Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 51 of 433
Found at i:14040352 original size:26 final size:26
Alignment explanation
Indices: 14040297--14040352 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
14040287 TCCAATTTTT
* *
14040297 TATTTTGTTATCATACATATATTTTT
1 TATTTTGTTATCATACATATATTATG
14040323 TATTTTGTTATCATACATAT-TTCATG
1 TATTTTGTTATCATACATATATT-ATG
14040349 TATT
1 TATT
14040353 ATTATGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.27, C:0.09, G:0.05, T:0.59
Consensus pattern (26 bp):
TATTTTGTTATCATACATATATTATG
Found at i:14042233 original size:16 final size:17
Alignment explanation
Indices: 14042204--14042235 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14042194 TTGTTTATTA
14042204 AATTAAATTAATTTTCC
1 AATTAAATTAATTTTCC
14042221 AATTAAA-TAATTTTC
1 AATTAAATTAATTTTC
14042236 TCAACCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATTAATTTTCC
Found at i:14044581 original size:30 final size:30
Alignment explanation
Indices: 14044540--14044619 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
14044530 GATACCCGGG
*
14044540 AATA-AGTTGCTCACACAAGCTGACAGTAC
1 AATAGAGTTGCTCACACAAGCTAACAGTAC
* * * * *
14044569 ATTAGGGTTGCTCACACAAACTAACATTAT
1 AATAGAGTTGCTCACACAAGCTAACAGTAC
*
14044599 AATAGAGTTGCTTACACAAGC
1 AATAGAGTTGCTCACACAAGC
14044620 AGATTAAATC
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 3 0.08
30 37 0.93
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (30 bp):
AATAGAGTTGCTCACACAAGCTAACAGTAC
Found at i:14047576 original size:5 final size:5
Alignment explanation
Indices: 14047566--14047591 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14047556 GCAGCACTAT
14047566 AAGAA AAGAA AAGAA AAGAA AAGAA A
1 AAGAA AAGAA AAGAA AAGAA AAGAA A
14047592 GGAGGGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:14051432 original size:3 final size:3
Alignment explanation
Indices: 14051424--14051561 Score: 149
Period size: 3 Copynumber: 46.7 Consensus size: 3
14051414 TATATTTCTG
* * * *
14051424 TTA TTA TTA TTA CTA TTA TCA TTA TTCA -TA TTA TTA GTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
** * * *
14051469 TGC TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA -TG TTA TTA TTCT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
14051514 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14051560 TT
1 TT
14051562 TGTTTTATTT
Statistics
Matches: 112, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
2 6 0.05
3 103 0.92
4 3 0.03
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:14051659 original size:3 final size:3
Alignment explanation
Indices: 14051651--14051803 Score: 122
Period size: 3 Copynumber: 49.7 Consensus size: 3
14051641 GTTTGTTTAT
*
14051651 TTA TTA TTA TTA TTG TTA TT- TTA TTA TTTA TTTA TTTA TTTA CTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA -TTA -TTA
**
14051697 TGTA -TA TATA TT- TTA TATA TT- TT- TTCA AAA TT- TATA TTA TTA
1 T-TA TTA T-TA TTA TTA T-TA TTA TTA TT-A TTA TTA T-TA TTA TTA
*
14051739 TTA TT- TTAA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14051784 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
14051804 TCTTATTTAC
Statistics
Matches: 128, Mismatches: 9, Indels: 26
0.79 0.06 0.16
Matches are distributed among these distances:
2 13 0.10
3 86 0.67
4 29 0.23
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14069053 original size:45 final size:44
Alignment explanation
Indices: 14068957--14069072 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 44
14068947 GAATCCACAA
* * * * *
14068957 ATCTCATCTTCCTAAAG-TACCAGTGGAGTAAATTGAAGTTGTAG
1 ATCTTATCTTCCTGAAGTTA-CAGTGGAGTAAATCGAAGTGGCAG
*
14069001 ATCTTATC-TCCTTGAAGTTACAGTGGAGTAGATCGAAGATGGCAG
1 ATCTTATCTTCC-TGAAGTTACAGTGGAGTAAATCGAAG-TGGCAG
14069046 ATCTTATCTTCCTGAAGTTACAGTGGA
1 ATCTTATCTTCCTGAAGTTACAGTGGA
14069073 CCAAATTGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
43 3 0.05
44 27 0.44
45 29 0.47
46 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (44 bp):
ATCTTATCTTCCTGAAGTTACAGTGGAGTAAATCGAAGTGGCAG
Found at i:14069152 original size:45 final size:45
Alignment explanation
Indices: 14069092--14069579 Score: 170
Period size: 44 Copynumber: 10.4 Consensus size: 45
14069082 AGCCACCAGC
*
14069092 CTTATCTT-CCTGAAGTTGTAGTGGAGCAGACTGAAGACAACGAAT
1 CTTAT-TTCCCTGAAGTTGTAGTGGAGCAGATTGAAGACAACGAAT
* * *
14069137 CTTATTTCCCTGAAGTTGTAATGGAACAGATTGAAGCTACAAATTATGGTGAAT
1 CTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAG--AC--A--A---CGAAT
* * * **
14069191 CTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACCAGC
1 CTTAT-TTCCCTGAAGTTGTAGTGGAGCAGATTGAAGACAACGAAT
* * * **
14069235 CTTATCTCCCTGAAGTTGTAGCGGAGCAGACTGAAGACAGTGAAT
1 CTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGACAACGAAT
* * *
14069280 CTTATTTCCCTGACA-TTGCAGTGGAACAGATTGAAGCTGCAAATTATGGCGAAT
1 CTTATTTCCCTGA-AGTTGTAGTGGAGCAGATTGAA---G-ACA--A---CGAAT
* * * * * *
14069334 CTTATCAT-CCTGAAGTTGCAATGGAGCAGATTGAAG-CCACCAAC
1 CTTAT-TTCCCTGAAGTTGTAGTGGAGCAGATTGAAGACAACGAAT
* * * * * * * * ** *
14069378 CTTATCTCCCTGAAGTCGCAGCGGAGTAGACTAAAGATAGTGGAT
1 CTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGACAACGAAT
* * * * *
14069423 CTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGA-
1 CTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAG--AC--A--A---CGAAT
* * * *
14069476 CTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACCAGT
1 CTTAT-TTCCCTGAAGTTGTAGTGGAGCAGATTGAAGACAACGAAT
* * * *
14069520 CTTATTTCCCTAAAGTTGTAGTGGAGCAGACT-AAAAC-ACAAAT
1 CTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGACAACGAAT
* *
14069563 CTCATATCCCTGAAGTT
1 CTTATTTCCCTGAAGTT
14069580 ACAGAAGACT
Statistics
Matches: 326, Mismatches: 77, Indels: 82
0.67 0.16 0.17
Matches are distributed among these distances:
43 25 0.08
44 90 0.28
45 90 0.28
46 2 0.01
47 5 0.02
48 1 0.00
49 4 0.01
50 1 0.00
51 3 0.01
53 31 0.10
54 71 0.22
55 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
CTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGACAACGAAT
Found at i:14069221 original size:54 final size:49
Alignment explanation
Indices: 14069046--14069512 Score: 188
Period size: 44 Copynumber: 9.8 Consensus size: 49
14069036 AAGATGGCAG
* * * **
14069046 ATCTTATCTTCCTGAAGTTACAGTGGACCAAATTGAAGC-CACCA--G-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACATTAGTGA
* * * *
14069091 -CCTTATCTTCCTGAAGTTGTAGTGGAGCAGACTGAAG-ACA--A-CGA
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACATTAGTGA
* * *
14069135 ATCTTAT-TTCCCTGAAGTTGTAATGGAACAGATTGAAGCTACAAATTATGGTGA
1 ATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGC-AC--ATTA--GTGA
**
14069189 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGC-CACCA--G-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACATTAGTGA
* * * * *
14069234 -CCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTGAAG-AC---AGTGA
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACATTAGTGA
* * *
14069278 ATCTTAT-TTCCCTGACA-TTGCAGTGGAACAGATTGAAGCTGCAAATTATGGCGA
1 ATCTTATCTT-CCTGA-AGTTGCAGTGGAGCAGATTGAA---GCACATTA--GTGA
* * **
14069332 ATCTTATCATCCTGAAGTTGCAATGGAGCAGATTGAAGC-C---A-CCA
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACATTAGTGA
* * * * * * * *
14069376 ACCTTATCTCCCTGAAGTCGCAGCGGAGTAGACT-AA--AGA-TAGTGG
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACATTAGTGA
* * * * *
14069421 ATCTTAT-TTCCCTGACGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGG
1 ATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGC-AC--ATTA--GTGA
14069475 A-CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGC
14069513 CACCAGTCTT
Statistics
Matches: 315, Mismatches: 59, Indels: 88
0.68 0.13 0.19
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 4 0.01
44 99 0.31
45 80 0.25
46 4 0.01
47 3 0.01
48 1 0.00
49 3 0.01
50 2 0.01
51 4 0.01
52 4 0.01
53 32 0.10
54 74 0.23
55 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (49 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACATTAGTGA
Found at i:14069305 original size:143 final size:143
Alignment explanation
Indices: 14069046--14069551 Score: 746
Period size: 143 Copynumber: 3.5 Consensus size: 143
14069036 AAGATGGCAG
* * * *
14069046 ATCTTATCTTCCTGAAGTTACAGTGGACCAAATTGAAGCCACCAGCCTTATCTTCCTGAAGTTGT
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGT
* ** * *
14069111 AGTGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGA-AGTTGTAATGGAACAGATTGAAGCT
66 AGCGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGACA-TTGCAGTGGAACAGATTGAAGCT
*
14069175 ACAAATTATGGTGA
130 ACAAATTATGGCGA
14069189 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGT
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGT
*
14069254 AGCGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGACATTGCAGTGGAACAGATTGAAGCTG
66 AGCGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGACATTGCAGTGGAACAGATTGAAGCTA
14069319 CAAATTATGGCGA
131 CAAATTATGGCGA
* * * * *
14069332 ATCTTATCATCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTCGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGT
* * * * * *
14069397 AGCGGAGTAGACTAAAGATAGTGGATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTA
66 AGCGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGACATTGCAGTGGAACAGATTGAAGCTA
*
14069462 CAAATTATGGCGG
131 CAAATTATGGCGA
* * *
14069475 A-CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGTCTTATTTCCCTAAAGTTGT
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGT
*
14069539 AGTGGAGCAGACT
66 AGCGGAGCAGACT
14069552 AAAACACAAA
Statistics
Matches: 328, Mismatches: 34, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
142 66 0.20
143 261 0.80
