Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 59 of 230
Found at i:16216732 original size:31 final size:30
Alignment explanation
Indices: 16216697--16216757 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16216687 GGGAGGTGGG
*
16216697 ATGGGAAGAGAATAAAAGTTTTAGGGGAAAA
1 ATGGG-AGAGAATAAAAATTTTAGGGGAAAA
* * *
16216728 ATGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 ATGGGAGAGAATAAAAATTTTAGGGGAAAA
16216758 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (30 bp):
ATGGGAGAGAATAAAAATTTTAGGGGAAAA
Found at i:16216929 original size:21 final size:21
Alignment explanation
Indices: 16216895--16216935 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16216885 GGGGGGAAGT
*
16216895 GGGAAAGAGTAAAAGTTTTGA
1 GGGAAAGAGTAAAAGGTTTGA
16216916 GGGAAA-AGTAAAAAGGTTTG
1 GGGAAAGAGT-AAAAGGTTTG
16216936 GGAGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAAGAGTAAAAGGTTTGA
Found at i:16216987 original size:9 final size:9
Alignment explanation
Indices: 16216973--16217018 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
16216963 TATAGTTTGA
16216973 TATTCGAAT
1 TATTCGAAT
16216982 TATTCGAAT
1 TATTCGAAT
16216991 TATTCGAAT
1 TATTCGAAT
*
16217000 TATTCGAGT
1 TATTCGAAT
*
16217009 TATCCGAAT
1 TATTCGAAT
16217018 T
1 T
16217019 CGAAAACTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16217089 original size:9 final size:9
Alignment explanation
Indices: 16217072--16217102 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16217062 TCGAGTTGAT
16217072 TCGAATAAC
1 TCGAATAAC
*
16217081 TCGATTAAC
1 TCGAATAAC
16217090 TCGAATAAC
1 TCGAATAAC
16217099 TCGA
1 TCGA
16217103 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:16220654 original size:27 final size:25
Alignment explanation
Indices: 16220624--16220696 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
16220614 AAGGTGAACC
*
16220624 ATATAGAGTACACCACAAAGGCCATAT
1 ATATAGAGTATACCACAAAGG-C-TAT
* * *
16220651 ATATAAAATATGCCACAAAGGCTAT
1 ATATAGAGTATACCACAAAGGCTAT
*
16220676 ATACAGAGTATACCACAAAGG
1 ATATAGAGTATACCACAAAGG
16220697 TGATTCATTC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 20 0.53
26 1 0.03
27 17 0.45
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (25 bp):
ATATAGAGTATACCACAAAGGCTAT
Found at i:16224176 original size:36 final size:38
Alignment explanation
Indices: 16224106--16224183 Score: 142
Period size: 37 Copynumber: 2.1 Consensus size: 38
16224096 ACTCAAAGTA
16224106 AGTCACTTGTGAATTATGTTGAGGAAAGTAGAAAGC-T
1 AGTCACTTGTGAATTATGTTGAGGAAAGTAGAAAGCTT
16224143 AGTCACTTGTGAATTATGTTGA-GAAAGTAGAAAGCTT
1 AGTCACTTGTGAATTATGTTGAGGAAAGTAGAAAGCTT
16224180 AGTC
1 AGTC
16224184 CCACATTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 13 0.32
37 27 0.68
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.31
Consensus pattern (38 bp):
AGTCACTTGTGAATTATGTTGAGGAAAGTAGAAAGCTT
Found at i:16224996 original size:64 final size:65
Alignment explanation
Indices: 16224891--16225020 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 65
16224881 GTCCAATAAA
* *
16224891 CATTGGGCTGTCATTGCACATTCCCCATAACGCGCGATAACC-AAACAGCTTGGGTTCAAATCAT
1 CATTGGGCTGTCATTGCACACTCCCCATAACGCGCGATAACCAAAACAGCTTGGGTCCAAATCAT
* *
16224955 CATTGGGCTGTCATTGCACACTCCCCCTAACGCGCGTTAACCAAAACAGCTTGGGTCCAAATCAT
1 CATTGGGCTGTCATTGCACACTCCCCATAACGCGCGATAACCAAAACAGCTTGGGTCCAAATCAT
16225020 C
1 C
16225021 TGATAGTTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 39 0.64
65 22 0.36
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (65 bp):
CATTGGGCTGTCATTGCACACTCCCCATAACGCGCGATAACCAAAACAGCTTGGGTCCAAATCAT
Found at i:16229604 original size:6 final size:6
Alignment explanation
Indices: 16229595--16229623 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16229585 GGAAAAGATT
16229595 CAGGTG CAGGTG CAGGTG CAGGTG CAGGT
1 CAGGTG CAGGTG CAGGTG CAGGTG CAGGT
16229624 ATATGCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.17
Consensus pattern (6 bp):
CAGGTG
Found at i:16243062 original size:15 final size:15
Alignment explanation
Indices: 16243042--16243088 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
16243032 TAATCTAAAA
16243042 TTATATTTTAGTCAC
1 TTATATTTTAGTCAC
* *
16243057 TTATATTTAAAAT-A-
1 TTATATTT-TAGTCAC
16243071 TTATATTTTAGTCAC
1 TTATATTTTAGTCAC
16243086 TTA
1 TTA
16243089 CGTTAATACG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 12 0.48
16 2 0.08
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (15 bp):
TTATATTTTAGTCAC
Found at i:16251122 original size:15 final size:16
Alignment explanation
Indices: 16251102--16251131 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16251092 AACATCTCAA
16251102 AAATTGGGT-TTGAAG
1 AAATTGGGTGTTGAAG
16251117 AAATTGGGTGTTGAA
1 AAATTGGGTGTTGAA
16251132 ACCAATAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
AAATTGGGTGTTGAAG
Found at i:16252956 original size:20 final size:20
Alignment explanation
Indices: 16252931--16252998 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
16252921 CCACTGTATA
*
16252931 GTTCTGTTCTGCTCTGCTTT
1 GTTCTGTTATGCTCTGCTTT
16252951 GTTCTGTTATGCTCTGC-TT
1 GTTCTGTTATGCTCTGCTTT
* * *
16252970 GATT-TGTTTTGTTTTGCTTT
1 G-TTCTGTTATGCTCTGCTTT
16252990 GTTCTGTTA
1 GTTCTGTTA
16252999 GTTCAGTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 15 0.38
20 25 0.62
ACGTcount: A:0.04, C:0.16, G:0.21, T:0.59
Consensus pattern (20 bp):
GTTCTGTTATGCTCTGCTTT
Found at i:16252977 original size:24 final size:25
Alignment explanation
Indices: 16252938--16252987 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
16252928 ATAGTTCTGT
*
16252938 TCTGCTCTGCTTTGTTCTGTTATGC
1 TCTGCTCTGATTTGTTCTGTTATGC
* *
16252963 TCTGCT-TGATTTGTTTTGTTTTGC
1 TCTGCTCTGATTTGTTCTGTTATGC
16252987 T
1 T
16252988 TTGTTCTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.04, C:0.18, G:0.20, T:0.58
Consensus pattern (25 bp):
TCTGCTCTGATTTGTTCTGTTATGC
Found at i:16254341 original size:13 final size:15
Alignment explanation
Indices: 16254313--16254347 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16254303 ATTGATGTGT
16254313 TTTATTTTTTATATA
1 TTTATTTTTTATATA
*
16254328 TTTATTTTTAATAT-
1 TTTATTTTTTATATA
16254342 TTTATT
1 TTTATT
16254348 ATGCCTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTTTATATA
Found at i:16257114 original size:18 final size:18
Alignment explanation
Indices: 16257070--16257131 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
16257060 AAGCTTACGC
*
16257070 AATGAAAAAAGATTTGGA
1 AATGAATAAAGATTTGGA
* *
16257088 AATTGAATAACGATTTGTA
1 AA-TGAATAAAGATTTGGA
* *
16257107 AATGAATAATGTTTTGGA
1 AATGAATAAAGATTTGGA
*
16257125 AACGAAT
1 AATGAAT
16257132 GACTCGATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 21 0.58
19 15 0.42
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (18 bp):
AATGAATAAAGATTTGGA
Found at i:16265018 original size:5 final size:5
Alignment explanation
Indices: 16265004--16265062 Score: 73
Period size: 5 Copynumber: 11.8 Consensus size: 5
16264994 TCAGTTTTGC
* * **
16265004 TCTGT GCTGT TCTGT TCTAT TCTGT TCTGT TCTGT TCTGT TCTAC TCTGT
1 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT
*
16265054 CCTGT TCTG
1 TCTGT TCTG
16265063 GTTGGGTTGT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.03, C:0.24, G:0.19, T:0.54
Consensus pattern (5 bp):
TCTGT
Found at i:16265052 original size:15 final size:15
Alignment explanation
Indices: 16264991--16265062 Score: 72
Period size: 15 Copynumber: 4.8 Consensus size: 15
16264981 TGCATAGCTT
* *
16264991 TGTTCAGTTTTGCTC
1 TGTTCTGTTCTGCTC
* *
16265006 TGTGCTGTTCTGTTC
1 TGTTCTGTTCTGCTC
* *
16265021 TATTCTGTTCTGTTC
1 TGTTCTGTTCTGCTC
*
16265036 TGTTCTGTTCTACTC
1 TGTTCTGTTCTGCTC
*
16265051 TGTCCTGTTCTG
1 TGTTCTGTTCTG
16265063 GTTGGGTTGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.04, C:0.22, G:0.19, T:0.54
Consensus pattern (15 bp):
TGTTCTGTTCTGCTC
Found at i:16267307 original size:31 final size:33
Alignment explanation
Indices: 16267248--16267315 Score: 104
Period size: 31 Copynumber: 2.1 Consensus size: 33
16267238 TCTAACCAAT
16267248 GTGTCTGAATCATGCGATATAAACCTTATTTAA
1 GTGTCTGAATCATGCGATATAAACCTTATTTAA
* *
16267281 GTGTTTGAATCATG-G-TATGAACCTTATTTAA
1 GTGTCTGAATCATGCGATATAAACCTTATTTAA
16267312 GTGT
1 GTGT
16267316 ATACCAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 19 0.58
32 1 0.03
33 13 0.39
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (33 bp):
GTGTCTGAATCATGCGATATAAACCTTATTTAA
Found at i:16272946 original size:89 final size:87
Alignment explanation
Indices: 16272798--16273015 Score: 255
Period size: 89 Copynumber: 2.5 Consensus size: 87
16272788 ATAAGAGTAG
*
16272798 GGGCTTAATTGC-TTTTTTGAAAAAATTTGAGGG-TCTTTTTAATATATTTTGAAAGTTCAAGTA
1 GGGCTTAATTGCTTTTTTTGAAAAAATTTGAGGGCT-TTTTTAATACATTTTGAAAGTTCAAGT-
* **
16272861 TC-CAATTGAATG-GGAAAAAAGCA
64 GCACAATTGAATGAAAAAAAAAG-A
* * *
16272884 GGGCTTAATTGCTTTTTTTTAAAAGAAGTTTGAGGGCTTTTTTGATGCATTTTGAAAGTTCAAGT
1 GGGCTTAATTGCTTTTTTTGAAAA-AA-TTTGAGGGCTTTTTTAATACATTTTGAAAGTTCAAGT
*
16272949 GCACAATTGAGTGTAAAAAAAAAAGA
64 GCACAATTGAATG--AAAAAAAAAGA
*
16272975 GGAGCTTAATTGCTTTTTTTGAAAAAATTTGAGGACTTTTT
1 GG-GCTTAATTGCTTTTTTTGAAAAAATTTGAGGGCTTTTT
16273016 ATACCCTTAA
Statistics
Matches: 113, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
86 12 0.11
87 10 0.09
88 3 0.03
89 41 0.36
90 14 0.12
91 5 0.04
92 28 0.25
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.39
Consensus pattern (87 bp):
GGGCTTAATTGCTTTTTTTGAAAAAATTTGAGGGCTTTTTTAATACATTTTGAAAGTTCAAGTGC
ACAATTGAATGAAAAAAAAAGA
Found at i:16273548 original size:13 final size:13
Alignment explanation
Indices: 16273532--16273562 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16273522 ATATTAAATA
*
16273532 TTTAATAATTTTT
1 TTTAATAATATTT
16273545 TTTAATAATATTT
1 TTTAATAATATTT
16273558 TTTAA
1 TTTAA
16273563 AAGTTAATTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTAATAATATTT
Found at i:16287661 original size:16 final size:16
Alignment explanation
Indices: 16287640--16287672 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16287630 TTTGGTTCAC
16287640 TATAATGGAATAGAGT
1 TATAATGGAATAGAGT
*
16287656 TATAATTGAATAGAGT
1 TATAATGGAATAGAGT
16287672 T
1 T
16287673 GTAAACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (16 bp):
TATAATGGAATAGAGT
Found at i:16293219 original size:5 final size:5
Alignment explanation
Indices: 16293209--16293236 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16293199 TAGGATATTC
16293209 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
1 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
16293237 TTATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (5 bp):
TTTGA
Found at i:16304792 original size:23 final size:22
Alignment explanation
Indices: 16304766--16304873 Score: 123
Period size: 23 Copynumber: 5.0 Consensus size: 22
