Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 69 of 199
Found at i:20568606 original size:6 final size:6
Alignment explanation
Indices: 20568584--20568623 Score: 50
Period size: 5 Copynumber: 7.0 Consensus size: 6
20568574 TTAAAAGTAT
20568584 TTAAAA -TAAAA TT-AAA TTAAAA TT-AAA TTAAAA TTTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA -TTAAAA
20568624 AACGAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
5 15 0.50
6 9 0.30
7 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TTAAAA
Found at i:20568717 original size:11 final size:12
Alignment explanation
Indices: 20568703--20568762 Score: 63
Period size: 11 Copynumber: 5.1 Consensus size: 12
20568693 TTTATTTTTA
20568703 TTTTTTTC-CTC
1 TTTTTTTCTCTC
* *
20568714 TTTTTTTCTTTT
1 TTTTTTTCTCTC
20568726 TCTTTTTTCTCTC
1 T-TTTTTTCTCTC
20568739 TTTTTTTCT-T-
1 TTTTTTTCTCTC
20568749 TTTGTTTTCTCTC
1 TTT-TTTTCTCTC
20568762 T
1 T
20568763 GCTGGGCTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 3 0.08
11 15 0.38
12 11 0.28
13 11 0.28
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTTCTCTC
Found at i:20568725 original size:25 final size:25
Alignment explanation
Indices: 20568690--20568762 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
20568680 ATTGAACCCC
*
20568690 TTTTTTATTTTTATTTTTTTC-CTCT
1 TTTTTTCTTTTT-TTTTTTTCTCTCT
*
20568715 TTTTTTCTTTTTCTTTTTTCTCTCT
1 TTTTTTCTTTTTTTTTTTTCTCTCT
* *
20568740 TTTTTTCTTTTTGTTTTCTCTCT
1 TTTTTTCTTTTTTTTTTTTCTCT
20568763 GCTGGGCTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.16
25 36 0.84
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.79
Consensus pattern (25 bp):
TTTTTTCTTTTTTTTTTTTCTCTCT
Found at i:20568757 original size:23 final size:25
Alignment explanation
Indices: 20568706--20568762 Score: 84
Period size: 23 Copynumber: 2.4 Consensus size: 25
20568696 ATTTTTATTT
*
20568706 TTTTC-CTCTTTTTTTCTTTTTCTT
1 TTTTCTCTCTTTTTTTCTTTTTCTG
20568730 TTTTCTCTCTTTTTTTC-TTTT-TG
1 TTTTCTCTCTTTTTTTCTTTTTCTG
20568753 TTTTCTCTCT
1 TTTTCTCTCT
20568763 GCTGGGCTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 11 0.35
24 9 0.29
25 11 0.35
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTCTCTCTTTTTTTCTTTTTCTG
Found at i:20569004 original size:14 final size:14
Alignment explanation
Indices: 20568985--20569050 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
20568975 TTTTTCTTTC
20568985 TTTCTTCTTCCTCT
1 TTTCTTCTTCCTCT
* *
20568999 TTTCTTCTTTCTTT
1 TTTCTTCTTCCTCT
* *
20569013 TTTCTTTTTTCT-T
1 TTTCTTCTTCCTCT
20569026 CTTTCTTCTTCCTCT
1 -TTTCTTCTTCCTCT
20569041 TTTCTTCTTC
1 TTTCTTCTTC
20569051 ATTCAACCCC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
13 1 0.02
14 43 0.96
15 1 0.02
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTCTTCTTCCTCT
Found at i:20569008 original size:21 final size:21
Alignment explanation
Indices: 20568976--20569049 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
20568966 AAAAATATTT
20568976 TTTTCTTTCTTTCTTCTTCCTC
1 TTTTC-TTCTTTCTTCTTCCTC
* * *
20568998 TTTTCTTCTTTCTTTTTTCTT
1 TTTTCTTCTTTCTTCTTCCTC
20569019 TTTTCTTCTTTCTTCTTCCTC
1 TTTTCTTCTTTCTTCTTCCTC
20569040 TTTTCTTCTT
1 TTTTCTTCTT
20569050 CATTCAACCC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 41 0.89
22 5 0.11
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCTTCTTTCTTCTTCCTC
Found at i:20569327 original size:25 final size:25
Alignment explanation
Indices: 20569272--20569327 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
20569262 TGGTGGTGTG
*
20569272 GTTGCTGTTTTTTTTTAGTGTTTTT
1 GTTGCTGTTTTTTTTTACTGTTTTT
* *
20569297 GCTGCTGTTTTTTTATTTCT-TTTTT
1 GTTGCTGTTTTTTT-TTACTGTTTTT
*
20569322 TTTGCT
1 GTTGCT
20569328 CAAAATTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.04, C:0.09, G:0.16, T:0.71
Consensus pattern (25 bp):
GTTGCTGTTTTTTTTTACTGTTTTT
Found at i:20569742 original size:9 final size:9
Alignment explanation
Indices: 20569728--20569764 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
20569718 TTTTGTTACA
*
20569728 ACAATTAAC
1 ACAATTAAT
20569737 ACAATTAAT
1 ACAATTAAT
20569746 ACAATTAAT
1 ACAATTAAT
20569755 ACAATTAAT
1 ACAATTAAT
20569764 A
1 A
20569765 ATTTGATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (9 bp):
ACAATTAAT
Found at i:20569786 original size:77 final size:76
Alignment explanation
Indices: 20569698--20569898 Score: 305
Period size: 68 Copynumber: 2.8 Consensus size: 76
20569688 TCAAATTTGT
*
20569698 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAACACAATTAATACAATTAATACAATTAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAA-ACAATTAATACAATTAATACAATTAA
20569763 TAATTTGATAAA
65 TAATTTGATAAA
20569775 TTTACTAATCAAATGTTAGATTTTATT---AC-----AACAATTAATACAATTAATACAATTAAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAAACAATTAATACAATTAATACAATTAAT
20569832 AATTTGATAAA
66 AATTTGATAAA
20569843 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAA-ACAATTAATACAATTAATA
20569899 ATTTGATAAT
Statistics
Matches: 114, Mismatches: 1, Indels: 20
0.84 0.01 0.15
Matches are distributed among these distances:
68 65 0.57
69 1 0.01
71 2 0.02
74 2 0.02
75 10 0.09
76 2 0.02
77 32 0.28
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (76 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAAACAATTAATACAATTAATACAATTAAT
AATTTGATAAA
Found at i:20569815 original size:68 final size:68
Alignment explanation
Indices: 20569737--20569916 Score: 337
Period size: 68 Copynumber: 2.7 Consensus size: 68
20569727 AACAATTAAC
20569737 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
20569802 ACA
66 ACA
20569805 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
20569870 ACA
66 ACA
*
20569873 ACAATTAATACAATT-A-ACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAA
20569917 CAATTAATTT
Statistics
Matches: 111, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
66 27 0.24
67 1 0.01
68 83 0.75
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (68 bp):
ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
ACA
Found at i:20569817 original size:9 final size:9
Alignment explanation
Indices: 20569805--20569832 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
20569795 TTTTATTACA
20569805 ACAATTAAT
1 ACAATTAAT
20569814 ACAATTAAT
1 ACAATTAAT
20569823 ACAATTAAT
1 ACAATTAAT
20569832 A
1 A
20569833 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:20569926 original size:16 final size:16
Alignment explanation
Indices: 20569905--20569946 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
20569895 AATAATTTGA
*
20569905 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
20569921 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
20569937 TAGTTTTAAT
1 TAATTTTAAT
20569947 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:20569930 original size:22 final size:23
Alignment explanation
Indices: 20569920--20569975 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
20569910 TTACTAACAA
* * *
20569920 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
20569942 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
20569965 TTAATTTTAAT
1 TTAATTTTAAT
20569976 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:20569935 original size:59 final size:66
Alignment explanation
Indices: 20569737--20569938 Score: 301
Period size: 68 Copynumber: 3.1 Consensus size: 66
20569727 AACAATTAAC
20569737 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-T
20569802 ACA
64 ACA
20569805 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-T
20569870 ACA
64 ACA
* *
20569873 ACAATTAATACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-ATTTTA-AT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATAC
20569931 A
66 A
20569932 ACAATTA
1 ACAATTA
20569939 GTTTTAATTT
Statistics
Matches: 132, Mismatches: 2, Indels: 9
0.92 0.01 0.06
Matches are distributed among these distances:
59 9 0.07
61 6 0.05
62 3 0.02
64 2 0.02
65 1 0.01
66 27 0.20
67 1 0.01
68 83 0.63
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (66 bp):
ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATAC
A
Found at i:20570346 original size:30 final size:29
Alignment explanation
Indices: 20570295--20570454 Score: 207
Period size: 30 Copynumber: 5.4 Consensus size: 29
20570285 CAAAATTTTT
20570295 GGGG-CAAAAGTGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAA-TGTAA-TTTGAGAAAGTTTA
*
20570325 GGGGTTAAAATGTAATGTTGAGAAAGTTTA
1 GGGGTCAAAATGTAAT-TTGAGAAAGTTTA
* *
20570355 GGGGTCAAAATGTAATTT-AAAAAATTTA
1 GGGGTCAAAATGTAATTTGAGAAAGTTTA
**
20570383 GGGGTTGAAATGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAA-TTTGAGAAAGTTTA
*
20570413 GGGGTCAAAATGTAATTTTAGAAAAGTTTA
1 GGGGTCAAAATGTAATTTGAG-AAAGTTTA
20570443 GGGGTCAAAATG
1 GGGGTCAAAATG
20570455 CAAAAATAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
28 21 0.18
29 11 0.10
30 78 0.68
31 4 0.04
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.32
Consensus pattern (29 bp):
GGGGTCAAAATGTAATTTGAGAAAGTTTA
Found at i:20570394 original size:58 final size:59
Alignment explanation
Indices: 20570295--20570454 Score: 234
Period size: 58 Copynumber: 2.7 Consensus size: 59
20570285 CAAAATTTTT
*
20570295 GGGG-CAAAAGTGTAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATGTTGAGAAAGTTTA
1 GGGGTCAAAA-TGTAATTTT-AAAAAGTTTAGGGGTTAAAATGTAATGTTGAGAAAGTTTA
* * *
20570355 GGGGTCAAAATGTAA-TTTAAAAAATTTAGGGGTTGAAATGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTTAAAAAGTTTAGGGGTTAAAATGTAATGTTGAGAAAGTTTA
*
20570413 GGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATG
1 GGGGTCAAAATGTAATTTTA-AAAAGTTTAGGGGTTAAAATG
20570455 CAAAAATAAT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
58 51 0.57
59 7 0.08
60 27 0.30
61 5 0.06
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.32
Consensus pattern (59 bp):
GGGGTCAAAATGTAATTTTAAAAAGTTTAGGGGTTAAAATGTAATGTTGAGAAAGTTTA
Found at i:20571069 original size:78 final size:76
Alignment explanation
Indices: 20570654--20571573 Score: 988
Period size: 78 Copynumber: 12.0 Consensus size: 76
20570644 CGACGTGCAA
* * * *
20570654 CCCGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAGCA-AGAACTGAAAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGA-AATTGAAAAAT
* *
20570718 ACCTC-G-ACGTGA
63 ACCTCGGCATGTGG
* * * *
20570730 CTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGGAAAAATAGAAATTGAAAAATACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACC
* *
20570795 TC-G-ACGTGA
66 TCGGCATGTGG
* * * * *
20570804 CTCGAGGCTAAACTCACATCTCGCAATATGAGTTGCTTTTTGAAAAACAGAAATT-TAAAATACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACC
* * * *
20570868 TCAGCGTGCGA
66 TCGGCATGTGG
* *
20570879 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAAAAATTGAAAAATAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAAATAC
* *
20570944 CTC-G-ACGTGA
65 CTCGGCATGTGG
* *