144 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (143 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGT
AGCGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGACATTGCAGTGGAACAGATTGAAGCTA
CAAATTATGGCGA
Found at i:14069712 original size:127 final size:127
Alignment explanation
Indices: 14069503--14069808 Score: 477
Period size: 127 Copynumber: 2.4 Consensus size: 127
14069493 GCAGTGGAGC
** * * * *
14069503 AGATTGAAGCCACCAGTCTTATTTCCCTAAAGTTGTAGTGGAGCAGACTAAAACACAAATCTCAT
1 AGATTGAAGTTACAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAAACAAAAATCTCAT
* *
14069568 ATCCCTGAAGTTACAGAAGACTGAAGATGGAAAATCTCATCTCCTTGAAGTTGCAGCAAAGT
66 ATCCCTGAAGTTACAGAAGACTGAAGATAGAAAATCTCATCTCCTTAAAGTTGCAGCAAAGT
*
14069630 AGATTGAAGTTACAAGTCTTATCTCTCTAAAGTTGTAATGGAGCAGACTAAAACAAAAATCTCAT
1 AGATTGAAGTTACAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAAACAAAAATCTCAT
* * **
14069695 ATCCCTGAAGTTGCAGAAGACTGAAGATAGCAAATCTCATCTCCTTAAAGTTGCAGCGGAGT
66 ATCCCTGAAGTTACAGAAGACTGAAGATAGAAAATCTCATCTCCTTAAAGTTGCAGCAAAGT
* *
14069757 AGATTGAAGTTACAAGTCTTATCTCTCTAAAGTGGTAGTGGAGCAGATTAAA
1 AGATTGAAGTTACAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAA
14069809 GCTACAAGTT
Statistics
Matches: 163, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 163 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (127 bp):
AGATTGAAGTTACAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAAACAAAAATCTCAT
ATCCCTGAAGTTACAGAAGACTGAAGATAGAAAATCTCATCTCCTTAAAGTTGCAGCAAAGT
Found at i:14069731 original size:40 final size:40
Alignment explanation
Indices: 14069557--14069750 Score: 117
Period size: 40 Copynumber: 4.7 Consensus size: 40
14069547 AGACTAAAAC
* *
14069557 ACAAATCTCATATCCCTGAAGTTACAGA-AGACTGAAGAT
1 ACAAATCTCATCTCCCTGAAGTTGCAGAGAGACTGAAGAT
* * *
14069596 GGA-AAATCTCATCTCCTTGAAGTTGCAGCAAAGTAGATTGAAGTT
1 --ACAAATCTCATCTCCCTGAAGTTGCAG---AG-AGACTGAAGAT
* * * * * * *
14069641 ACAAGTCTTATCTCTCTAAAGTTGTAATGGAGCAGACT-AAAAC
1 ACAAATCTCATCTCCCTGAAGTTG-CA--GAG-AGACTGAAGAT
* *
14069684 AAAAATCTCATATCCCTGAAGTTGCAGA-AGACTGAAGAT
1 ACAAATCTCATCTCCCTGAAGTTGCAGAGAGACTGAAGAT
* *
14069723 AGCAAATCTCATCTCCTTAAAGTTGCAG
1 A-CAAATCTCATCTCCCTGAAGTTGCAG
14069751 CGGAGTAGAT
Statistics
Matches: 113, Mismatches: 29, Indels: 23
0.68 0.18 0.14
Matches are distributed among these distances:
38 5 0.04
39 4 0.04
40 46 0.41
41 1 0.01
42 1 0.01
43 22 0.19
44 23 0.20
45 10 0.09
47 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (40 bp):
ACAAATCTCATCTCCCTGAAGTTGCAGAGAGACTGAAGAT
Found at i:14069788 original size:44 final size:44
Alignment explanation
Indices: 14069602--14069817 Score: 106
Period size: 44 Copynumber: 5.0 Consensus size: 44
14069592 AGATGGAAAA
* ** * *
14069602 TCTCATCTC-CTTGAAGTTGCAGCAAAGTAGATTGAAGTTACAAG
1 TCTCATCTCTC-TAAAGTTGCAGCGGAGCAGATTGAAGATACAAG
* * ** * * * * *
14069646 TCTTATCTCTCTAAAGTTGTAATGGAGCAGACT-AAAACAAAAA
1 TCTCATCTCTCTAAAGTTGCAGCGGAGCAGATTGAAGATACAAG
* * * * *
14069689 TCTCATATCCCTGAAGTTGCA---GA--AGACTGAAGATAGCAAA
1 TCTCATCTCTCTAAAGTTGCAGCGGAGCAGATTGAAGATA-CAAG
* *
14069729 TCTCATCTC-CTTAAAGTTGCAGCGGAGTAGATTGAAGTTACAAG
1 TCTCATCTCTC-TAAAGTTGCAGCGGAGCAGATTGAAGATACAAG
* * * * * *
14069773 TCTTATCTCTCTAAAGTGGTAGTGGAGCAGATTAAAGCTACAAG
1 TCTCATCTCTCTAAAGTTGCAGCGGAGCAGATTGAAGATACAAG
14069817 T
1 T
14069818 TACAAATCTC
Statistics
Matches: 128, Mismatches: 34, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
38 5 0.04
39 5 0.04
40 22 0.17
43 23 0.18
44 61 0.48
45 12 0.09
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTCATCTCTCTAAAGTTGCAGCGGAGCAGATTGAAGATACAAG
Found at i:14069872 original size:44 final size:44
Alignment explanation
Indices: 14069767--14069877 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
14069757 AGATTGAAGT
* * * * *
14069767 TACAAGTCTTATCTCTCTAAAGTGGTAGTGGAGCAGATTAAAGC
1 TACAAGTCTTATATCTCTGAAGTGGTAGAGGAGAAGATTAAAAC
* * * *
14069811 TACAAGT-TACAAATCTCTGAATTTGTAGAGGAGAAGATTAAAAC
1 TACAAGTCT-TATATCTCTGAAGTGGTAGAGGAGAAGATTAAAAC
*
14069855 TACAAGTCTTATTTCTCTGAAGT
1 TACAAGTCTTATATCTCTGAAGT
14069878 TGCAATGGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
43 1 0.02
44 50 0.96
45 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (44 bp):
TACAAGTCTTATATCTCTGAAGTGGTAGAGGAGAAGATTAAAAC
Found at i:14071220 original size:3 final size:3
Alignment explanation
Indices: 14071212--14071271 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
14071202 TTTTAGCTAC
* *
14071212 ATT ATT ATT A-A ATT AATT AAT ATT -TCT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
14071257 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
14071272 TCTTATTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 2 0.04
3 43 0.88
4 4 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:14071300 original size:23 final size:24
Alignment explanation
Indices: 14071268--14071312 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
14071258 TTATTATTAT
14071268 TATTTCTTATTTTGTTTTATTTAA
1 TATTTCTTATTTTGTTTTATTTAA
14071292 TATTT-TTATTTTGTTTTATTT
1 TATTTCTTATTTTGTTTTATTT
14071313 TTATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (24 bp):
TATTTCTTATTTTGTTTTATTTAA
Found at i:14074424 original size:23 final size:23
Alignment explanation
Indices: 14074398--14074441 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
14074388 ATACCCTATA
14074398 TTGCATGCAAACCCTAAATATCG
1 TTGCATGCAAACCCTAAATATCG
*
14074421 TTGCATGCAAACCCTACATAT
1 TTGCATGCAAACCCTAAATAT
14074442 TGAAACATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.27
Consensus pattern (23 bp):
TTGCATGCAAACCCTAAATATCG
Found at i:14074450 original size:23 final size:23
Alignment explanation
Indices: 14074401--14074458 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
14074391 CCCTATATTG
***
14074401 CATGCAAACCCTAAATATCGTTG
1 CATGCAAACCCTAAATATCGAAA
* *
14074424 CATGCAAACCCTACATATTGAAA
1 CATGCAAACCCTAAATATCGAAA
*
14074447 CATGCGAACCCT
1 CATGCAAACCCT
14074459 TCATGTTGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.22
Consensus pattern (23 bp):
CATGCAAACCCTAAATATCGAAA
Found at i:14074622 original size:37 final size:37
Alignment explanation
Indices: 14074572--14074645 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
14074562 GCTACCCCTG
*
14074572 TAAGTGCAAACCCTACTTATGTATGTGTTAGCCAAAC
1 TAAGTGCAAACCCTACCTATGTATGTGTTAGCCAAAC
14074609 TAAGTGCAAACCCTACCTATGTATGTGTTAGCCAAAC
1 TAAGTGCAAACCCTACCTATGTATGTGTTAGCCAAAC
14074646 CCTACCTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (37 bp):
TAAGTGCAAACCCTACCTATGTATGTGTTAGCCAAAC
Found at i:14077951 original size:10 final size:10
Alignment explanation
Indices: 14077910--14077963 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
14077900 TTATAAAAAG
*
14077910 AATTTTTAAT
1 AATTTTTAAA
*
14077920 AACTTTT-AA
1 AATTTTTAAA
14077929 AATTTTTCAAA
1 AATTTTT-AAA
14077940 AATTTTTAAA
1 AATTTTTAAA
14077950 AATAATTTTAAA
1 AAT--TTTTAAA
14077962 AA
1 AA
14077964 ACGCAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 7 0.19
10 12 0.32
11 9 0.24
12 9 0.24
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:14079267 original size:26 final size:25
Alignment explanation
Indices: 14079209--14079273 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
14079199 AGTTTATGAC
14079209 ACAT-AAAAAAAATTGAAAGTAAGA
1 ACATAAAAAAAAATTGAAAGTAAGA
14079233 ACATAAAAAAAAATTGAAAGTAAGA
1 ACATAAAAAAAAATTGAAAGTAAGA
14079258 ACATAGAAAAAAAATT
1 ACATA-AAAAAAAATT
14079274 TAAACACTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 4 0.10
25 25 0.64
26 10 0.26
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.17
Consensus pattern (25 bp):
ACATAAAAAAAAATTGAAAGTAAGA
Found at i:14079547 original size:21 final size:21
Alignment explanation
Indices: 14079526--14079571 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14079516 AATATAAATA
14079526 TTAAGATAAATAATATTTATAT
1 TTAAGAT-AATAATATTTATAT
* * *
14079548 TTATGATAATATTATTTATCT
1 TTAAGATAATAATATTTATAT
14079569 TTA
1 TTA
14079572 TATTTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (21 bp):
TTAAGATAATAATATTTATAT
Found at i:14079706 original size:2 final size:2
Alignment explanation
Indices: 14079699--14079730 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14079689 CCTTACAATA
14079699 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
14079731 TAGAATTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14091168 original size:21 final size:21
Alignment explanation
Indices: 14091144--14091188 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14091134 GTTCAGGTGA
*
14091144 TTTGACCCTAAGGCCAAGTGG
1 TTTGACCCTAAGGCCAAGTAG
* *
14091165 TTTGAGCCTAAGGTCAAGTAG
1 TTTGACCCTAAGGCCAAGTAG
14091186 TTT
1 TTT
14091189 TAGAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (21 bp):
TTTGACCCTAAGGCCAAGTAG
Found at i:14098335 original size:20 final size:21
Alignment explanation
Indices: 14098310--14098349 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14098300 CAATGCAACT
*
14098310 AAGGGC-ACATGCCCGTGTGG
1 AAGGGCGACACGCCCGTGTGG
*
14098330 AAGGGCGATACGCCCGTGTG
1 AAGGGCGACACGCCCGTGTG
14098350 TCATCTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AAGGGCGACACGCCCGTGTGG
Found at i:14098534 original size:42 final size:41
Alignment explanation
Indices: 14098467--14098550 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 41
14098457 CTACAGGGGT
14098467 TTTCATACGGCCTGGCACACGCCCGTGTCCCCCACACGGCCA
1 TTTCATACGGCCTGGCACACGCCCGTGT-CCCCACACGGCCA
* *
14098509 TTTCGTACGGCCTGGCACACTCCCGTGTCCCCACACGGCCA
1 TTTCATACGGCCTGGCACACGCCCGTGTCCCCACACGGCCA
14098550 T
1 T
14098551 GACACACCCG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 14 0.35
42 26 0.65
ACGTcount: A:0.15, C:0.44, G:0.21, T:0.19