16304756 GCTTTGCCGA
16304766 TCAGGCACTTTATGTGTCGTAC
1 TCAGGCACTTTATGTGTCGTAC
*
16304788 ATCAGACACTTTATGTGTCGTATC
1 -TCAGGCACTTTATGTGTCGTA-C
*
16304812 TCAGGCTCTTTATGTGTCGTAC
1 TCAGGCACTTTATGTGTCGTAC
* ** *
16304834 T-AGGCACCTCGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAC
16304854 TCAGGCAC-TTATGTGTCGTA
1 TCAGGCACTTTATGTGTCGTA
16304874 TACTGATCAG
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.14
21 20 0.28
22 2 0.03
23 39 0.54
24 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAC
Found at i:16308817 original size:9 final size:10
Alignment explanation
Indices: 16308803--16308827 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16308793 CCAAAAAAGG
16308803 GAAAAAAAAA
1 GAAAAAAAAA
16308813 GAAAAAAAAA
1 GAAAAAAAAA
16308823 GAAAA
1 GAAAA
16308828 TAATGTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:16309652 original size:16 final size:16
Alignment explanation
Indices: 16309633--16309673 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
16309623 AATATAACAT
16309633 AAATTAAACATATAGA
1 AAATTAAACATATAGA
* *
16309649 AAATAAAAACATATCGA
1 AAAT-TAAACATATAGA
16309666 AAATTAAA
1 AAATTAAA
16309674 TATAACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (16 bp):
AAATTAAACATATAGA
Found at i:16314308 original size:25 final size:23
Alignment explanation
Indices: 16314280--16314340 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 23
16314270 TTTTTTTACA
16314280 ATATATGTATATTACATTTTATATT
1 ATATA-GTATATTACATTTTAT-TT
*
16314305 ATATA-TATATT-CATGTTATTT
1 ATATAGTATATTACATTTTATTT
16314326 -TATAGTATA-TACATT
1 ATATAGTATATTACATT
16314341 GCATGATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
20 5 0.16
21 9 0.28
22 7 0.22
23 6 0.19
25 5 0.16
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (23 bp):
ATATAGTATATTACATTTTATTT
Found at i:16314780 original size:14 final size:14
Alignment explanation
Indices: 16314761--16314799 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
16314751 TGGTACATTG
16314761 TATTTGTATATATA
1 TATTTGTATATATA
* *
16314775 TATTTGTAAATATT
1 TATTTGTATATATA
*
16314789 TATTCGTATAT
1 TATTTGTATAT
16314800 GCTGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:16326144 original size:3 final size:3
Alignment explanation
Indices: 16326131--16326160 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
16326121 TATACAATCA
16326131 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA
16326161 CACAACAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:16326479 original size:20 final size:19
Alignment explanation
Indices: 16326435--16326471 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16326425 AATATAAATT
16326435 ATTTATAAATTTTATTTAA
1 ATTTATAAATTTTATTTAA
16326454 ATTTATAAATTTTATTTA
1 ATTTATAAATTTTATTTA
16326472 TGATTTATTA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATAAATTTTATTTAA
Found at i:16329561 original size:21 final size:21
Alignment explanation
Indices: 16329536--16329580 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
16329526 TAACTATTGC
16329536 TGCGATGTATTTATCTAACGT
1 TGCGATGTATTTATCTAACGT
16329557 TGCGATGTATTTATCTAACGT
1 TGCGATGTATTTATCTAACGT
16329578 TGC
1 TGC
16329581 TTTGTTGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (21 bp):
TGCGATGTATTTATCTAACGT
Found at i:16333389 original size:23 final size:21
Alignment explanation
Indices: 16333346--16333389 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
16333336 GGCATTGTAG
*
16333346 CAGTTCCAAGGGAAGATTGAC
1 CAGTTCCAAAGGAAGATTGAC
*
16333367 CAGTTCCATAAGGAGGATGTGAC
1 CAGTTCCA-AAGGAAGAT-TGAC
16333390 GAGGGCGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (21 bp):
CAGTTCCAAAGGAAGATTGAC
Found at i:16335538 original size:84 final size:84
Alignment explanation
Indices: 16335401--16335555 Score: 224
Period size: 84 Copynumber: 1.8 Consensus size: 84
16335391 CTACATGTTT
* * *
16335401 GTGTGGGTCTACACGCCCAGATTGGCTTTGCCTGTGTGGCCCACACGGTCTGGCCCAAAACCCAC
1 GTGTGGGTCTACACGCCCAGATTGGCCTTGCCTATGTGGCCCACACGGCCTGGCCCAAAACCCAC
16335466 ACGCCTATGTGGCATGCCC
66 ACGCCTATGTGGCATGCCC
* * *
16335485 GTGTGGG-CTTACACGCCCAGATTGGCCTTG-CTCATGTGGCCCACATGGCCTGGCTCAAAACCT
1 GTGTGGGTC-TACACGCCCAGATTGGCCTTGCCT-ATGTGGCCCACACGGCCTGGCCCAAAACCC
16335548 ACACGCCT
64 ACACGCCT
16335556 TACCTGACAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
83 3 0.05
84 60 0.95
ACGTcount: A:0.17, C:0.34, G:0.26, T:0.22
Consensus pattern (84 bp):
GTGTGGGTCTACACGCCCAGATTGGCCTTGCCTATGTGGCCCACACGGCCTGGCCCAAAACCCAC
ACGCCTATGTGGCATGCCC
Found at i:16339466 original size:42 final size:42
Alignment explanation
Indices: 16339410--16339530 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
16339400 GCACATAAGT
*
16339410 GCTAAAC-AGAAACCCATAAGGGTTGAATGGAAGCTCAAAAGA
1 GCTAAACGA-AAACCCATAAGGGTTAAATGGAAGCTCAAAAGA
* * *
16339452 GCTGAACGAAAACCCATAAGGGTTAAATTGTAGCTCAAAAGA
1 GCTAAACGAAAACCCATAAGGGTTAAATGGAAGCTCAAAAGA
* * *
16339494 GCTAAACGGAAACCCACT-AGGGTTAAATAGAAACTCA
1 GCTAAACGAAAACCCA-TAAGGGTTAAATGGAAGCTCA
16339531 TATGAGTTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 66 0.97
43 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (42 bp):
GCTAAACGAAAACCCATAAGGGTTAAATGGAAGCTCAAAAGA
Found at i:16344863 original size:42 final size:40
Alignment explanation
Indices: 16344707--16344863 Score: 156
Period size: 41 Copynumber: 3.8 Consensus size: 40
16344697 CCTTTCGGGT
* * * * *
16344707 CTTTAGCGGCGTTTTATTAAGAAGCGTCGTTAATGCTGTAGG
1 CTTTAGCGGCGTTTT-TGAAGAAGCGCCGCTAATACTG-GGG
* * *
16344749 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATTCTATGGG
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACT-GGGG
*
16344790 CTTTAACGGCGTTTTTGTAA-AAGCGCCGCTAATACTGGGG
1 CTTTAGCGGCGTTTTTG-AAGAAGCGCCGCTAATACTGGGG
16344830 TCTTTAGCGGCGTTTTCTGGAA-AAGCGCCGCTAA
1 -CTTTAGCGGCGTTTT-T-GAAGAAGCGCCGCTAA
16344864 GAACATTTTA
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
40 3 0.03
41 63 0.64
42 32 0.32
43 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACTGGGG
Found at i:16345676 original size:7 final size:7
Alignment explanation
Indices: 16345664--16345693 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
16345654 TAATAAATTT
*
16345664 GTTTAGA
1 GTTTAGG
16345671 GTTTAGG
1 GTTTAGG
16345678 GTTTAGG
1 GTTTAGG
16345685 GTTTAGG
1 GTTTAGG
16345692 GT
1 GT
16345694 ATTAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:16345806 original size:21 final size:20
Alignment explanation
Indices: 16345772--16345812 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
16345762 TTAGGGACTA
*
16345772 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
16345792 GGGATTTAAGGTTTAAGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
16345813 AGGGGTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:16345816 original size:285 final size:278
Alignment explanation
Indices: 16345265--16345915 Score: 763
Period size: 285 Copynumber: 2.3 Consensus size: 278
16345255 AATAGTTAAG
*
16345265 GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTAAT
1 GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTAAT
* **
16345330 TTATATTTTAAATATGTTTTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAAGGTTTTTG
66 TTATATTTTAAATATGTTTTATATAATTATAAAAGAGATAATAATAAATTTGTTTAAGGTTTAGG
* * *
16345395 GTTTAGGGTATATGATTAATTTAAGATTTAAGACCGGGTTAGGAGTTATTATTTTAAGGTTTAGG
131 GTTTAGGGTATAGGATTAATTTAAGATTTAAGACCAGGTTAGGAGTTACTATTTTAAGGTTTAGG
* * ** * * * *
16345460 GGGTATGGATTTAGGGATTATGGTTTAAGGGTTGAGATTTAAAGGTTTGGGGTTTGGGGTTAGAT
196 GAGTATGGATTTAGGGATTAGGGACTAAGGGTTGAGATTTAAAGGGTTGGGATTTAGGGTTAGAG
16345525 GTTAGGGGTTAAGAATAT
261 GTTAGGGGTTAAGAATAT
* **
16345543 GATTTAGGTTTTAGGCCGAATTCAGGGGTTGAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTT
1 GATTTAGGGTTTAGG--G-ATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAG-TTTT
* *
16345608 TAATTTATATTTTAAATATTTTTTTATATAATTATAAAAGAGATAGTAATAAATTTGTTT-AGAG
62 TAATTTATATTTTAAATA-TGTTTTATATAATTATAAAAGAGATAATAATAAATTTGTTTAAG-G
* * * *
16345672 TTTAGGGTTTAGGGTTTAGGGTATTAATTTAATATTTAAGGCCAGTTTAGGAGTTACTATTTTAA
125 TTTAGGGTTTAGGGTATA-GG-ATTAATTTAAGATTTAAGACCAGGTTAGGAGTTACTATTTTAA
* *
16345737 GGTTTATGGAGTATGGATTTAGGGATTAGGGACT-AGGGATT-ATGGTTT-AAGGGTTGGGATTT
188 GGTTTAGGGAGTATGGATTTAGGGATTAGGGACTAAGGG-TTGA-GATTTAAAGGGTTGGG----
16345799 AAGGTTTAAGGGTTAGGGGTTAGACGTTAGGGGTTAAGAATTATAT
247 -A--TTT-AGGGTTA---G--AG--GTTAGGGGTTAAG-A--ATAT
*
16345845 GATTTAGGGTTTAGAGATTCA-GGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTAA
1 GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAG-TTTTTAA
16345909 TTTATAT
65 TTTATAT
16345916 GTATTGAATG
Statistics
Matches: 315, Mismatches: 30, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
278 14 0.04
280 1 0.00
281 38 0.12
282 24 0.08
283 54 0.17
284 15 0.05
285 73 0.23
291 3 0.01
292 6 0.02
295 1 0.00
297 1 0.00
298 48 0.15
299 18 0.06
300 2 0.01
302 17 0.05
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.43
Consensus pattern (278 bp):
GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTAAT
TTATATTTTAAATATGTTTTATATAATTATAAAAGAGATAATAATAAATTTGTTTAAGGTTTAGG
GTTTAGGGTATAGGATTAATTTAAGATTTAAGACCAGGTTAGGAGTTACTATTTTAAGGTTTAGG
GAGTATGGATTTAGGGATTAGGGACTAAGGGTTGAGATTTAAAGGGTTGGGATTTAGGGTTAGAG
GTTAGGGGTTAAGAATAT
Found at i:16347167 original size:450 final size:450
Alignment explanation
Indices: 16346145--16347493 Score: 2276
Period size: 450 Copynumber: 3.0 Consensus size: 450
16346135 TTTGGATATA
16346145 TAGGACCACATTATAA-GAAATAAAAAACATTAGCGGCGTTTGGGTAGAAATGCCGCAACTATGT
1 TAGGACCACATTATAAGGAAA-AAAAAACATTAGCGGCGTTTGGGTAGAAATGCCGCAACTATGT
* *
16346209 ACCCATTTTTTTGAGAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTG
65 ACCCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTG
*
16346274 GGAAAACGCCATAAATATGTATTATAATTTATCAAAACGGC-CCGTTTCAGAAGAGGAGTGTAAT
130 GGAAAACGCCATAAATATGTATTATAATTTCTCAAAACGGCACCGTTTCAGAAGAGGAGTGTAAT
* * * *
16346338 CTATTAGTGGCGTTTATGCTAGAAACGTCGCAAGGATGTATTAATATTTTTCAAAACGTCACCGT
195 CTATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGT
* * * * * *
16346403 TTCACTCCAGGACTTGACATTTTAGTGGCGTTTTTCAGGAAAACGCCGGAAATATGGATTAAAGT
260 TTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAA-ACCGGAACTATGGATTAAAGT
* *
16346468 TTCTTAAAACGGCACCGTTTCTTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAATGCC
324 TTCTTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCC
*
16346533 GCAACTATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
389 GCAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
* * *
16346595 CAGGACCACATTATAAGGAAAAAAAAACATTAACGGCATTTGGGTAGAAATGCCGCAACTATGTA
1 TAGGACCACATTATAAGGAAAAAAAAACATTAGCGGCGTTTGGGTAGAAATGCCGCAACTATGTA
16346660 CCCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGG
66 CCCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGG
*