20570954 CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAAATTGAAAAGTA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAAAACAGAAATTGAAAAATA
20571019 CCTCGGCATGTGG
64 CCTCGGCATGTGG
* * *
20571032 GCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAATTGAAAAAT
* *
20571097 ACCTCAGCA--TGA
63 ACCTCGGCATGTGG
* *
20571109 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAAAAATTTAAAAGA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAA-TT-GAA-A
*
20571174 AATACCTCGACATGT-G
60 AATACCTCGGCATGTGG
* *
20571190 TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAAATA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--GAAAAATA
* *
20571255 CCTCGGCGTGTGA
64 CCTCGGCATGTGG
* *
20571268 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTTAAAAGAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAAT
* *
20571333 ACCTTGGCATGTGT
63 ACCTCGGCATGTGG
** *
20571347 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAACAGAAATTG-AAAATTCC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACC
* *
20571411 TCAGC--GTGA
66 TCGGCATGTGG
* * * *
20571420 CCCGAGGCTCAACTCACTTCTTGCATTATGAGTTGATTTTTGAAAAACAGAAATATAAAAGAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT-T-GAA-AAAT
20571485 ACCTCGGCATGT-G
63 ACCTCGGCATGTGG
* * * * *
20571498 ACCGAGGCTCAACTCACTTCTCGCAATATGAATTGATTTTTGAAAAACAAAAATTTAAAAGAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAAT
20571563 ACCTCGGCATG
63 ACCTCGGCATG
20571574 ACTAGAGGTG
Statistics
Matches: 737, Mismatches: 79, Indels: 54
0.85 0.09 0.06
Matches are distributed among these distances:
73 62 0.08
74 89 0.12
75 83 0.11
76 74 0.10
77 93 0.13
78 186 0.25
79 97 0.13
80 11 0.01
81 41 0.06
82 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (76 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACC
TCGGCATGTGG
Found at i:20571505 original size:230 final size:229
Alignment explanation
Indices: 20570653--20571573 Score: 1136
Period size: 230 Copynumber: 4.0 Consensus size: 229
20570643 TCGACGTGCA
* * * * *
20570653 ACCCGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAGCAAGAACTGAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAAAAATTGAAAAAT
* * * *
20570718 ACCTCGACGTGACTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGGAAAAATAGAAA
65 ACCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
* * * * **
20570783 TT-GAA-AAATACCTC-G-ACGTGACTCGAGGCTAAACTCACATCTCGCAATATGAGTTGCTTTT
130 TTAAAAGAAATACCTCGGCATGTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
* *
20570844 TGAAAAACAGAAATTT--AAAATACCTCAGCGTGCG
194 TGAAAAACAGAAATTTAAAAAATACCTCAGCATGTG
*
20570878 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAAAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAAATA
*
20570943 CCTCGACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAA
66 CCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAAAACAGAA
*
20571008 ATTGAAAAG---TACCTCGGCATGTGGGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
129 ATT-AAAAGAAATACCTCGGCATGT-GACCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A--
* * * *
20571070 TTTTTTGAAAAATA-AAAATTGAAAAATACCTCAGCA--TG
189 ATTTTTGAAAAACAGAAATTTAAAAAATACCTCAGCATGTG
*
20571108 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAAAAATTTAAAAG
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAAAAA-TT-GAA-
*
20571173 AAATACCTCGACATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
61 AAATACCTCGAC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* *
20571237 CAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
124 CAGAAATTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTT
**
20571302 AATTTTTGAAAAACAGAAATTTAAAAGAAATACCTTGGCATGTG
188 AATTTTTGAAAAACAGAAATTT-AAA-AAATACCTCAGCATGTG
* ** * *
20571346 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTAAAAAAACAGAAATTG-AAAATT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAAATA
* * *
20571409 CCTC-AGCGTGACCCGAGGCTCAACTCACTTCTTGCATTATGAGTTGATTTTTGAAAAACAGAAA
66 CCTCGA-CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
* * *
20571473 TATAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACTTCTCGCAATATGAATTGATTTT
130 T-TAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
* *
20571538 TGAAAAACAAAAATTTAAAAGAAATACCTCGGCATG
194 TGAAAAACAGAAATTT-AAA-AAATACCTCAGCATG
20571574 ACTAGAGGTG
Statistics
Matches: 616, Mismatches: 48, Indels: 59
0.85 0.07 0.08
Matches are distributed among these distances:
224 77 0.12
225 35 0.06
226 18 0.03
227 1 0.00
228 35 0.06
229 5 0.01
230 164 0.27
231 43 0.07
232 31 0.05
233 18 0.03
234 22 0.04
235 30 0.05
236 96 0.16
237 3 0.00
238 38 0.06
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (229 bp):
ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAAATA
CCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT
TAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
AAAAACAGAAATTTAAAAAATACCTCAGCATGTG
Found at i:20571790 original size:11 final size:11
Alignment explanation
Indices: 20571754--20571843 Score: 50
Period size: 11 Copynumber: 8.6 Consensus size: 11
20571744 TAAATACCAA
20571754 AAAATTATTTT
1 AAAATTATTTT
***
20571765 AAAAATTA-AAA
1 -AAAATTATTTT
20571776 AAAATTATTTT
1 AAAATTATTTT
20571787 AAAA-TATTTT
1 AAAATTATTTT
*
20571797 TAAATTA----
1 AAAATTATTTT
*
20571804 AAAA-AATTTT
1 AAAATTATTTT
*
20571814 ACAAAGTATTTT
1 A-AAATTATTTT
*
20571826 AAAAATATTTT
1 AAAATTATTTT
20571837 AAAATTA
1 AAAATTA
20571844 AAATAATTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 17
0.67 0.14 0.20
Matches are distributed among these distances:
6 1 0.02
7 3 0.05
10 17 0.29
11 24 0.41
12 13 0.22
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:20571831 original size:40 final size:40
Alignment explanation
Indices: 20571765--20571890 Score: 173
Period size: 40 Copynumber: 3.1 Consensus size: 40
20571755 AAATTATTTT
* * *
20571765 AAAAATTAAAAAAAATTATTTT-AAAATATTTTTAAATTAA
1 AAAAATT-TAAAAAAGTATTTTAAAAATATTTTAAAATTAA
* *
20571805 AAAAATTTTACAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
* *
20571845 AATAATTTAAAAAAGTATTTTAAAAGTATTTTAAAATTAA
1 AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
20571885 AAAAAT
1 AAAAAT
20571891 AAAAAATAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
39 10 0.13
40 65 0.87
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (40 bp):
AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:20571857 original size:11 final size:11
Alignment explanation
Indices: 20571801--20571880 Score: 55
Period size: 11 Copynumber: 7.5 Consensus size: 11
20571791 TATTTTTAAA
*
20571801 TTAAAAAAATT
1 TTAAAAATATT
*
20571812 TTACAAAGTATT
1 TTA-AAAATATT
20571824 TTAAAAATATT
1 TTAAAAATATT
20571835 TT--AAA-A--
1 TTAAAAATATT
20571841 TT-AAAATAATT
1 TTAAAAAT-ATT
*
20571852 TAAAAAAGTATT
1 TTAAAAA-TATT
*
20571864 TTAAAAGTATT
1 TTAAAAATATT
20571875 TTAAAA
1 TTAAAA
20571881 TTAAAAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
6 2 0.04
7 3 0.05
8 1 0.02
9 4 0.07
11 23 0.42
12 21 0.38
13 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:20573045 original size:9 final size:9
Alignment explanation
Indices: 20573033--20573084 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
20573023 TTTTTCTTTC
20573033 TTTTTTCTT-
1 TTTTTT-TTG
20573042 TTTTTTTTG
1 TTTTTTTTG
*
20573051 -CTTTTTTG
1 TTTTTTTTG
20573059 TTTTTTTTG
1 TTTTTTTTG
*
20573068 TTTTGTTTG
1 TTTTTTTTG
20573077 TTTTTTTT
1 TTTTTTTT
20573085 AGGCATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 9 0.24
9 28 0.76
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:20573054 original size:19 final size:18
Alignment explanation
Indices: 20573023--20573084 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
20573013 TTCATCTTGA
*
20573023 TTTTTCTTTCTTTTTTCT
1 TTTTTTTTTCTTTTTTCT
*
20573041 TTTTTTTTTGCTTTTTTGT
1 TTTTTTTTT-CTTTTTTCT
* *
20573060 TTTTTTTGTT-TTGTTTGT
1 TTTTTTT-TTCTTTTTTCT
20573078 TTTTTTT
1 TTTTTTT
20573085 AGGCATAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 22 0.56
19 15 0.38
20 2 0.05
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTTCT
Found at i:20580597 original size:36 final size:38
Alignment explanation
Indices: 20580543--20580615 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
20580533 TGAGAATTAA
* *
20580543 AAAAAACACGAGAATTTTGAAGCAC-AAATTTTTTTTT
1 AAAAAACACGAGAATTTTGAAACACGAAAATTTTTTTT
20580580 AAAAAA-ACGA-AATTTTTGAAACACGAAAATTTTTTT
1 AAAAAACACGAGAA-TTTTGAAACACGAAAATTTTTTT
20580616 AACACGACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 2 0.06
36 14 0.44
37 16 0.50
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.34
Consensus pattern (38 bp):
AAAAAACACGAGAATTTTGAAACACGAAAATTTTTTTT
Found at i:20580613 original size:18 final size:17
Alignment explanation
Indices: 20580589--20580973 Score: 213
Period size: 18 Copynumber: 21.7 Consensus size: 17
20580579 TAAAAAAACG
20580589 AAATTTTTGAAACACGA
1 AAATTTTTGAAACACGA
**
20580606 AAATTTTTTTAACACGA
1 AAATTTTTGAAACACGA
*
20580623 CAATTTTTGAAACAC-A
1 AAATTTTTGAAACACGA
*
20580639 AGAATTTTTCGAAATAC-A
1 A-AATTTTT-GAAACACGA
* * *
20580657 AATTTTTTTTAAAAAAACATGA
1 AA--ATTTTT---GAAACACGA
* * *
20580679 CAATTTGTGAAACACTA
1 AAATTTTTGAAACACGA
* * ** *
20580696 GAGTCGTTGAAAACACGG
1 AAATTTTTG-AAACACGA
* *
20580714 AAATTTGTGAAAAAACGA
1 AAATTTTTG-AAACACGA
*
20580732 AAATTTTTGAAACACGG
1 AAATTTTTGAAACACGA
20580749 AAATTTTTAGAAAACACGA
1 AAATTTTT-G-AAACACGA
20580768 AAATTTTTGAAACAC-A
1 AAATTTTTGAAACACGA
*
20580784 TGAATTTTTGAAAACACGA
1 -AAATTTTTG-AAACACGA
** *
20580803 GGATTTTT-ACAGCACGA
1 AAATTTTTGA-AACACGA
** * *
20580820 ATTTTTTTTAAATACGA
1 AAATTTTTGAAACACGA
*
20580837 AAATTTTTGAAAACACGG
1 AAATTTTTG-AAACACGA
20580855 AAATTTTTGAAACATC-A
1 AAATTTTTGAAACA-CGA
*
20580872 ACATTTTTGAAAACACGA
1 AAATTTTTG-AAACACGA
** *
20580890 GGATTTTTGAAAACACAA
1 AAATTTTTG-AAACACGA
*
20580908 AAATTTTTGAAAACACAA
1 AAATTTTTG-AAACACGA
* *
20580926 AAATTTTTAAAACACGGG
1 AAATTTTTGAAACAC-GA
* *
20580944 AATTTTTTGAAATCATGA
1 AAATTTTTGAAA-CACGA
*
20580962 AAACTTTTGAAA
1 AAATTTTTGAAA
20580974 AATAGATTTT
Statistics
Matches: 282, Mismatches: 65, Indels: 41
0.73 0.17 0.11
Matches are distributed among these distances:
16 3 0.01
17 115 0.41
18 131 0.46
19 23 0.08
20 4 0.01
21 4 0.01
22 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
AAATTTTTGAAACACGA
Found at i:20580616 original size:36 final size:36
Alignment explanation
Indices: 20580543--20580647 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 36
20580533 TGAGAATTAA
* * *
20580543 AAAAAACACGAGAA-TTTTGAAGCACAAATTTTTTTTT
1 AAAAAA-ACGACAATTTTTGAAACACAAA-ATTTTTTT
20580580 AAAAAAACGA-AATTTTTGAAACACGAAAATTTTTTT
1 AAAAAAACGACAATTTTTGAAACAC-AAAATTTTTTT
*
20580616 ---AACACGACAATTTTTGAAACACAAGAATTTTT
1 AAAAAAACGACAATTTTTGAAACACAA-AATTTTT
20580648 CGAAATACAA
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
33 8 0.13
34 21 0.34
35 2 0.03
36 21 0.34
37 9 0.15
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (36 bp):
