TAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGG-AAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
121144 GCAC
196 GCAC
*
121148 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCCTCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
121213 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTATAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
121278 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
121343 GCAC
196 GCAC
*
121347 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGAACCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* * *
121412 GTAATATGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATGAGATAATATG--TATA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
121475 -AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
121539 GCAC
196 GCAC
121543 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
121608 GTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
121673 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
121738 GCAC
196 GCAC
121742 CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
121806 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
121871 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
121905 CTAATTTAAA
Statistics
Matches: 1122, Mismatches: 25, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
196 188 0.17
197 177 0.16
198 376 0.34
199 336 0.30
200 45 0.04
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
GCAC
Found at i:121536 original size:395 final size:397
Alignment explanation
Indices: 120553--121904 Score: 2457
Period size: 395 Copynumber: 3.4 Consensus size: 397
120543 GGCAAATTTA
* * *
120553 CCATAAAGTGTCGATCCATATATAAAAAGTGTC-AATCCCAAAAACATCAAAAACCAAAAGTATA
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGAA-CCCAAAATCATC-GAACCCAAAAGTATA
*
120617 ATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAGAATATGTCTA
64 ATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATG-CTA
*
120682 AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACATG
128 AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGG
*
120747 GTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGAAAATCATCGAACCCAAAAG
193 GTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG
120812 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATG
258 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATG
120877 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAA
323 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
120941 CAGGGTGCAC
388 CAGGGTGCAC
*
120951 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGAACCCAAAATCATCGAACCCAAAAGTATAAT
*
121016 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATG-CTAAA
121081 TAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGG-AAACAGGGT
130 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
*
121144 GCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCCTCGAACCCAAAAGTA
195 GCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
*
121209 TAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTA
260 TAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTC
121274 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACA
325 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACA
121339 GGGTGCAC
390 GGGTGCAC
121347 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGAACCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGAACCCAAAATCATCGAACCCAAAAGTATAAT
* * * *
121412 GTAATATGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATGAGATAATATG-TATA-
66 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGCTAAAT
121475 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTG
131 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTG
121540 CACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
196 CACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
* *
121605 AATGTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
261 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTCT
121670 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAG
326 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAG
121735 GGTGCAC
391 GGTGCAC
*
121742 CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGAACCCAAAATCATCGAACCCAAAAGTATAAT
121806 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATG-CTAAA
121871 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
130 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
121905 CTAATTTAAA
Statistics
Matches: 924, Mismatches: 23, Indels: 15
0.96 0.02 0.02
Matches are distributed among these distances:
393 33 0.04
394 119 0.13
395 404 0.44
396 178 0.19
397 145 0.16
398 44 0.05
399 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (397 bp):
CCATAAAGTGTCGATCCATATATAAAAAGTGTCGAACCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGCTAAAT
AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTG
CACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTCT
AAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAG
GGTGCAC
Found at i:123323 original size:18 final size:18
Alignment explanation
Indices: 123302--123363 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
123292 AGCGGTCGCA
123302 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
123320 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
123338 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
123356 GAAGATGA
1 GAAGATGA
123364 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:123326 original size:6 final size:6
Alignment explanation
Indices: 123302--123393 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
123292 AGCGGTCGCA
* * * * * *
123302 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
123350 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