16346725 GAAAACGCCATAAATATGTATTATAATTTCTCAAAGCGGCACCGTTTCAGAAGAGGAGTGTAATC
131 GAAAACGCCATAAATATGTATTATAATTTCTCAAAACGGCACCGTTTCAGAAGAGGAGTGTAATC
16346790 TATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTT
196 TATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTT
*
16346855 TCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAATATCGGAACTATGGATTAAAGTT
261 TCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAA-ACCGGAACTATGGATTAAAGTT
*
16346920 TCTTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTCTTAGTGGCGTTTTTGCGT-AAAACGCC
325 TCTTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGC-TAAAAACGCC
16346984 GCAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
389 GCAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
* ** *
16347046 TAGGACCACATTATAAGGAAAAAAAAACATTAGCGGCGTTTGGG-AAAAACACCGCAACTATGTT
1 TAGGACCACATTATAAGGAAAAAAAAACATTAGCGGCGTTTGGGTAGAAATGCCGCAACTATGTA
*
16347110 CCCATTTTTTTCAAAACGGCGTCGTATCTATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGG
66 CCCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGG
* *
16347175 GAAAACGCCATAAATATGTATTATAATTTCTCAAAACGACACCGTTTCAGAAGATGAGTGTAATC
131 GAAAACGCCATAAATATGTATTATAATTTCTCAAAACGGCACCGTTTCAGAAGAGGAGTGTAATC
*
16347240 TATTAGTGGCTTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTT
196 TATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTT
16347305 TCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGG-AAAACGCTGGAACTATGGATTAAAGT
261 TCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAAAC-C-GGAACTATGGATTAAAGT
* **
16347369 TTCTTAAAATGGCACCGTTTGAATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCC
324 TTCTTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCC
* ** *
16347434 GCAAATATATATTTAAGGTTCTTAAAACATTGCTGTTTCAGAATTTAATTTTGGTAATTA
389 GCAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTA
16347494 TGGAAGCAAT
Statistics
Matches: 849, Mismatches: 44, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
448 1 0.00
449 5 0.01
450 535 0.63
451 307 0.36
452 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (450 bp):
TAGGACCACATTATAAGGAAAAAAAAACATTAGCGGCGTTTGGGTAGAAATGCCGCAACTATGTA
CCCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGG
GAAAACGCCATAAATATGTATTATAATTTCTCAAAACGGCACCGTTTCAGAAGAGGAGTGTAATC
TATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTT
TCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAAACCGGAACTATGGATTAAAGTTT
CTTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCCGC
AAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
Found at i:16349291 original size:66 final size:66
Alignment explanation
Indices: 16349188--16349321 Score: 200
Period size: 66 Copynumber: 2.0 Consensus size: 66
16349178 TAAAGCGGGG
* * *
16349188 GCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTA-CAGCTTAAAGCAG
1 GCAACAGCGAGAGAAGCTAAGGTTCAAAAAAGATATGAAGAACTCCAGC-AGCAGCTTAAACCAG
16349252 AT
65 AT
*
16349254 GCAACAGCGAGAGAAGCTAAGGTTCAACGAAAG-TATGAAGAACTCCAGCAGCAGCTTAAACCAG
1 GCAACAGCGAGAGAAGCTAAGGTTCAA-AAAAGATATGAAGAACTCCAGCAGCAGCTTAAACCAG
16349318 AT
65 AT
16349320 GC
1 GC
16349322 GGCAATGAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
65 1 0.02
66 57 0.92
67 4 0.06
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (66 bp):
GCAACAGCGAGAGAAGCTAAGGTTCAAAAAAGATATGAAGAACTCCAGCAGCAGCTTAAACCAGA
T
Found at i:16349332 original size:66 final size:66
Alignment explanation
Indices: 16349188--16349336 Score: 194
Period size: 66 Copynumber: 2.3 Consensus size: 66
16349178 TAAAGCGGGG
* * *
16349188 GCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAGCTTAAAGCAGA
1 GCAACAACGAGAGAAGCTAAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAGCTTAAACCAGA
16349253 T
66 T
* *
16349254 GCAACAGCGAGAGAAGCTAAGGTTCAACGAAAG-TATGAAGAACTCCAGC-AGCAGCTTAAACCA
1 GCAACAACGAGAGAAGCTAAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAGCTTAAACCA
16349317 GAT
64 GAT
** *
16349320 GCGGCAATGAGAGAAGC
1 GCAACAACGAGAGAAGC
16349337 AGAGGCTGCA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (66 bp):
GCAACAACGAGAGAAGCTAAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAGCTTAAACCAGA
T
Found at i:16349351 original size:21 final size:21
Alignment explanation
Indices: 16349327--16349403 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
16349317 GATGCGGCAA
*
16349327 TGAGAGAAGCAGAGGCTGCAG
1 TGAGGGAAGCAGAGGCTGCAG
*
16349348 TGAGGGAAGCAGAGGCTACAG
1 TGAGGGAAGCAGAGGCTGCAG
* *
16349369 CGAGGGAAGTAGAGGCTGCAG
1 TGAGGGAAGCAGAGGCTGCAG
16349390 TGAGGGAAGCAGAG
1 TGAGGGAAGCAGAG
16349404 CAGCATAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.32, C:0.13, G:0.45, T:0.09
Consensus pattern (21 bp):
TGAGGGAAGCAGAGGCTGCAG
Found at i:16349852 original size:43 final size:42
Alignment explanation
Indices: 16349774--16349994 Score: 147
Period size: 43 Copynumber: 5.2 Consensus size: 42
16349764 TTTACGACAA
* ** *
16349774 AAAGCACCGCTAAAAGATAAGGGTATTTAGCGGCGTTTGTGGAG
1 AAAGCGCCGCT-AAAGACCAGGGTCTTTAGCGGCGTTTGTGG-G
* *
16349818 AAAGCGCCGCTAAAGACCAGGTTCTTTAGTGGCGTTTGTGGTG
1 AAAGCGCCGCTAAAGACCAGGGTCTTTAGCGGCGTTTGTGG-G
* * * ** *
16349861 GAAGCGCCGTTATAGATTAGGGTCTTTTGCGGCGTTTGTGGG
1 AAAGCGCCGCTAAAGACCAGGGTCTTTAGCGGCGTTTGTGGG
* **** * *
16349903 AAAAGTGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTAT-CG
1 -AAAGCGCCGCTAAAGACCAGGGTCTTTAGCGGCG-TTTGTGGG
* * ** * * * *
16349946 AAAACGTCGCTAAAGACCTTGATCTTTAGCGTCGTTTGTTGT
1 AAAGCGCCGCTAAAGACCAGGGTCTTTAGCGGCGTTTGTGGG
16349988 AAAGCGC
1 AAAGCGC
16349995 AGCGGCTTTT
Statistics
Matches: 135, Mismatches: 39, Indels: 8
0.74 0.21 0.04
Matches are distributed among these distances:
41 4 0.03
42 34 0.25
43 83 0.61
44 14 0.10
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGACCAGGGTCTTTAGCGGCGTTTGTGGG
Found at i:16350151 original size:21 final size:21
Alignment explanation
Indices: 16350126--16350169 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
16350116 ATTTGCGGCG
*
16350126 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
16350147 CTAAAAAACGCCGCTAAAAGC
1 CTAAAAAACGCCGCTAAAAGC
16350168 CT
1 CT
16350170 GTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.30, G:0.16, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:16359307 original size:25 final size:25
Alignment explanation
Indices: 16359279--16359336 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
16359269 ACAACTCATG
* *
16359279 TGAGCATTTATAGTCACAGCTTGTC
1 TGAGCATTTACAGTCACAACTTGTC
* *
16359304 TGAGCATTTACCGTCACAACTTGTG
1 TGAGCATTTACAGTCACAACTTGTC
16359329 TGAGCATT
1 TGAGCATT
16359337 GTTCCTACGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (25 bp):
TGAGCATTTACAGTCACAACTTGTC
Found at i:16359477 original size:39 final size:40
Alignment explanation
Indices: 16359404--16359497 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 40
16359394 GGAAATGGTA
* *
16359404 ATATG-AATGGATATACTGAATTTTTATATGAAAATATAT
1 ATATGAAATGGATATACTGAAGTGTTATATGAAAATATAT
* *
16359443 ATATGAAATGGTTATA-TGAAGTGTT-TATGCAAAATATTT
1 ATATGAAATGGATATACTGAAGTGTTATATG-AAAATATAT
*
16359482 ATATGAATATAGATAT
1 ATATGAA-ATGGATAT
16359498 GTGAAAAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
38 4 0.09
39 27 0.59
40 15 0.33
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.40
Consensus pattern (40 bp):
ATATGAAATGGATATACTGAAGTGTTATATGAAAATATAT
Found at i:16361246 original size:17 final size:18
Alignment explanation
Indices: 16361224--16361264 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
16361214 ATATTTTTAA
16361224 TTAAAA-TTTAAAATTAT
1 TTAAAATTTTAAAATTAT
*
16361241 TTAAAATTTTAGAATTAT
1 TTAAAATTTTAAAATTAT
16361259 TTAAAA
1 TTAAAA
16361265 ATAGCATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTAAAATTTTAAAATTAT
Found at i:16365407 original size:24 final size:24
Alignment explanation
Indices: 16365361--16365407 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16365351 AACTATACAC
* **
16365361 GGCCTTGCACATGGCCAGTCACAT
1 GGCCTCGCACATGGCCAACCACAT
16365385 GGCCTCGCACATGGCCAACCACA
1 GGCCTCGCACATGGCCAACCACA
16365408 CTGCCGCTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (24 bp):
GGCCTCGCACATGGCCAACCACAT
Found at i:16370251 original size:215 final size:211
Alignment explanation
Indices: 16369863--16370294 Score: 602
Period size: 215 Copynumber: 2.0 Consensus size: 211
16369853 ATGACATGGA
* ** *
16369863 TTGAAATTTAAGAGGAATATTTGGCTATTTAGTCGGACGAGACATCGAAACCCATCACGTTAGGG
1 TTGAAATTTAAGAGGAATATTTGGCTATTTAGCCAAACGAGACATCGAAACCCAACACGTTAGGG
* *
16369928 CACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTGAAATTTTAAAAGGATATTTGGC
66 CACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTAAAATTTAAAAAGGATATTTGGC
* *
16369993 TATATGGTCAAACGAGAAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGC
131 TATATGGCCAAACGAGAAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCGAATTTCCAAACGC
*
16370058 GAAATATTGCCTTATT
196 AAAATATTGCCTTATT
*
16370074 TTGAAAGTTTAAGAAAGG-ATATTTGGCTATTTGGCCAAACGAGTA-ATCGAAACCCAACACGTT
1 TTGAAA-TTTAAG--AGGAATATTTGGCTATTTAGCCAAACGAG-ACATCGAAACCCAACACGTT
* * * *
16370137 AGGGCACGTT-TCCTCGATTTTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAGGAT
62 AGGGCACGTTCT-CTCGAATTTCCAAACAC-AAATATTGCCTCACTTTAAAA-TTTAAAAAGGAT
* * *
16370201 ATTTGGCTATTTGGCCAAACGAGTAA-TCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTT
124 ATTTGGCTATATGGCCAAACGAG-AAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCGAATTT
16370265 CCAAACGCAAAATATTGCCTTATT
188 CCAAACGCAAAATATTGCCTTATT
*
16370289 TAGAAA
1 TTGAAA
16370295 AAAATTTCTT
Statistics
Matches: 195, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
211 6 0.03
212 7 0.04
213 63 0.32
214 22 0.11
215 95 0.49
216 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (211 bp):
TTGAAATTTAAGAGGAATATTTGGCTATTTAGCCAAACGAGACATCGAAACCCAACACGTTAGGG
CACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTAAAATTTAAAAAGGATATTTGGC
TATATGGCCAAACGAGAAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCGAATTTCCAAACGC
AAAATATTGCCTTATT
Found at i:16370269 original size:107 final size:106
Alignment explanation
Indices: 16369863--16370294 Score: 595
Period size: 108 Copynumber: 4.1 Consensus size: 106
16369853 ATGACATGGA
* * * ** *
16369863 TTGAAA-TTT-AAGAGGAATATTTGGCTATTTAGTCGGACGAGACATCGAAACCCATCACGTTAG
1 TTGAAAGTTTAAAAAGG-ATATTTGGCTATTTGGCCAAACGAGA-ATCGAAACCCAACACGTTAG
* * *
16369926 GGCACG-TTCTCTCGAATTTCCAAACAC-AAATATTGCCTCACT
64 GGCACGTTTC-CTCGAATTTCCAAACGCGAAATATTGCCTTATT
* * *
16369968 TTGAAA-TTTTAAAAGGATATTTGGCTATATGGTCAAACGAGAAGTCGAAACCCAACACGTTAGG
1 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGAA-TCGAAACCCAACACGTTAGG
*
16370032 GCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTATT
65 GCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATT
16370074 TTGAAAGTTTAAGAAAGGATATTTGGCTATTTGGCCAAACGAGTAATCGAAACCCAACACGTTAG