AAAAAAACGACAATTTTTGAAACACAAAATTTTTTT
Found at i:20580955 original size:36 final size:36
Alignment explanation
Indices: 20580702--20580940 Score: 168
Period size: 35 Copynumber: 6.8 Consensus size: 36
20580692 ACTAGAGTCG
** * * *
20580702 TTGAAAACACGGAAATTTGTGAAAAAACGAAAATTT
1 TTGAAAACACAAAAATTTTTGAAAACACAAAAATTT
** *
20580738 TTG-AAACACGGAAATTTTTAGAAAACACGAAAATTT
1 TTGAAAACACAAAAATTTTT-GAAAACACAAAAATTT
** * **
20580774 TTG-AAACACATGAATTTTTGAAAACACGAGGATTT
1 TTGAAAACACAAAAATTTTTGAAAACACAAAAATTT
* * * * ** * *
20580809 TT-ACAGCAC-GAATTTTTTTTAAATACGAAAATTT
1 TTGAAAACACAAAAATTTTTGAAAACACAAAAATTT
** *
20580843 TTGAAAACACGGAAATTTTTG-AAACATC-AACATTT
1 TTGAAAACACAAAAATTTTTGAAAACA-CAAAAATTT
* **
20580878 TTGAAAACACGAGGATTTTTGAAAACACAAAAATTT
1 TTGAAAACACAAAAATTTTTGAAAACACAAAAATTT
20580914 TTGAAAACACAAAAATTTTT-AAAACAC
1 TTGAAAACACAAAAATTTTTGAAAACAC
20580941 GGGAATTTTT
Statistics
Matches: 166, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
34 19 0.11
35 76 0.46
36 71 0.43
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (36 bp):
TTGAAAACACAAAAATTTTTGAAAACACAAAAATTT
Found at i:20581229 original size:19 final size:20
Alignment explanation
Indices: 20581205--20581267 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
20581195 GTTGCCTTAT
* *
20581205 TTTTTTGAAA-ACGCGAATA
1 TTTTTTGAAACACGAGAAAA
20581224 TTTTTTGAAACACGAGAAAA
1 TTTTTTGAAACACGAGAAAA
*
20581244 ATTTTTGAAGACACGA-AAAA
1 TTTTTTGAA-ACACGAGAAAA
20581264 TTTT
1 TTTT
20581268 GAAAAATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 10 0.26
20 22 0.58
21 6 0.16
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (20 bp):
TTTTTTGAAACACGAGAAAA
Found at i:20581248 original size:20 final size:19
Alignment explanation
Indices: 20581206--20581271 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
20581196 TTGCCTTATT
* *
20581206 TTTTTGAAA-ACGCGAATAT
1 TTTTTGAAACACG-GAAAAA
20581225 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
20581245 TTTTTGAAGACAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
20581264 -TTTTGAAA
1 TTTTTGAAA
20581272 AATATAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.02
18 7 0.17
19 15 0.36
20 15 0.36
21 4 0.10
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:20581643 original size:11 final size:12
Alignment explanation
Indices: 20581629--20581688 Score: 63
Period size: 11 Copynumber: 5.1 Consensus size: 12
20581619 ATTTTTTTAT
20581629 TTTTTTTC-CTC
1 TTTTTTTCTCTC
* *
20581640 TTTTTTTCTTTT
1 TTTTTTTCTCTC
20581652 TCTTTTTTCTCTC
1 T-TTTTTTCTCTC
20581665 TTTTTTTCT-T-
1 TTTTTTTCTCTC
20581675 TTTGTTTTCTCTC
1 TTT-TTTTCTCTC
20581688 T
1 T
20581689 GCTGGGCTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 3 0.08
11 15 0.38
12 11 0.28
13 11 0.28
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTTCTCTC
Found at i:20581645 original size:14 final size:14
Alignment explanation
Indices: 20581628--20581675 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
20581618 TATTTTTTTA
*
20581628 TTTTTT-TTCCTCT
1 TTTTTTCTTTCTCT
*
20581641 TTTTTTCTTTTTC-
1 TTTTTTCTTTCTCT
20581654 TTTTTTC--TCTCT
1 TTTTTTCTTTCTCT
20581666 TTTTTTCTTT
1 TTTTTTCTTT
20581676 TTGTTTTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
11 3 0.11
12 7 0.25
13 13 0.46
14 5 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTTCTCT
Found at i:20581651 original size:25 final size:25
Alignment explanation
Indices: 20581630--20581688 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
20581620 TTTTTTTATT
20581630 TTTTTTC-CTCTTTTTTTCTTTTTC
1 TTTTTTCTCTCTTTTTTTCTTTTTC
*
20581654 TTTTTTCTCTCTTTTTTTCTTTTTG
1 TTTTTTCTCTCTTTTTTTCTTTTTC
*
20581679 TTTTCTCTCT
1 TTTTTTCTCT
20581689 GCTGGGCTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (25 bp):
TTTTTTCTCTCTTTTTTTCTTTTTC
Found at i:20581683 original size:23 final size:22
Alignment explanation
Indices: 20581620--20581688 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 22
20581610 CCCTTTTTTA
*
20581620 TTTTTTT-ATTTTTTTTC-CTC
1 TTTTTTTCTTTTTTTTTCTCTC
20581640 TTTTTTTCTTTTTCTTTTTTCTCTC
1 TTTTTTTC--TTT-TTTTTTCTCTC
20581665 TTTTTTTCTTTTTGTTTTCTCTC
1 TTTTTTTCTTTTT-TTTTCTCTC
20581688 T
1 T
20581689 GCTGGGCTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 7 0.17
22 2 0.05
23 15 0.36
24 7 0.17
25 11 0.26
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (22 bp):
TTTTTTTCTTTTTTTTTCTCTC
Found at i:20581959 original size:25 final size:21
Alignment explanation
Indices: 20581926--20582012 Score: 120
Period size: 21 Copynumber: 3.9 Consensus size: 21
20581916 GAAAAAATAT
20581926 TTTTTTCTTTCTTTCTTCTTCCTC
1 TTTTTTCTTT-TTTCTTCTT--TC
20581950 TTTTCTTCTTTCTTTCTTCTTTC
1 TTTT-TTCTTT-TTTCTTCTTTC
*
20581973 TTTTTTCTTTTTTCTTTTTTC
1 TTTTTTCTTTTTTCTTCTTTC
20581994 TTTTTTCTTTTTTCTTCTT
1 TTTTTTCTTTTTTCTTCTT
20582013 CGTTCAACCC
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
21 28 0.47
22 6 0.10
23 6 0.10
24 4 0.07
25 16 0.27
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTCTTTTTTCTTCTTTC
Found at i:20581961 original size:7 final size:7
Alignment explanation
Indices: 20581926--20582009 Score: 105
Period size: 7 Copynumber: 11.3 Consensus size: 7
20581916 GAAAAAATAT
20581926 TTTTTTC
1 TTTTTTC
20581933 TTTCTTTC
1 TTT-TTTC
*
20581941 TTCTTCCTC
1 TT-TT-TTC
20581950 TTTTCTTC
1 TTTT-TTC
20581958 TTTCTTTC
1 TTT-TTTC
*
20581966 TTCTTTC
1 TTTTTTC
20581973 TTTTTTC
1 TTTTTTC
20581980 TTTTTTC
1 TTTTTTC
20581987 TTTTTTC
1 TTTTTTC
20581994 TTTTTTC
1 TTTTTTC
20582001 TTTTTTC
1 TTTTTTC
20582008 TT
1 TT
20582010 CTTCGTTCAA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
7 43 0.62
8 20 0.29
9 6 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:20582193 original size:20 final size:21
Alignment explanation
Indices: 20582160--20582200 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
20582150 TGGGGGGTTT
*
20582160 TTGATTTTGATTTTTTTTGGC
1 TTGATTTTGATTTTCTTTGGC
*
20582181 TTGA-TTTGCTTTTCTTTGGC
1 TTGATTTTGATTTTCTTTGGC
20582201 AATGGGAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.07, C:0.10, G:0.20, T:0.63
Consensus pattern (21 bp):
TTGATTTTGATTTTCTTTGGC
Found at i:20582547 original size:30 final size:30
Alignment explanation
Indices: 20582500--20582662 Score: 211
Period size: 30 Copynumber: 5.4 Consensus size: 30
20582490 CAAAATTTTT
*
20582500 GGGGGCAAAAGTGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAA-TGTAATTTTGAGAAAGTTTA
*
20582531 GGGGTTAAAATGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTTGAGAAAGTTTA
* * *
20582561 AGGGTCAAAATGTAATTTTAAAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGAGAAAGTTTA
**
20582591 GGGGTTGAAATGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTTGAGAAAGTTTA
* *
20582621 GTGGTCAAAATGTAATTTT-AGAAAAGTTCA
1 GGGGTCAAAATGTAATTTTGAG-AAAGTTTA
*
20582651 AGGGTCAAAATG
1 GGGGTCAAAATG
20582663 CAAAAATAAT
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
29 2 0.02
30 104 0.91
31 8 0.07
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.33
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGAGAAAGTTTA
Found at i:20594120 original size:36 final size:36
Alignment explanation
Indices: 20594073--20594294 Score: 300
Period size: 36 Copynumber: 5.9 Consensus size: 36
20594063 GCTAAGCTAC
* *
20594073 CACTTATCACTTTATCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
20594109 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
20594145 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
20594181 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCCAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAA--GT------A--TAA
* * *
20594227 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
20594263 CACTTATCACTTTTTCACTTGATCAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
20594295 GTAGCCAAAG
Statistics
Matches: 167, Mismatches: 9, Indels: 20
0.85 0.05 0.10
Matches are distributed among these distances:
36 132 0.79
38 2 0.01
44 3 0.02
46 30 0.18
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
Found at i:20594190 original size:72 final size:74
Alignment explanation
Indices: 20594073--20594294 Score: 304
Period size: 82 Copynumber: 2.9 Consensus size: 74
20594063 GCTAAGCTAC
*
20594073 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
20594138 AGT-A-TAA
66 AGTAACTAA
*
20594145 CACTTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
*
20594210 AGTGTAGCCAAAGCTAC
66 A--GT-----AA-CTAA
* * *
20594227 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAACACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
20594292 AGT
66 AGT
20594295 GTAGCCAAAG
Statistics
Matches: 134, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
72 64 0.48
74 2 0.01
80 3 0.02
82 65 0.49
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (74 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
AGTAACTAA
Found at i:20594232 original size:46 final size:46
Alignment explanation
Indices: 20594181--20594335 Score: 204
Period size: 46 Copynumber: 3.6 Consensus size: 46
20594171 ATAAGTATAA
20594181 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCCAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCCAAAGCTAC
* *
20594227 CACTTATCACTTTGTCTCTTGATCAGATAAGTGT------A---A-
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCCAAAGCTAC
20594263 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCCAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCCAAAGCTAC
* *
20594309 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
20594336 AGTACTCAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
36 32 0.34
37 1 0.01
40 1 0.01
42 1 0.01
45 1 0.01
46 57 0.61
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCCAAAGCTAC
Found at i:20594239 original size:82 final size:82
Alignment explanation
Indices: 20594145--20594335 Score: 346
Period size: 82 Copynumber: 2.3 Consensus size: 82
20594135 ATAAGTATAA
* *
20594145 CACTTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
20594210 AGTGTAGCCAAAGCTAC
66 AGTGTAGCCAAAGCTAC
* *
20594227 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAACACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
20594292 AGTGTAGCCAAAGCTAC
66 AGTGTAGCCAAAGCTAC
20594309 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCTCTTGATCAGA
20594336 AGTACTCAAA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 105 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
AGTGTAGCCAAAGCTAC
Found at i:20603153 original size:50 final size:50
Alignment explanation
Indices: 20603038--20603230 Score: 296
Period size: 50 Copynumber: 3.8 Consensus size: 50
20603028 GATAATAACA
* ** *
20603038 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
20603089 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
20603139 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
20603189 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