123394 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:123337 original size:3 final size:3
Alignment explanation
Indices: 123317--123397 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
123307 TGAAGCTGAC
* * * * * ** *
123317 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
123365 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
123398 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:123356 original size:36 final size:36
Alignment explanation
Indices: 123305--123381 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
123295 GGTCGCAGAA
*
123305 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
123341 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
123377 GATGA
1 GATGA
123382 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:123397 original size:12 final size:12
Alignment explanation
Indices: 123305--123393 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
123295 GGTCGCAGAA
*
123305 GATGAAGCTGAC
1 GATGAAGATGAC
123317 GATGAAGATGAC
1 GATGAAGATGAC
*
123329 GATGATGATGAC
1 GATGAAGATGAC
* *
123341 GATGAAGCTGGC
1 GATGAAGATGAC
*
123353 GATGAAGATGAT
1 GATGAAGATGAC
* * *
123365 GACGATGATGAT
1 GATGAAGATGAC
* *
123377 GATGATGATGAA
1 GATGAAGATGAC
123389 GATGA
1 GATGA
123394 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:123397 original size:18 final size:18
Alignment explanation
Indices: 123302--123393 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
123292 AGCGGTCGCA
*
123302 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
123320 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
123338 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
123356 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
123374 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
123392 GA
1 GA
123394 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:125348 original size:182 final size:183
Alignment explanation
Indices: 124857--125527 Score: 1197
Period size: 183 Copynumber: 3.7 Consensus size: 183
124847 TTCAACATAT
*
124857 TATAAATATACCGGTTTT-TGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
*
124921 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTAAAAAAGTGTCGACATTT
124986 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
131 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
*
125039 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
* *
125104 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAACAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTAAAAAAGTGTCGACATTT
125169 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
131 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
125222 TATAAATA-ACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
* *
125286 TCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATT-TAAAAAAGTATCGACATT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTGTAAAAAAGTGTCGACATT
* *
125350 TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGG
130 TACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
* *
125404 TATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
125469 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCG
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTAAAAAAGTGTCG
125528 GTAATTTTAA
Statistics
Matches: 473, Mismatches: 12, Indels: 7
0.96 0.02 0.01
Matches are distributed among these distances:
182 189 0.40
183 283 0.60
184 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTAAAAAAGTGTCGACATTT
ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
Found at i:125527 original size:365 final size:365
Alignment explanation
Indices: 124857--125527 Score: 1195
Period size: 365 Copynumber: 1.8 Consensus size: 365
124847 TTCAACATAT
*
124857 TATAAATATACCGGTTTTTGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTGT
1 TATAAATATACCGGTTTTTGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGT
* *
124922 CGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTTA
66 CGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTAAAAAAGTATCGACATTTA
*
124987 CACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCG
131 CACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCG
* * *
125052 GTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTGTCGGTACTTTATG
196 GTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATG
* *
125117 TCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAACAAGTGTCGACATTTACACATCGGAACC
261 TCCAGATTGGAAGAAAAATGTGTCGATACATTGTAAAAAAGTGTCGACATTTACACATCGGAACC
125182 CATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
326 CATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
125222 TATAAATA-ACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
1 TATAAATATACCGGTTTT-TGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
*
125286 TCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATT-TAAAAAAGTATCGACATT
65 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTGTAAAAAAGTATCGACATT
*
125350 TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATAC
129 TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATAC
125415 CGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTA
194 CGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTA
125480 TGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCG
259 TGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTAAAAAAGTGTCG
125528 GTAATTTTAA
Statistics
Matches: 292, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
364 9 0.03
365 276 0.95
366 7 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (365 bp):
TATAAATATACCGGTTTTTGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGT
CGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTAAAAAAGTATCGACATTTA
CACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCG
GTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATG
TCCAGATTGGAAGAAAAATGTGTCGATACATTGTAAAAAAGTGTCGACATTTACACATCGGAACC
CATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
Found at i:128024 original size:25 final size:25
Alignment explanation
Indices: 127996--128060 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
127986 TTATCATTAA
127996 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
* ****
128021 ATTTAGTTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
128046 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
128061 TCTTTTGAGT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:128389 original size:21 final size:22
Alignment explanation
Indices: 128341--128391 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
128331 AAATTACATA
128341 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* *
128363 -CTTTTTATAAAAAGTATGGA-C
1 AC-TTTTAAAAAAAGTATCGATC
128384 ACTTTTAA
1 ACTTTTAA
128392 TATAATAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:128437 original size:23 final size:23
Alignment explanation
Indices: 128406--128469 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
128396 ATAGGTAAAC
*
128406 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
128429 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
128452 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
128470 TTGTTATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:128476 original size:23 final size:24
Alignment explanation
Indices: 128406--128478 Score: 98
Period size: 23 Copynumber: 3.2 Consensus size: 24
128396 ATAGGTAAAC
*
128406 ATATGATGTAATAGGTAG-CGCTT
1 ATATAATGTAATAGGTAGTCGCTT
*
128429 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGTCGCTT
*
128452 ATATAATGTAATAGGTAGTTG-TT
1 ATATAATGTAATAGGTAGTCGCTT
128475 ATAT
1 ATAT
128479 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 43 0.96
24 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (24 bp):
ATATAATGTAATAGGTAGTCGCTT
Found at i:128927 original size:18 final size:18
Alignment explanation
Indices: 128906--128942 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
128896 GTAATTGGAG
128906 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
128924 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
128942 T
1 T
128943 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:128950 original size:24 final size:24
Alignment explanation
Indices: 128898--128944 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
128888 TTTCATATGT
* *
128898 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
128922 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
128945 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:129262 original size:34 final size:34
Alignment explanation
Indices: 129215--129280 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
129205 AAATTCAAAG
*
129215 CTCATATGGTGCCAAGCAAAAGGAAATAAAAAAT
1 CTCATATGATGCCAAGCAAAAGGAAATAAAAAAT
*
129249 CTCATATGATGCCAAGCAAAAGGAAATCAAAA
1 CTCATATGATGCCAAGCAAAAGGAAATAAAAA
129281 TCTACAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (34 bp):
CTCATATGATGCCAAGCAAAAGGAAATAAAAAAT
Found at i:129734 original size:23 final size:23
Alignment explanation
Indices: 129703--129775 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
129693 ATAGGTAAAC
*
129703 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
129726 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
129749 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
129772 ATAT
1 ATAT
129776 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:129980 original size:30 final size:29
Alignment explanation
Indices: 129921--129987 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
129911 GTTACGATAT
* *
129921 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
129951 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
129981 ATTTTTT
1 ATATTTT
129988 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:130262 original size:23 final size:23
Alignment explanation
Indices: 130192--130253 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
130182 AAATAGGTAA
130192 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
130215 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
130238 ATATAAGCGCTACCTA
1 ATATAAGCGCTACCTA
130254 GTATGTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:131134 original size:9 final size:9
Alignment explanation
Indices: 131122--131157 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
131112 TTTTTAATAT
131122 TTTATTTAA
1 TTTATTTAA
131131 TTTATTTAA
1 TTTATTTAA
*
131140 -GTATTTAA
1 TTTATTTAA
131148 TTTATTTAA
1 TTTATTTAA
131157 T
1 T
131158 ATTTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTATTTAA
Found at i:131146 original size:21 final size:21
Alignment explanation
Indices: 131099--131174 Score: 78
Period size: 17 Copynumber: 4.0 Consensus size: 21
131089 TATCTAAGGT
131099 ATATTTTA-TT-ATATT-TTTA
1 ATATTTTATTTAAT-TTATTTA
131118 ATATTTTATTTAATTTATTT-
1 ATATTTTATTTAATTTATTTA
*
131138 A-A--GTATTTAATTTATTTA
1 ATATTTTATTTAATTTATTTA
131156 ATATTTTATTTAA-TTATTT
1 ATATTTTATTTAATTTATTT
131175 TTTTTGCAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
17 14 0.29
18 1 0.02
19 10 0.21
20 11 0.23
21 12 0.25
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (21 bp):
ATATTTTATTTAATTTATTTA
Found at i:133425 original size:13 final size:13
Alignment explanation
Indices: 133405--133451 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
133395 TATTTAGTAC
*
133405 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* * *
133418 TGTTTATTGGACT
1 TTTTTATTGTAAT
133431 TTTTTATTGTAAT
1 TTTTTATTGTAAT
133444 TTTTTATT
1 TTTTTATT