1 TTGAAAGTTTAA-AAAGGATATTTGGCTATTTGGCCAAACGAG-AATCGAAACCCAACACGTTAG
*
16370139 GGCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTATT
64 GGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATT
* *
16370182 TTAAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTAGG
1 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAG-AATCGAAACCCAACACGTTAGG
* *
16370247 GCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATT
65 GCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATT
*
16370289 TAGAAA
1 TTGAAA
16370295 AAAATTTCTT
Statistics
Matches: 300, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
104 1 0.00
105 70 0.23
106 27 0.09
107 99 0.33
108 101 0.34
109 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (106 bp):
TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGAATCGAAACCCAACACGTTAGGG
CACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATT
Found at i:16372295 original size:44 final size:44
Alignment explanation
Indices: 16372245--16372883 Score: 589
Period size: 44 Copynumber: 14.6 Consensus size: 44
16372235 GATTGATCCT
* * * *
16372245 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
* * *
16372289 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCCATTTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
* * ** * **
16372333 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
* * * *
16372376 ATCTGCTTCACTACTACTTAGGAAGATAAGAT-T-CACTGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC-C-GTCTTTG
* *
16372420 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCCATCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
* * * * **
16372464 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAG-TGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTTG
* * *
16372507 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTTG
* * *
16372551 ATCTGCTCCACTACTGCTTAGGGAGATAAAATCTTCCATCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
* * * ** * **
16372595 ACCTGCTCTACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
* * * *
16372638 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTGG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTTG
* * * * *
16372682 ATGTGCTCCACTACTGCTTAGGGAGATAATATCTTCCATCTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
* * ** * **
16372726 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
* * *
16372769 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTTG
* *
16372813 ATCTGCTCCACTACTGCTTAGGG-GATAAGATCTTCCATCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
*
16372856 ACCTGCTCCACTACTGCTTAGGGAGATA
1 ATCTGCTCCACTACTGCTTAGGGAGATA
16372884 GGACTGGATA
Statistics
Matches: 472, Mismatches: 107, Indels: 32
0.77 0.18 0.05
Matches are distributed among these distances:
43 168 0.36
44 299 0.63
45 4 0.01
46 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTTG
Found at i:16372557 original size:175 final size:174
Alignment explanation
Indices: 16372245--16372889 Score: 494
Period size: 175 Copynumber: 3.7 Consensus size: 174
16372235 GATTGATCCT
* *
16372245 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* ** ** * * **
16372310 GGAGATAAGATCTTCCATTTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAAGATCTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGACTGCCGGCTTA
* * *
16372375 AATCTGCTTCACTACTACTTAGGAAGATAAGA-TTCACTGTCTTCG
131 AATCTGCTCCACTACTACTTAGGAAGATAAAACTTC-C-ATCTTCG
* *
16372420 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* *** * * * *
16372485 GGAGATAGGA-CTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
66 GGAGATAAGATCTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGACT-GCCGGCTT
** * * *
16372549 CGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTTCCATCTTTG
130 AAATCTGCTCCACTACTACTTAGGAAGATAAAA-CTTCCATCTTCG
* * * ***** ** * *
16372595 ACCTGCTCTACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* ** ** * * * **
16372659 GAAGATAAGAT-TCACC-GTCTTGGATGTGCTCCACTACTGCTTAGGGAGATAATATCTTCCATC
66 GGAGATAAGATCT-ACCAG-CTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGA-CTGCCGGC
* * * * ** ***** **
16372722 TTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
128 TTAAATCTGCTCCACTACTACTTAGGAAGATAAAACTTCCATCTTCG
* * * * *
16372769 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTA
* * ** * *
16372833 GGG-GATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTG
65 GGGAGATAAGATCTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGACTG
16372890 GATAAGATGA
Statistics
Matches: 373, Mismatches: 86, Indels: 24
0.77 0.18 0.05
Matches are distributed among these distances:
173 2 0.01
174 139 0.37
175 227 0.61
176 2 0.01
177 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (174 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
GGAGATAAGATCTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGACTGCCGGCTTA
AATCTGCTCCACTACTACTTAGGAAGATAAAACTTCCATCTTCG
Found at i:16372910 original size:131 final size:131
Alignment explanation
Indices: 16372245--16372890 Score: 1125
Period size: 131 Copynumber: 4.9 Consensus size: 131
16372235 GATTGATCCT
* * * *
16372245 ATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCATCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTC-ACCGTCTTCGATCTGCTCCACTACTGCTTA
*
16372309 GGGAGATAAGATCTTCCATTTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
65 GGGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
16372374 AA
130 AA
* *
16372376 ATCTGCTTCACTACTACTTAGGAAGATAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
*
16372441 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTA
66 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
16372506 A
131 A
*
16372507 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* *
16372572 GGAGATAAAATCTTCCATCTTTGACCTGCTCTACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
16372637 A
131 A
* *
16372638 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTGGATGTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* *
16372703 GGAGATAATATCTTCCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
16372768 A
131 A
*
16372769 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
16372834 GG-GATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGG
66 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGG
16372891 ATAAGATGAC
Statistics
Matches: 489, Mismatches: 25, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
130 53 0.11
131 434 0.89
132 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
A
Found at i:16373236 original size:24 final size:24
Alignment explanation
Indices: 16373204--16373259 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
16373194 GATTTCCCCT
16373204 ACTGTAATCTTCAAAGTTCAA-TCC
1 ACTGTAATCTTCAAAGTT-AAGTCC
*
16373228 ACTGTAATCTTCAAGGTTAAGTCC
1 ACTGTAATCTTCAAAGTTAAGTCC
16373252 ACTGTAAT
1 ACTGTAAT
16373260 TTTGGGACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (24 bp):
ACTGTAATCTTCAAAGTTAAGTCC
Found at i:16384828 original size:215 final size:213
Alignment explanation
Indices: 16384484--16384872 Score: 568
Period size: 215 Copynumber: 1.8 Consensus size: 213
16384474 CGGATGAGAC
16384484 ATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTG
1 ATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTG
*
16384549 AAAATTTAAAAGGATATTTGGCTATATGGTCAAACGAGAAGTCGAAACCCAACACGTTAGGGCAC
66 AAAATTTAAAAGGATATTTGGCTATATGGCCAAACGAGAAGTCGAAACCCAACACGTTAGGGCAC
* * *
16384614 GTTTCCTCGATTTTCCAAACGCGAAACATTGCCTTATTTTGAAAGTTTAAAAAAGGATATTTGGC
131 GTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTAGAAAGTTTAAAAAAGGATATTTGGC
16384679 TATTTGGCCAAACGAATA
196 TATTTGGCCAAACGAATA
* * ** *
16384697 ATCGAAACCCAGCACGTTAGGGTACGTT-TCCTCGATTTTCCAAACGTGAAATATTGCCTTA-TT
1 ATCGAAACCCAGCACGTTAGGGCACGTTCT-CTCGAATTTCCAAAC-ACAAATATTGCCTCACTT
* * * * *
16384760 TTAAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTAA-TCGAAACCTAGCATGTTAG
64 TGAAAA-TTT-AAAAGGATATTTGGCTATATGGCCAAACGAG-AAGTCGAAACCCAACACGTTAG
* *
16384824 GGCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAA
126 GGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTAGAAA
16384873 AAAATTTCTT
Statistics
Matches: 155, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
212 1 0.01
213 48 0.31
214 15 0.10
215 89 0.57
216 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (213 bp):
ATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTG
AAAATTTAAAAGGATATTTGGCTATATGGCCAAACGAGAAGTCGAAACCCAACACGTTAGGGCAC
GTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTAGAAAGTTTAAAAAAGGATATTTGGC
TATTTGGCCAAACGAATA
Found at i:16384831 original size:107 final size:107
Alignment explanation
Indices: 16384484--16384867 Score: 544
Period size: 108 Copynumber: 3.6 Consensus size: 107
16384474 CGGATGAGAC
* *
16384484 ATCGAAACCCAGCACGTTAGGGCACG-TTCTCTCGAATTTCCAAACAC-AAATATTGCCTCACTT
1 ATCGAAACCCAGCACGTTAGGGCACGTTTC-CTCGAATTTCCAAACGCGAAATATTGCCTTA-TT
* * *
16384547 TGAAAA-TTT-AAAAGGATATTTGGCTATATGGTCAAACGAG-A
64 TTAAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
* * *
16384588 AGTCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGCGAAACATTGCCTTATTT
1 A-TCGAAACCCAGCACGTTAGGGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATTT
* *
16384653 TGAAAGTTTAAAAAAGGATATTTGGCTATTTGGCCAAACGAATA
65 TAAAAGTTT-AAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
* * *
16384697 ATCGAAACCCAGCACGTTAGGGTACGTTTCCTCGATTTTCCAAACGTGAAATATTGCCTTATTTT
1 ATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATTTT
16384762 AAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
66 AAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
* * * *
16384804 ATCGAAACCTAGCATGTTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTT
1 ATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATTT
16384868 AGAAAAAAAT
Statistics
Matches: 250, Mismatches: 23, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
104 1 0.00
105 45 0.18
106 17 0.07
107 90 0.36
108 95 0.38
109 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (107 bp):
ATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATTTT
AAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
Found at i:16385719 original size:13 final size:13
Alignment explanation
Indices: 16385701--16385730 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16385691 AAGAATCAAA
*
16385701 CTCTCCCCCTTTT
1 CTCTCCCCCTTCT
16385714 CTCTCCCCCTTCT
1 CTCTCCCCCTTCT
16385727 CTCT
1 CTCT
16385731 AGGCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (13 bp):
CTCTCCCCCTTCT
Found at i:16392403 original size:21 final size:21
Alignment explanation
Indices: 16392377--16392435 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
16392367 TCTCTAACCC
16392377 TGGTCAAAATTATTTTGAAAA
1 TGGTCAAAATTATTTTGAAAA
** * *
16392398 TGGTCAAAATTATAATGGAAG
1 TGGTCAAAATTATTTTGAAAA