Consensus pattern (41 bp):
TTTCATACGGCCTGGCACACGCCCGTGTCCCCACACGGCCA
Found at i:14099813 original size:48 final size:47
Alignment explanation
Indices: 14099741--14100008 Score: 308
Period size: 48 Copynumber: 5.6 Consensus size: 47
14099731 GTAAATTGTT
* * * *
14099741 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCACGT-GTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-ATAAT-GAGGCC
* * * *
14099789 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-AATAATGAGGCC
* * * * *
14099837 GATGCCATGTCCCAGACATGGTCTTGCACTAGCACAA-AATAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAATAATGAGGCC
*
14099883 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-AATAATGAGGCC
*
14099931 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-AATAATGA-GGCC
* *
14099979 GATGCCATGTCCCAAACATGGCCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
14100009 AGCACACCTA
Statistics
Matches: 190, Mismatches: 25, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
46 37 0.19
47 3 0.02
48 149 0.78
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAATAATGAGGCC
Found at i:14099908 original size:94 final size:95
Alignment explanation
Indices: 14099790--14100008 Score: 332
Period size: 94 Copynumber: 2.3 Consensus size: 95
14099780 GTCGAGGCTA
* *
14099790 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGGCCGATGCCATGTCCCAGACA
*
14099855 TGGTCTTGCACTAG-CACAAAATAACGCCG
66 TGGTCTTACACTAGCCACAAAATAACGCCG
14099884 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGGCCGATGCCATGTCCCAGACA
* * * **
14099949 TGGTCTTACACTGGCTCTCATAATATGGCCG
66 TGGTCTTACACTAGC-CACAAAATAACGCCG
* *
14099980 ATGCCATGTCCCAAACATGGCCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
14100009 AGCACACCTA
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 75 0.66
96 38 0.34
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCCACAAAATAACGCCG
Found at i:14099998 original size:142 final size:142
Alignment explanation
Indices: 14099741--14100014 Score: 417
Period size: 142 Copynumber: 1.9 Consensus size: 142
14099731 GTAAATTGTT
* * * *
14099741 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCACGTGTCGAGGCTAATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCAGAC
* * * * *
14099806 ATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGACATGGTCTTGCACTAGCA
66 ATGGTCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAAACATGGCCTTACACTAGCA
14099871 CAAAATAACGCC
131 CAAAATAACGCC
* *
14099883 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-ATAAT-GTGGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ACAT-ATCGAGGCCAATGCCATGTCCCAG
14099946 ACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAAACATGGCCTTACACTAG
64 ACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAAACATGGCCTTACACTAG
14100011 CACA
129 CACA
14100015 CCTATCACTC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
142 117 0.98
143 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (142 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAAACATGGCCTTACACTAGCA
CAAAATAACGCC
Found at i:14106295 original size:19 final size:19
Alignment explanation
Indices: 14106238--14106298 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 19
14106228 TTTTATTTAT
* *
14106238 TTCTTTATT-TATTTATTA
1 TTCTTCATTATATTTGTTA
14106256 TTCTTCATTATTATTACTGTTA
1 TTCTTCATTA-TATT--TGTTA
14106278 TTCTTCATTATATTTGTTA
1 TTCTTCATTATATTTGTTA
14106297 TT
1 TT
14106299 TATTATGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 4 0.11
21 4 0.11
22 14 0.38
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.66
Consensus pattern (19 bp):
TTCTTCATTATATTTGTTA
Found at i:14107905 original size:12 final size:12
Alignment explanation
Indices: 14107882--14107916 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
14107872 ATCTTTTTCG
14107882 CTTTTCTTTTAT
1 CTTTTCTTTTAT
14107894 CTTTTCTTTTAT
1 CTTTTCTTTTAT
*
14107906 -TTTTATTTTAT
1 CTTTTCTTTTAT
14107917 GTTTATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (12 bp):
CTTTTCTTTTAT
Found at i:14111400 original size:20 final size:19
Alignment explanation
Indices: 14111375--14111422 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
14111365 AAGATTATGC
14111375 TAAGTAAATGAAATGGAAA
1 TAAGTAAATGAAATGGAAA
* *
14111394 GTAAGTAAATGGAATGGTAA
1 -TAAGTAAATGAAATGGAAA
14111414 -AAGTAAATG
1 TAAGTAAATG
14111423 GTGGCTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
20 17 0.65
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (19 bp):
TAAGTAAATGAAATGGAAA
Found at i:14113355 original size:43 final size:43
Alignment explanation
Indices: 14113225--14113404 Score: 149
Period size: 43 Copynumber: 4.3 Consensus size: 43
14113215 ATGTGTACTG
* * * *
14113225 GTATAATTACTTCAGCTTGTTTGATGATGCA--ATGTGTGTACCA
1 GTATAATTGCTTCGGCTTGTCTAATGATGCACTATGTGTGT--CA
* * * *
14113268 TTATAATTGCTTAGGCTTG--TAA--ATGGACTATGT-TTTCTA
1 GTATAATTGCTTCGGCTTGTCTAATGATGCACTATGTGTGTC-A
14113307 GTATAATTGCTTCGGCTTGTCTAATGATGCACTATGTGTGTCA
1 GTATAATTGCTTCGGCTTGTCTAATGATGCACTATGTGTGTCA
* * * * * * *
14113350 ATATAATTGCTTTGACATATCCAATGATGCACTATGTGTGCCA
1 GTATAATTGCTTCGGCTTGTCTAATGATGCACTATGTGTGTCA
14113393 GTATAATTGCTT
1 GTATAATTGCTT
14113405 TGGTTTATCC
Statistics
Matches: 110, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
38 1 0.01
39 22 0.20
40 2 0.02
41 9 0.08
43 73 0.66
44 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (43 bp):
GTATAATTGCTTCGGCTTGTCTAATGATGCACTATGTGTGTCA
Found at i:14113405 original size:43 final size:43
Alignment explanation
Indices: 14113306--14113483 Score: 167
Period size: 43 Copynumber: 4.1 Consensus size: 43
14113296 TATGTTTTCT
* * * * *
14113306 AGTATAATTGCTTCGGCTTGTCTAATGATGCACTATGTGTGTC
1 AGTATAATTGCTTCGACTTATCCAATGATGCACTACGTGTGCC
* * * *
14113349 AATATAATTGCTTTGACATATCCAATGATGCACTATGTGTGCC
1 AGTATAATTGCTTCGACTTATCCAATGATGCACTACGTGTGCC
* ** * * *
14113392 AGTATAATTGCTTTGGTTTATCCGATGATGCATTACGTGTGCT
1 AGTATAATTGCTTCGACTTATCCAATGATGCACTACGTGTGCC
* * * * *
14113435 AGTATATTTCCTTCAATTTATCCGATGATGCACTACGTGTGCC
1 AGTATAATTGCTTCGACTTATCCAATGATGCACTACGTGTGCC
*
14113478 ATTATA
1 AGTATA
14113484 TTTCTTTCAG
Statistics
Matches: 112, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 112 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (43 bp):
AGTATAATTGCTTCGACTTATCCAATGATGCACTACGTGTGCC
Found at i:14113420 original size:86 final size:86
Alignment explanation
Indices: 14113306--14113509 Score: 205
Period size: 86 Copynumber: 2.4 Consensus size: 86
14113296 TATGTTTTCT
* * * ** * * **
14113306 AGTATAATTGCTTCGGCTTGTCTAATGATGCACTATGTGTG-TCAATATAATTGCTTTGACATAT
1 AGTATAATTGCTTTGGTTTATCCGATGATGCACTACGTGTGCT-AATATAATTCCTTCAACATAT
*
14113370 CCAATGATGCACTATGTGTGCC
65 CCAATGATGCACTACGTGTGCC
* * * **
14113392 AGTATAATTGCTTTGGTTTATCCGATGATGCATTACGTGTGCTAGTATATTTCCTTCAATTTATC
1 AGTATAATTGCTTTGGTTTATCCGATGATGCACTACGTGTGCTAATATAATTCCTTCAACATATC
*
14113457 CGATGATGCACTACGTGTGCC
66 CAATGATGCACTACGTGTGCC
* * *
14113478 ATTAT-ATTTCTTTCAGTTTATCCGATGATGCA
1 AGTATAATTGCTTT-GGTTTATCCGATGATGCA
14113510 TTGCAATGAG
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
85 7 0.07
86 89 0.92
87 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (86 bp):
AGTATAATTGCTTTGGTTTATCCGATGATGCACTACGTGTGCTAATATAATTCCTTCAACATATC
CAATGATGCACTACGTGTGCC
Found at i:14113484 original size:43 final size:43
Alignment explanation
Indices: 14113367--14113509 Score: 187
Period size: 43 Copynumber: 3.3 Consensus size: 43
14113357 TGCTTTGACA
* * * * **
14113367 TATCCAATGATGCACTATGTGTGCCAGTATAATTGCTTTGGTT
1 TATCCGATGATGCACTACGTGTGCCAGTATATTTCCTTCAGTT
* * *
14113410 TATCCGATGATGCATTACGTGTGCTAGTATATTTCCTTCAATT
1 TATCCGATGATGCACTACGTGTGCCAGTATATTTCCTTCAGTT
* *
14113453 TATCCGATGATGCACTACGTGTGCCATTATATTTCTTTCAGTT
1 TATCCGATGATGCACTACGTGTGCCAGTATATTTCCTTCAGTT
14113496 TATCCGATGATGCA
1 TATCCGATGATGCA
14113510 TTGCAATGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (43 bp):
TATCCGATGATGCACTACGTGTGCCAGTATATTTCCTTCAGTT
Found at i:14118054 original size:43 final size:43
Alignment explanation
Indices: 14118001--14118144 Score: 154
Period size: 43 Copynumber: 3.3 Consensus size: 43
14117991 CCAACGTCCT
14118001 AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTTCC
1 AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTTCC
* * * *
14118044 AGACAG-GGTCTTACATGAAATCATATA-CGATGTCAATG-TCC
1 AGAC-GTGGTCTTACATGTAATCAAATATCGATGCCACTGTTCC
* *
14118085 AAGACGTGGTCTTACACGTAAATCATAA-ATCGATGCCAAC-GTCCC
1 -AGACGTGGTCTTACATGT-AATCA-AATATCGATGCC-ACTGTTCC
14118130 AGACGTGGTCTTACA
1 AGACGTGGTCTTACA
14118145 CGATAACACA
Statistics
Matches: 83, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
41 4 0.05
42 23 0.28
43 29 0.35
44 24 0.29
45 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (43 bp):
AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTTCC
Found at i:14118321 original size:2 final size:2
Alignment explanation
Indices: 14118314--14118345 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14118304 ATTCAGCAAC
14118314 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
14118346 TTATTTACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14123175 original size:22 final size:22
Alignment explanation
Indices: 14123149--14123274 Score: 87
Period size: 22 Copynumber: 5.7 Consensus size: 22
14123139 ATCCACTGTC
* *
14123149 AGCACTTTGGTGCCTACTGATT
1 AGCACTTCGATGCCTACTGATT
* *
14123171 TGCACTTCGATGCCTA-TTATT
1 AGCACTTCGATGCCTACTGATT
* *
14123192 CAACAATTCGATGCCTACTGATT
1 -AGCACTTCGATGCCTACTGATT
* * * *
14123215 CGCACTTTGGTGCCTACT-ACTC
1 AGCACTTCGATGCCTACTGA-TT
* *
14123237 AACACTTCGATGCCTACTGATC
1 AGCACTTCGATGCCTACTGATT
*
14123259 AGTACTTC-AGTGCCTA
1 AGCACTTCGA-TGCCTA