20603231 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 96 0.74
51 33 0.26
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:20603346 original size:13 final size:13
Alignment explanation
Indices: 20603325--20603355 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20603315 GCTTAGATCA
*
20603325 TCATCAAATAAAT
1 TCATAAAATAAAT
20603338 TCATAAAATAAAT
1 TCATAAAATAAAT
20603351 TCATA
1 TCATA
20603356 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:20613073 original size:103 final size:103
Alignment explanation
Indices: 20612888--20613076 Score: 351
Period size: 103 Copynumber: 1.8 Consensus size: 103
20612878 NNNNNNNNNG
*
20612888 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
1 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGG
*
20612953 TGCTAAGTGCGATATCCACCATATCTTTGAAATAAAAA
66 TGCTAAGTGCGAGATCCACCATATCTTTGAAATAAAAA
20612991 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGG
1 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGG
*
20613056 TGCTAAGTGCGGGATCCACCA
66 TGCTAAGTGCGAGATCCACCA
20613077 ATAACGGCTA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 83 1.00
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.29
Consensus pattern (103 bp):
GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGG
TGCTAAGTGCGAGATCCACCATATCTTTGAAATAAAAA
Found at i:20620444 original size:42 final size:42
Alignment explanation
Indices: 20620379--20620487 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
20620369 GCCTGGACAT
* * *
20620379 ACACCAATGTCCTTGTCCATGTGGCTCACACGGCTTGGGCAC
1 ACACCCATGTCCTTGTCCGTGTGGCTCACACAGCTTGGGCAC
*
20620421 ACGCCCATGTCCTTGTCCGTGTGGCTCACACAGCTTGGGCAC
1 ACACCCATGTCCTTGTCCGTGTGGCTCACACAGCTTGGGCAC
* *
20620463 ACACCTATGTCCTCTGCCCGTGTGG
1 ACACCCATGTCCT-TGTCCGTGTGG
20620488 TTCTAAAACA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 49 0.83
43 10 0.17
ACGTcount: A:0.16, C:0.35, G:0.25, T:0.25
Consensus pattern (42 bp):
ACACCCATGTCCTTGTCCGTGTGGCTCACACAGCTTGGGCAC
Found at i:20620641 original size:104 final size:106
Alignment explanation
Indices: 20620456--20620646 Score: 244
Period size: 104 Copynumber: 1.8 Consensus size: 106
20620446 TCACACAGCT
* * *
20620456 TGGGCACACACCTATGTCCTCTGCCCGTGTGGTTCTAAAACATAAACAGTGAGTTACACGATCTA
1 TGGGCACACACCCATGTCCTCTGCCCGTGCGGTCCTAAAACATAAACAGTGAGTTACACGATCTA
*
20620521 GACAAACGCCCATGTCT-TTGCCCGTATGACTCACACGACC
66 GACAAACACCCATGTCTGTTGCCCGTATGACTCACACGACC
* * ** *
20620561 TGGGCACACACCCATGTCC-CTGGCTGTGCGGTCCTAAGTCATAAACAGTGAGTTACACG-GCTT
1 TGGGCACACACCCATGTCCTCTGCCCGTGCGGTCCTAAAACATAAACAGTGAGTTACACGATC-T
* * *
20620624 AGACACACACTCGTGTCTGTTGC
65 AGACAAACACCCATGTCTGTTGC
20620647 ACATGTGAAC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
103 1 0.01
104 49 0.68
105 22 0.31
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (106 bp):
TGGGCACACACCCATGTCCTCTGCCCGTGCGGTCCTAAAACATAAACAGTGAGTTACACGATCTA
GACAAACACCCATGTCTGTTGCCCGTATGACTCACACGACC
Found at i:20622535 original size:9 final size:9
Alignment explanation
Indices: 20622512--20622557 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
20622502 ACCGAAGAAA
*
20622512 CATCATCAT
1 CATCATCGT
*
20622521 CCTCATCGT
1 CATCATCGT
20622530 CATCATCGT
1 CATCATCGT
*
20622539 CGTCATCGT
1 CATCATCGT
*
20622548 CGTCATCGT
1 CATCATCGT
20622557 C
1 C
20622558 CTTTTTGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.17, C:0.37, G:0.13, T:0.33
Consensus pattern (9 bp):
CATCATCGT
Found at i:20622535 original size:18 final size:18
Alignment explanation
Indices: 20622512--20622559 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
20622502 ACCGAAGAAA
*
20622512 CATCATCATCCTCATCGT
1 CATCATCGTCCTCATCGT
*
20622530 CATCATCGTCGTCATCGT
1 CATCATCGTCCTCATCGT
*
20622548 CGTCATCGTCCT
1 CATCATCGTCCT
20622560 TTTTGCAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.38, G:0.12, T:0.33
Consensus pattern (18 bp):
CATCATCGTCCTCATCGT
Found at i:20626969 original size:22 final size:23
Alignment explanation
Indices: 20626944--20626988 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
20626934 AGTTGAAAAG
20626944 GCACAAAATAA-TTTAGACTAAT
1 GCACAAAATAATTTTAGACTAAT
20626966 GCACAAAATAATTTTAGACTAAT
1 GCACAAAATAATTTTAGACTAAT
20626989 TAATGTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (23 bp):
GCACAAAATAATTTTAGACTAAT
Found at i:20631382 original size:6 final size:6
Alignment explanation
Indices: 20631371--20631413 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
20631361 TACCAATAAA
* *
20631371 ATAATT ATAATT ATAATT ATAATT GTAATT GTAATT ATTAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT A-TAATT
20631414 GATTCTAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (6 bp):
ATAATT
Found at i:20634520 original size:22 final size:24
Alignment explanation
Indices: 20634474--20634521 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
20634464 ATTTTTGTAC
*
20634474 GTTTAGGGTTTAACAAATTTATTT
1 GTTTAAGGTTTAACAAATTTATTT
*
20634498 GTTTAAGGTTT-ATAAA-TTATTT
1 GTTTAAGGTTTAACAAATTTATTT
20634520 GT
1 GT
20634522 AGAAGGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 4 0.18
24 10 0.45
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (24 bp):
GTTTAAGGTTTAACAAATTTATTT
Found at i:20638158 original size:10 final size:11
Alignment explanation
Indices: 20638134--20638159 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20638124 AATTACTAAC
20638134 AAAATAAGTTA
1 AAAATAAGTTA
20638145 AAAATAAGTTA
1 AAAATAAGTTA
20638156 AAAA
1 AAAA
20638160 CAACATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (11 bp):
AAAATAAGTTA
Found at i:20645198 original size:6 final size:7
Alignment explanation
Indices: 20645169--20645195 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
20645159 GTATTCATGA
20645169 ATTTTTT
1 ATTTTTT
20645176 ATTTTTT
1 ATTTTTT
20645183 ATTTTTT
1 ATTTTTT
20645190 ATTTTT
1 ATTTTT
20645196 ATTCAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:20648917 original size:34 final size:34
Alignment explanation
Indices: 20648850--20648919 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
20648840 AAAGGGCCAG
* * *
20648850 AGAGGACATGCCACGTGGCGATGCACAATTGGCC
1 AGAGGACACGCCACGTGGCGACGCACAAGTGGCC
* * *
20648884 AGAGGACACGCCACGTGGTGGCGCATAAGTGGCC
1 AGAGGACACGCCACGTGGCGACGCACAAGTGGCC
20648918 AG
1 AG
20648920 CGTTGCTACG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (34 bp):
AGAGGACACGCCACGTGGCGACGCACAAGTGGCC
Found at i:20650954 original size:2 final size:2
Alignment explanation
Indices: 20650947--20650992 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
20650937 NNNNNNNNNN
20650947 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
20650989 AT AT
1 AT AT
20650993 TATGTTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20655732 original size:3 final size:3
Alignment explanation
Indices: 20655724--20655750 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20655714 ATTGGGGTTC
20655724 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
20655751 AGCCTCGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:20658724 original size:3 final size:3
Alignment explanation
Indices: 20658716--20658744 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20658706 TACCTTGTTG
20658716 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
20658745 AGCTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:20673254 original size:25 final size:26
Alignment explanation
Indices: 20673225--20673274 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
20673215 TACAACCTTA
*
20673225 CTTAAAA-AAAATTAAATTATCAAGC
1 CTTAAAAGAAAATTAAAATATCAAGC
**
20673250 CTTAAAAGAATTTTAAAATATCAAG
1 CTTAAAAGAAAATTAAAATATCAAG
20673275 TAAGAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (26 bp):
CTTAAAAGAAAATTAAAATATCAAGC
Found at i:20683518 original size:3 final size:3
Alignment explanation
Indices: 20683512--20683537 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20683502 TTTTCAGACA
20683512 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
20683538 ATAGGGTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20692258 original size:17 final size:16
Alignment explanation
Indices: 20692233--20692266 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
20692223 ATTACAATAG
20692233 CATAGAAATAATGTAAA
1 CATAGAAATAATG-AAA
*
20692250 CATATAAATAATGAAA
1 CATAGAAATAATGAAA
20692266 C
1 C
20692267 TAACATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (16 bp):
CATAGAAATAATGAAA
Found at i:20692339 original size:19 final size:20
Alignment explanation
Indices: 20692303--20692340 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20692293 GACATGCAAG
20692303 AATATCAAATAAATAAACAA
1 AATATCAAATAAATAAACAA
20692323 AATAT-AAATGAAA-AAACA
1 AATATCAAAT-AAATAAACA
20692341 TAAGCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.18
Consensus pattern (20 bp):
AATATCAAATAAATAAACAA
Found at i:20692611 original size:18 final size:19
Alignment explanation
Indices: 20692584--20692633 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
20692574 TAAAAATATT
* *
20692584 AATATGTATACATA-CATA
1 AATATATATACATAGAATA
*
20692602 TATATATATACA-AGAATA
1 AATATATATACATAGAATA
20692620 AATATATATACATA
1 AATATATATACATA
20692634 TATAGATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (19 bp):
AATATATATACATAGAATA
Found at i:20692672 original size:19 final size:21
Alignment explanation
Indices: 20692639--20692689 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
20692629 ACATATATAG
*
20692639 ATTATAAAAATAATTACA-TAT
1 ATTA-AAAAAAAATTACATTAT
20692660 A-TAAAAAAAAATTACATTAT
1 ATTAAAAAAAAATTACATTAT
20692680 ATTAAAAAAA
1 ATTAAAAAAA
20692690 TAAATATGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 12 0.44
20 6 0.22
21 9 0.33
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
ATTAAAAAAAAATTACATTAT
Found at i:20692685 original size:108 final size:109
Alignment explanation
Indices: 20692573--20692798 Score: 253
Period size: 108 Copynumber: 2.1 Consensus size: 109
20692563 AAAAAAATGG
* * * * * * *
20692573 TTAAAAATATTAATATGTATACATACATATATATATATACAAGAA-TAAATATATATACATATAT
1 TTAAAAAAATAAATATGCATACATACATAAATATATA-AAAAAAACTAAATATATATACATACAT
* *
20692637 AGATTATAAAAATAATTACATAT-ATAA-AAAAAAATTACATT-ATA
65 AGATT-TAAAAATAATTAAATATGAAAATAAAAAAATTA-ATTAATA
* * * * * *
20692681 TTAAAAAAATAAATATGCGTATATATATAAATATGTAAAAAAAACTATATGTATATACATACATA
1 TTAAAAAAATAAATATGCATACATACATAAATATATAAAAAAAACTAAATATATATACATACATA
20692746 GATTTAAAAATAATTAAATATGAAAATAAAAAAATTAATTAATA
66 GATTTAAAAATAATTAAATATGAAAATAAAAAAATTAATTAATA
*
20692790 ATAAAAAAA
1 TTAAAAAAA
20692799 GGAAAACAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
107 21 0.21
108 56 0.57
109 21 0.21
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (109 bp):
TTAAAAAAATAAATATGCATACATACATAAATATATAAAAAAAACTAAATATATATACATACATA
GATTTAAAAATAATTAAATATGAAAATAAAAAAATTAATTAATA