16392419 TGGTCAAAATTATTTTG
1 TGGTCAAAATTATTTTG
16392436 CTGGTCAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.37
Consensus pattern (21 bp):
TGGTCAAAATTATTTTGAAAA
Found at i:16392442 original size:18 final size:18
Alignment explanation
Indices: 16392418--16392463 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
16392408 TATAATGGAA
*
16392418 GTGGTCAAAATTAT-TTT
1 GTGGTCAAAATTATGATT
16392435 GCTGGTCAAAATTATGATT
1 G-TGGTCAAAATTATGATT
16392454 GTGGTCAAAA
1 GTGGTCAAAA
16392464 GTGGTATGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 22 0.85
19 3 0.12
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (18 bp):
GTGGTCAAAATTATGATT
Found at i:16392724 original size:18 final size:18
Alignment explanation
Indices: 16392688--16392732 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
16392678 TTGATGGTGC
*
16392688 TATTGGGCCGAATAGTGG
1 TATTGGGCCGAAGAGTGG
*
16392706 TGTTGGGCCGAAG-GATGG
1 TATTGGGCCGAAGAG-TGG
16392724 TATTGGGCC
1 TATTGGGCC
16392733 ACATATTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.18, C:0.13, G:0.42, T:0.27
Consensus pattern (18 bp):
TATTGGGCCGAAGAGTGG
Found at i:16399362 original size:26 final size:27
Alignment explanation
Indices: 16399326--16399388 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
16399316 GGCCCAGCCC
*
16399326 ATTTTTAAAATAAACAT-T-AAAAAATT
1 ATTTTAAAAATAAA-ATATAAAAAAATT
16399352 ATTTTAAAAATAAAATAATAAAAAAATT
1 ATTTTAAAAATAAAAT-ATAAAAAAATT
16399380 ATTTTAAAA
1 ATTTTAAAA
16399389 GTATTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 13 0.39
27 1 0.03
28 17 0.52
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTTTAAAAATAAAATATAAAAAAATT
Found at i:16399417 original size:13 final size:13
Alignment explanation
Indices: 16399395--16399424 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16399385 AAAAGTATTT
*
16399395 TAAAATTAAAAAA
1 TAAAAATAAAAAA
16399408 TAAAAATAAAAAA
1 TAAAAATAAAAAA
16399421 TAAA
1 TAAA
16399425 TATTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:16402565 original size:8 final size:8
Alignment explanation
Indices: 16402554--16402653 Score: 67
Period size: 8 Copynumber: 11.4 Consensus size: 8
16402544 ATGTTAAAAA
16402554 TTATAATT
1 TTATAATT
16402562 TTATAATT
1 TTATAATT
16402570 TTATAATT
1 TTATAATT
*
16402578 TTCATTATT
1 TT-ATAATT
16402587 TTAAATAATT
1 TT--ATAATT
*
16402597 TTAATGATT
1 TT-ATAATT
16402606 TT-TAATTT
1 TTATAA-TT
16402614 TTAAAATCAATT
1 TT---AT-AATT
*
16402626 TTATATTT
1 TTATAATT
16402634 TTATAATTT
1 TTATAA-TT
*
16402643 TTAAAATT
1 TTATAATT
16402651 TTA
1 TTA
16402654 AAAATTTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
7 2 0.03
8 35 0.47
9 24 0.32
10 7 0.09
12 5 0.07
13 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (8 bp):
TTATAATT
Found at i:16402596 original size:27 final size:27
Alignment explanation
Indices: 16402564--16402663 Score: 80
Period size: 27 Copynumber: 3.7 Consensus size: 27
16402554 TTATAATTTT
*
16402564 ATAATTTTATAATTTTCATTATTTTAA
1 ATAATTTTATAATTTTAATTATTTTAA
* *
16402591 ATAATTTTAATGATTTTTAATT-TTTAAA
1 ATAATTTT-AT-AATTTTAATTATTTTAA
* * *
16402619 ATCAATTTTAT-ATTTTTATAATTTTTA
1 AT-AATTTTATAATTTTAATTATTTTAA
*
16402646 A-AATTTTAAAAATTTTAA
1 ATAATTTT-ATAATTTTAA
16402664 AAAAATAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
25 6 0.11
26 7 0.12
27 19 0.33
28 11 0.19
29 14 0.25
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (27 bp):
ATAATTTTATAATTTTAATTATTTTAA
Found at i:16402606 original size:19 final size:16
Alignment explanation
Indices: 16402554--16402653 Score: 67
Period size: 17 Copynumber: 5.7 Consensus size: 16
16402544 ATGTTAAAAA
16402554 TTATAATTTTATAATT
1 TTATAATTTTATAATT
*
16402570 TTATAATTTTCATTATT
1 TTATAATTTT-ATAATT
*
16402587 TTAAATAATTTTAATGATT
1 TT--ATAATTTT-ATAATT
16402606 TT-TAATTTTTAAAATCAATT
1 TTATAA-TTTT---AT-AATT
*
16402626 TTATATTTTTATAATTT
1 TTATAATTTTATAA-TT
*
16402643 TTAAAATTTTA
1 TTATAATTTTA
16402654 AAAATTTTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
16 15 0.22
17 24 0.35
19 18 0.26
20 9 0.13
21 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (16 bp):
TTATAATTTTATAATT
Found at i:16402626 original size:29 final size:28
Alignment explanation
Indices: 16402564--16402649 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
16402554 TTATAATTTT
* *
16402564 ATAATTTTATAATTTTCATTA-TTTT-AA
1 ATAATTTTAT-ATTTTTATAATTTTTAAA
16402591 ATAATTTTA-ATGATTTT-TAATTTTTAAA
1 ATAATTTTATAT--TTTTATAATTTTTAAA
16402619 ATCAATTTTATATTTTTATAATTTTTAAA
1 AT-AATTTTATATTTTTATAATTTTTAAA
16402648 AT
1 AT
16402650 TTTAAAAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 16 0.32
28 8 0.16
29 20 0.40
30 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (28 bp):
ATAATTTTATATTTTTATAATTTTTAAA
Found at i:16403737 original size:28 final size:28
Alignment explanation
Indices: 16403660--16403837 Score: 198
Period size: 28 Copynumber: 6.4 Consensus size: 28
16403650 GGTCGTGTGT
* * *
16403660 CCCCTATTTTTTAGATATTATAGTTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
* *** *
16403688 CCACTATTTCAAAAATTTTACAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
* *
16403716 CCCCTATTTTCTAG-TTTATACAATTTTA
1 CCCCTATTTTTTAGATTT-TACAATTTTG
16403744 CCCCTATTTTTTAGATTTTACAATTTT-
1 CCCCTATTTTTTAGATTTTACAATTTTG
* * *
16403771 CCCTTATTTTTTAGATTTTATAGTTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
16403799 CCCCTATTTTTTAGATTTTACAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
*
16403827 TCTCCTATTTT
1 -CCCCTATTTT
16403838 ACAAATTTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
27 27 0.22
28 85 0.69
29 12 0.10
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.53
Consensus pattern (28 bp):
CCCCTATTTTTTAGATTTTACAATTTTG
Found at i:16403808 original size:55 final size:55
Alignment explanation
Indices: 16403659--16403825 Score: 210
Period size: 55 Copynumber: 3.0 Consensus size: 55
16403649 TGGTCGTGTG
* * *** *
16403659 TCCCCTATTTTTTAGATATTATAGTTTTGCCACTATTTCAAAAATTTTACAATTT
1 TCCCCTATTTTTTAGATTTTATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
* * * *
16403714 TGCCCCTATTTTCTAG-TTTATACAATTTTACCCCTATTTTTTAGATTTTACAATTT
1 T-CCCCTATTTTTTAGATTT-TATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
*
16403770 TCCCTTATTTTTTAGATTTTATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
1 TCCCCTATTTTTTAGATTTTATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
16403825 T
1 T
16403826 GTCTCCTATT
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
55 49 0.52
56 45 0.48
ACGTcount: A:0.24, C:0.17, G:0.06, T:0.53
Consensus pattern (55 bp):
TCCCCTATTTTTTAGATTTTATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
Found at i:16407040 original size:164 final size:164
Alignment explanation
Indices: 16406834--16407161 Score: 656
Period size: 164 Copynumber: 2.0 Consensus size: 164
16406824 CAATCGGACT
16406834 GTATTTGAATCAGAAGATAATTTTACGACTTTGAGAATAATTTAATTGAGTCGATTTATTCGATG
1 GTATTTGAATCAGAAGATAATTTTACGACTTTGAGAATAATTTAATTGAGTCGATTTATTCGATG
16406899 TGGAGTTAAATTAGGTGGTCGTGAGAATTTTTCAACTAGAGAATTTGATTAAAGAATTTTCTTGA
66 TGGAGTTAAATTAGGTGGTCGTGAGAATTTTTCAACTAGAGAATTTGATTAAAGAATTTTCTTGA
16406964 AAAATTAATTTGGAAAATATAAGTGATTTTTGAA
131 AAAATTAATTTGGAAAATATAAGTGATTTTTGAA
16406998 GTATTTGAATCAGAAGATAATTTTACGACTTTGAGAATAATTTAATTGAGTCGATTTATTCGATG
1 GTATTTGAATCAGAAGATAATTTTACGACTTTGAGAATAATTTAATTGAGTCGATTTATTCGATG
16407063 TGGAGTTAAATTAGGTGGTCGTGAGAATTTTTCAACTAGAGAATTTGATTAAAGAATTTTCTTGA
66 TGGAGTTAAATTAGGTGGTCGTGAGAATTTTTCAACTAGAGAATTTGATTAAAGAATTTTCTTGA
16407128 AAAATTAATTTGGAAAATATAAGTGATTTTTGAA
131 AAAATTAATTTGGAAAATATAAGTGATTTTTGAA
16407162 AAACTTAATT
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 164 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (164 bp):
GTATTTGAATCAGAAGATAATTTTACGACTTTGAGAATAATTTAATTGAGTCGATTTATTCGATG
TGGAGTTAAATTAGGTGGTCGTGAGAATTTTTCAACTAGAGAATTTGATTAAAGAATTTTCTTGA
AAAATTAATTTGGAAAATATAAGTGATTTTTGAA
Found at i:16407676 original size:37 final size:36
Alignment explanation
Indices: 16407625--16407716 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 36
16407615 ATACCAAAAA
*
16407625 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
16407661 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
16407698 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
16407717 TTACATTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
36 13 0.27
37 18 0.38
38 4 0.08
39 12 0.25
40 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:16408353 original size:5 final size:5
Alignment explanation
Indices: 16408343--16408395 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
16408333 TACATATATC
16408343 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
16408393 TAT
1 TAT
16408396 CTATGTTTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (5 bp):
TATTG
Found at i:16408503 original size:34 final size:35
Alignment explanation
Indices: 16408465--16408539 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 35
16408455 AAGCATGACT
16408465 TTTGCTACTG-ATTTGATA-TGTTATAAGCATATT-A
1 TTTGCTACTGTA-TTGA-ACTGTTATAAGCATATTGA
* *
16408499 TTTGCTATTGTATTGAACTTTTATAAGCATATTGA
1 TTTGCTACTGTATTGAACTGTTATAAGCATATTGA
16408534 -TTGCTA
1 TTTGCTA
16408540 TAATATTGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
33 1 0.03
34 33 0.92
35 2 0.06
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (35 bp):
TTTGCTACTGTATTGAACTGTTATAAGCATATTGA
Found at i:16416174 original size:16 final size:16
Alignment explanation
Indices: 16416155--16416185 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16416145 TATCTTGGTA
*
16416155 AATATTATATTAATTT
1 AATATTATAGTAATTT
16416171 AATATTATAGTAATT
1 AATATTATAGTAATT
16416186 AAATTTAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
AATATTATAGTAATTT
Found at i:16416823 original size:34 final size:34
Alignment explanation
Indices: 16416785--16416851 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
16416775 AAGCATGACT
*
16416785 TTTGCTACTGAGTTG-ATCTGTTATAAGAATATTA
1 TTTGCTACCGAGTTGAAT-TGTTATAAGAATATTA
* *
16416819 TTTGCTACCGTGTTGAATTGTTATAAGCATATT
1 TTTGCTACCGAGTTGAATTGTTATAAGAATATT
16416852 GATTGTTACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (34 bp):
TTTGCTACCGAGTTGAATTGTTATAAGAATATTA
Found at i:16417217 original size:137 final size:138
Alignment explanation
Indices: 16416991--16417286 Score: 391
Period size: 137 Copynumber: 2.2 Consensus size: 138
16416981 AATTTGTTTA
* * * * * *
16416991 TGCACCCACAGCCCAGTGGCAGTATTTATCCTTTAATTGCAAATATGATGTACATCCACAACCCA
1 TGCACCCACAACCCAATGGCAGTAGTTAACCTTTAACTGAAAATATGATGTACATCCACAACCCA
* * * * *
16417056 TCGATAGCTTTTACCTGCAAATATGGTGTGCATCTATAGCCTAGTGACA-ACTTTTATTTGCAAT
66 TCGATAGCTTTTACCTGCAAATATGGTGTGCATCTACAACCCAATGACAGA-TTTTATCTGCAAT
16417120 ATTTTGTTG
130 ATTTTGTTG
* * *