14123275 ATGGTGTGGG
Statistics
Matches: 79, Mismatches: 20, Indels: 10
0.72 0.18 0.09
Matches are distributed among these distances:
21 6 0.08
22 68 0.86
23 5 0.06
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (22 bp):
AGCACTTCGATGCCTACTGATT
Found at i:14123209 original size:44 final size:44
Alignment explanation
Indices: 14123159--14123257 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
14123149 AGCACTTTGG
* * *
14123159 TGCCTACTGATTTGCACTTCGATGCCTATTATTCAACAATTCGA
1 TGCCTACTGATTCGCACTTCGATGCCTACTACTCAACAATTCGA
* * *
14123203 TGCCTACTGATTCGCACTTTGGTGCCTACTACTCAACACTTCGA
1 TGCCTACTGATTCGCACTTCGATGCCTACTACTCAACAATTCGA
14123247 TGCCTACTGAT
1 TGCCTACTGAT
14123258 CAGTACTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.34
Consensus pattern (44 bp):
TGCCTACTGATTCGCACTTCGATGCCTACTACTCAACAATTCGA
Found at i:14123272 original size:44 final size:42
Alignment explanation
Indices: 14123159--14123274 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 42
14123149 AGCACTTTGG
* * *
14123159 TGCCTACTGATTTGCACTTCGATGCCTATTATTCAACAATTCGA
1 TGCCTACTGA-TCGCACTTCG-TGCCTACTACTCAACAATTCGA
* *
14123203 TGCCTACTGATTCGCACTTTGGTGCCTACTACTCAACACTTCGA
1 TGCCTACTGA-TCGCAC-TTCGTGCCTACTACTCAACAATTCGA
*
14123247 TGCCTACTGATCAGTACTTCAGTGCCTA
1 TGCCTACTGATC-GCACTTC-GTGCCTA
14123275 ATGGTGTGGG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
43 4 0.06
44 55 0.89
45 3 0.05
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (42 bp):
TGCCTACTGATCGCACTTCGTGCCTACTACTCAACAATTCGA
Found at i:14124583 original size:13 final size:13
Alignment explanation
Indices: 14124565--14124600 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
14124555 AACAGGGTAC
14124565 GAGGCATTACTAT
1 GAGGCATTACTAT
14124578 GAGGCATTACTAT
1 GAGGCATTACTAT
14124591 GAGGCATTAC
1 GAGGCATTAC
14124601 CAGACTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (13 bp):
GAGGCATTACTAT
Found at i:14126767 original size:44 final size:47
Alignment explanation
Indices: 14126655--14126776 Score: 155
Period size: 44 Copynumber: 2.6 Consensus size: 47
14126645 AGATGCCGAT
* *
14126655 GCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTAGCTAGCACAACAAAGTCGAC
*
14126703 GCCATGTCCCAGACAAGTCTTACACT-GAC-A-CACAAC-AAG-CTGAC
1 GCCATGTCCCAGACAGGTCTTACACTAG-CTAGCACAACAAAGTC-GAC
14126747 GCCATGTCCCAGACAGGTCTTACACTAGCT
1 GCCATGTCCCAGACAGGTCTTACACTAGCT
14126777 TGTATATCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 1 0.02
44 31 0.47
45 6 0.09
46 2 0.03
47 11 0.17
48 15 0.23
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTAGCACAACAAAGTCGAC
Found at i:14126806 original size:48 final size:46
Alignment explanation
Indices: 14126649--14126869 Score: 168
Period size: 48 Copynumber: 4.7 Consensus size: 46
14126639 GGGATAAGAT
*
14126649 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAA--A-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT--CTCAT-AATGAG
* * * * * * *
14126697 GTCGATGCCATGTCCCAGACAAGTCTTACACT-G-ACACACAA-CAA
1 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAG
* * * * *
14126741 GCTGACGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAG
1 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-AT-GAG
* *
14126790 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAG
14126836 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
14126870 ACACATTTCA
Statistics
Matches: 141, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
42 2 0.01
43 5 0.04
44 28 0.20
45 1 0.01
46 38 0.27
47 11 0.08
48 49 0.35
49 7 0.05
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAG
Found at i:14138721 original size:33 final size:30
Alignment explanation
Indices: 14138678--14138737 Score: 84
Period size: 33 Copynumber: 1.9 Consensus size: 30
14138668 ATTATTTTCA
14138678 ATGTAAAAAAAATATAAATTTAAATGCAATGAG
1 ATGTAAAAAAAAT-TAAA-TT-AATGCAATGAG
*
14138711 ATGTATAAAAAATTAAATTAATGCAAT
1 ATGTAAAAAAAATTAAATTAATGCAAT
14138738 TATGTACCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
31 2 0.08
32 4 0.15
33 12 0.46
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (30 bp):
ATGTAAAAAAAATTAAATTAATGCAATGAG
Found at i:14144380 original size:38 final size:38
Alignment explanation
Indices: 14144337--14144412 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
14144327 ACTAATATCC
* *
14144337 TCTCAACCACATTTTGA-ATGTTTAAATGTCTCGAATTA
1 TCTCAACCAC-TTTTCACATGTTTAAATATCTCGAATTA
14144375 TCTCAACCACTTTTCACATGTTTAAATATCTCGAATTA
1 TCTCAACCACTTTTCACATGTTTAAATATCTCGAATTA
14144413 AAGAATTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 5 0.14
38 30 0.86
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (38 bp):
TCTCAACCACTTTTCACATGTTTAAATATCTCGAATTA
Found at i:14145724 original size:2 final size:2
Alignment explanation
Indices: 14145717--14145749 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14145707 AGAGTTCCTA
14145717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14145750 GAATGAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14150615 original size:6 final size:6
Alignment explanation
Indices: 14150595--14150643 Score: 89
Period size: 6 Copynumber: 8.0 Consensus size: 6
14150585 TATATCAATC
14150595 TCTGAT TCATGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
1 TCTGAT TC-TGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
14150644 ATGTTTGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
TCTGAT
Found at i:14154102 original size:101 final size:103
Alignment explanation
Indices: 14153911--14154119 Score: 298
Period size: 101 Copynumber: 2.0 Consensus size: 103
14153901 AACCAGACTG
* *
14153911 TTAGGAACTTTATGTTTTGGTCACTCAACTTGAAAATATTACAAAATGGTCACTGAACTATTCCG
1 TTAGGAACTTTATGTTTTGGTCACTCAACTTGAAAATATT-----ATGCTCACTGAACTATTCAG
*
14153976 AAGTTTTCATTTAAGTCACCAGGCTGTTATAATTGCTGCTGCA
61 AAGTTTTCATTTAAGTCACCAGGCTGTTATAATCGCTGCTGCA
* *
14154019 TTAGTAACTTTATGTTTTGGTCACTCAACTTGAAAATGTT-T-CTCACTGAACTATTCAGAAGTT
1 TTAGGAACTTTATGTTTTGGTCACTCAACTTGAAAATATTATGCTCACTGAACTATTCAGAAGTT
14154082 TTCATTTAAGTCA-CAGGGCTGTTATAATCGCTGCTGCA
66 TTCATTTAAGTCACCA-GGCTGTTATAATCGCTGCTGCA
14154120 CGGCCTTCTT
Statistics
Matches: 95, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
100 2 0.02
101 54 0.57
102 1 0.01
108 38 0.40
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (103 bp):
TTAGGAACTTTATGTTTTGGTCACTCAACTTGAAAATATTATGCTCACTGAACTATTCAGAAGTT
TTCATTTAAGTCACCAGGCTGTTATAATCGCTGCTGCA
Found at i:14162922 original size:49 final size:49
Alignment explanation
Indices: 14162842--14162935 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
14162832 AGTTTCTTGG
*
14162842 AATCATTCCTGTATGTCATGGTTCGAAAATCAAGTTGCAAAACAAAAGA
1 AATCATTCCTGTATGTCATGGTTCGAAAATCAAGTCGCAAAACAAAAGA
* *
14162891 AATCGTTCCTGTATGAT-GTGGTTC-AATAATCAAGTCGCAAAACAA
1 AATCATTCCTGTATG-TCATGGTTCGAA-AATCAAGTCGCAAAACAA
14162936 GAGGAAATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
48 2 0.05
49 37 0.93
50 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (49 bp):
AATCATTCCTGTATGTCATGGTTCGAAAATCAAGTCGCAAAACAAAAGA
Found at i:14165847 original size:22 final size:22
Alignment explanation
Indices: 14165819--14165873 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
14165809 CCTCTATCCC
*
14165819 CAAAAAATATTTGGCATAATTG
1 CAAAAAATACTTGGCATAATTG
14165841 CAAAAAATACTTGGCATAATTG
1 CAAAAAATACTTGGCATAATTG
14165863 CAAAAAATACT
1 CAAAAAATACT
14165874 CTTAACGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (22 bp):
CAAAAAATACTTGGCATAATTG
Found at i:14166202 original size:34 final size:32
Alignment explanation
Indices: 14166127--14166186 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
14166117 ATCCCAAATC
*
14166127 ATCCCAAAAAACTATAAATCCCAAATCGTGAA
1 ATCCCTAAAAACTATAAATCCCAAATCGTGAA
*
14166159 ATCCCTAAAAACTATAATTCCC-AATCGT
1 ATCCCTAAAAACTATAAATCCCAAATCGT
14166187 CGTTGAATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (32 bp):
ATCCCTAAAAACTATAAATCCCAAATCGTGAA
Found at i:14167162 original size:42 final size:42
Alignment explanation
Indices: 14167092--14167173 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
14167082 ACATGAGGGA
* * *
14167092 GATATGTTACTATTGATTGTTGGGGAGAGTGATTTTGAAGAT
1 GATATGTTACTATTGAATGCTGGAGAGAGTGATTTTGAAGAT
14167134 GATATGTTACTATTGAATGCTGGAGAGAGTGATTTTGAAG
1 GATATGTTACTATTGAATGCTGGAGAGAGTGATTTTGAAG
14167174 GAGTAGAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38
Consensus pattern (42 bp):
GATATGTTACTATTGAATGCTGGAGAGAGTGATTTTGAAGAT
Found at i:14167205 original size:33 final size:33
Alignment explanation
Indices: 14167162--14167329 Score: 169
Period size: 33 Copynumber: 5.1 Consensus size: 33
14167152 GCTGGAGAGA
* *
14167162 GTGATTTTGAAGGAGTAGAAGCTGATGGGGAGG
1 GTGATGTTGAAGGAGTACAAGCTGATGGGGAGG
*
14167195 GTGATGTTGAAAGG-GTACAAGCTGATGGAGAGG
1 GTGATGTTG-AAGGAGTACAAGCTGATGGGGAGG
* * * *
14167228 GTGATGTTGAAGGGGGAGAAGCTAATGGGGAGG
1 GTGATGTTGAAGGAGTACAAGCTGATGGGGAGG
* * * * *
14167261 ATGATGTAGAA-AAGGTACAAGCTGTTGGGCAGG
1 GTGATGTTGAAGGA-GTACAAGCTGATGGGGAGG
* * *
14167294 GTGATGTTGAAGGGGTAAAAGCTGATAGGGAGG
1 GTGATGTTGAAGGAGTACAAGCTGATGGGGAGG
14167327 GTG
1 GTG
14167330 TGACTGCTAC
Statistics
Matches: 107, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
32 4 0.04
33 99 0.93
34 4 0.04
ACGTcount: A:0.29, C:0.05, G:0.45, T:0.21
Consensus pattern (33 bp):
GTGATGTTGAAGGAGTACAAGCTGATGGGGAGG
Found at i:14167238 original size:66 final size:66
Alignment explanation
Indices: 14167154--14167329 Score: 237
Period size: 66 Copynumber: 2.7 Consensus size: 66
14167144 TATTGAATGC
* * * * *
14167154 TGGAGAGAGTGATTTTGAAGGAGTAGAAGCTGATGGGGAGGGTGATGTTGAAAGGGTACAAGCTG
1 TGGAGAGGGTGATGTTGAAGGGGTAGAAGCTGATGGGGAGGGTGATGTAGAAAAGGTACAAGCTG
14167219 A
66 A
* * *