Found at i:20697905 original size:14 final size:14
Alignment explanation
Indices: 20697886--20697925 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
20697876 TTGATTGCCA
20697886 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
20697900 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
20697914 GAAAAATGTTTT
1 GTAAAATGTTTT
20697926 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:20699217 original size:19 final size:19
Alignment explanation
Indices: 20699195--20699231 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
20699185 CCTAACACAC
20699195 TAGACAATAACTAATACAT
1 TAGACAATAACTAATACAT
20699214 TAGACAATAACTAATACA
1 TAGACAATAACTAATACA
20699232 GAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.24
Consensus pattern (19 bp):
TAGACAATAACTAATACAT
Found at i:20713492 original size:33 final size:31
Alignment explanation
Indices: 20713428--20713500 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 31
20713418 GGTTTTTGCA
* *
20713428 GCTAAGATGGTACCTTCTATGCGTTTTTGCT
1 GCTAAGATGGTACCTTCTATGCATTTCTGCT
20713459 GCTAAGATGGTACCGCTTCTATTG-ATTTCTGCT
1 GCTAAGATGGTA-C-CTTCTA-TGCATTTCTGCT
20713492 GCTAA-ATGG
1 GCTAAGATGG
20713501 GAAATAGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 12 0.32
32 5 0.14
33 18 0.49
34 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GCTAAGATGGTACCTTCTATGCATTTCTGCT
Found at i:20714338 original size:13 final size:13
Alignment explanation
Indices: 20714306--20714339 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
20714296 TCTTAATAAT
20714306 AATATTA-TATTA
1 AATATTATTATTA
20714318 AA-ATTATTATTA
1 AATATTATTATTA
20714330 AATATTATTA
1 AATATTATTA
20714340 AAAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:20714360 original size:23 final size:23
Alignment explanation
Indices: 20714306--20714364 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
20714296 TCTTAATAAT
* *
20714306 AATATTATATTAAAATTATTATTA
1 AATATTAT-TAAAAATTATTAGTA
20714330 AATATTATTAAAAATTTATTAGT-
1 AATATTATTAAAAA-TTATTAGTA
*
20714353 AATGTTATTAAA
1 AATATTATTAAA
20714365 TTATATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.52
24 15 0.48
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (23 bp):
AATATTATTAAAAATTATTAGTA
Found at i:20714530 original size:9 final size:9
Alignment explanation
Indices: 20714508--20714947 Score: 299
Period size: 9 Copynumber: 49.3 Consensus size: 9
20714498 CACTTGTACA
*
20714508 TTACAAAAC
1 TTACATAAC
20714517 TTACATAAC
1 TTACATAAC
*
20714526 CTACATAAC
1 TTACATAAC
20714535 TTACATAAC
1 TTACATAAC
20714544 TTACATAAC
1 TTACATAAC
20714553 TTACATAA-
1 TTACATAAC
*
20714561 -TACAAAAC
1 TTACATAAC
*
20714569 TCACATAAC
1 TTACATAAC
* *
20714578 TTAAATATAT
1 TTACATA-AC
20714588 TTAACAATAATC
1 TT-AC-ATAA-C
* * *
20714600 TTATTAAAAT
1 TTA-CATAAC
20714610 TTA-ATAAC
1 TTACATAAC
*
20714618 AATTACCTGACAC
1 --TTACAT-A-AC
*
20714631 TT--GT-AC
1 TTACATAAC
*
20714637 ATTACAAAAC
1 -TTACATAAC
20714647 TTACATAAC
1 TTACATAAC
*
20714656 CTACATAAC
1 TTACATAAC
20714665 TTACATAAC
1 TTACATAAC
20714674 TTACATAA-
1 TTACATAAC
*
20714682 -TACAAAAC
1 TTACATAAC
*
20714690 TCACATAAC
1 TTACATAAC
* *
20714699 TTAAATATC
1 TTACATAAC
*
20714708 TTACACAAC
1 TTACATAAC
20714717 TTACATAAC
1 TTACATAAC
*
20714726 CTACATAA-
1 TTACATAAC
**
20714734 TATATTTAAC
1 T-TACATAAC
20714744 TTACATAAC
1 TTACATAAC
20714753 TTACATAAC
1 TTACATAAC
20714762 TTACATAATAC
1 TTACAT-A-AC
*
20714773 ATA-ATAAC
1 TTACATAAC
20714781 TTAC--AAC
1 TTACATAAC
20714788 TTACATAAC
1 TTACATAAC
* *
20714797 ATACATTAC
1 TTACATAAC
**
20714806 TTTGATAAC
1 TTACATAAC
20714815 TTACATAAC
1 TTACATAAC
20714824 TTACATAA-
1 TTACATAAC
*
20714832 -TACACAAC
1 TTACATAAC
20714840 TTACATAAC
1 TTACATAAC
*
20714849 TTACTTAA-
1 TTACATAAC
20714857 -TACATAAC
1 TTACATAAC
20714865 TTACATAAC
1 TTACATAAC
20714874 TT--ATACAC
1 TTACATA-AC
*
20714882 GTACATAAC
1 TTACATAAC
20714891 TTACATAA-
1 TTACATAAC
*
20714899 TT-TATACAC
1 TTACATA-AC
**
20714908 GGACATAAC
1 TTACATAAC
20714917 TTACATACAC
1 TTACATA-AC
*
20714927 GTACATAAC
1 TTACATAAC
20714936 TTACATAAC
1 TTACATAAC
20714945 TTA
1 TTA
20714948 TACCCTTGTA
Statistics
Matches: 332, Mismatches: 63, Indels: 72
0.71 0.13 0.15
Matches are distributed among these distances:
6 2 0.01
7 39 0.12
8 13 0.04
9 228 0.69
10 29 0.09
11 13 0.04
12 6 0.02
13 2 0.01
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:20714888 original size:17 final size:17
Alignment explanation
Indices: 20714866--20714938 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 17
20714856 ATACATAACT
20714866 TACATAACTTATACACG
1 TACATAACTTATACACG
20714883 TACATAAC-T-TACA--
1 TACATAACTTATACACG
20714896 TA-AT---TTATACACG
1 TACATAACTTATACACG
*
20714909 GACATAACTTACATACACG
1 TACATAACTT--ATACACG
20714928 TACATAACTTA
1 TACATAACTTA
20714939 CATAACTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 20
0.67 0.03 0.30
Matches are distributed among these distances:
10 1 0.02
11 4 0.09
12 2 0.05
13 3 0.07
14 2 0.05
15 4 0.09
16 1 0.02
17 11 0.25
19 16 0.36
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.30
Consensus pattern (17 bp):
TACATAACTTATACACG
Found at i:20714893 original size:26 final size:26
Alignment explanation
Indices: 20714810--20714950 Score: 133
Period size: 26 Copynumber: 5.8 Consensus size: 26
20714800 CATTACTTTG
* * *
20714810 ATAACTTACATAACTTACATA-ATAC
1 ATAACTTACATAACTTATACACGTAC
*
20714835 ACAACTTACATAACTTACTTA-A--TAC
1 ATAACTTACATAACTTA--TACACGTAC
20714860 ATAACTTACATAACTTATACACGTAC
1 ATAACTTACATAACTTATACACGTAC
* *
20714886 ATAACTTACATAATTTATACACGGAC
1 ATAACTTACATAACTTATACACGTAC
20714912 ATAAC-T---T-AC--ATACACGTAC
1 ATAACTTACATAACTTATACACGTAC
20714931 ATAACTTACATAACTTATAC
1 ATAACTTACATAACTTATAC
20714951 CCTTGTAATT
Statistics
Matches: 97, Mismatches: 7, Indels: 23
0.76 0.06 0.18
Matches are distributed among these distances:
19 14 0.14
20 1 0.01
21 1 0.01
22 1 0.01
23 3 0.03
24 3 0.03
25 36 0.37
26 37 0.38
27 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (26 bp):
ATAACTTACATAACTTATACACGTAC
Found at i:20714926 original size:19 final size:19
Alignment explanation
Indices: 20714902--20714942 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
20714892 TACATAATTT
20714902 ATACACGGACATAACTTAC
1 ATACACGGACATAACTTAC
*
20714921 ATACACGTACATAACTTAC
1 ATACACGGACATAACTTAC
20714940 ATA
1 ATA
20714943 ACTTATACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.24
Consensus pattern (19 bp):
ATACACGGACATAACTTAC
Found at i:20720489 original size:21 final size:21
Alignment explanation
Indices: 20720463--20720533 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
20720453 CTACAACTTA
* *
20720463 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
20720484 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
20720505 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
20720526 AAGCAGAG
1 AAGCAGAG
20720534 CAGAGTAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.48, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:20723904 original size:108 final size:108
Alignment explanation
Indices: 20723715--20723911 Score: 333
Period size: 108 Copynumber: 1.8 Consensus size: 108
20723705 AGAGGACGTC
* ** *
20723715 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTCTTATGGTAAAAATTTTTATTTTGT
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTTTCTTATGCAAAAAATTTTTATTTTAT
20723780 TTTTTATAAATTGATTTATTTTTTGTTTGTGGCGTTTTTATGT
66 TTTTTATAAATTGATTTATTTTTTGTTTGTGGCGTTTTTATGT
*
20723823 GCAAAAAATTATTTCATTTTGAACAAAATGATGCCATTCTTCTTAT-CAAAAAATTTTTATTTTA
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATT-TTCTTATGCAAAAAATTTTTATTTTA
20723887 TTTTTTATAAATTGATTTATTTTTT
65 TTTTTTATAAATTGATTTATTTTTT
20723912 ACGACGTTTT
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
108 76 0.92
109 7 0.08
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.51
Consensus pattern (108 bp):
GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTTTCTTATGCAAAAAATTTTTATTTTAT
TTTTTATAAATTGATTTATTTTTTGTTTGTGGCGTTTTTATGT
Found at i:20724063 original size:96 final size:96
Alignment explanation
Indices: 20723958--20724143 Score: 318
Period size: 96 Copynumber: 1.9 Consensus size: 96
20723948 ATAAAAACGC
* *
20723958 CGCAAAAAATTATTTCATTTTGAACAAAATGATGTCGTTTTGCTATGCTAAAAATTTTTTATTTT
1 CGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT
*
20724023 GTTTTTTATAAATTCATTTATTTTTTGTTTG
66 GTATTTTATAAATTCATTTATTTTTTGTTTG
* *
20724054 CGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGTTATGCTAAAATTTTTTTATTTT
1 CGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT
*
20724119 GTATTTTATAAATTGATTTATTTTT
66 GTATTTTATAAATTCATTTATTTTT
20724144 GCGGCATTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (96 bp):
CGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT
GTATTTTATAAATTCATTTATTTTTTGTTTG
Found at i:20724234 original size:224 final size:229
Alignment explanation
Indices: 20723823--20724265 Score: 603
Period size: 224 Copynumber: 1.9 Consensus size: 229
20723813 GTTTTTATGT
*
20723823 GCAAAAAATTATTTCATTTTGAACAAAATGATGCCATTCTTCTTATCAAAAAATTTTTATTTTAT
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTCTTCTTATCAAAAAATTTTTATTTTAT
* *
20723888 TTTTTATAAATTGATTTATTTTTTACGACGTTTTTCATAAAAACGCCGCTATTGCTTATTATAAA
66 ATTTTATAAATTGATTTATTTTTTACGACATTTTTCATAAAAACGCCGCTATTGCTTATTAT---
* * * * * **
20723953 AACGCCGCAAAAAATTATTTCATTTTGAACAAAATGATGTCGTTTTGCTATGCTAAAAATTTTTT
128 AACGCCGCAAAAAATTATTTCATTTTGAACAAAACGACGCCATTTTGCTACGCTAAAAAAATTTT
20724018 ATTTTGTTTTTTATAAATTCATTTATTTTTTGTTTGC
193 ATTTTGTTTTTTATAAATTCATTTATTTTTTGTTTGC
* * **
20724055 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTT-TTGTTATGCTAAAATTTTTTTATTTT
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTCTTCTTAT-C-AAAAAATTTTTATTTT
* * *
20724119 GTATTTTATAAATTGATTTA-TTTTTGCGGCATTTTT-A-AAAAACGCCGCT-TTGCTTA-TAT-
64 ATATTTTATAAATTGATTTATTTTTTACGACATTTTTCATAAAAACGCCGCTATTGCTTATTATA
***
20724178 TTTCCGCAAAAAATTATTTCATTTTGAACAAAACGACGCCATTTTGCTACGCTAAAAAAATTTTA
129 ACGCCGCAAAAAATTATTTCATTTTGAACAAAACGACGCCATTTTGCTACGCTAAAAAAATTTTA
*
20724243 TTTTGTTTTTTATAAATTGATTT
194 TTTTGTTTTTTATAAATTCATTT
20724266 TTTATAAAAT
Statistics
Matches: 188, Mismatches: 21, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
224 77 0.41
228 3 0.02
229 7 0.04
230 12 0.06
231 7 0.04
232 50 0.27
233 32 0.17
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (229 bp):
GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTCTTCTTATCAAAAAATTTTTATTTTAT
ATTTTATAAATTGATTTATTTTTTACGACATTTTTCATAAAAACGCCGCTATTGCTTATTATAAC
GCCGCAAAAAATTATTTCATTTTGAACAAAACGACGCCATTTTGCTACGCTAAAAAAATTTTATT
TTGTTTTTTATAAATTCATTTATTTTTTGTTTGC
Found at i:20727181 original size:7 final size:7
Alignment explanation
Indices: 20727169--20727275 Score: 54
Period size: 7 Copynumber: 14.9 Consensus size: 7
20727159 AGCCTTGAAT