16417129 TGCACCCACAATCCAATGGCAGT-GTTAACCTTTAACTGAAAATATGTTGTATATCCACAACCCA
1 TGCACCCACAACCCAATGGCAGTAGTTAACCTTTAACTGAAAATATGATGTACATCCACAACCCA
* * *
16417193 TCGATAGCTTTTACTTGCGAATATGGTGTGCATCTACAACCCAATGACAGATTTTATCTGCGATA
66 TCGATAGCTTTTACCTGCAAATATGGTGTGCATCTACAACCCAATGACAGATTTTATCTGCAATA
16417258 TTTTGTTG
131 TTTTGTTG
* *
16417266 CGTACCCAC-ACCCAATGGCAG
1 TGCACCCACAACCCAATGGCAG
16417287 GTTTCATCTA
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
136 11 0.08
137 105 0.77
138 21 0.15
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (138 bp):
TGCACCCACAACCCAATGGCAGTAGTTAACCTTTAACTGAAAATATGATGTACATCCACAACCCA
TCGATAGCTTTTACCTGCAAATATGGTGTGCATCTACAACCCAATGACAGATTTTATCTGCAATA
TTTTGTTG
Found at i:16418100 original size:21 final size:21
Alignment explanation
Indices: 16418067--16418110 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16418057 GAGTTTTCTG
* *
16418067 AAAATAGACTAAATTTTCTTAA
1 AAAATAGAATAAATGTT-TTAA
16418089 AAAATA-AATAAATGTTTTAA
1 AAAATAGAATAAATGTTTTAA
16418109 AA
1 AA
16418111 CGATTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 8 0.40
22 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
AAAATAGAATAAATGTTTTAA
Found at i:16419533 original size:17 final size:17
Alignment explanation
Indices: 16419511--16419545 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16419501 GTAAACACAA
16419511 AATTTTCCAAAAGTGTT
1 AATTTTCCAAAAGTGTT
16419528 AATTTTCCAAAAGTGTT
1 AATTTTCCAAAAGTGTT
16419545 A
1 A
16419546 TGAGTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (17 bp):
AATTTTCCAAAAGTGTT
Found at i:16419668 original size:24 final size:24
Alignment explanation
Indices: 16419618--16419669 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16419608 TTTGTAGGTC
**
16419618 AAATAAATTATACTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
16419642 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
16419666 AAAT
1 AAAT
16419670 CTTATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:16421588 original size:24 final size:24
Alignment explanation
Indices: 16421560--16421610 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
16421550 TTTATAAGTC
* *
16421560 AAATAAATTATGCTAATAAATATT
1 AAATAAATTATACTAATAAATACT
* *
16421584 AAATATATTATATTAATAAATACT
1 AAATAAATTATACTAATAAATACT
16421608 AAA
1 AAA
16421611 CCTTTTATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:16421618 original size:24 final size:23
Alignment explanation
Indices: 16421573--16421628 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
16421563 TAAATTATGC
* *
16421573 TAATAAATATTAAATATATTATA
1 TAATAAATACTAAACATATTATA
* *
16421596 TTAATAAATACTAAACCTTTTATA
1 -TAATAAATACTAAACATATTATA
*
16421620 AAATAAATA
1 TAATAAATA
16421629 TATTTTGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
TAATAAATACTAAACATATTATA
Found at i:16427314 original size:21 final size:21
Alignment explanation
Indices: 16427288--16427328 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16427278 AGACGAGCAA
* *
16427288 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
16427309 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
16427329 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:16431230 original size:42 final size:42
Alignment explanation
Indices: 16431165--16431320 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
16431155 AAATCGTACA
*
16431165 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
16431207 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
16431249 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
16431293 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
16431321 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:16438561 original size:42 final size:42
Alignment explanation
Indices: 16438496--16438651 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
16438486 AAATCGTACA
*
16438496 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
16438538 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
16438580 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
16438624 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
16438652 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:16442786 original size:24 final size:24
Alignment explanation
Indices: 16442754--16442826 Score: 146
Period size: 24 Copynumber: 3.0 Consensus size: 24
16442744 TATGGCCAAG
16442754 ATTGTTACCAATGTCATTTATGTC
1 ATTGTTACCAATGTCATTTATGTC
16442778 ATTGTTACCAATGTCATTTATGTC
1 ATTGTTACCAATGTCATTTATGTC
16442802 ATTGTTACCAATGTCATTTATGTC
1 ATTGTTACCAATGTCATTTATGTC
16442826 A
1 A
16442827 CTTGGCCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.45
Consensus pattern (24 bp):
ATTGTTACCAATGTCATTTATGTC
Found at i:16442793 original size:15 final size:15
Alignment explanation
Indices: 16442773--16442819 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
16442763 AATGTCATTT
16442773 ATGTCATTGTTACCA
1 ATGTCATTGTTACCA
16442788 ATGTCA-T-TT----
1 ATGTCATTGTTACCA
16442797 ATGTCATTGTTACCA
1 ATGTCATTGTTACCA
16442812 ATGTCATT
1 ATGTCATT
16442820 TATGTCACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
9 6 0.23
10 1 0.04
11 2 0.08
13 2 0.08
14 1 0.04
15 14 0.54
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (15 bp):
ATGTCATTGTTACCA
Found at i:16450232 original size:7 final size:7
Alignment explanation
Indices: 16450220--16450252 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
16450210 GTATTAGTCC
16450220 ATCGTCT
1 ATCGTCT
16450227 ATCGTCT
1 ATCGTCT
16450234 ATCGTCT
1 ATCGTCT
16450241 ATCGTCT
1 ATCGTCT
16450248 ATCGT
1 ATCGT
16450253 GTTGTTCCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (7 bp):
ATCGTCT
Found at i:16452865 original size:25 final size:26
Alignment explanation
Indices: 16452825--16452891 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
16452815 TTGTAGCTCA
*
16452825 TGAGAGCTTA-CTGATTCT-CAACTTG
1 TGAGAGCTTATC-GATTCTACAACTCG
*
16452850 TGAGAGCTTATCGATT-TACAGCTCG
1 TGAGAGCTTATCGATTCTACAACTCG
*
16452875 TGAGAGCATATCGATTC
1 TGAGAGCTTATCGATTC
16452892 ATAGCTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (26 bp):
TGAGAGCTTATCGATTCTACAACTCG
Found at i:16452897 original size:25 final size:25
Alignment explanation
Indices: 16452849--16452909 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
16452839 TTCTCAACTT
* *
16452849 GTGAGAGCTTATCGATTTACAGCTC
1 GTGAGAGCATATCGATTCACAGCTC
*
16452874 GTGAGAGCATATCGATTCATAGCTC
1 GTGAGAGCATATCGATTCACAGCTC
16452899 GT-ATGAGCATA
1 GTGA-GAGCATA
16452910 CATGTATTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (25 bp):
GTGAGAGCATATCGATTCACAGCTC
Found at i:16457459 original size:21 final size:20
Alignment explanation
Indices: 16457435--16457495 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
16457425 ATAAAACATA
16457435 AACCCTAAACCTCT-AACCCC
1 AACCCTAAACCT-TAAACCCC
*
16457455 TAACCCCTAAACATTAAACCCC
1 -AA-CCCTAAACCTTAAACCCC
*
16457477 AACCCTTAAACCATAAACC
1 AACCC-TAAACCTTAAACC
16457496 ATAATCCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.09
21 16 0.47
22 15 0.44
ACGTcount: A:0.41, C:0.43, G:0.00, T:0.16
Consensus pattern (20 bp):
AACCCTAAACCTTAAACCCC
Found at i:16457495 original size:15 final size:14
Alignment explanation
Indices: 16457412--16457536 Score: 63
Period size: 14 Copynumber: 8.8 Consensus size: 14
16457402 CCCTATCTCA
* * *
16457412 TAAACCTTAAATCA
1 TAAACCATAAACCC
*
16457426 TAAAACATAAACCC
1 TAAACCATAAACCC
* *
16457440 TAAACCTCTAACCCC
1 TAAACC-ATAAACCC
* * **
16457455 TAACCCCTAAACAT
1 TAAACCATAAACCC
**
16457469 TAAACC-CCAACCC
1 TAAACCATAAACCC
*
16457482 TTAAACCATAAACCA
1 -TAAACCATAAACCC
* *
16457497 TAATCCATAATCCC
1 TAAACCATAAACCC
*
16457511 TAAACACATAATCCC
1 TAAAC-CATAAACCC
*
16457526 TAAACCTTAAA
1 TAAACCATAAA
16457537 ATAGTAACTC
Statistics
Matches: 82, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
13 3 0.04
14 50 0.61
15 29 0.35
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:16457536 original size:22 final size:21
Alignment explanation
Indices: 16457426--16457536 Score: 80
Period size: 22 Copynumber: 5.2 Consensus size: 21
16457416 CCTTAAATCA
* *
16457426 TAAAACATAAACCCTAAACCT
1 TAAACCATAATCCCTAAACCT
* * * *
16457447 CTAACCCCTAACCCCTAAACAT
1 -TAAACCATAATCCCTAAACCT
** *
16457469 TAAACCCCAA-CCCTTAAACCA
1 TAAACCATAATCCC-TAAACCT
* * *
16457490 TAAACCATAATCCATAATCCC
1 TAAACCATAATCCCTAAACCT
16457511 TAAACACATAATCCCTAAACCT
1 TAAAC-CATAATCCCTAAACCT
16457533 TAAA
1 TAAA
16457537 ATAGTAACTC
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
20 3 0.04
21 31 0.45
22 35 0.51
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCATAATCCCTAAACCT
Found at i:16458350 original size:43 final size:43
Alignment explanation
Indices: 16458256--16458352 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
16458246 TTATAGAAAT
* * **
16458256 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTCCAA
1 AAACGCCGCTAAAGAACATGTTCTTTAACGGCACTTGATCCAA
* ** *
16458299 AAATGCCGCTAAAGGTCATGTTCTTTAACGGCACTTAGAT-CAC
1 AAACGCCGCTAAAGAACATGTTCTTTAACGGCACTT-GATCCAA
16458342 AAACGCCGCTA
1 AAACGCCGCTA
16458353 TTGTTTGATG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGTTCTTTAACGGCACTTGATCCAA
Found at i:16458780 original size:21 final size:21
Alignment explanation
Indices: 16458733--16458780 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
16458723 GCTGCCCTCA
* * *
16458733 CTGCTGCCCTTGCTGCTGCCT
1 CTGCTTCCCTTACTGCCGCCT
16458754 CTGCTTCCCTTACTGCCGCCT
1 CTGCTTCCCTTACTGCCGCCT
16458775 CTGCTT
1 CTGCTT
16458781 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.44, G:0.19, T:0.35
Consensus pattern (21 bp):
CTGCTTCCCTTACTGCCGCCT
Found at i:16460409 original size:17 final size:17
Alignment explanation
Indices: 16460387--16460492 Score: 82
Period size: 17 Copynumber: 6.4 Consensus size: 17
16460377 ATATATTTTA
16460387 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
16460404 AAATTATGTAAGTTATGT
1 AAATTAT-TAAGTTATGT
16460422 ATAATT-TTAA-TT-TGT
1 A-AATTATTAAGTTATGT
* **
16460437 AAGTTA-T--GGAATGAT
1 AAATTATTAAGTTATG-T
* *
16460452 ATATT-TTAAAATTATGT
1 AAATTATT-AAGTTATGT
16460469 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
16460486 AAATTAT
1 AAATTAT
16460493 GGAATGATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
14 6 0.09
15 9 0.13
16 2 0.03
17 30 0.44
18 17 0.25
19 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:16460410 original size:9 final size:9
Alignment explanation
Indices: 16460387--16460493 Score: 64
Period size: 9 Copynumber: 11.9 Consensus size: 9
16460377 ATATATTTTA
16460387 AAATTAT-T
1 AAATTATGT
*
16460395 AAGTTATGT
1 AAATTATGT
16460404 AAATTATGT
1 AAATTATGT
*
16460413 AAGTTATGT
1 AAATTATGT
16460422 ATAATT-T-T
1 A-AATTATGT
16460430 -AATT-TGT
1 AAATTATGT
* *
16460437 AAGTTATGG
1 AAATTATGT
*
16460446 AATGATATATTTT
1 AA--AT-TA-TGT
16460459 AAAATTATGT
1 -AAATTATGT