14167220 TGGAGAGGGTGATGTTGAAGGGGGAGAAGCTAATGGGGAGGATGATGTAGAAAAGGTACAAGCTG
1 TGGAGAGGGTGATGTTGAAGGGGTAGAAGCTGATGGGGAGGGTGATGTAGAAAAGGTACAAGCTG
*
14167285 T
66 A
* *
14167286 TGG-GCAGGGTGATGTTGAAGGGGTAAAAGCTGATAGGGAGGGTG
1 TGGAG-AGGGTGATGTTGAAGGGGTAGAAGCTGATGGGGAGGGTG
14167330 TGACTGCTAC
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
65 1 0.01
66 94 0.99
ACGTcount: A:0.30, C:0.05, G:0.45, T:0.21
Consensus pattern (66 bp):
TGGAGAGGGTGATGTTGAAGGGGTAGAAGCTGATGGGGAGGGTGATGTAGAAAAGGTACAAGCTG
A
Found at i:14172570 original size:38 final size:38
Alignment explanation
Indices: 14172509--14172609 Score: 139
Period size: 38 Copynumber: 2.6 Consensus size: 38
14172499 ATTTGATGTG
*
14172509 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTAGTAAAA
* **
14172549 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAAAA
*
14172587 TATCCGGGATAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
14172610 CTAGTGCTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 43 0.77
39 5 0.09
40 8 0.14
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.25
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAAAA
Found at i:14172617 original size:38 final size:38
Alignment explanation
Indices: 14172525--14172632 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
14172515 GGCTTAAAGA
* ** *
14172525 CCCGCAGGCTTCGTGCTAGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
14172563 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * * *
14172601 CCCGCAGGCCTAGTGCTGGTGTTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
14172633 CCTTCGTGCC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:14177224 original size:20 final size:20
Alignment explanation
Indices: 14177196--14177236 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14177186 TTTCGTTTAG
*
14177196 CTCACATGAGCTTCAGTTAA
1 CTCACATGAGCTTCAGCTAA
* *
14177216 CTCATATGAGTTTCAGCTAA
1 CTCACATGAGCTTCAGCTAA
14177236 C
1 C
14177237 CCTAATGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (20 bp):
CTCACATGAGCTTCAGCTAA
Found at i:14178943 original size:46 final size:45
Alignment explanation
Indices: 14178784--14179003 Score: 142
Period size: 46 Copynumber: 4.8 Consensus size: 45
14178774 CTATTTGTGT
* ** * *
14178784 GCCAGTGTAAGACATGTCTGGAACATGCATTGGCC-A-CATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTATGA-CAT-A-A
* * * * *
14178830 GCCAGTGTAAGACCATGTCTGGGACATGGCAACGGCATTAAGACGA-GA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CTATGAC-ATAA
* * *
14178878 GGCAATGTAAGACATGTCTGGGACATGCATCAGCCTCGTGACATAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-ATGACATAA
* * * **
14178924 GCCAGTGTAAGACATGTCTGGGACATACATC-GGCTATGAGATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTATGACATAA
**
14178968 GTTAGTGTAAGACCATGTCTGGGACATGACATCAGC
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCAGC
14179004 ACAGATATGT
Statistics
Matches: 136, Mismatches: 27, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
44 15 0.11
45 19 0.14
46 54 0.40
47 28 0.21
48 17 0.12
50 1 0.01
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTATGACATAA
Found at i:14180381 original size:19 final size:21
Alignment explanation
Indices: 14180321--14180376 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
14180311 GTTATAATGA
*
14180321 CCACACGGGTGTGTTGCCCTT
1 CCACACAGGTGTGTTGCCCTT
*
14180342 CCACACAGGCGTGTTGCCCTT
1 CCACACAGGTGTGTTGCCCTT
*
14180363 CCACATAGGTGTGT
1 CCACACAGGTGTGT
14180377 GCCTTGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.14, C:0.32, G:0.27, T:0.27
Consensus pattern (21 bp):
CCACACAGGTGTGTTGCCCTT
Found at i:14182796 original size:12 final size:12
Alignment explanation
Indices: 14182779--14182814 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
14182769 ACGGCCCACC
14182779 TATATTAATTTT
1 TATATTAATTTT
14182791 TATATT-ATTTT
1 TATATTAATTTT
14182802 TATA-TAATTTT
1 TATATTAATTTT
14182813 TA
1 TA
14182815 AATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 16 0.70
12 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:14182970 original size:30 final size:30
Alignment explanation
Indices: 14182936--14182998 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
14182926 ATTTAACAAG
*
14182936 CAAATGCCTCTAAAATATTAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* *
14182966 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
14182996 CAA
1 CAA
14182999 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:14183053 original size:22 final size:22
Alignment explanation
Indices: 14183028--14183070 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14183018 TATCCAAACA
14183028 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
*
14183050 ATAATAATAAAATAGTAGCAA
1 ATAACAATAAAATAGTAGCAA
14183071 ATAGGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:14187851 original size:13 final size:13
Alignment explanation
Indices: 14187833--14187880 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
14187823 ATAATATCCC
14187833 ATAATATTTCATA
1 ATAATATTTCATA
*
14187846 ATAATATATTCCTA
1 ATAATAT-TTCATA
* *
14187860 AAAGATATCTCATA
1 ATA-ATATTTCATA
14187874 ATAATAT
1 ATAATAT
14187881 CCTAAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 11 0.39
14 13 0.46
15 4 0.14
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (13 bp):
ATAATATTTCATA
Found at i:14188177 original size:11 final size:12
Alignment explanation
Indices: 14188144--14188178 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
14188134 ACAGAAATTT
*
14188144 TAATGTTTCAAG
1 TAATGTTTCATG
14188156 TAATGTTTCATG
1 TAATGTTTCATG
14188168 TAAT-TTTCATG
1 TAATGTTTCATG
14188179 ATTATAGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (12 bp):
TAATGTTTCATG
Found at i:14196741 original size:19 final size:19
Alignment explanation
Indices: 14196717--14196761 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
14196707 GAGTTCATTT
14196717 GCAAGTGCCTTGTGTGTCA
1 GCAAGTGCCTTGTGTGTCA
14196736 GCAAGTGCCTTGTGTGTCA
1 GCAAGTGCCTTGTGTGTCA
*
14196755 ACAAGTG
1 GCAAGTG
14196762 AAGGCTAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (19 bp):
GCAAGTGCCTTGTGTGTCA
Found at i:14202565 original size:23 final size:21
Alignment explanation
Indices: 14202539--14202589 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
14202529 TAACAATTAC
*
14202539 TAAAATATAATATAATAATATAA
1 TAAAATATAACATAA-AATA-AA
*
14202562 TAAAACATAACATAAAATAAA
1 TAAAATATAACATAAAATAAA
*
14202583 TGAAATA
1 TAAAATA
14202590 AAGATAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 4 0.17
23 13 0.54
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAATATAACATAAAATAAA
Found at i:14202612 original size:21 final size:21
Alignment explanation
Indices: 14202584--14202628 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
14202574 TAAAATAAAT
*
14202584 GAAATAAAGATA-GAAAAAGA
1 GAAATAAAGAGACGAAAAAGA
*
14202604 GAAAGTAAAGAGACGAAACAGA
1 GAAA-TAAAGAGACGAAAAAGA
14202626 GAA
1 GAA
14202629 GAACAAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 7 0.33
22 10 0.48
ACGTcount: A:0.64, C:0.04, G:0.24, T:0.07
Consensus pattern (21 bp):
GAAATAAAGAGACGAAAAAGA
Found at i:14202867 original size:13 final size:13
Alignment explanation
Indices: 14202849--14202881 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
14202839 TTTGAATTTA
14202849 TAGAATTTCAAGT
1 TAGAATTTCAAGT
14202862 TAGAATTTCAAGT
1 TAGAATTTCAAGT
14202875 TAGAATT
1 TAGAATT
14202882 GAGAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (13 bp):
TAGAATTTCAAGT
Found at i:14203390 original size:31 final size:30
Alignment explanation
Indices: 14203323--14203393 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
14203313 GATATTGTGG
* *
14203323 TATTGAATT-GAATTGTGAGTATGTGTGAA
1 TATTGAATTGGAATTGTGAATATGTATGAA
* *
14203352 TATTTGAATTGGAATTGTGAATTTGTATGGAT
1 TA-TTGAATTGGAATTGTGAATATGTAT-GAA
14203384 TATTGAATTG
1 TATTGAATTG
14203394 AAATGTGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 2 0.06
30 7 0.20
31 22 0.63
32 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (30 bp):
TATTGAATTGGAATTGTGAATATGTATGAA
Found at i:14207341 original size:30 final size:30
Alignment explanation
Indices: 14207307--14207365 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
14207297 CTTAACAAGA
14207307 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
14207337 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
14207366 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:14207423 original size:22 final size:22
Alignment explanation
Indices: 14207398--14207440 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14207388 TATCCAAACA
14207398 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
14207420 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
14207441 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:14209353 original size:64 final size:64
Alignment explanation
Indices: 14209263--14209391 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
14209253 TAGGTTGTTA
* * *
14209263 TTAGGAATTGATTTTTATTTTTATTTAAATGACGCTTTTATTGTACTGA-CATTTAGATGGAATT
1 TTAGGAATTGATTTTTATTTTGATTTAAAAGACGCTTTTATTGTACT-ATCATTTAGAAGGAATT
*
14209327 TTAGGAATTGATTTTTATTTTGATTTAAAAGATGCTTTTATTGTACTATCATTTAGAAGGAATT
1 TTAGGAATTGATTTTTATTTTGATTTAAAAGACGCTTTTATTGTACTATCATTTAGAAGGAATT
14209391 T
1 T
14209392 AGTTTTTGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 1 0.02
64 59 0.98
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (64 bp):
TTAGGAATTGATTTTTATTTTGATTTAAAAGACGCTTTTATTGTACTATCATTTAGAAGGAATT
Found at i:14212864 original size:12 final size:12
Alignment explanation
Indices: 14212849--14212874 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14212839 TTACGATATA