133452 ATTTATCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.17, C:0.02, G:0.13, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:136990 original size:13 final size:13
Alignment explanation
Indices: 136972--137000 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
136962 TTCTAATAGA
136972 GAGGAGATGTGAG
1 GAGGAGATGTGAG
136985 GAGGAGATGTGAG
1 GAGGAGATGTGAG
136998 GAG
1 GAG
137001 TTACCCCGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.55, T:0.14
Consensus pattern (13 bp):
GAGGAGATGTGAG
Found at i:145035 original size:139 final size:138
Alignment explanation
Indices: 144329--145050 Score: 939
Period size: 138 Copynumber: 5.2 Consensus size: 138
144319 CACTATTCAC
* * * *
144329 GTGAAGGCGCATTTCAG-GGGGGCGCCTTCCATTATTTTGTTAGAGAATATGTTATAATTTCCCT
1 GTGAAAGCACATTTCAGAGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTTCCCT
* * *
144393 ATTATGTCACTCATGTCCCCCGGGGGTACTATTCATATCAGTACCTATCATGTTTGAGGGGACGA
66 ATTATGTCACTCATGTCCCCC-GGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGC
144458 AACAAAGTG
130 AACAAAGTG
* * *
144467 GTGAAAGTACATTTCAGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT-ATTTGTCC
1 GTGAAAGCACATTTCAGAGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTT-CCC
* * * *
144531 TATTATGTCATTCATGTTCCCCGAGGAACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGC
65 TATTATGTCACTCATGTCCCCCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGC
144596 AACAAAGTG
130 AACAAAGTG
* * * * * * * ** *
144605 GAGAAAGCGCGTTTCAGGGGGTGCGCCTTCTATTATTTTGTCAAAGAATATGTTATGATTGGCTT
1 GTGAAAGCACATTTCAGAGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTTCCCT
* * *
144670 ATTATGTCACTCATGTCCCCCAGGGCACTATTCATGTAAGTACCTATAATGTTTGAGGGGACGCA
66 ATTATGTCACTCATGTCCCCCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCA
* *
144735 GCAGAGTG
131 ACAAAGTG
* *
144743 GTGAAAGCATATTTCA-AGGG-GCGTGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCC
1 GTGAAAGCACATTTCAGAGGGTGC--GCCTTCCATTATTTTGTCAGAGAATATGTTATAATTTCC
* * *
144806 CTATTATGTCACTCATGTCCCCCAGGGCACTATTCATGTCAGTACTTATCATGTTTGAGGGGACA
64 CTATTATGTCACTCATGTCCCCCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACG
*
144871 CAACAGAGTG
129 CAACAAAGTG
* * * *
144881 GTGAAAGCGCATTTCAGAGGGTGCCCCTACCCTTATTTTGTCAGAGAATATGTTATAATTTCCCT
1 GTGAAAGCACATTTCAGAGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTTCCCT
* * **
144946 ATTATGTCACTTATGTCCACCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAATGGACGC
66 ATTATGTCACTCATGTCC-CCCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGC
*
145011 ATCAAAGTG
130 AACAAAGTG
* * **
145020 GTGAAAGCACGTTTCAGGGGGCACGCCTTCC
1 GTGAAAGCACATTTCAGAGGGTGCGCCTTCC
145051 CTTTTTTTTT
Statistics
Matches: 509, Mismatches: 67, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
136 2 0.00
137 3 0.01
138 366 0.72
139 136 0.27
140 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (138 bp):
GTGAAAGCACATTTCAGAGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTTCCCT
ATTATGTCACTCATGTCCCCCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCA
ACAAAGTG
Found at i:145105 original size:13 final size:13
Alignment explanation
Indices: 145083--145115 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
145073 AATTGCCCTA
*
145083 TTATGCTTGAAAT
1 TTATGTTTGAAAT
145096 TTATGTTTGAAAT
1 TTATGTTTGAAAT
145109 TTATGTT
1 TTATGTT
145116 AGAATGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (13 bp):
TTATGTTTGAAAT
Found at i:145971 original size:21 final size:21
Alignment explanation
Indices: 145945--145996 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
145935 GGTGTCATAA
*
145945 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
* *
145966 ACCCCTGTGGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
145987 AACCCTGCGG
1 AACCCTGCGG
145997 AGATGGCATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.19
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:146045 original size:21 final size:21
Alignment explanation
Indices: 145995--146056 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
145985 GTAACCCTGC
145995 GGAGATGGCATATGAACTGGT
1 GGAGATGGCATATGAACTGGT
* *
146016 GG-GCTTGGCATAT-AACATTGT
1 GGAG-ATGGCATATGAAC-TGGT
*
146037 GGAGATGGCATCTGAACTGG
1 GGAGATGGCATATGAACTGG
146057 AGGCTTGGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.26
Consensus pattern (21 bp):
GGAGATGGCATATGAACTGGT
Found at i:146108 original size:42 final size:41
Alignment explanation
Indices: 145983--146116 Score: 144
Period size: 42 Copynumber: 3.2 Consensus size: 41
145973 TGGGCTAGGA
* ** *
145983 ATGTAACCC-TGCGGAGATGGCATATGAACTGGTGGGCTTGGC
1 ATGT-ACCCTTGCGGAGATGGCATCTGAACT-GAAGGCTGGGC
* * * * *
146025 ATATAACATTGTGGAGATGGCATCTGAACTGGAGGCTTGGGC
1 ATGTACCCTTGCGGAGATGGCATCTGAACTGAAGGC-TGGGC
146067 ATGTACCCTTGCGGAGATGGCATCTGAACTGAAAGGCTGGGC
1 ATGTACCCTTGCGGAGATGGCATCTGAACTG-AAGGCTGGGC
146109 ATGTACCC
1 ATGTACCC
146117 CTGTGGCATC
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 6 0.08
42 66 0.87
43 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (41 bp):
ATGTACCCTTGCGGAGATGGCATCTGAACTGAAGGCTGGGC
Found at i:147753 original size:25 final size:24
Alignment explanation
Indices: 147709--147755 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
147699 TAATTAGCAC
147709 AAATAATAATTAATTAATAAATTT
1 AAATAATAATTAATTAATAAATTT
147733 AAATAAATAA-TAATTATATAAAT
1 AAAT-AATAATTAATTA-ATAAAT
147756 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATAATAATTAATTAATAAATTT
Found at i:147783 original size:33 final size:30
Alignment explanation
Indices: 147709--147804 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
147699 TAATTAGCAC
*
147709 AAATAATAATTA-ATTAA-TAAATT--TAAA
1 AAATAATAATTATA-TAATTATATTAATAAA
*
147736 TAAATAATAATTATATAAATATTATTTTAATAAA
1 -AAATAATAATTATAT--A-ATTATATTAATAAA
*