16460469 AAATTAT-T
1 AAATTATGT
*
16460477 AAGTTATGT
1 AAATTATGT
16460486 AAATTATG
1 AAATTATG
16460494 GAATGATATA
Statistics
Matches: 76, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
6 5 0.07
7 1 0.01
8 17 0.22
9 38 0.50
10 5 0.07
11 3 0.04
12 4 0.05
13 1 0.01
14 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (9 bp):
AAATTATGT
Found at i:16460535 original size:49 final size:49
Alignment explanation
Indices: 16460416--16460523 Score: 161
Period size: 49 Copynumber: 2.3 Consensus size: 49
16460406 ATTATGTAAG
*
16460416 TTATGTATAATT-TTAA-TT-TGTAAGTTATGGAATGATATATTTTAAAA
1 TTATGTA-AATTATTAAGTTATGTAAATTATGGAATGATATATTTTAAAA
16460463 TTATGTAAATTATTAAGTTATGTAAATTATGGAATGATATATTTTAAAA
1 TTATGTAAATTATTAAGTTATGTAAATTATGGAATGATATATTTTAAAA
*
16460512 TTAT-TAAGTTAT
1 TTATGTAAATTAT
16460524 GTGTATTATG
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
46 4 0.07
47 11 0.20
48 9 0.16
49 32 0.57
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (49 bp):
TTATGTAAATTATTAAGTTATGTAAATTATGGAATGATATATTTTAAAA
Found at i:16460637 original size:47 final size:47
Alignment explanation
Indices: 16460586--16460759 Score: 227
Period size: 47 Copynumber: 3.8 Consensus size: 47
16460576 ACATATTTTA
*
16460586 GTAAGTAATGTAAGTAATGTAATATATACTTAAAAATATATATTTCG
1 GTAAGTAATGTAAGTAATGTAATATATACTTAAGAATATATATTTCG
16460633 GTAAGTAATGTAAGTAATGTAATATATACTTAAGAATATATA-TT--
1 GTAAGTAATGTAAGTAATGTAATATATACTTAAGAATATATATTTCG
* * * * *
16460677 -TAAGTAATGTAAGTAAAGTAA-ACT-GAGTTATGTA-ATATATTTCG
1 GTAAGTAATGTAAGTAATGTAATA-TATACTTAAGAATATATATTTCG
*
16460721 GTAAGTAATGTAAGTAATGTAATATATGCTTAAGAATAT
1 GTAAGTAATGTAAGTAATGTAATATATACTTAAGAATAT
16460760 TGCATTTTTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
41 5 0.05
42 9 0.08
43 21 0.20
45 21 0.20
46 8 0.07
47 43 0.40
ACGTcount: A:0.44, C:0.03, G:0.16, T:0.37
Consensus pattern (47 bp):
GTAAGTAATGTAAGTAATGTAATATATACTTAAGAATATATATTTCG
Found at i:16462162 original size:16 final size:16
Alignment explanation
Indices: 16462141--16462233 Score: 81
Period size: 16 Copynumber: 6.0 Consensus size: 16
16462131 GATTTTAGTA
16462141 AAGTATATATTCCAGC
1 AAGTATATATTCCAGC
**
16462157 AAGTATATATT-TGGC
1 AAGTATATATTCCAGC
*
16462172 ---CATATATTCCAGC
1 AAGTATATATTCCAGC
16462185 AAG--TATATTCCAGC
1 AAGTATATATTCCAGC
*
16462199 AACTGGAATATATTCCAGC
1 AA---GTATATATTCCAGC
16462218 AAGTATATATTCCAGC
1 AAGTATATATTCCAGC
16462234 TTCTTCCCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
12 7 0.11
13 2 0.03
14 13 0.21
15 2 0.03
16 24 0.39
17 1 0.02
19 13 0.21
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (16 bp):
AAGTATATATTCCAGC
Found at i:16462191 original size:14 final size:14
Alignment explanation
Indices: 16462146--16462225 Score: 63
Period size: 14 Copynumber: 5.4 Consensus size: 14
16462136 TAGTAAAGTA
16462146 TATATTCCAGCAAG
1 TATATTCCAGCAAG
*** *
16462160 TATATATTTGGCCA-
1 TATAT-TCCAGCAAG
16462174 TATATTCCAGCAAG
1 TATATTCCAGCAAG
16462188 TATATTCCAGCAACTGG
1 TATATTCCAGCAA---G
16462205 AATATATTCCAGCAAG
1 --TATATTCCAGCAAG
16462221 TATAT
1 TATAT
16462226 ATTCCAGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
13 4 0.08
14 28 0.55
15 4 0.08
16 1 0.02
17 1 0.02
19 13 0.25
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (14 bp):
TATATTCCAGCAAG
Found at i:16463997 original size:31 final size:31
Alignment explanation
Indices: 16463934--16464078 Score: 158
Period size: 31 Copynumber: 4.8 Consensus size: 31
16463924 ATAAAAATTA
*
16463934 ATAACCCCTAAAT-CCC-AAATCCCTAACCC
1 ATAACCCCTAAATCCCCTAAATCCCTAAACC
* * *
16463963 ATAACCCCTAAATCCCCTTAATCCTTAAAGC
1 ATAACCCCTAAATCCCCTAAATCCCTAAACC
*
16463994 ATAACCCCT-AA-CCCCTAAATCCCCCTAACCC
1 ATAACCCCTAAATCCCCTAAAT--CCCTAAACC
* * *
16464025 ATAACCCCTAAATCCCCTTAATCCTTAAAGC
1 ATAACCCCTAAATCCCCTAAATCCCTAAACC
16464056 ATAACCCCT-AA-CCCCTAAATCCC
1 ATAACCCCTAAATCCCCTAAATCCC
16464079 CCTAACCCAT
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
29 31 0.32
30 7 0.07
31 48 0.50
32 2 0.02
33 8 0.08
ACGTcount: A:0.35, C:0.43, G:0.01, T:0.21
Consensus pattern (31 bp):
ATAACCCCTAAATCCCCTAAATCCCTAAACC
Found at i:16464005 original size:7 final size:7
Alignment explanation
Indices: 16463995--16464148 Score: 83
Period size: 7 Copynumber: 20.4 Consensus size: 7
16463985 CCTTAAAGCA
16463995 TAACCCC
1 TAACCCC
16464002 TAACCCC
1 TAACCCC
16464009 TAAATCCCCC
1 T-AA--CCCC
*
16464019 TAACCCA
1 TAACCCC
16464026 TAACCCC
1 TAACCCC
16464033 TAAATCCCC
1 T-AA-CCCC
* *
16464042 TTAATCCT
1 -TAACCCC
** *
16464050 TAAAGCA
1 TAACCCC
16464057 TAACCCC
1 TAACCCC
16464064 TAACCCC
1 TAACCCC
16464071 TAAATCCCCC
1 T-AA--CCCC
*
16464081 TAACCCA
1 TAACCCC
** *
16464088 TAAAGCA
1 TAACCCC
16464095 TAACCCC
1 TAACCCC
*
16464102 TAAACCC
1 TAACCCC
16464109 TAATCACCC
1 TAA-C-CCC
16464118 TAACCCC
1 TAACCCC
** *
16464125 TAAAGCA
1 TAACCCC
16464132 TAACCCC
1 TAACCCC
16464139 TAACCCC
1 TAACCCC
16464146 TAA
1 TAA
16464149 ACCACAAAAC
Statistics
Matches: 112, Mismatches: 24, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
7 76 0.68
8 9 0.08
9 16 0.14
10 11 0.10
ACGTcount: A:0.36, C:0.44, G:0.02, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:16464023 original size:24 final size:24
Alignment explanation
Indices: 16463995--16464041 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
16463985 CCTTAAAGCA
*
16463995 TAACCCCTAACCCCTAAATCCCCC
1 TAACCCATAACCCCTAAATCCCCC
16464019 TAACCCATAACCCCTAAATCCCC
1 TAACCCATAACCCCTAAATCCCC
16464042 TTAATCCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (24 bp):
TAACCCATAACCCCTAAATCCCCC
Found at i:16464033 original size:62 final size:62
Alignment explanation
Indices: 16463934--16464090 Score: 275
Period size: 62 Copynumber: 2.6 Consensus size: 62
16463924 ATAAAAATTA
*
16463934 ATAACCCCTAAATCCC-AAAT--CCCTAACCCATAACCCCTAAATCCCCTTAATCCTTAAAGC
1 ATAACCCCT-AACCCCTAAATCCCCCTAACCCATAACCCCTAAATCCCCTTAATCCTTAAAGC
16463994 ATAACCCCTAACCCCTAAATCCCCCTAACCCATAACCCCTAAATCCCCTTAATCCTTAAAGC
1 ATAACCCCTAACCCCTAAATCCCCCTAACCCATAACCCCTAAATCCCCTTAATCCTTAAAGC
16464056 ATAACCCCTAACCCCTAAATCCCCCTAACCCATAA
1 ATAACCCCTAACCCCTAAATCCCCCTAACCCATAA
16464091 AGCATAACCC
Statistics
Matches: 93, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
59 5 0.05
60 13 0.14
62 75 0.81
ACGTcount: A:0.36, C:0.43, G:0.01, T:0.20
Consensus pattern (62 bp):
ATAACCCCTAACCCCTAAATCCCCCTAACCCATAACCCCTAAATCCCCTTAATCCTTAAAGC
Found at i:16464129 original size:37 final size:37
Alignment explanation
Indices: 16464019--16464149 Score: 183
Period size: 38 Copynumber: 3.5 Consensus size: 37
16464009 TAAATCCCCC
* * *
16464019 TAACCCATAACCCCTAAATCCCCTTAATCCTTAAAGCA
1 TAACCCCTAACCCCTAAATCCCC-TAACCCATAAAGCA
16464057 TAACCCCTAACCCCTAAATCCCCCTAACCCATAAAGCA
1 TAACCCCTAACCCCTAAAT-CCCCTAACCCATAAAGCA
* *
16464095 TAACCCCTAAACCCT-AATCACCCTAACCCCTAAAGCA
1 TAACCCCTAACCCCTAAATC-CCCTAACCCATAAAGCA
16464132 TAACCCCTAACCCCTAAA
1 TAACCCCTAACCCCTAAA
16464150 CCACAAAACC
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.01
37 33 0.39
38 46 0.55
39 4 0.05
ACGTcount: A:0.37, C:0.42, G:0.02, T:0.18
Consensus pattern (37 bp):
TAACCCCTAACCCCTAAATCCCCTAACCCATAAAGCA
Found at i:16465275 original size:17 final size:17
Alignment explanation
Indices: 16465253--16465299 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
16465243 CCTTAACCCT
*
16465253 TAACCCCTAAATCCTCC
1 TAACCCCTAAATCCCCC
16465270 TAACCCCTCTAAATCCCCC
1 TAA-CCC-CTAAATCCCCC
16465289 TAACCCCTAAA
1 TAACCCCTAAA
16465300 GCATAACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 8 0.30
18 6 0.22
19 13 0.48
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.21
Consensus pattern (17 bp):
TAACCCCTAAATCCCCC
Found at i:16465694 original size:73 final size:73
Alignment explanation
Indices: 16465572--16465819 Score: 268
Period size: 73 Copynumber: 3.4 Consensus size: 73
16465562 CTGTGCATTA
* * * ** *
16465572 GCGGCGCTT-TCCTAAAAACGCCTCTAAATCCACCGAAAGCACAGAAAACGGCGTCGTTGGGCTT
1 GCGGCGCTTCT-CAAAAAACGCCGCTAAATCCTCAAAAAGCTCAG-AAACGGCGTCGTTGGGCTT
16465636 A-GTTTTTATT
64 AGGTTTTT-TT
* * * * ** * *
16465646 ACGGCGCTACACAAAAAACGCCGCTAGATCC-CCGAAATCTCTCGAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTCTCAAAAAACGCCGCTAAATCCTCAAAAAGCTC-AGAAACGGCGTCGTTGGGCTTA
16465710 GGTTTTTTT
65 GGTTTTTTT
* * *
16465719 GCGGCGCTTCTCCAAAAACGCCACTAAATCCTCAAAAAGCTCAGAAACGGTGTCGTTGGGCTTAG
1 GCGGCGCTTCTCAAAAAACGCCGCTAAATCCTCAAAAAGCTCAGAAACGGCGTCGTTGGGCTTAG
16465784 GTTTTTTT
66 GTTTTTTT
**
16465792 GCGGCGCTTCTTTAAAAACGCCGCTAAA
1 GCGGCGCTTCTCAAAAAACGCCGCTAAA
16465820 GCCCTGAACA
Statistics
Matches: 147, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
73 109 0.74
74 38 0.26
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (73 bp):
GCGGCGCTTCTCAAAAAACGCCGCTAAATCCTCAAAAAGCTCAGAAACGGCGTCGTTGGGCTTAG
GTTTTTTT
Found at i:16465998 original size:112 final size:112
Alignment explanation
Indices: 16465770--16466043 Score: 313
Period size: 112 Copynumber: 2.4 Consensus size: 112
16465760 CAGAAACGGT
*
16465770 GTCGTTGGGCTTAGGTTTTTTTGCGGCGC-TTCTTTAAAAACGCCGCTAAAGCCCTGAACATTAG
1 GTCGTTGGGCTTAGG--TTTTTGCGGCGCTTTC-TTAAAAACGCCGCTAAAGCCATGAACATTAG
* *
16465834 CGGCACATTGATAAAAATGCCGCTAAGCCCTCGAAAGCCTAGAAAACAAC
63 CGGCACATTCATAAAAACGCCGCTAAGCCCTCGAAAGCCTAGAAAACAAC
* **
16465884 GTCGTTGGGCTTAGGTTTTTGCGGTGCTTTCCCAAAAACGCCGCTAAAGCCATGAACATTAGCGG
1 GTCGTTGGGCTTAGGTTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCATGAACATTAGCGG
* * * * * * * *
16465949 CGCTTTCTTAAAAACGCCGCTAAATCCC-CTAATGCTCT-GTAAACGAC
66 CACATTCATAAAAACGCCGCT-AAGCCCTCGAAAGC-CTAGAAAACAAC
* *
16465996 GTCGTTGGGATTATGTTTTTTGCGGCGCTTT-TTAGAAAACGCCGCTAA
1 GTCGTTGGGCTTA-GGTTTTTGCGGCGCTTTCTTA-AAAACGCCGCTAA
16466044 TTCTTATTTT
Statistics
Matches: 136, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
112 83 0.61
113 38 0.28
114 15 0.11
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (112 bp):
GTCGTTGGGCTTAGGTTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCATGAACATTAGCGG
CACATTCATAAAAACGCCGCTAAGCCCTCGAAAGCCTAGAAAACAAC
Found at i:16466312 original size:40 final size:39
Alignment explanation
Indices: 16466261--16466405 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 39
16466251 ATTTTATGCT
*
16466261 GCGCTTTTCAAAAACGTCGCTAAAAATAGAGCATTAGCG
1 GCGCTTTTCAAAAACGCCGCTAAAAATAGAGCATTAGCG
* ** *
16466300 GCGCTTCTTCAAAAATGCCGCTAAAGACCCA-AGAATTAGCG
1 GCGCTT-TTCAAAAACGCCGCTAAA-A-ATAGAGCATTAGCG
*
16466341 GCGCTTTTCCAAAAATGCCGCTAAAAATAGAGCATTAGCG
1 GCGCTTTT-CAAAAACGCCGCTAAAAATAGAGCATTAGCG
*
16466381 GCTCTTTTCTAAAAACGCCGCTAAA
1 GCGCTTTTC-AAAAACGCCGCTAAA
16466406 GCCCCATGCA
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
39 8 0.09
40 49 0.54
41 32 0.36
42 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (39 bp):
GCGCTTTTCAAAAACGCCGCTAAAAATAGAGCATTAGCG
Found at i:16466404 original size:81 final size:81