14212849 TGTAACGAAAGT
1 TGTAACGAAAGT
14212861 TGTAACGAAAGT
1 TGTAACGAAAGT
14212873 TG
1 TG
14212875 CCTTGGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (12 bp):
TGTAACGAAAGT
Found at i:14215053 original size:40 final size:40
Alignment explanation
Indices: 14214952--14215160 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
14214942 TACTCGAATG
* **
14214952 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTAACT
* *
14214993 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTAACT
* *
14215033 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
* * *
14215073 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
* * ** * *
14215113 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
14215153 ATATCCGG
1 ATATCCGG
14215161 TTAAACTCCG
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 115 0.79
41 28 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
Found at i:14222671 original size:2 final size:2
Alignment explanation
Indices: 14222664--14222701 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
14222654 ATATGTGCAA
*
14222664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14222702 GTACATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14222706 original size:8 final size:8
Alignment explanation
Indices: 14222666--14222708 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
14222656 ATGTGCAAAT
*
14222666 ATATATAT
1 ATATATAC
*
14222674 ATATATAT
1 ATATATAC
*
14222682 ATATATAT
1 ATATATAC
14222690 ATATATAC
1 ATATATAC
*
14222698 ATATGTAC
1 ATATATAC
14222706 ATA
1 ATA
14222709 AAATATACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (8 bp):
ATATATAC
Found at i:14222844 original size:2 final size:2
Alignment explanation
Indices: 14222797--14222825 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14222787 GGTATTTAAA
14222797 AT AT 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 AT AT A
14222826 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14222897 original size:39 final size:40
Alignment explanation
Indices: 14222766--14222897 Score: 126
Period size: 39 Copynumber: 3.3 Consensus size: 40
14222756 ATAATTTGTA
* * *
14222766 ATAATA-ATATATACACAATATGGTATTTAAAATATATATAT
1 ATAATATATATATACACTA-ATGGTA-TTAAAAAATATATAC
* * * *
14222807 ATATATATATATATATA-TAATAGTATTTAAGAATATATAC
1 ATA-ATATATATATACACTAATGGTATTAAAAAATATATAC
* * *
14222847 ATAAGAAATATATA-ACTAATGGCATTAAAAAATATATAC
1 ATAATATATATATACACTAATGGTATTAAAAAATATATAC
14222886 ATAATATATATA
1 ATAATATATATA
14222898 AAATACCTAA
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 1 0.01
39 38 0.52
40 14 0.19
41 8 0.11
42 4 0.05
43 8 0.11
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (40 bp):
ATAATATATATATACACTAATGGTATTAAAAAATATATAC
Found at i:14223419 original size:15 final size:14
Alignment explanation
Indices: 14223401--14223434 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
14223391 TTCTTCTTTT
14223401 TTTTTTTGGGTTAGG
1 TTTTTTTGGG-TAGG
14223416 TTTTTTTGGGTAGG
1 TTTTTTTGGGTAGG
14223430 TTTTT
1 TTTTT
14223435 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.06, C:0.00, G:0.29, T:0.65
Consensus pattern (14 bp):
TTTTTTTGGGTAGG
Found at i:14223447 original size:14 final size:15
Alignment explanation
Indices: 14223430--14223463 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14223420 TTTGGGTAGG
14223430 TTTTTCTTT-TTCTTT
1 TTTTTCTTTGTT-TTT
14223445 TTTTTCTTTGTTTTT
1 TTTTTCTTTGTTTTT
14223460 TTTT
1 TTTT
14223464 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTGTTTTT
Found at i:14224309 original size:30 final size:30
Alignment explanation
Indices: 14224273--14224334 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
14224263 TTTTGAAAAA
14224273 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
14224303 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
14224333 CA
1 CA
14224335 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:14224772 original size:72 final size:73
Alignment explanation
Indices: 14224482--14225012 Score: 420
Period size: 72 Copynumber: 6.8 Consensus size: 73
14224472 ACATGTAACC
* * * *
14224482 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
14224547 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
14224560 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
14224625 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * *
14224638 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
14224703 ACGTGTCT
66 GCGTGTCT
* ** * *
14224711 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
14224775 GCGTGTCC
66 GCGTGTCT
*
14224783 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTTGAAAGGCAGAAATTGAAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTTGAAA-ACAGAAATTG----
** ** *
14224848 ATGGAAATTGAAAATACCTCGACGTGTGAT
55 A---AAA-T--ACCT-CAGC---GTGT-CT
* * *
14224878 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACAACAGAAATTGAAATTACCT
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCT
14224943 CAGCGTGTC-
64 CAGCGTGTCT
* *
14224952 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAA
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAA
14225013 ACGGAAATTG
Statistics
Matches: 368, Mismatches: 54, Indels: 65
0.76 0.11 0.13
Matches are distributed among these distances:
72 66 0.18
73 30 0.08
74 43 0.12
75 32 0.09
76 14 0.04
77 41 0.11
78 5 0.01
79 59 0.16
80 11 0.03
82 1 0.00
83 2 0.01
84 1 0.00
86 1 0.00
87 2 0.01
88 1 0.00
90 11 0.03
91 11 0.03
94 4 0.01
95 1 0.00
96 32 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:14224974 original size:74 final size:75
Alignment explanation
Indices: 14224851--14225012 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
14224841 TTGAAAAATG
*
14224851 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
14224916 TTTTGACAACA
65 TTTTGACAACA
* * *
14224927 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
14224990 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
14225002 AAAATTGAAAA
1 GAAATTGAAAA
14225013 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:14225109 original size:164 final size:164
Alignment explanation
Indices: 14224679--14225336 Score: 947
Period size: 165 Copynumber: 4.0 Consensus size: 164
14224669 TGATTTTTTG
* * * ** *
14224679 AAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTC-GCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
14224742 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
65 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
14224806 ATATGAGTTGATTTTTTTTTTTTGAAAGGCAGAAATTGA
130 ATATGAGTTGA----TTTTTTTTGAAAGGCAGAAATTGA
* *
14224845 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCG-CGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
14224910 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
65 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
14224975 AATATGAGTTGA-TTTTTTTGAAAGGCAAAAATTGA
129 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
* *
14225010 AAAACGGAAATTGAAAATACCTCGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTT
1 AAAACGGAAATTGAAAATACCTCGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTT
* *
14225075 GATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
66 GA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
14225140 ATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
130 ATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
*
14225175 AAAACGGAAATTGAAAATACCTCGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTT
1 AAAACGGAAATTGAAAATACCTCGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTT
* *** * * *
14225240 GAAATTAAAACATA-A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 GATATTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
14225303 ATATGAGTTGA-TTTTTTTGAAA--CAGAAATTGA
130 ATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
14225335 AA
1 AA
14225337 TTACCTCAGC
Statistics
Matches: 456, Mismatches: 29, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
160 12 0.03
162 11 0.02
163 55 0.12
164 119 0.26
165 133 0.29
166 26 0.06
168 31 0.07
170 69 0.15
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (164 bp):
AAAACGGAAATTGAAAATACCTCGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTT
GATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
Found at i:14225138 original size:74 final size:76
Alignment explanation
Indices: 14225006--14225177 Score: 242
Period size: 74 Copynumber: 2.3 Consensus size: 76
14224996 AAGGCAAAAA
* * *
14225006 TTGAAAAACGGAAATTGAAAATACCTCGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACG
1 TTGAAAGACAGAAATTGAAAATACCTCGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACG
14225071 AGTTGA-TTTTT
65 AGTTGATTTTTT
* * * *
14225082 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTC-GCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
14225145 AGTTGATTTTTT
65 AGTTGATTTTTT
14225157 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
14225178 ACGGAAATTG
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
74 33 0.39
75 28 0.33
76 24 0.28
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (76 bp):
TTGAAAGACAGAAATTGAAAATACCTCGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGA
GTTGATTTTTT
Found at i:14225176 original size:14 final size:14
Alignment explanation
Indices: 14225157--14225191 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14225147 TTGATTTTTT
*
14225157 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
14225171 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
14225185 TTGAAAA
1 TTGAAAA
14225192 TACCTCGCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:14225612 original size:72 final size:72
Alignment explanation