147770 AAATAATATTTATATAATTATATTAATAAA
1 AAATAATAATTATATAATTATATTAATAAA
147800 AAATA
1 AAATA
147805 TAACAATAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
28 13 0.23
29 1 0.02
30 19 0.33
31 2 0.04
32 4 0.07
33 14 0.25
34 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
AAATAATAATTATATAATTATATTAATAAA
Found at i:147833 original size:19 final size:21
Alignment explanation
Indices: 147792--147844 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 21
147782 TATAATTATA
147792 TTAATAAAAAATATAACAATAAT
1 TTAA-AAAAAATATAAC-ATAAT
*
147815 TTTAAAAAAATAT-AC-TAAT
1 TTAAAAAAAATATAACATAAT
147834 TTAAAAAAAAT
1 TTAAAAAAAAT
147845 TCTTACCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 14 0.50
21 2 0.07
22 9 0.32
23 3 0.11
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
TTAAAAAAAATATAACATAAT
Found at i:156507 original size:47 final size:49
Alignment explanation
Indices: 156383--156513 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 49
156373 ATATAAATTT
* *
156383 CTTACC-TTTTATCCCATAAGCTCATAAGCTTA--TTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTTACCAAAATA
* ** *
156429 CTTACCATTTAAAATTCCATAAGCTCGTAAGCTTATTTTTTTTTCAATATA
1 CTTACCATTT--AATTCCATAAGCTCATAAGCTTATTTTTTTACCAAAATA
* *
156480 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
156514 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
46 6 0.08
47 26 0.37
49 20 0.28
50 2 0.03
51 17 0.24
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (49 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTTACCAAAATA
Found at i:161564 original size:2 final size:2
Alignment explanation
Indices: 161557--161601 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
161547 ATACTATGAG
161557 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
161599 TA T
1 TA T
161602 GAAAATTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:161984 original size:75 final size:75
Alignment explanation
Indices: 161857--162007 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
161847 TATTTCATAT
* *
161857 GTGAAAAGGTTATGCAAATATGTGTGAAGTGAATATGTTATAAGGAATATAAATGATAAGTGAGA
1 GTGAAAAGGTTATGCAAATATGTATGAAGTGAATATGTTATAAGGAACATAAATGATAAGTGAGA
161922 AATGTTAAAA
66 AATGTTAAAA
* *
161932 GTGAAAAGGTTATGCAAATATGTATGAAGTGAATATGTTCTATGGAACATAAATGATAAGTGAGA
1 GTGAAAAGGTTATGCAAATATGTATGAAGTGAATATGTTATAAGGAACATAAATGATAAGTGAGA
161997 AATGTTAAAA
66 AATGTTAAAA
162007 G
1 G
162008 GAATGCTATG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (75 bp):
GTGAAAAGGTTATGCAAATATGTATGAAGTGAATATGTTATAAGGAACATAAATGATAAGTGAGA
AATGTTAAAA
Found at i:162215 original size:23 final size:23
Alignment explanation
Indices: 162185--162267 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
162175 GTCGAGGGTT
*
162185 CTATGTGGTCATTCGGGATAAAC
1 CTATGTGGTCATTCGGGACAAAC
* * *
162208 CTATGTGGTCATTTGAGACAAAT
1 CTATGTGGTCATTCGGGACAAAC
*
162231 TTATGTGGTCATTCGGGACAAA-
1 CTATGTGGTCATTCGGGACAAAC
162253 -TATGTGG-CACTTCGG
1 CTATGTGGTCA-TTCGG
162268 TGTAAATTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.04
21 12 0.23
23 38 0.73
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAC
Found at i:168016 original size:55 final size:55
Alignment explanation
Indices: 167949--168301 Score: 447
Period size: 56 Copynumber: 6.4 Consensus size: 55
167939 TTCTTTGAGG
* * *
167949 TGCACACGTAGTGCCAATACAGTCGTTCATAAACATATTATGAATTTCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGTTT
* *
168004 TGCACACTTAGTGCCTATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGTTT
* * *
168059 TGCACACTTAGTGACGATTCGGTCGTTCATAAACATATTATGAATTTTGTTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCG-TGGTTT
* * * * ** *
168115 CGTAGACTAAGTATCGATACGGTCGTTCATAAACATATTATAAATTTCGTGGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGT-GGTTT
* * * *
168171 TGTACACTTAGTGCCGATACGGTTGTTCATAAACATATTATGACTTCCGTGGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGT-GGTTT
* * * *
168227 TGTACACTTAGTGCTGATATGATCGTTCATAAACATATTATGAA-TTCTGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTC-GTGGTTT
*
168282 TGCACACTTAGCGCCGATAC
1 TGCACACTTAGTGCCGATAC
168302 AATATGTAAT
Statistics
Matches: 258, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
55 119 0.46
56 139 0.54
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (55 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGTTT
Found at i:168519 original size:7 final size:7
Alignment explanation
Indices: 168507--168531 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
168497 AAGTATTAAA
168507 GAAAGGG
1 GAAAGGG
168514 GAAAGGG
1 GAAAGGG
168521 GAAAGGG
1 GAAAGGG
168528 GAAA
1 GAAA
168532 ATGGAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (7 bp):
GAAAGGG
Found at i:168920 original size:20 final size:20
Alignment explanation
Indices: 168895--168941 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
168885 TTAGAATCGT
168895 ATGTTCTTGAATGATTTTAG
1 ATGTTCTTGAATGATTTTAG
168915 ATGTTCTTGAATGATTTTAG
1 ATGTTCTTGAATGATTTTAG
168935 ATGTTCT
1 ATGTTCT
168942 AAGAGTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.51
Consensus pattern (20 bp):
ATGTTCTTGAATGATTTTAG
Found at i:169761 original size:59 final size:59
Alignment explanation
Indices: 169637--170381 Score: 1055
Period size: 59 Copynumber: 12.7 Consensus size: 59
169627 CACTAAGTGA
* * * * * *
169637 GCTAAAATGTTAAGGAAATCATATTGAGTGCATGAATTTCCAGTTA-GGCACTTGGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * * *
169695 GCTAAAATGATAAGGAAAACATACTAAGGGTATGGATTTCCAAATAGGGCACTTCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * * *
169754 GCTAAAATGAGAAGGAAATCATATTGAGTGTATGAATTTCCAGATAGGGCACTTAGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
*
169813 GCTAAAATGATAAGGAAATCATACTAAGGGTATGAATTTCCAGATAGGGCACTTCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * *
169872 GCTAAATTGATAAGGAAATCATAATAAGGGTATGAATTTCCAGATAGGGCACTTCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
*
169931 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTCCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* *
169990 GCTAAAATGACAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * * * * **
170049 GCTAAAATGATAAGGAAATCATATTAAGTGCATGAATTTCCATATAGAGCATTTCGTAC
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
*
170108 GCTAAAATGTTAA-GAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * *
170166 GGTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAAATAGGGCACTTAGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * *
170225 GCTAAAATGATAAGAAAATCATACTAAGTGTATTAATTTCTAGATAGGGCACTTCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* ** * * ** **
170284 GCTAAAATGATAAGGAAATCATATTAAGTGCGTGAATTTCCATATAGAGCGTTTCGTAA
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* *
170343 ACTAAAATGTTAA-GAAATCATACTAAGTGTATGAATTTC
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTC
170382 TGTAGGGGCA
Statistics
Matches: 609, Mismatches: 76, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
58 109 0.18
59 500 0.82
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (59 bp):
GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
Found at i:170227 original size:235 final size:236
Alignment explanation
Indices: 169636--170381 Score: 1147
Period size: 235 Copynumber: 3.2 Consensus size: 236
169626 ACACTAAGTG
* * * * *
169636 AGCTAAAATGTTAAGGAAATCATATTGAGTGCATGAATTTCCAGTTA-GGCACTTGGTGTGCTAA
1 AGCTAAAATGTTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAA
* * * *
169700 AATGATAAGGAAAACATACTAAGGGTATGGATTTCCAAATAGGGCACTTCGTGTGCTAAAATGAG
66 AATGATAAGGAAATCATACTAAGTGTATGAATTTCCAAATAGGGCACTTCGTGTGCTAAAATGAC
* * * *
169765 AAGGAAATCATATTGAGTGTATGAATTTCCAGATAGGGCACTTAGTGTGCTAAAATGATAAGGAA
131 AAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGATAAGGAA
* * * * * * *
169830 ATCATACTAAGGGTATGAATTTCCAGATAGGGCACTTCGTG
196 ATCATATTAAGTGCATGAATTTCCATATAGAGCATTTCGTA
* * * * *
169871 TGCTAAATTGATAAGGAAATCATAATAAGGGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAA
1 AGCTAAAATGTTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAA
* *
169936 AATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTCCGTGTGCTAAAATGAC
66 AATGATAAGGAAATCATACTAAGTGTATGAATTTCCAAATAGGGCACTTCGTGTGCTAAAATGAC
170001 AAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGATAAGGAA
131 AAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGATAAGGAA
170066 ATCATATTAAGTGCATGAATTTCCATATAGAGCATTTCGTA
196 ATCATATTAAGTGCATGAATTTCCATATAGAGCATTTCGTA
* *
170107 CGCTAAAATGTTAA-GAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGGTAA
1 AGCTAAAATGTTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAA
* *
170171 AATGATAAGGAAATCATACTAAGTGTATGAATTTCCAAATAGGGCACTTAGTGTGCTAAAATGAT
66 AATGATAAGGAAATCATACTAAGTGTATGAATTTCCAAATAGGGCACTTCGTGTGCTAAAATGAC
* *
170236 AAGAAAATCATACTAAGTGTATTAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGATAAGGAA
131 AAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGATAAGGAA
* *
170301 ATCATATTAAGTGCGTGAATTTCCATATAGAGCGTTTCGTA
196 ATCATATTAAGTGCATGAATTTCCATATAGAGCATTTCGTA
*
170342 AACTAAAATGTTAA-GAAATCATACTAAGTGTATGAATTTC
1 AGCTAAAATGTTAAGGAAATCATACTAAGTGTATGAATTTC
170382 TGTAGGGGCA
Statistics
Matches: 468, Mismatches: 42, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
235 287 0.61
236 181 0.39
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (236 bp):
AGCTAAAATGTTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAA
AATGATAAGGAAATCATACTAAGTGTATGAATTTCCAAATAGGGCACTTCGTGTGCTAAAATGAC
AAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGATAAGGAA
ATCATATTAAGTGCATGAATTTCCATATAGAGCATTTCGTA
Found at i:170853 original size:45 final size:46
Alignment explanation
Indices: 170804--170891 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
170794 ATGAATGAAT
170804 GCCATAAAT-GAAAT-GTATAATAGTGTA-TAAAAGGCATGAAAGTAC
1 GCCAT-AATGGAAATGGTATAATAGTGTATTAAAA-GCATGAAAGTAC
* * *
170849 GCCATAATGGAAATGGTTTAATGGTGTATTATAAGCATGAAAG
1 GCCATAATGGAAATGGTATAATAGTGTATTAAAAGCATGAAAG
170892 GATGTATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 3 0.08
45 10 0.27
46 20 0.54
47 4 0.11
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (46 bp):
GCCATAATGGAAATGGTATAATAGTGTATTAAAAGCATGAAAGTAC
Found at i:178252 original size:20 final size:20
Alignment explanation
Indices: 178215--178276 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
178205 TTTTGGTGCA
* *
178215 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATTCCCCCTT
*
178235 GAGGGAACCGATTACCCCTTT
1 GAGGGAACCGATT-CCCCCTT
178256 GAAGGGGAACCGATTCCCCCT
1 G-A-GGGAACCGATTCCCCCT
178277 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.31
21 7 0.20
22 6 0.17
23 11 0.31
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:184942 original size:59 final size:59
Alignment explanation
Indices: 184879--185634 Score: 1014
Period size: 59 Copynumber: 12.6 Consensus size: 59
184869 CACTAAGTGA
* * * *
184879 GCTAAAATGACAAGGAAATCATATTAAGTGTATGAAGTTCCAGATAGGGCACTTGGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * *
184938 GCTAAAATGATAAGGAAATCATACTAAAG-GTATGGATTTCCATATAGGGCACTTTGTGT
1 GCTAAAATGATAAGGAAATCATACT-AAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * *
184997 GCTAAAATGATAAGGAAATTATACTAAGTGTATGAATTTCCAAATAAGGCACTTAC-TGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTT-CGTGT
* *
185056 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAAGTTCCAGATAGGGCACTTTGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * * *
185115 GCTAAATTGATAAGGAAATCATACTAAGGGTATGAATTTCCAAATAGGGCACTTCTTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * * *
185174 GCAAAAACGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAAGGAACTTCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
185233 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* *
185292 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGACACTTCGTGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* *
185351 GCTAAAATGATAAGGAAATCATACTAAGTGTATGGATTTCCAGATAGGGCACTTCGTTT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
*
185410 GCTAAAATGATAAGGAAATCATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTT
1 GCT-AAA--AT---G-----ATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTT
*
185475 AGTGT
55 CGTGT
* * *
185480 GCTAAATTGATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCATGT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
* * * * * * * * * *
185539 GCTAAAATGATAAGGAAATTAAATTATGTGTATGAATTTCCATATAAGGAATTTCATAT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
*
185598 GCTAAAATGTTAA-GAAATCATACTAAGTGTATGAATT
1 GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATT
185635 CCTGTAGGGG
Statistics
Matches: 619, Mismatches: 63, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
58 23 0.04
59 533 0.86
60 6 0.01
62 2 0.00
64 1 0.00
65 1 0.00
67 1 0.00
69 3 0.00
70 49 0.08
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (59 bp):
GCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGT
Found at i:185433 original size:11 final size:11
Alignment explanation
Indices: 185414--185443 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
185404 TCGTTTGCTA
*
185414 AAATGATAAGG
1 AAATCATAAGG
185425 AAATCATAAGG
1 AAATCATAAGG
185436 AAATCATA
1 AAATCATA
185444 CTAAGTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (11 bp):
AAATCATAAGG
Found at i:185473 original size:70 final size:69
Alignment explanation
Indices: 185355--185557 Score: 273
Period size: 70 Copynumber: 3.1 Consensus size: 69
185345 TCGTGTGCTA
* * *
185355 AAATGATAAGGAAATCATACTAAGTGTATGGATTTCCAGATAGGGCACTTCGTTTGCTAAAATGA
1 AAAT-ATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGA
185420 TAAGG
65 TAAGG
*
185425 AAATCATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTAGTGTGCT-AAAT--
1 AAAT-ATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGA
185487 T---G
65 TAAGG
*
185489 ----ATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCATGTGCTAAAATGAT
1 AAATATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGAT
185550 AAGG
66 AAGG
185554 AAAT
1 AAAT
185558 TAAATTATGT
Statistics
Matches: 116, Mismatches: 7, Indels: 21
0.81 0.05 0.15
Matches are distributed among these distances:
59 51 0.44
60 4 0.03
62 1 0.01
64 1 0.01
65 1 0.01
67 1 0.01
69 4 0.03
70 53 0.46
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (69 bp):
AAATATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGCTAAAATGAT
AAGG
Found at i:185531 original size:129 final size:129
Alignment explanation
Indices: 185296--185557 Score: 452
Period size: 129 Copynumber: 2.0 Consensus size: 129
185286 TCGTGTGCTA
* *
185296 AAATGATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGACACTTCGTGTGCTAAAATGA
1 AAATCATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGACACTTAGTGTGCTAAAATGA
* * *
185361 TAAGGAAATCATACTAAGTGTATGGATTTCCAGATAGGGCACTTCGTTTGCTAAAATGATAAGG
66 TAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCATGTGCTAAAATGATAAGG
* *
185425 AAATCATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTAGTGTGCTAAATTGA
1 AAATCATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGACACTTAGTGTGCTAAAATGA
*
185490 TAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCATGTGCTAAAATGATAAGG
66 TAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCATGTGCTAAAATGATAAGG
185554 AAAT
1 AAAT
185558 TAAATTATGT
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 125 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (129 bp):
AAATCATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGACACTTAGTGTGCTAAAATGA
TAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCATGTGCTAAAATGATAAGG
Found at i:185572 original size:188 final size:187
Alignment explanation
Indices: 185237--185619 Score: 595
Period size: 188 Copynumber: 2.0 Consensus size: 187
185227 TCGTGTGCTA
* *
185237 AAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGA
1 AAATCATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTAGTGTGCTAAAATGA
*
185302 TAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGACACTTCGTGTGCTAAAATGATAAGGA
66 TAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGACACTTCATGTGCTAAAATGATAAGGA
* * * * * *
185367 AATCATACTAAGTGTATGGATTTCCAGATAGGGCACTTCGTTTGCTAAAATGATAAGG
131 AATCAAACTAAGTGTATGAATTTCCAGATAAGGAACTTCATATGCTAAAATGATAA-G
* *
185425 AAATCATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTAGTGTGCTAAATTGA
1 AAATCATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTAGTGTGCTAAAATGA
*
185490 TAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCATGTGCTAAAATGATAAGGA
66 TAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGACACTTCATGTGCTAAAATGATAAGGA
* * * * * *
185555 AATTAAATTATGTGTATGAATTTCCATATAAGGAATTTCATATGCTAAAATGTTAAG
131 AATCAAACTAAGTGTATGAATTTCCAGATAAGGAACTTCATATGCTAAAATGATAAG
185612 AAATCATA
1 AAATCATA
185620 CTAAGTGTAT
Statistics
Matches: 177, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
187 9 0.05
188 168 0.95
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (187 bp):
AAATCATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTAGTGTGCTAAAATGA
TAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGACACTTCATGTGCTAAAATGATAAGGA
AATCAAACTAAGTGTATGAATTTCCAGATAAGGAACTTCATATGCTAAAATGATAAG
Found at i:188451 original size:55 final size:55
Alignment explanation