Alignment explanation
Indices: 16466261--16466445 Score: 250
Period size: 81 Copynumber: 2.3 Consensus size: 81
16466251 ATTTTATGCT
* * *
16466261 GCGCTTTT-CAAAAACGTCGCTAAAAATAGAGCATTAGCGGCGCTTCTTCAAAAATGCCGCTAAA
1 GCGCTTTTCCAAAAAAGCCGCTAAAAATAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAA
16466325 GACCCAAGAATTAGCG
66 GACCCAAGAATTAGCG
* *
16466341 GCGCTTTTCCAAAAATGCCGCTAAAAATAGAGCATTAGCGGCTCTT-TTCTAAAAACGCCGCTAA
1 GCGCTTTTCCAAAAAAGCCGCTAAAAATAGAGCATTAGCGGCGCTTCTTC-AAAAACGCCGCTAA
* * *
16466405 AGCCCCATGCATTAGCG
65 AGACCCAAGAATTAGCG
* *
16466422 ACGC-TTTCTAAAAAAGCCGCTAAA
1 GCGCTTTTCCAAAAAAGCCGCTAAA
16466446 GCCCCAAAAC
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 29 0.31
81 64 0.69
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (81 bp):
GCGCTTTTCCAAAAAAGCCGCTAAAAATAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAA
GACCCAAGAATTAGCG
Found at i:16466430 original size:40 final size:40
Alignment explanation
Indices: 16466290--16466451 Score: 175
Period size: 40 Copynumber: 4.0 Consensus size: 40
16466280 CTAAAAATAG
16466290 AGCATTAGCGGCGCTTCTTC-AAAAATGCCGCTAAAGACCC
1 AGCATTAGCGGCGCTT-TTCTAAAAATGCCGCTAAAGACCC
* * * ***
16466330 AAGAATTAGCGGCGCTTTTCCAAAAATGCCGCTAAAAATAG
1 -AGCATTAGCGGCGCTTTTCTAAAAATGCCGCTAAAGACCC
* * *
16466371 AGCATTAGCGGCTCTTTTCTAAAAACGCCGCTAAAGCCCC
1 AGCATTAGCGGCGCTTTTCTAAAAATGCCGCTAAAGACCC
* * *
16466411 ATGCATTAGCGACGC-TTTCTAAAAAAGCCGCTAAAGCCCC
1 A-GCATTAGCGGCGCTTTTCTAAAAATGCCGCTAAAGACCC
16466451 A
1 A
16466452 AAACTCAAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 60 0.59
41 42 0.41
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (40 bp):
AGCATTAGCGGCGCTTTTCTAAAAATGCCGCTAAAGACCC
Found at i:16466550 original size:39 final size:37
Alignment explanation
Indices: 16466507--16466618 Score: 107
Period size: 40 Copynumber: 2.9 Consensus size: 37
16466497 TTTTGAAAAA
*
16466507 CGCCGCTAATGTTCATTTTTAGCAGCGTTTTTCAATATG
1 CGCCGCTAATGTTCATTTTTAGCGGCGTTTTTCAA-A-G
** * *
16466546 CGCCGCTAATACTCAATCTTTAGCGGCGTTTTTTTTAAAG
1 CGCCGCTAATGTTC-ATTTTTAGCGGCG--TTTTTCAAAG
* *
16466586 CGCCGCTAATGCTTGATTTTTAGTGGCGTTTTT
1 CGCCGCTAATG-TTCATTTTTAGCGGCGTTTTT
16466619 ATCTAAACGC
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
38 5 0.08
39 12 0.20
40 33 0.56
41 2 0.03
42 7 0.12
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.41
Consensus pattern (37 bp):
CGCCGCTAATGTTCATTTTTAGCGGCGTTTTTCAAAG
Found at i:16467667 original size:43 final size:43
Alignment explanation
Indices: 16467585--16467669 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
16467575 CTAATTTACC
* * **
16467585 ATTAATGTTGAAAATTATTTTTGAAAAGTTTGATAATTTTATT
1 ATTAATGTTAAAAAGTATTTTTGAAAAGCATGATAATTTTATT
*
16467628 ATTAATGTTAAAAAGTATTTTTGAGAAGACATGAT-ATTTTAT
1 ATTAATGTTAAAAAGTATTTTTGAAAAG-CATGATAATTTTAT
16467670 AAAGTAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 32 0.89
44 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (43 bp):
ATTAATGTTAAAAAGTATTTTTGAAAAGCATGATAATTTTATT
Found at i:16469384 original size:40 final size:39
Alignment explanation
Indices: 16469324--16469473 Score: 106
Period size: 40 Copynumber: 3.7 Consensus size: 39
16469314 GGCACTTTTT
*
16469324 GCGGCGTTTGGAACAAAAGCGCCACAAAAAATAGAGCATTA
1 GCGGCGTTT--AACCAAAGCGCCACAAAAAATAGAGCATTA
* * * ** *
16469365 GCGGCGATTTAGCCAAAGCGCCGCTAAAGGTAGAGCATCA
1 GCGGCG-TTTAACCAAAGCGCCACAAAAAATAGAGCATTA
** * * *
16469405 GCGGCGTTTATACGGAAGCGCCGCTAAAAATAG-GAATTA
1 GCGGCGTTTA-ACCAAAGCGCCACAAAAAATAGAGCATTA
* *
16469444 ACGGCGTTTTATA-TAAAGCGCCACAAAAAA
1 GCGGCG-TTTA-ACCAAAGCGCCACAAAAAA
16469474 CCTAAGACGA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
39 26 0.30
40 52 0.60
41 6 0.07
42 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (39 bp):
GCGGCGTTTAACCAAAGCGCCACAAAAAATAGAGCATTA
Found at i:16469661 original size:42 final size:41
Alignment explanation
Indices: 16469516--16469833 Score: 397
Period size: 42 Copynumber: 7.7 Consensus size: 41
16469506 TTTAAACATT
* *
16469516 TAGCGGCGTTTTTGTCTAAGCACCGCTAATGCTCGGGTCTA
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCGGGTCTA
*
16469557 TA--GGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTA
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCGGGTCTA
* * * *
16469596 TAGCGGCATTTTCGTCTAAGCGCCGGTAATGCTCCGAGTCTT
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCT-CGGGTCTA
* * *
16469638 TAGTGGAGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTA
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCGGGTCTA
* * *
16469679 TAGCGGCGTTTTCGTCTAAGCGCCGGTAATGCTCCGAGTCTT
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCT-CGGGTCTA
*
16469721 TAGCGGAGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTCTA
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCT-CGGGTCTA
* * *
16469763 TAGCGGCGTTTTCGCCTAAGCGCCGCTAATGTTCGGGTCTT
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCGGGTCTA
* ** * *
16469804 TTGCGGCGTTTTTATATATGCGCCGCTAAT
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAAT
16469834 TCTCCTGTAT
Statistics
Matches: 240, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
39 38 0.16
41 94 0.39
42 108 0.45
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (41 bp):
TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCGGGTCTA
Found at i:16469667 original size:83 final size:83
Alignment explanation
Indices: 16469516--16469833 Score: 437
Period size: 83 Copynumber: 3.9 Consensus size: 83
16469506 TTTAAACATT
* * * * *
16469516 TAGCGGCGTTTTTGTCTAAGCACCGCTAATGCT-CGGGTCTATA--GGCGTTTTTGTCTAAGCGC
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGAGTCTTTAGCGGAGTTTTTGTCTAAGCGC
16469578 CGCTAATGCTCGGGTCTA
66 CGCTAATGCTCGGGTCTA
* * *
16469596 TAGCGGCATTTTCGTCTAAGCGCCGGTAATGCTCCGAGTCTTTAGTGGAGTTTTTGTCTAAGCGC
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGAGTCTTTAGCGGAGTTTTTGTCTAAGCGC
16469661 CGCTAATGCTCGGGTCTA
66 CGCTAATGCTCGGGTCTA
* *
16469679 TAGCGGCGTTTTCGTCTAAGCGCCGGTAATGCTCCGAGTCTTTAGCGGAGTTTTCGTCTAAGCGC
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGAGTCTTTAGCGGAGTTTTTGTCTAAGCGC
16469744 CGCTAATGCTCCGGGTCTA
66 CGCTAATGCT-CGGGTCTA
* * * * * * * *
16469763 TAGCGGCGTTTTCGCCTAAGCGCCGCTAATG-TTCGGGTCTTTTGCGGCGTTTTTATATATGCGC
1 TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGAGTCTTTAGCGGAGTTTTTGTCTAAGCGC
16469827 CGCTAAT
66 CGCTAAT
16469834 TCTCCTGTAT
Statistics
Matches: 214, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
80 29 0.14
81 8 0.04
83 140 0.65
84 37 0.17
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (83 bp):
TAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGAGTCTTTAGCGGAGTTTTTGTCTAAGCGC
CGCTAATGCTCGGGTCTA
Found at i:16469774 original size:125 final size:124
Alignment explanation
Indices: 16469516--16469833 Score: 426
Period size: 125 Copynumber: 2.6 Consensus size: 124
16469506 TTTAAACATT
* *
16469516 TAGCGGCGTTTTTGTCTAAGCACCGCTAATGCTCGGGTCTATA--GGCGTTTTTGTCTAAGCGCC
1 TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTATAGCGGCGTTTTCGTCTAAGCGCC
* * *
16469579 GCTAATGCTCGGGTCTATAGCGGCATTTTCGTCTAAGCGCCGGTAATGCTCCGAGTCTT
66 GCTAATGCTCGAGTCTATAGCGGCATTTTCGTCTAAGCGCCGCTAATGCTCCGAGTCTA
* *
16469638 TAGTGGAGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTATAGCGGCGTTTTCGTCTAAGCGCC
1 TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTATAGCGGCGTTTTCGTCTAAGCGCC
* * *
16469703 GGTAATGCTCCGAGTCTTTAGCGG-AGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTCTA
66 GCTAATGCT-CGAGTCTATAGCGGCA-TTTTCGTCTAAGCGCCGCTAATGCTCCGAGTCTA
* * * * * ** * *
16469763 TAGCGGCGTTTTCGCCTAAGCGCCGCTAATGTTCGGGTCTTTTGCGGCGTTTTTATATATGCGCC
1 TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTATAGCGGCGTTTTCGTCTAAGCGCC
16469828 GCTAAT
66 GCTAAT
16469834 TCTCCTGTAT
Statistics
Matches: 170, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
122 40 0.24
124 28 0.16
125 102 0.60
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (124 bp):
TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTATAGCGGCGTTTTCGTCTAAGCGCC
GCTAATGCTCGAGTCTATAGCGGCATTTTCGTCTAAGCGCCGCTAATGCTCCGAGTCTA
Found at i:16470744 original size:37 final size:38
Alignment explanation
Indices: 16470676--16470747 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
16470666 AAATTTAAGG
* * *
16470676 TTTAGGTGTTAGGGGAATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTAGGGGAATTTAGGGGTAAAGGGTTATGC
16470714 TTTAGGGGTTAGGGG-ATTTAGGGGTAAAGGGTTA
1 TTTAGGGGTTAGGGGAATTTAGGGGTAAAGGGTTA
16470748 GGGGTTATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.22, C:0.01, G:0.40, T:0.36
Consensus pattern (38 bp):
TTTAGGGGTTAGGGGAATTTAGGGGTAAAGGGTTATGC
Found at i:16472021 original size:14 final size:15
Alignment explanation
Indices: 16471985--16472023 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
16471975 TTACCCCCAA
*
16471985 TTTCCCCCAAGTTAT
1 TTTCCCCAAAGTTAT
16472000 TCTTCCCCAAAG-TAT
1 T-TTCCCCAAAGTTAT
16472015 TTTCCCCAA
1 TTTCCCCAA
16472024 TTTCCCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (15 bp):
TTTCCCCAAAGTTAT
Found at i:16472286 original size:33 final size:33
Alignment explanation
Indices: 16472244--16472311 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
16472234 CATCTATGTT
*
16472244 ATTCGAGTTAAATGAGATGAGTGTTGGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
*
16472277 ATTCGAGTTAAATGAGATTAGTGTTAGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
16472310 AT
1 AT
16472312 ATATGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (33 bp):
ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
Found at i:16472574 original size:17 final size:17
Alignment explanation
Indices: 16472552--16472589 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
16472542 ATCCCAGGAA
16472552 CTTGCAGCCTCTACTTC
1 CTTGCAGCCTCTACTTC
*
16472569 CTTGCAGCCTTTACTTC
1 CTTGCAGCCTCTACTTC
16472586 CTTG
1 CTTG
16472590 TGAACTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.37, G:0.13, T:0.39
Consensus pattern (17 bp):
CTTGCAGCCTCTACTTC
Found at i:16474086 original size:24 final size:24
Alignment explanation
Indices: 16474059--16474111 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
16474049 TATTTGTATA
16474059 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
*
16474083 ATATTTGTATCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
16474107 ATATT
1 ATATT
16474112 ATAAAATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:16474263 original size:22 final size:22
Alignment explanation
Indices: 16474218--16474263 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
16474208 AACTTAATTA
*
16474218 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTGAC
16474240 ATTAATATTATACATAGA-TGAC
1 ATTAATATTATACATA-ACTGAC
16474262 AT
1 AT
16474264 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAACTGAC
Done.