Indices: 14225167--14225620 Score: 333
Period size: 72 Copynumber: 6.3 Consensus size: 72
14225157 TTGAAAGACA
* * * * *
14225167 GAAATTGAAAAACGGAAATTGAAAATACCTC-GCGTGTGACCTGAGGCTCAACTCGCCTCTCGCA
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTAGCA
*
14225231 ATACGAGTT
64 ATATGAGTT
* *
14225240 GAAATT-AAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
14225304 TATGAGTT
65 TATGAGTT
** *** * * *
14225312 GATTTTTTTGAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCA-CA
1 GA-AATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT-AGCA
14225376 ATATGAGTT
64 ATATGAGTT
** * *** * * * *** * ** * * *
14225385 GATTTTGAAAAAGTAGAAATT-AAAA-GGTTCAACCTACCTCTCGCAATATGAGTTGA-TTCTTG
1 GAAATTGAAAAA-CAGAAATTGAAAATACCTCAGCGTGCC-C-CG-AGGCTCAACTCACCTCTAG
*
14225447 -AACA--ACG-T
62 CAATATGA-GTT
* * *
14225455 -AAATTG-AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAAT
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
14225518 ATGAGTT
66 ATGAGTT
*
14225525 GAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
14225589 TATGAGTT
65 TATGAGTT
** *
14225597 GATTTTGAAAAACAAAAATT-AAAA
1 GAAATTGAAAAACAGAAATTGAAAA
14225621 GGCTTAACTC
Statistics
Matches: 292, Mismatches: 67, Indels: 46
0.72 0.17 0.11
Matches are distributed among these distances:
66 5 0.02
67 12 0.04
68 12 0.04
69 11 0.04
70 4 0.01
71 19 0.07
72 123 0.42
73 96 0.33
74 10 0.03
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (72 bp):
GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTT
Found at i:14225715 original size:122 final size:124
Alignment explanation
Indices: 14225495--14225741 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 124
14225485 GCGTGACCTG
* *
14225495 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
14225560 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
14225620 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* * * *
14225682 TGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAACAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
14225741 A
1 A
14225742 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 15 0.13
122 62 0.55
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:14225763 original size:71 final size:70
Alignment explanation
Indices: 14225620--14225795 Score: 232
Period size: 71 Copynumber: 2.5 Consensus size: 70
14225610 AAAAATTAAA
* * * * *
14225620 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
14225684 TCCCG
66 TCCCG
*
14225689 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACA-ACAATTAAAAATACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACATA-AACTAAAAATACCTCAACG
**
14225753 TGTCTTG
64 TGTCCCG
14225760 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
14225796 CCTTGAAAAG
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
69 26 0.27
70 7 0.07
71 62 0.65
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
TCCCG
Found at i:14234124 original size:12 final size:12
Alignment explanation
Indices: 14234103--14234138 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
14234093 TGGGATATGC
*
14234103 AATGTATGAATG
1 AATGCATGAATG
*
14234115 AATGCGTGAATG
1 AATGCATGAATG
14234127 AATGCATGAATG
1 AATGCATGAATG
14234139 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:14236165 original size:2 final size:2
Alignment explanation
Indices: 14236110--14236146 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14236100 GGTATTTAAA
*
14236110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14236147 ATAGTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14236739 original size:14 final size:14
Alignment explanation
Indices: 14236722--14236754 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
14236712 TTTCTTTTTT
*
14236722 TTTTTTGGGTTAGG
1 TTTTTTGGGGTAGG
14236736 TTTTTTGGGGTAGG
1 TTTTTTGGGGTAGG
14236750 TTTTT
1 TTTTT
14236755 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.33, T:0.61
Consensus pattern (14 bp):
TTTTTTGGGGTAGG
Found at i:14236739 original size:28 final size:27
Alignment explanation
Indices: 14236677--14236741 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 27
14236667 GTTAGGTGGC
14236677 TAGGTTTTTTTATTTTTTTGTTAGGGT
1 TAGGTTTTTTTATTTTTTTGTTAGGGT
*** * * *
14236704 TTTCTTTTTTTCTTTTTTTTTTTTGGGT
1 TAGGTTTTTTT-ATTTTTTTGTTAGGGT
14236732 TAGGTTTTTT
1 TAGGTTTTTT
14236742 GGGGTAGGTT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.06, C:0.03, G:0.17, T:0.74
Consensus pattern (27 bp):
TAGGTTTTTTTATTTTTTTGTTAGGGT
Found at i:14236767 original size:14 final size:14
Alignment explanation
Indices: 14236750--14236782 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
14236740 TTGGGGTAGG
*
14236750 TTTTTCTTTTTTTT
1 TTTTTCTTTGTTTT
14236764 TTTTTCTTTGTTTT
1 TTTTTCTTTGTTTT
14236778 TTTTT
1 TTTTT
14236783 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (14 bp):
TTTTTCTTTGTTTT
Found at i:14236768 original size:15 final size:15
Alignment explanation
Indices: 14236750--14236782 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
14236740 TTGGGGTAGG
14236750 TTTTTCTT-TTTTTT
1 TTTTTCTTGTTTTTT
14236764 TTTTTCTTTGTTTTTT
1 TTTTTC-TTGTTTTTT
14236780 TTT
1 TTT
14236783 GGGTTAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 2 0.12
16 9 0.53
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (15 bp):
TTTTTCTTGTTTTTT
Found at i:14238885 original size:23 final size:23
Alignment explanation
Indices: 14238854--14238908 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
14238844 AGAATTTAAT
*
14238854 TATATATTTTTTCATAAATTAAAA
1 TATA-ATTTTATCATAAATTAAAA
** *
14238878 TATAATTTTATCATGTATTAAAT
1 TATAATTTTATCATAAATTAAAA
14238901 TATAATTT
1 TATAATTT
14238909 CATTATTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (23 bp):
TATAATTTTATCATAAATTAAAA
Found at i:14243433 original size:17 final size:18
Alignment explanation
Indices: 14243389--14243433 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
14243379 TATTTTTCAA
14243389 AAAATATAATA-ATAAATT
1 AAAA-ATAATATATAAATT
*
14243407 TAAAAT-ATATATAAA-T
1 AAAAATAATATATAAATT
14243423 AAAAATAATAT
1 AAAAATAATAT
14243434 TTTTGACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 9 0.39
17 11 0.48
18 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATAATATATAAATT
Found at i:14243472 original size:55 final size:52
Alignment explanation
Indices: 14243360--14243514 Score: 153
Period size: 53 Copynumber: 3.0 Consensus size: 52
14243350 ATTCAAAGAA
* * *
14243360 ATATATAAAAGTACATAACTATTTTTCAAAAAATATAATAATAAATTTAAAAT
1 ATATATAAAA-AAAATAACTATTTTTCAAAAAATAAAATAATAAATTTAAAAT
*
14243413 ATATATAAATAAAAATAA-TATTTTTGACAAAAATAGAAATATATAAATTTTAAAA-
1 ATATATAAA-AAAAATAACTATTTTTCA-AAAAATA-AAATA-ATAAA-TTTAAAAT
14243468 ATATAT--AAAAAA-AA-TA-TTTTCAAAAAATATATAATAATAAATTTAAA
1 ATATATAAAAAAAATAACTATTTTTCAAAAAATA-A-AATAATAAATTTAAA
14243515 TTTTATATTA
Statistics
Matches: 90, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
48 6 0.07
49 13 0.14
50 9 0.10
51 4 0.04
52 13 0.14
53 22 0.24
54 5 0.06
55 11 0.12
56 7 0.08
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (52 bp):
ATATATAAAAAAAATAACTATTTTTCAAAAAATAAAATAATAAATTTAAAAT
Found at i:14243546 original size:19 final size:19
Alignment explanation
Indices: 14243506--14243547 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
14243496 ATATAATAAT
* * *
14243506 AAAT-TTAAATTTTATATT
1 AAATATTAAATATTAAATA
14243524 AAATATTAAATATTAAATA
1 AAATATTAAATATTAAATA
14243543 AAATA
1 AAATA
14243548 AAAATCCACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATATTAAATATTAAATA
Found at i:14244713 original size:30 final size:30
Alignment explanation
Indices: 14244669--14244748 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
14244659 TTGAAAGGTG
* *
14244669 GCCACAATGTAGCAGCATGCAAGTGACCAA
1 GCCACCATGCAGCAGCATGCAAGTGACCAA
14244699 GCCACCATGCAGCAGCATGCAAGTGACCAA
1 GCCACCATGCAGCAGCATGCAAGTGACCAA
* *
14244729 GCAACACA-GCAACAGCATGC
1 GCCAC-CATGCAGCAGCATGC
14244749 GAATGTCCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.36, C:0.31, G:0.23, T:0.10
Consensus pattern (30 bp):
GCCACCATGCAGCAGCATGCAAGTGACCAA
Found at i:14247306 original size:30 final size:29
Alignment explanation
Indices: 14247250--14247306 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
14247240 TTTTCGAGCA
**
14247250 TAGGGGAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGAAAATGGTCATTTTACCAAAGTC
*
14247279 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGG-AAAATGGTCATTTTACCAAAG
14247307 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (29 bp):
TAGGGGAAAATGGTCATTTTACCAAAGTC
Found at i:14247719 original size:47 final size:45
Alignment explanation
Indices: 14247646--14248008 Score: 255
Period size: 47 Copynumber: 7.8 Consensus size: 45
14247636 TGATTTGTGT
*
14247646 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * * * *
14247692 GCCAATGTAAGACCATGTTTGGGACATGGCATCGGCACCCAGATGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATATGAGA
* * * *
14247740 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * * *
14247786 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATATGAGA
* * *
14247834 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATATGAGA
* * ** * * * ** *
14247881 GCCAGTGTAAGACGTGTTTGGGACACACATAGGCTA-AGATTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGA
* * **
14247925 GCTAGTGTAAGATATGTCTGGGACATGCATC-AACATGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA--C--ATATGAGA
* *
14247973 GCAAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
14248009 AATATAGCCC
Statistics
Matches: 241, Mismatches: 58, Indels: 31
0.73 0.18 0.09
Matches are distributed among these distances:
43 4 0.02
44 25 0.10
45 2 0.01
46 41 0.17
47 83 0.34
48 64 0.27