20727169 CCCTAAA
1 CCCTAAA
20727176 CCCTAAA
1 CCCTAAA
*
20727183 CCCTTAA
1 CCCTAAA
* *
20727190 CTCTTAA
1 CCCTAAA
*
20727197 CCCTTAA
1 CCCTAAA
* *
20727204 CGTCTAAC
1 C-CCTAAA
20727212 CCCTAAA
1 CCCTAAA
*
20727219 CCCCTAAC
1 -CCCTAAA
*
20727227 CCTCTAAC
1 CC-CTAAA
20727235 CCCTAAA
1 CCCTAAA
*
20727242 CCTTAAA
1 CCCTAAA
* *
20727249 -TCTCAA
1 CCCTAAA
20727255 CCCTTAAA
1 CCC-TAAA
* *
20727263 CCATAAT
1 CCCTAAA
20727270 CCCTAA
1 CCCTAA
20727276 TCCATAATGC
Statistics
Matches: 76, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
6 3 0.04
7 51 0.67
8 22 0.29
ACGTcount: A:0.35, C:0.41, G:0.01, T:0.23
Consensus pattern (7 bp):
CCCTAAA
Found at i:20727225 original size:15 final size:15
Alignment explanation
Indices: 20727171--20727240 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
20727161 CCTTGAATCC
*
20727171 CTAAACCCTAAACCCT
1 CTAACCCCT-AACCCT
* *
20727187 -TAACTCTTAACCCT
1 CTAACCCCTAACCCT
**
20727201 -TAACGTCTAACCC-
1 CTAACCCCTAACCCT
20727214 CTAAACCCCTAACCCT
1 CT-AACCCCTAACCCT
20727230 CTAACCCCTAA
1 CTAACCCCTAA
20727241 ACCTTAAATC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
14 17 0.40
15 24 0.56
16 2 0.05
ACGTcount: A:0.33, C:0.43, G:0.01, T:0.23
Consensus pattern (15 bp):
CTAACCCCTAACCCT
Found at i:20727280 original size:14 final size:14
Alignment explanation
Indices: 20727259--20727307 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
20727249 TCTCAACCCT
20727259 TAAACCATAATCCC
1 TAAACCATAATCCC
* *
20727273 TAATCCATAATGCC
1 TAAACCATAATCCC
*
20727287 TAAACTCATACTCCC
1 TAAAC-CATAATCCC
20727302 TAAACC
1 TAAACC
20727308 TTAAAATAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.39, C:0.35, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:20727540 original size:23 final size:26
Alignment explanation
Indices: 20727513--20727567 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
20727503 TAAATAATAG
20727513 TATTTT-AATT-TTTCCATGTGTT-T
1 TATTTTAAATTATTTCCATGTGTTAT
*
20727536 TATTTTAAATTATTTCTATGTGTTAT
1 TATTTTAAATTATTTCCATGTGTTAT
20727562 TATTTT
1 TATTTT
20727568 TTCTGAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 6 0.21
24 4 0.14
25 11 0.39
26 7 0.25
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.65
Consensus pattern (26 bp):
TATTTTAAATTATTTCCATGTGTTAT
Found at i:20727713 original size:41 final size:41
Alignment explanation
Indices: 20727651--20727769 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
20727641 TAAAAAGTTT
* *
20727651 TTAGTGGCGCTTTTCCAAAAACGCTGCTAAAGCCCCCATCA
1 TTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCCCAGCA
*
20727692 TTAGCGGCGCTTTTACAAAAACG-TCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCT-GCTAAAGCCCCCAGCA
**
20727733 TTAGCGGCGCTTTTCCAAAAACGCCACTAAAGCCCCC
1 TTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCCC
20727770 GAAAGGTAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
40 1 0.01
41 69 0.99
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCCCAGCA
Found at i:20727888 original size:40 final size:39
Alignment explanation
Indices: 20727822--20727955 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 39
20727812 CGTTTTTCTG
*
20727822 TAAAACGCTGCTAATGCTC-ATTTTTAGCGGCATTTTTT
1 TAAAACGCCGCTAATGCTCGATTTTTAGCGGCATTTTTT
* * ***
20727860 TAAAAACGCCGCTAATGCTCGATCTTTAGTGGCGATTTCCA
1 T-AAAACGCCGCTAATGCTCGATTTTTAGCGGC-ATTTTTT
* * **
20727901 TAAAGCGCCGCTAATGCTCGATTTTTACCGGTGTTTTTT
1 TAAAACGCCGCTAATGCTCGATTTTTAGCGGCATTTTTT
*
20727940 GTCCAAACGCCGCTAA
1 -T-AAAACGCCGCTAA
20727956 AAGCCTGTTT
Statistics
Matches: 74, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
38 1 0.01
39 20 0.27
40 37 0.50
41 16 0.22
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (39 bp):
TAAAACGCCGCTAATGCTCGATTTTTAGCGGCATTTTTT
Found at i:20728195 original size:86 final size:85
Alignment explanation
Indices: 20728019--20728243 Score: 238
Period size: 86 Copynumber: 2.6 Consensus size: 85
20728009 ACTTGCACCG
* * * *
20728019 GGTAAATGCATGAACTTGAATCATTTATTTTTGCTAATTTGTTGCATATAAGTTGTTATAAAGAT
1 GGTAAATACATGAACTTGAA-CATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATAAAGAT
* ***
20728084 TGAAAAATTAGTCTGATTTTT
65 TGAAAAATTAGCCTGATTGCC
20728105 GGTAAATACATGAACTTGAACCATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATAGAA-A
1 GGTAAATACATGAACTTGAA-CATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATA-AAGA
* *
20728169 TTGAAGATTTAGCCCT-ATTGCC
64 TTGAAAAATTAG-CCTGATTGCC
* * * * * *
20728191 GGTAAATATATAAACTATGAATAGTTGATTTGTGCTAATTTGTTTCACATAAA
1 GGTAAATACATGAACT-TGAACA-TTGATTTTTGCTAATTTGTTGCATATAAA
20728244 CTGTTGTAAG
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
86 84 0.71
87 34 0.29
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (85 bp):
GGTAAATACATGAACTTGAACATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATAAAGATT
GAAAAATTAGCCTGATTGCC
Found at i:20728283 original size:40 final size:40
Alignment explanation
Indices: 20728198--20728339 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
20728188 GCCGGTAAAT
* * * *
20728198 ATATAAACTA-TG-AATAGTTGATTTGTGCTAATTTGTTTC
1 ATATAAACTATTGAAAT-GTTGATTTTTGATAATTTCTTAC
* * * * *
20728237 ACATAAACTGTTGTAA-GATTGATTTTTGTTAATTTCTTGC
1 ATATAAACTATTGAAATG-TTGATTTTTGATAATTTCTTAC
* *
20728277 ATATAAATTATTGAAATGTTGATTTTTGATAATTCCTTAC
1 ATATAAACTATTGAAATGTTGATTTTTGATAATTTCTTAC
*
20728317 ATATTAAA-TATTGAAGTGTTGAT
1 ATA-TAAACTATTGAAATGTTGAT
20728340 ATTCAAGCTA
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
39 9 0.11
40 68 0.81
41 7 0.08
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (40 bp):
ATATAAACTATTGAAATGTTGATTTTTGATAATTTCTTAC
Found at i:20731621 original size:43 final size:42
Alignment explanation
Indices: 20731531--20731727 Score: 218
Period size: 43 Copynumber: 4.6 Consensus size: 42
20731521 AAATACTTTT
*
20731531 TAAAAGTCATGTTTTTAGCGGCGTTTGT-G-AGAAGGCGCCGC
1 TAAAAGTCATGATTTTAGCGGCGTTTGTGGTAGAA-GCGCCGC
* * * *
20731572 TAAAAGTCATTATTTATAGTGGCTTTTGTGGTAGAAGCGTCGC
1 TAAAAGTCATGATTT-TAGCGGCGTTTGTGGTAGAAGCGCCGC
* * *
20731615 TAAAAGTCATGATTTTTAGCGGCGTTTATGGTGGAAGTGCCGC
1 TAAAAGTCATGA-TTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
* * * *
20731658 TAAAGGTCATGATCTTTAGCGGTGTTTGTGGTGGAAGCGCGGC
1 TAAAAGTCATGAT-TTTAGCGGCGTTTGTGGTAGAAGCGCCGC
*
20731701 TAAAGGTCATGATCTTTAGCGGCGTTT
1 TAAAAGTCATGAT-TTTAGCGGCGTTT
20731728 TTTCACATAA
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
41 13 0.10
42 12 0.09
43 101 0.76
44 7 0.05
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.33
Consensus pattern (42 bp):
TAAAAGTCATGATTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
Found at i:20731686 original size:86 final size:86
Alignment explanation
Indices: 20731531--20731820 Score: 247
Period size: 86 Copynumber: 3.3 Consensus size: 86
20731521 AAATACTTTT
* *
20731531 TAAAAGTCATG-TTTTTAGCGGCG-TTTGTGAGAAGGCGCCGCTAAAAGTCATTATTTATAGTGG
1 TAAAAGTCATGATTTTTAGCGGCGTTTTGTGAGAAGGCGCCGCTAAAAGTCATGATTTATAGCGG
20731594 CTTTTGTGGTAGAAGCGTC-GC
66 CTTTTGTGGTAGAAGCG-CGGC
* *
20731615 TAAAAGTCATGATTTTTAGCGGCGTTTATGGTG-GAA-GTGCCGCTAAAGGTCATGATCTT-TAG
1 TAAAAGTCATGATTTTTAGCGGCGTTT-T-GTGAGAAGGCGCCGCTAAAAGTCATGAT-TTATAG
*
20731677 CGG-TGTTTGTGGTGGAAGCGCGGC
63 CGGCT-TTTGTGGTAGAAGCGCGGC
* * * * * ** *
20731701 TAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAACGCCGCTAAAA-TCAGCGACGTTGTAT
1 TAAAAGTCATGATTTTTAGCGGCGTTTTGTGAGA-AGGCGCCGCTAAAAGTCA-TGA---T-T-T
* *
20731765 ATAGCGGCGTTTT-TGGTGGAAGCGCCGC
59 ATAGCGGC-TTTTGTGGTAGAAGCGCGGC
* *
20731793 TAAAGGTCATGATTTTTAGTGGCGTTTT
1 TAAAAGTCATGATTTTTAGCGGCGTTTT
20731821 TTCACATAAA
Statistics
Matches: 170, Mismatches: 18, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
84 12 0.07
85 16 0.09
86 69 0.41
87 17 0.10
88 3 0.02
90 2 0.01
91 1 0.01
92 46 0.27
93 3 0.02
94 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (86 bp):
TAAAAGTCATGATTTTTAGCGGCGTTTTGTGAGAAGGCGCCGCTAAAAGTCATGATTTATAGCGG
CTTTTGTGGTAGAAGCGCGGC
Found at i:20731795 original size:92 final size:92
Alignment explanation
Indices: 20731674--20731849 Score: 289
Period size: 92 Copynumber: 1.9 Consensus size: 92
20731664 TCATGATCTT
* *
20731674 TAGCGGTGTTTGTGGTGGAAGCGCGGCTAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAA
1 TAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAA
*
20731739 CGCCGCTAAAATCAGCGACGTTGTATA
66 CACCGCTAAAATCAGCGACGTTGTATA
* * *
20731766 TAGCGGCGTTTTTGGTGGAAGCGCCGCTAAAGGTCATGATTTTTAGTGGCGTTTTTTCACATAAA
1 TAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAA
*
20731831 CACCGCTAAAATTAGCGAC
66 CACCGCTAAAATCAGCGAC
20731850 ATTATCTATA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 77 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (92 bp):
TAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAA
CACCGCTAAAATCAGCGACGTTGTATA
Found at i:20732984 original size:46 final size:46
Alignment explanation
Indices: 20732908--20733043 Score: 148
Period size: 46 Copynumber: 3.0 Consensus size: 46
20732898 CTTACCCAAG
*
20732908 TTTCGAGCTCCTGCATATGTTG-CAGACTCGAGAATACATGAATAGA
1 TTTCGAGCTCCTGCATATGTTGTGA-ACTCGAGAATACATGAATAGA
* * * ** *
20732954 TTTTGAGCCCCTGCATATGTTGTGAACTCGAGAATACAAGTTTAGG
1 TTTCGAGCTCCTGCATATGTTGTGAACTCGAGAATACATGAATAGA
* * * * *
20733000 TTTCAATCTCCTACACATGTTGTGGACTCGAGAATACATGAATA
1 TTTCGAGCTCCTGCATATGTTGTGAACTCGAGAATACATGAATA
20733044 TTAAGCCCTG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
46 71 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (46 bp):
TTTCGAGCTCCTGCATATGTTGTGAACTCGAGAATACATGAATAGA
Found at i:20738906 original size:40 final size:41
Alignment explanation
Indices: 20738845--20739039 Score: 207
Period size: 41 Copynumber: 4.8 Consensus size: 41
20738835 AATTATTGTA
* *
20738845 TGAATTGCACATGCGTGCCCCTGTTTGTACTTCGCTA-CCC
1 TGAATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCC
* * *
20738885 TGAATTGCACATATGTACCCCTGTTCATACTTCAG-TACCCC
1 TGAATTGCACATACGTGCCCCTGTTCGTACTTC-GCTACCCC
* * * * * *
20738926 TAAATTGGACATATGTGCCCCTAG-TCATACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCT-GTTCGTACTTCGCTACCCC
* **
20738967 TGAATTGCACATACGTGCCCCTGTTTGTACTTTTCTACCCC
1 TGAATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCC
* *
20739008 TAAATTGCACATACGTGCCCCTATTCGTACTT
1 TGAATTGCACATACGTGCCCCTGTTCGTACTT
20739040 TGATTCCTCT
Statistics
Matches: 129, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
40 32 0.25
41 96 0.74
42 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.33
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCC
Found at i:20739053 original size:82 final size:81
Alignment explanation
Indices: 20738847--20739059 Score: 239
Period size: 82 Copynumber: 2.6 Consensus size: 81
20738837 TTATTGTATG
* * * * *
20738847 AATTGCACATGCGTGCCCCTGTTTGTACTTCGCTACCCTGAATTGCACATATGTACCCCTGTTCA
1 AATTGCACATACGTGCCCCTATTCGTACTTCGATACCCTGAATTGCACATACGTACCCCTGTTCA
*