Indices: 188353--188924 Score: 694
Period size: 55 Copynumber: 10.3 Consensus size: 55
188343 TTCTTTGAGG
* * * *
188353 TGCACACGTAGTGTCGATACGGTCGTTCATATACATATTATGAATTATGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
* * * * * * * *
188408 TGCATACTTAGTACCGATATGATCGTTCATAAATATATTATGAATTCCATGATTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
* ** * * *
188463 TGTACACTTAGTATCGATACGGTTGTTCATAAACATATTATGAATTGCGTAGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
*
188518 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGT-GGTTT
** *
188574 CCCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTACGTGGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGT-GGTTT
* ***
188630 TGCACACTTAGTGCCGATACGGTCGCTCATAAACATATTATGAATTTTATGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
* * * *
188685 TGCATATTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
* * * * * * ** * *
188740 TGCATACTTAGAGTCGTTATGGTCATTTGTAAAAATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
** * * *
188795 TGCACACTTAGTGTTGATATGGTCGTTCATAAACATATTATGAATTTCATCGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGT-GGTTT
* *
188851 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
188906 TGCACACTTAGTGCCGATA
1 TGCACACTTAGTGCCGATA
188925 GTACACATAG
Statistics
Matches: 446, Mismatches: 69, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
55 295 0.66
56 151 0.34
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (55 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
Found at i:188859 original size:277 final size:276
Alignment explanation
Indices: 188353--188924 Score: 804
Period size: 277 Copynumber: 2.1 Consensus size: 276
188343 TTCTTTGAGG
* * * * *
188353 TGCACACGTAGTGTCGATACGGTCGTTCATATACATATTATGAATTATGTGGTTTTGCATACTTA
1 TGCACACTTAGTGCCGATACGGTCGCTCATAAACATATTATGAATTATATGGTTTTGCATACTTA
* * *
188418 GTACCGATATGATCGTTCATAAATATATTATGAATTCCATGATTTTGTACACTTAGTATCGATAC
66 GTACCGATACGATCGTTCATAAACATATTATGAATTCCATGATTTTGCACACTTAGTATCGATAC
** * *
188483 GGTTGTTCATAAACATATTATGAATTGCGTAGTTTTGCACACTTAGTGCCGATACGGTCGTTCAT
131 GGTCATTCATAAAAATATTATGAATTCCGTAGTTTTGCACACTTAGTGCCGATACGGTCGTTCAT
* *
188548 AAACATATTATGAATTTCGTGGGTTTCCCACACTTAGTGCCGATACGATCGTTCATAAACATATT
196 AAACATATTATGAATTTCATCGGTTTCCCACACTTAGTGCCGATACGATCGTTCATAAACATATT
188613 ATGAATTACGTGGGTTT
261 ATGAATTACGT-GGTTT
* *
188630 TGCACACTTAGTGCCGATACGGTCGCTCATAAACATATTATGAATTTTATGGTTTTGCATATTTA
1 TGCACACTTAGTGCCGATACGGTCGCTCATAAACATATTATGAATTATATGGTTTTGCATACTTA
** * * * * *
188695 GTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTTTGCATACTTAG-AGTCGTTA
66 GTACCGATACGATCGTTCATAAACATATTATGAATTCCATGATTTTGCACACTTAGTA-TCGATA
* ** * ** *
188759 TGGTCATTTGTAAAAATATTATGAATTCCGTGGTTTTGCACACTTAGTGTTGATATGGTCGTTCA
130 CGGTCATTCATAAAAATATTATGAATTCCGTAGTTTTGCACACTTAGTGCCGATACGGTCGTTCA
** * *
188824 TAAACATATTATGAATTTCATCGGTTTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATAT
195 TAAACATATTATGAATTTCATCGGTTTCCCACACTTAGTGCCGATACGATCGTTCATAAACATAT
*
188889 TATGAATTTCGTGGTTT
260 TATGAATTACGTGGTTT
188906 TGCACACTTAGTGCCGATA
1 TGCACACTTAGTGCCGATA
188925 GTACACATAG
Statistics
Matches: 259, Mismatches: 35, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
276 25 0.10
277 234 0.90
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (276 bp):
TGCACACTTAGTGCCGATACGGTCGCTCATAAACATATTATGAATTATATGGTTTTGCATACTTA
GTACCGATACGATCGTTCATAAACATATTATGAATTCCATGATTTTGCACACTTAGTATCGATAC
GGTCATTCATAAAAATATTATGAATTCCGTAGTTTTGCACACTTAGTGCCGATACGGTCGTTCAT
AAACATATTATGAATTTCATCGGTTTCCCACACTTAGTGCCGATACGATCGTTCATAAACATATT
ATGAATTACGTGGTTT
Found at i:190691 original size:53 final size:54
Alignment explanation
Indices: 190547--190691 Score: 177
Period size: 54 Copynumber: 2.7 Consensus size: 54
190537 CGTCAGATTC
* * *
190547 GTATCTATACC-TGAAGGATGGTATCGATACCCTTAAAACATCGAAGGTAATTTTG
1 GTATCAATACCATG-AGGA-GGTATCGATACCCTTGAAGCATCGAAGGTAATTTTG
** * * *
190602 GTATCGGTACCTTGAGGAGGTATTGATACCCTTGAAGCATCGAATGTAATTTTG
1 GTATCAATACCATGAGGAGGTATCGATACCCTTGAAGCATCGAAGGTAATTTTG
*
190656 GTATCAATA-CATGTGGAGGTATCGATACCCTTGAAG
1 GTATCAATACCATGAGGAGGTATCGATACCCTTGAAG
190692 GAGGTGGTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 24 0.31
54 39 0.50
55 13 0.17
56 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (54 bp):
GTATCAATACCATGAGGAGGTATCGATACCCTTGAAGCATCGAAGGTAATTTTG
Found at i:192403 original size:54 final size:54
Alignment explanation
Indices: 192345--192712 Score: 406
Period size: 54 Copynumber: 6.8 Consensus size: 54
192335 CTATACAGTC
* * * * ** *
192345 ATTCATAAACTTATTATGCATTCTGTGGGTTGCACACATAGTGCTGAAATGGTT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCTGAAATGGTT
* * **
192399 ATTCATCAACATATGATGAATTCCGT-ACTTTGCACACTTTCTG-TCGAAATGGTT
1 ATTCATCAACATATGATGAATTCTGTGA-ATTGCACACTTAGTGCT-GAAATGGTT
* * **
192453 ATTCATCAACATATGATGAATTCTGTGAATTGCACATTTAGTGCCGAAATAATT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCTGAAATGGTT
* * **
192507 ATTCATCAACATATGATGAATTATGTGAATTGCACACTTAGTGCCGAAACAGTT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCTGAAATGGTT
* *
192561 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTG-TCGAAACGGTT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCT-GAAATGGTT
* * *
192615 ATTCATCAACATATGATGAATT-TCGTGAATTTCACACTTAGTGGC-GAAACGATT
1 ATTCATCAACATATGATGAATTCT-GTGAATTGCACACTTAGT-GCTGAAATGGTT
* *
192669 ATTCA-CAAATATATGATGAATTCCGTGAATTGCACACTTAGTGC
1 ATTCATC-AACATATGATGAATTCTGTGAATTGCACACTTAGTGC
192713 CTATTTGGTA
Statistics
Matches: 272, Mismatches: 32, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.01
54 266 0.98
55 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (54 bp):
ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCTGAAATGGTT
Done.