49 17 0.07
50 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGA
Found at i:14247810 original size:94 final size:91
Alignment explanation
Indices: 14247644--14248010 Score: 350
Period size: 94 Copynumber: 3.9 Consensus size: 91
14247634 GGTGATTTGT
* * * * * *
14247644 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAATGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATG
*
14247709 TTTGGGACATGGCATCGGCACCCAGATGA
66 TCTGGGACATGGCATCGGCA---AGATGA
* *
14247738 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATG
14247803 TCTGGGACATGGCATCGGCATAGAGATGA
66 TCTGGGACATGGCATCGGC--A-AGATGA
* * *
14247832 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGAC
* * ** * **
14247893 CGTGTTTGGGACA-CACATAGGCTAAGATTT
62 CATGTCTGGGACATGGCATCGGC-AAGATGA
* * * *
14247923 GTGCTAGTGTAAGATATGTCTGGGACATGCATCA-ACATGCGTATATGAGAGCAAGTGTAAGACC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATAC---TATGAGAGCCAGTGTAAGACC
*
14247987 ATGTCTAGGACATGGCATCGGCAA
63 ATGTCTGGGACATGGCATCGGCAA
14248011 TATAGCCCAT
Statistics
Matches: 224, Mismatches: 35, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
89 1 0.00
90 1 0.00
91 35 0.16
92 14 0.06
93 22 0.10
94 135 0.60
95 15 0.07
96 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (91 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCAAGATGA
Found at i:14247903 original size:141 final size:140
Alignment explanation
Indices: 14247646--14248009 Score: 327
Period size: 141 Copynumber: 2.6 Consensus size: 140
14247636 TGATTTGTGT
* ** *
14247646 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAATGTAAGACCATGTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAATGTAAGACCATGTC
* * *
14247711 TGGGACATGGCATCGGCACCCAGATGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA
66 TAGGACATGGCATCGGCACCCAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCA
14247776 TACTATGATA
131 TACTATGATA
* * *
14247786 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATAGAGATGAGTGCCAGTGTAAGA-CAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-AGATGAGAGCCAATGTAAGACCAT
* * * **
14247849 GTCTAGGACAT-GCATCGGC-CTCGACAGA-GATAGCCAGTGTAAGACGTGTTTGGGACACACAT
63 GTCTAGGACATGGCATCGGCAC-C--CAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCAT
* * *
14247911 -AGGC-TAAGATTTG-T-
125 CAGCCAT-A-CTATGATA
* * ** * *
14247925 GCTAGTGTAAGATATGTCTGGGACATGCATC-AACATGCGTATATGAGAG-CAAGTGTAAGACCA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA--C-AAGATGAGAGCCAA-TGTAAGACCA
14247988 TGTCTAGGACATGGCATCGGCA
62 TGTCTAGGACATGGCATCGGCA
14248010 ATATAGCCCA
Statistics
Matches: 182, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
137 7 0.04
138 15 0.08
139 27 0.15
140 40 0.22
141 67 0.37
142 26 0.14
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAATGTAAGACCATGTC
TAGGACATGGCATCGGCACCCAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCA
TACTATGATA
Found at i:14254458 original size:30 final size:30
Alignment explanation
Indices: 14254399--14254463 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
14254389 GATCCTACCA
*
14254399 CATGCAAGTGACCAAACCACCATGCAGCAG
1 CATGCAAGTGACCAAACAACCATGCAGCAG
* *
14254429 CATGCAAGTGACCAAGCAACACA-GTAGCAG
1 CATGCAAGTGACCAAACAAC-CATGCAGCAG
14254459 CATGC
1 CATGC
14254464 GAACGTCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.37, C:0.31, G:0.22, T:0.11
Consensus pattern (30 bp):
CATGCAAGTGACCAAACAACCATGCAGCAG
Found at i:14256920 original size:67 final size:67
Alignment explanation
Indices: 14256812--14256948 Score: 256
Period size: 67 Copynumber: 2.0 Consensus size: 67
14256802 ACTTCCGGCA
*
14256812 TCTTCATCACAATAGCTACTCAACTCCCACACTGAAGTCGCAACGATAACTAGAAATCATCCATG
1 TCTTCATCACAATAGCTACTCAACTCCCACACTGAAGTCGCAACGATAACTAGAAATCATCCACG
14256877 CT
66 CT
*
14256879 TCTTCATCACAATAGCTACTCAACTCTCACACTGAAGTCGCAACGATAACTAGAAATCATCCACG
1 TCTTCATCACAATAGCTACTCAACTCCCACACTGAAGTCGCAACGATAACTAGAAATCATCCACG
14256944 CT
66 CT
14256946 TCT
1 TCT
14256949 AAAACTTTGG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.25
Consensus pattern (67 bp):
TCTTCATCACAATAGCTACTCAACTCCCACACTGAAGTCGCAACGATAACTAGAAATCATCCACG
CT
Found at i:14259463 original size:1 final size:1
Alignment explanation
Indices: 14259457--14259484 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
14259447 AGCTAAAACC
14259457 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
14259485 TTAAGAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14261658 original size:5 final size:5
Alignment explanation
Indices: 14261648--14261679 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
14261638 TTGTGTGTTC
14261648 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
14261680 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:14261662 original size:9 final size:9
Alignment explanation
Indices: 14261648--14261678 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
14261638 TTGTGTGTTC
14261648 TTTATTTTA
1 TTTATTTTA
14261657 TTTATTTTA
1 TTTATTTTA
14261666 TTTTATTTTA
1 -TTTATTTTA
14261676 TTT
1 TTT
14261679 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:14266110 original size:5 final size:5
Alignment explanation
Indices: 14266100--14266131 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
14266090 ATTTGTGTTC
14266100 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
14266132 CACACCGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:14266114 original size:9 final size:9
Alignment explanation
Indices: 14266100--14266130 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
14266090 ATTTGTGTTC
14266100 TTTATTTTA
1 TTTATTTTA
14266109 TTTATTTTA
1 TTTATTTTA
14266118 TTTTATTTTA
1 -TTTATTTTA
14266128 TTT
1 TTT
14266131 TCACACCGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:14270765 original size:36 final size:36
Alignment explanation
Indices: 14270654--14270765 Score: 86
Period size: 36 Copynumber: 3.1 Consensus size: 36
14270644 GTGCTTAGCA
* *
14270654 CTAGTCGAA-CGAATCGACAATGTTTTGCGCCCAGCG
1 CTAGTC-AATCGAATTGACAATGTTTTGTGCCCAGCG
* * * * * ** * *
14270690 CTAGTCAGGT-AAACTAACGATG-GATGTGCCCATCA
1 CTAGTCA-ATCGAATTGACAATGTTTTGTGCCCAGCG
14270725 CTAGTCAATCGAATTGACAATGTTTTGTGCCCAGCG
1 CTAGTCAATCGAATTGACAATGTTTTGTGCCCAGCG
14270761 CTAGT
1 CTAGT
14270766 TTGTTGAACC
Statistics
Matches: 52, Mismatches: 20, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
34 1 0.02
35 24 0.46
36 27 0.52
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (36 bp):
CTAGTCAATCGAATTGACAATGTTTTGTGCCCAGCG
Found at i:14271767 original size:37 final size:37
Alignment explanation
Indices: 14271713--14271786 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
14271703 ACTGTATCAA
*
14271713 ACCTTGCTATTCTCTCTAGTGGGGTTATTTTTTCTTT
1 ACCTTGCTATTCCCTCTAGTGGGGTTATTTTTTCTTT
* *
14271750 ACCTTGCTCTTCCCTCTAGTGGTGTTATTTTTTCTTT
1 ACCTTGCTATTCCCTCTAGTGGGGTTATTTTTTCTTT
14271787 CTTTCTTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.09, C:0.22, G:0.15, T:0.54
Consensus pattern (37 bp):
ACCTTGCTATTCCCTCTAGTGGGGTTATTTTTTCTTT
Found at i:14273718 original size:15 final size:15
Alignment explanation
Indices: 14273698--14273733 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
14273688 GAATTGAAAG
14273698 AATTGATCTAAATGA
1 AATTGATCTAAATGA
14273713 AATTGATCTAAATGA
1 AATTGATCTAAATGA
*
14273728 ATTTGA
1 AATTGA
14273734 ATGATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (15 bp):
AATTGATCTAAATGA
Found at i:14274341 original size:13 final size:13
Alignment explanation
Indices: 14274323--14274347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14274313 AGTTAATTGT
14274323 TAGTTTTGAATAA
1 TAGTTTTGAATAA
14274336 TAGTTTTGAATA
1 TAGTTTTGAATA
14274348 TTACACAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TAGTTTTGAATAA
Found at i:14274482 original size:29 final size:30
Alignment explanation
Indices: 14274420--14274497 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
14274410 AAAAAGGAAA
* * * *
14274420 TTTTCTTCTCTCAATTTCTCCTAGCATCCT
1 TTTTCTTCTCTCATTTTCTCCCAACATCAT
*
14274450 TTTTCTTCTCCCATTTTCTCCCAACAT-AT
1 TTTTCTTCTCTCATTTTCTCCCAACATCAT
14274479 TTTTCTTCTCTCATTTTCT
1 TTTTCTTCTCTCATTTTCT
14274498 TTCCAGCACT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 19 0.45
30 23 0.55
ACGTcount: A:0.13, C:0.32, G:0.01, T:0.54
Consensus pattern (30 bp):
TTTTCTTCTCTCATTTTCTCCCAACATCAT
Found at i:14274935 original size:31 final size:32
Alignment explanation
Indices: 14274885--14274949 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 32
14274875 TTTACATGAT
14274885 GTCATGTTTTCTTTTTCCAAATTCATTATGTA
1 GTCATGTTTTCTTTTTCCAAATTCATTATGTA
14274917 GTCATGTTTTC-TTTTCCAAATTCATTATGTA
1 GTCATGTTTTCTTTTTCCAAATTCATTATGTA
14274948 GT
1 GT
14274950 GAAATGGAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.67
32 11 0.33
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (32 bp):
GTCATGTTTTCTTTTTCCAAATTCATTATGTA
Found at i:14278276 original size:18 final size:18
Alignment explanation
Indices: 14278245--14278282 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
14278235 CTCCCTCAAC
14278245 CTTCAAAACTTTTTATTT
1 CTTCAAAACTTTTTATTT
14278263 CTTCATAAAC-TTTTATTT
1 CTTCA-AAACTTTTTATTT
14278281 CT
1 CT
14278283 CACCCTCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.55
Consensus pattern (18 bp):
CTTCAAAACTTTTTATTT
Found at i:14278655 original size:19 final size:19
Alignment explanation
Indices: 14278631--14278668 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14278621 GAAGTTAATA
14278631 ACAAATTTGATTATGGTGG
1 ACAAATTTGATTATGGTGG
*
14278650 ACAAATTTGATTGTGGTGG
1 ACAAATTTGATTATGGTGG
14278669 GTGATAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (19 bp):
ACAAATTTGATTATGGTGG
Done.