20738912 TACTTCAGTACCCCTA
66 TACTTCACTACCCCTA
* * * * * * *
20738928 AATTGGACATATGTGCCCCTAGTCATACTTCGGTACCCTTGAATTGCACATACGTGCCCCTGTTT
1 AATTGCACATACGTGCCCCTATTCGTACTTCGATACCC-TGAATTGCACATACGTACCCCTGTTC
* **
20738993 GTACTTTTCTACCCCTA
65 ATACTTCACTACCCCTA
* *
20739010 AATTGCACATACGTGCCCCTATTCGTACTTTGATTCCTCTGAA-TGCACAT
1 AATTGCACATACGTGCCCCTATTCGTACTTCGATACC-CTGAATTGCACAT
20739060 TTATGCTCCC
Statistics
Matches: 108, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
81 37 0.34
82 70 0.65
83 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (81 bp):
AATTGCACATACGTGCCCCTATTCGTACTTCGATACCCTGAATTGCACATACGTACCCCTGTTCA
TACTTCACTACCCCTA
Found at i:20741466 original size:23 final size:23
Alignment explanation
Indices: 20741435--20741485 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
20741425 ACCTACTTTC
* *
20741435 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
20741458 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
20741481 TTACA
1 TTACA
20741486 TTTCTCCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:20743072 original size:50 final size:50
Alignment explanation
Indices: 20742997--20743328 Score: 502
Period size: 50 Copynumber: 6.6 Consensus size: 50
20742987 TTTCCTGTAC
* * * ** *
20742997 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** * *
20743047 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACTTCTCATCCCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
20743097 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
20743147 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCCCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
20743197 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
20743247 TGCCAACTCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
20743297 TGCCAACACCATGTCCCAGACATGGTCTTACA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA
20743329 CTGGCTCACA
Statistics
Matches: 259, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 259 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:20746311 original size:23 final size:23
Alignment explanation
Indices: 20746280--20746330 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
20746270 ACCTATTTTC
*
20746280 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
20746303 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
20746326 TTACA
1 TTACA
20746331 ATAAGCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:20752707 original size:17 final size:17
Alignment explanation
Indices: 20752685--20752717 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20752675 AGTTATCACA
20752685 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
20752702 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
20752718 GATAGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:20753044 original size:137 final size:138
Alignment explanation
Indices: 20752783--20753334 Score: 827
Period size: 138 Copynumber: 4.0 Consensus size: 138
20752773 ACATAGATAA
* * * *
20752783 AATTAATATATGAATTTGGTTCATATAAAATATTAATTGTATATATTTTATCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* * * *
20752848 TAAATAGTTATTTTAATTAATTTCGGTTAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
*
20752913 AAGAATTT
131 AAGAATAT
* * * *
20752921 AATTGATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* * *
20752986 -AAACAGTTATAATAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTTTTAGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
20753050 AAGAATAT
131 AAGAATAT
* * * *
20753058 AATTAATATATGAATTTAATTCATACAAAATATTATTTGTGTATATGTTACCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* * * *
20753123 TAAATAGTTAGATTAATTAATTTCGGACAAAAGATAAAAGACATGGAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
20753188 AAGAATAT
131 AAGAATAT
* *
20753196 AATTAATATATGAATTTGATTCATAGAAAATATTAATTGTCTATATGTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
** * *
20753261 TAAACAGTTATATTAATTAATTTTTGTCAAAACATAAATGACATGGAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
20753326 AAGAATAT
131 AAGAATAT
20753334 A
1 A
20753335 TTTTCCTTTT
Statistics
Matches: 375, Mismatches: 38, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
137 124 0.33
138 251 0.67
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:20756447 original size:18 final size:18
Alignment explanation
Indices: 20756413--20756448 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20756403 TATCCATATT
*
20756413 AATTTCTTTAACCAAATC
1 AATTTCTTTAACAAAATC
*
20756431 AATTTCTTTCACAAAATC
1 AATTTCTTTAACAAAATC
20756449 CTTTTCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTTCTTTAACAAAATC
Found at i:20760522 original size:22 final size:22
Alignment explanation
Indices: 20760480--20760522 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20760470 AAGGTGGAAG
**
20760480 CAGTGGTAGCATATCTGCAAAC
1 CAGTGGTAGCATATCCACAAAC
*
20760502 CAGTGGTAGCATGTCCACAAA
1 CAGTGGTAGCATATCCACAAA
20760523 ATTATATCAG
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:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (22 bp):
CAGTGGTAGCATATCCACAAAC
Found at i:20776015 original size:50 final size:51
Alignment explanation
Indices: 20775961--20776067 Score: 130
Period size: 50 Copynumber: 2.1 Consensus size: 51
20775951 AAGGTGGAAG
20775961 CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATGTTCC-CAAAA-T-TATAT
1 CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATG-TCCACAAAAGTGT-TAT
* * ** *
20776011 CAGTGGTAGTATATCTGCAATTCAGTGGTGGCTTGTCCACAAAAGTGTTAT
1 CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATGTCCACAAAAGTGTTAT
20776062 CAGTGG
1 CAGTGG
20776068 TGGCTTGTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
49 3 0.06
50 35 0.71
51 10 0.20
52 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (51 bp):
CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATGTCCACAAAAGTGTTAT
Found at i:20779045 original size:24 final size:24
Alignment explanation
Indices: 20778997--20779043 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
20778987 ACTGGTCATA
*
20778997 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
20779021 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
20779044 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:20779930 original size:27 final size:27
Alignment explanation
Indices: 20779729--20779929 Score: 285
Period size: 27 Copynumber: 7.4 Consensus size: 27
20779719 CCCCAAAATA
* **
20779729 GGTAAAATGATCGAAATACCCCTTTAG
1 GGTAAAATGACCGAAATACCCCCATAG
**
20779756 GGTAAAATGACTAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
20779783 GGTAAAATGACTGAAATACTCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
20779810 GGTAAAATGACCGAAATACTCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
20779837 GGTAAAATGACTGGAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
20779864 GGTAAAATGACCGGAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
20779891 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
20779918 GGTAAAATGACC
1 GGTAAAATGACC
20779930 ATTATACCCC
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 159 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:20779952 original size:27 final size:27
Alignment explanation
Indices: 20779866--20779955 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
20779856 CCCCATAGGG
** * * * *
20779866 TAAAATGACCGGAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCTAAAAGA
* * *
20779893 TAAAATGACCAAAATACCCCTATAGGG
1 TAAAATGACCAAAATACCCCTAAAAGA
**
20779920 TAAAATGACCATTATACCCCTAAAAGA
1 TAAAATGACCAAAATACCCCTAAAAGA
*
20779947 TGAAATGAC
1 TAAAATGAC
20779956 TGTTATGGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCCTAAAAGA
Found at i:20779953 original size:54 final size:54
Alignment explanation
Indices: 20779731--20779955 Score: 182
Period size: 54 Copynumber: 4.2 Consensus size: 54
20779721 CCAAAATAGG
* * ** * * * * *
20779731 TAAAATGATCGAAATACCCCTTTAGGGTAAAATGACTAAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAGAATACCCCCAAAAGA
** * * * * *
20779785 TAAAATGACTGAAATACTCCCATAGGGTAAAATGACC-GAAATACTCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAG-AATACCCCCAAAAGA
*** * * * *
20779839 TAAAATGACTGGAATACCCCCATAGGGTAAAATGACCGGAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAGAATACCCCCAAAAGA
* ** *
20779893 TAAAATGACCAAAATACCCCTATAGGGTAAAATGACCATTATACCCCTAAAAGA
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAGAATACCCCCAAAAGA
*
20779947 TGAAATGAC
1 TAAAATGAC
20779956 TGTTATGGCT
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
54 145 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (54 bp):
TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAGAATACCCCCAAAAGA
Found at i:20781410 original size:51 final size:51
Alignment explanation
Indices: 20781245--20781431 Score: 164
Period size: 51 Copynumber: 3.7 Consensus size: 51
20781235 AGTGAAGGTG
** * * * *
20781245 ATGGTCATGTGTGTAGTACTATGTGTAGGTTACTACGTGTATCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGGT
* * * * * *
20781296 A-GGTCGCATGTGTAGTACTATGTTAAGGCTACTATGCGTA-CCGAATAGT
1 ATGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGGT
* * * * *
20781345 TTCGATCGCGTGTGTAGTACTATGTGGAGGCTACTACGTGTATCAG-ATGGT
1 AT-GGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGGT
* *
20781396 AATGGTCACATGTGTAGTACTATGTGCAGACTACTA
1 -ATGGTCACATGTGTAGTACTATGTGAAGGCTACTA
20781432 TGTGAATTGG
Statistics
Matches: 106, Mismatches: 26, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
49 6 0.06
50 31 0.29
51 66 0.62
52 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGGT
Found at i:20787015 original size:51 final size:50
Alignment explanation
Indices: 20786883--20787079 Score: 202
Period size: 51 Copynumber: 3.9 Consensus size: 50
20786873 AGTGAAAGTG
** *
20786883 ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GATAGTA
* * * *
20786932 ATAGGTCGCATGTGTAGTTCTATGTGCAGGCTACTATGCGTACCAGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GATAGTA
* * * *
20786983 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCCGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGATAGTA
* * *
20787035 ATGGTCACATGTGTATTACTATGTGCAGGCTACTATGTGAACCGA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
20787080 ACATCATTGA
Statistics
Matches: 121, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.02
50 41 0.34
51 74 0.61
52 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGATAGTA
Found at i:20787148 original size:45 final size:45
Alignment explanation
Indices: 20787075--20787169 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
20787065 TACTATGTGA
* *
20787075 ACCGAACATCATTGATTAGTATGGTGGTTGCTATGTGCTGATTCT
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCT
* * * *
20787120 ACCGGACATCATTGATTAATAAGTTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCT
20787165 ACCGA
1 ACCGA
20787170 GTATCTGCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCT
Found at i:20797423 original size:29 final size:29
Alignment explanation
Indices: 20797289--20797465 Score: 133
Period size: 29 Copynumber: 6.0 Consensus size: 29
20797279 ACGACGTATC
* *
20797289 GACGAGCATCGATTAATGTAAAA-GGATGGT
1 GACGACCATCGAAT-ATG-AAAAGGGATGGT
* *
20797319 GACGACCATCGATTAATGAAAAGGGTTGGT
1 GACGACCATCGAAT-ATGAAAAGGGATGGT
** * * *
20797349 TTCGACAATTGAATATGAAAAGGGATAGT
1 GACGACCATCGAATATGAAAAGGGATGGT
** *** *
20797378 TTCGAGTGTC-AGCTATGAAAAGGGATGGT
1 GACGACCATCGA-ATATGAAAAGGGATGGT
*
20797407 GACGACCATCAAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* *
20797436 GACAACCATCGATTAATGAAAAGGGATGGT
1 GACGACCATCGAAT-ATGAAAAGGGATGGT
20797466 TTCAACCATC
Statistics
Matches: 119, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
28 1 0.01
29 70 0.59
30 48 0.40
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (29 bp):
GACGACCATCGAATATGAAAAGGGATGGT
Found at i:20797457 original size:30 final size:29
Alignment explanation
Indices: 20797391--20797476 Score: 118
Period size: 29 Copynumber: 2.9 Consensus size: 29
20797381 GAGTGTCAGC
* *
20797391 TATGAAAAGGGATGGTGACGACCATCAAA
1 TATGAAAAGGGATGGTGACAACCATCGAA
*
20797420 TATGAAAAGGGATGGTGACAACCATCGAT
1 TATGAAAAGGGATGGTGACAACCATCGAA
**
20797449 TAATGAAAAGGGATGGTTTCAACCATCG
1 T-ATGAAAAGGGATGGTGACAACCATCG
20797477 TTTAGCACAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 27 0.53
30 24 0.47
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACAACCATCGAA
Found at i:20798905 original size:42 final size:42
Alignment explanation
Indices: 20798835--20798927 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
20798825 ATTTCTTGTT
* * * *
20798835 CACACGACCTAAGACACAGGCTTGTGTCTCAGTTGTGTGAGA
1 CACACGGCCTAAGACACAGGCGTATGTCTCAGTCGTGTGAGA
*
20798877 CACACGGCCTAAGACACGGGCGTATGTCTCAGTCGTGTGAGA
1 CACACGGCCTAAGACACAGGCGTATGTCTCAGTCGTGTGAGA
20798919 CACACGGCC
1 CACACGGCC
20798928 ATGCGACACG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.19
Consensus pattern (42 bp):
CACACGGCCTAAGACACAGGCGTATGTCTCAGTCGTGTGAGA
Found at i:20800512 original size:22 final size:22
Alignment explanation
Indices: 20800464--20800512 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
20800454 GGCTAAGAGT
*
20800464 CATAAACAGGATAGCTATCAGC
1 CATAAACAGAATAGCTATCAGC
*
20800486 TATAAACAGAATAGCTA-CAAGC
1 CATAAACAGAATAGCTATC-AGC
20800508 CATAA
1 CATAA
20800513 GTTCAGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.18
Consensus pattern (22 bp):
CATAAACAGAATAGCTATCAGC
Found at i:20800567 original size:32 final size:32
Alignment explanation
Indices: 20800524--20800738 Score: 152
Period size: 32 Copynumber: 6.7 Consensus size: 32
20800514 TTCAGTAATG
* *
20800524 TGATCAGCACAAAGCCATCAGTAATGGT-AGCA
1 TGATCGGCACAAAGCCATCAGTAACGGTGA-CA
* * * * *
20800556 TGATCGCCACAAAGCCATCTGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACA
* * * *
20800588 TGATCGGCACATAGCCCTTAGTAACGGTGATA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACA
* * *
20800620 TGATCGGCACATAGCCATC-GATAATGGTAACA
1 TGATCGGCACAAAGCCATCAG-TAACGGTGACA
* *
20800652 TGATCGGCACAAAGCCATCAATAACAGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTGAC-A
* *
20800684 TGA-CTGGTACAAAGCCATCAATAACGGT-ACTA
1 TGATC-GGCACAAAGCCATCAGTAACGGTGAC-A
* * **
20800716 GGACCAACACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
20800739 GCATCGCAGT
Statistics
Matches: 147, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
31 4 0.03
32 141 0.96
33 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACGGTGACA
Found at i:20800709 original size:96 final size:96
Alignment explanation
Indices: 20800524--20800738 Score: 231
Period size: 96 Copynumber: 2.2 Consensus size: 96
20800514 TTCAGTAATG
* ** *
20800524 TGATCAGCACAAAGCCATCAGTAATGGTAGCATGATCGCCACAAAGCCATCTGTAGCAGTGATAT
1 TGATCAGCACAAAGCCATCAGTAATGGTAACATGATCGCCACAAAGCCATCAATAACAGTGATAT
* * * *
20800589 GATCGGCACATAGCCCTTAGTAACGGTGATA
66 GATCGGCACAAAGCCATCAATAACGGTGATA
* * *
20800620 TGATCGGCACATAGCCATC-GATAATGGTAACATGATCGGCACAAAGCCATCAATAACAGT-ACT
1 TGATCAGCACAAAGCCATCAG-TAATGGTAACATGATCGCCACAAAGCCATCAATAACAGTGA-T
*
20800683 ATGA-CTGGTACAAAGCCATCAATAACGGT-ACTA
64 ATGATC-GGCACAAAGCCATCAATAACGGTGA-TA
* * *
20800716 GGACCAACACAAAGCCATCAGTA
1 TGATCAGCACAAAGCCATCAGTA
20800739 GCATCGCAGT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
95 4 0.04
96 92 0.95
97 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (96 bp):
TGATCAGCACAAAGCCATCAGTAATGGTAACATGATCGCCACAAAGCCATCAATAACAGTGATAT
GATCGGCACAAAGCCATCAATAACGGTGATA
Found at i:20800817 original size:27 final size:26
Alignment explanation
Indices: 20800787--20800846 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
20800777 AGCTGCCAAC
*
20800787 AACAGTATATGTGGCCAAGCCACCAGT
1 AACAGTAT-TGTGGCAAAGCCACCAGT
* *
20800814 AACAGTGATTGTGGTAAAGCCACTAGT
1 AACAGT-ATTGTGGCAAAGCCACCAGT
20800841 -ACAGTA
1 AACAGTA
20800847 CTTCCTCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
27 21 0.72
28 2 0.07
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
AACAGTATTGTGGCAAAGCCACCAGT
Found at i:20803216 original size:43 final size:43
Alignment explanation
Indices: 20803155--20803293 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 43
20803145 AATCATTAGT
20803155 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
* * *
20803198 GGTTGCTAAGTGTTGATTCC-CCG-A---TT-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
* * * *
20803231 TGTTTCTAAGTGTTGATTCCACTGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
20803274 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
20803294 CCGAATCGCT
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
33 19 0.25
34 2 0.03
35 1 0.01
36 2 0.03
37 2 0.03
38 4 0.05
39 2 0.03
40 2 0.03
41 1 0.01
42 3 0.04
43 37 0.49
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
Found at i:20803248 original size:76 final size:76
Alignment explanation
Indices: 20803118--20803330 Score: 309
Period size: 76 Copynumber: 2.8 Consensus size: 76
20803108 TGATTCCCCC
*
20803118 AAGGGGTTGCTAAGTGTTGATTCCTCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATT
20803183 TTTGAATGTGA
66 TTTGAATGTGA
* * * * * *
20803194 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTTGTTTCTAAGTGTTGATTCCACTGTATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATT
20803259 TTTGAATGTGA
66 TTTGAATGTGA
* ** * * *
20803270 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCGCTGGTGGTTGCTAAGTGCTAAATCCACCG
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCG
20803331 ATAACAGATA
Statistics
Matches: 120, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 120 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTTGAATGTGA
Found at i:20810745 original size:43 final size:43
Alignment explanation
Indices: 20810684--20810822 Score: 181
Period size: 43 Copynumber: 3.5 Consensus size: 43
20810674 AATCATTGGT
20810684 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
*
20810727 GGTTGCTAAGTGCTGATTCC-CCG-A---TT-AAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
* *
20810760 TGTTGCTAAGTGCTAATTCCACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
20810803 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
20810823 TGAATCACTG
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
33 19 0.24
34 3 0.04
35 1 0.01
36 2 0.03
37 3 0.04
38 4 0.05
39 3 0.04
40 2 0.03
41 1 0.01
42 3 0.04
43 39 0.49
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
Found at i:20810765 original size:76 final size:76
Alignment explanation
Indices: 20810563--20810858 Score: 418
Period size: 76 Copynumber: 3.9 Consensus size: 76
20810553 CCGGAGTACA
* * * *
20810563 TTGAATAT-AAAGGGGTTGTTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATT
*
20810627 CCACAGTA-TT
66 CCACCGTATTT
* ** * *
20810637 TTAAATGTGACGGGGGTTGCTAAGTGTTGATTCCTCGAATCATTGGTGGTTGCTAAGTGCTGATT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATT
20810702 CCACCGTATTT
66 CCACCGTATTT
* * * *
20810713 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGATTAATTGGTTGTTGCTAAGTGCTAATT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATT
20810778 CCACCGTATTT
66 CCACCGTATTT
* * *
20810789 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATT-CCTGAATCACTGGTGGTTGCTAAGTGCTGAAT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATT
20810853 CCACCG
66 CCACCG
20810859 ATAACGGATA
Statistics
Matches: 194, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
74 6 0.03
75 87 0.45
76 101 0.52
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (76 bp):
TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATT
CCACCGTATTT
Found at i:20810828 original size:151 final size:150
Alignment explanation
Indices: 20810563--20810858 Score: 450
Period size: 151 Copynumber: 2.0 Consensus size: 150
20810553 CCGGAGTACA
* * *
20810563 TTGAATATAAAGGGGTTGTTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTC
1 TTGAATATAAAGGGGTTGCTAAGTACTGATTCCCCGATTAATTGGTGGTTGCTAAGTGCTAATTC
** * *
20810628 CACAGTATTTTAAATGTGACGGGGGTTGCTAAGTGTTGATTCCTCGAATCATTGGTGGTTGCTAA
66 CACAGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCTCGAATCACTGGTGGTTGCTAA
*
20810693 GTGCTGATTCCACCGTATTT
131 GTGCTGAATCCACCGTATTT
* * *
20810713 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGATTAATTGGTTGTTGCTAAGTGCTAATT
1 TTGAATAT-AAAGGGGTTGCTAAGTACTGATTCCCCGATTAATTGGTGGTTGCTAAGTGCTAATT
* *
20810778 CCACCGTATTTTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCT-GAATCACTGGTGGTTGCT
65 CCACAGTA-TTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCTCGAATCACTGGTGGTTGCT
20810842 AAGTGCTGAATCCACCG
129 AAGTGCTGAATCCACCG
20810859 ATAACGGATA
Statistics
Matches: 131, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
150 7 0.05
151 91 0.69
152 33 0.25
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (150 bp):
TTGAATATAAAGGGGTTGCTAAGTACTGATTCCCCGATTAATTGGTGGTTGCTAAGTGCTAATTC
CACAGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCTCGAATCACTGGTGGTTGCTAA
GTGCTGAATCCACCGTATTT
Found at i:20816211 original size:22 final size:21
Alignment explanation
Indices: 20816183--20816229 Score: 85
Period size: 22 Copynumber: 2.2 Consensus size: 21
20816173 GTAGGTTCAT
20816183 AAAAAAATAAAAAAATTCAAA
1 AAAAAAATAAAAAAATTCAAA
20816204 CAAAAAAATAAAAAAATTCAAA
1 -AAAAAAATAAAAAAATTCAAA
20816226 AAAA
1 AAAA
20816230 GAGATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (21 bp):
AAAAAAATAAAAAAATTCAAA
Found at i:20817264 original size:21 final size:21
Alignment explanation
Indices: 20817234--20817291 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
20817224 GAAAACAAAA
*
20817234 AAAAAGGAAAAAGAAAAAGAGG
1 AAAAA-GAAAAAGAAAAAGAAG
*
20817256 AAAAAGAAAAAGAGAAAGAAG
1 AAAAAGAAAAAGAAAAAGAAG
*
20817277 AAAAAGAGAAAGAAA
1 AAAAAGAAAAAGAAA
20817292 TTGAAAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAGAAAAAGAAG
Done.