Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 50 of 344
Found at i:16662382 original size:68 final size:68
Alignment explanation
Indices: 16662268--16662418 Score: 257
Period size: 68 Copynumber: 2.2 Consensus size: 68
16662258 GCTATGTTTA
* * * *
16662268 GCACTTAGTGTGTGATTTAAGATAGCTTCAGCTATATACGGTACTTAGTGTGTGAGATATTGAGT
1 GCACTTAGTGTGCGATTTAAGATAGCTTCAGCTATATACGGCACTTAGTGTGCGAGACATTGAGT
16662333 ACC
66 ACC
16662336 GCACTTAGTGTGCGATTTAAGATAGCTTCAGCTATATACGGCACTTAGTGTGCGAGACATTGAGT
1 GCACTTAGTGTGCGATTTAAGATAGCTTCAGCTATATACGGCACTTAGTGTGCGAGACATTGAGT
*
16662401 ACG
66 ACC
16662404 GCACTTAGTGTGCGA
1 GCACTTAGTGTGCGA
16662419 GACATTGAGT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 78 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (68 bp):
GCACTTAGTGTGCGATTTAAGATAGCTTCAGCTATATACGGCACTTAGTGTGCGAGACATTGAGT
ACC
Found at i:16662412 original size:28 final size:28
Alignment explanation
Indices: 16662372--16662642 Score: 382
Period size: 28 Copynumber: 9.7 Consensus size: 28
16662362 TTCAGCTATA
16662372 TACGGCACTTAGTGTGCGAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
16662400 TACGGCACTTAGTGTGCGAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
* *
16662428 TATGGCACTTAGTGTACGAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
* * *
16662456 TACGGGACTTAGTGTGCAAGACATTTAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
*
16662484 TACGGCACTTAGTGTGCAAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
* *
16662512 TACGGTACTTAGTGTGCAAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
* *
16662540 TATGGAACTTAGTGTGCGAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
* * *
16662568 TATGGCACTTAGTGTGTGAGACATTGAA
1 TACGGCACTTAGTGTGCGAGACATTGAG
* *
16662596 AATGGCACTTAGTGTGCGAGACATTTG-G
1 TACGGCACTTAGTGTGCGAGACA-TTGAG
*
16662624 TATGGCACTTAGTGTGCGA
1 TACGGCACTTAGTGTGCGA
16662643 AATATCGAGT
Statistics
Matches: 222, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
28 219 0.99
29 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (28 bp):
TACGGCACTTAGTGTGCGAGACATTGAG
Found at i:16665174 original size:17 final size:17
Alignment explanation
Indices: 16665147--16665180 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16665137 AAATACTATG
16665147 TCAATTAATT-ATAATT
1 TCAATTAATTAATAATT
16665163 TCAATCTAATTAATAATT
1 TCAAT-TAATTAATAATT
16665181 AATTCATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TCAATTAATTAATAATT
Found at i:16668903 original size:21 final size:21
Alignment explanation
Indices: 16668862--16668903 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16668852 TTTTCTGAAA
*
16668862 TTGAATCAAGTGAGATGGAAT
1 TTGAATCAAGTGAGATCGAAT
*
16668883 TTGAATCGAATTGA-ATCGAAT
1 TTGAATC-AAGTGAGATCGAAT
16668904 ATATTTGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (21 bp):
TTGAATCAAGTGAGATCGAAT
Found at i:16671913 original size:30 final size:30
Alignment explanation
Indices: 16671879--16671936 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16671869 TTTTCGAGCA
*
16671879 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTT
*
16671909 TAGGGGCAAAATGGTCATTTTTCCAAAG
1 TAGGGGCAAAATGGTCATTTTGCCAAAG
16671937 AAGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAAGTT
Found at i:16672563 original size:49 final size:48
Alignment explanation
Indices: 16672281--16672644 Score: 272
Period size: 49 Copynumber: 7.7 Consensus size: 48
16672271 CTTATGTGCC
* * * *
16672281 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGT-TCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATGATGA-TAGCT
* * *
16672327 AGTATAAGACCATGTCTGGGACATGGCATCGGCAC-AGA-GATGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC-CTCGATGATGA-TAGCT
* * * * *
16672375 AGTGTAAGACAAGTCTGGGACAT-GTATCGGCCTTGACGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCT
* * ** * *
16672422 AGTGTAATACGTGTCTGGGACA-CACATCGG-CTAAGA-GTTG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCT-CGATGATGATAGCT
* * * *
16672466 AGTGTAAGACATGTCTGGAACAT-GCATCAG-CACGTAT-ATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG-ATGAT--GATAGCT
* *
16672514 AGTATAAGACCACGTCTGGGACATGGCATCGGCCTCGATGATGATAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCT
* * * *
16672563 AGTGTAAGATGATATCTAGGACATGGCATCAGCCTCGATGATGATAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCT
16672612 AGTGTAAGACGATGTCTGGGACATGGCATCGGC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGC
16672645 AACTTATCCC
Statistics
Matches: 255, Mismatches: 42, Indels: 39
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.11
45 2 0.01
46 24 0.09
47 61 0.24
48 35 0.14
49 90 0.35
50 8 0.03
51 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCT
Found at i:16692001 original size:30 final size:28
Alignment explanation
Indices: 16691941--16692001 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
16691931 CATTTTCTTG
**
16691941 TTGATTTTGTGTTTGTTGCTTCTTAGCT
1 TTGATTTTGTGTTTGTTGCTTCCAAGCT
16691969 TTGATTTTGTGTTATGTCT-CTTCACAAGCT
1 TTGATTTTGTGTT-TGT-TGCTTC-CAAGCT
16691999 TTG
1 TTG
16692002 GATTGGAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 13 0.46
29 7 0.25
30 8 0.29
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (28 bp):
TTGATTTTGTGTTTGTTGCTTCCAAGCT
Found at i:16698117 original size:12 final size:12
Alignment explanation
Indices: 16698100--16698142 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
16698090 TTTAACCAAT
16698100 AAGATTCTGGAC
1 AAGATTCTGGAC
16698112 AAGATTCTGGAC
1 AAGATTCTGGAC
16698124 AAGATTCTGGAC
1 AAGATTCTGGAC
16698136 AAGATTC
1 AAGATTC
16698143 AAGGGTGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (12 bp):
AAGATTCTGGAC
Found at i:16702153 original size:26 final size:26
Alignment explanation
Indices: 16702124--16702175 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
16702114 GGTTGTAGTG
**
16702124 GTTGATTTGACCAATTGATTCTATTA
1 GTTGATTTGACCAACAGATTCTATTA
16702150 GTTGATTTGACCAACAGATTCTATTA
1 GTTGATTTGACCAACAGATTCTATTA
16702176 ATTGTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (26 bp):
GTTGATTTGACCAACAGATTCTATTA
Found at i:16704372 original size:13 final size:13
Alignment explanation
Indices: 16704354--16704403 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
16704344 AAGAGTTATT
*
16704354 AATTAAAAAGATG
1 AATTAAAAAAATG
16704367 AATTAAAAAAATG
1 AATTAAAAAAATG
*
16704380 -A-TAAAAATATATT
1 AATTAAAAA-A-ATG
16704393 AATTAAAAAAA
1 AATTAAAAAAA
16704404 AAGTTTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 6 0.19
12 2 0.06
13 15 0.48
14 2 0.06
15 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (13 bp):
AATTAAAAAAATG
Found at i:16706219 original size:19 final size:19
Alignment explanation
Indices: 16706195--16706233 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16706185 GAAATGAATA
*
16706195 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16706214 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16706233 A
1 A
16706234 CAATCTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:16707422 original size:8 final size:8
Alignment explanation
Indices: 16707394--16707438 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
16707384 GAGGTTAGGT
*
16707394 TTTTTTTC
1 TTTTTTTA
16707402 TTTTTCTTCA
1 TTTTT-TT-A
16707412 TTTTTTTA
1 TTTTTTTA
16707420 TTTTTTTA
1 TTTTTTTA
16707428 -TTTTTTA
1 TTTTTTTA
16707435 TTTT
1 TTTT
16707439 GGGTTGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 7 0.21
8 17 0.52
9 4 0.12
10 5 0.15
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:16711693 original size:21 final size:19
Alignment explanation
Indices: 16711655--16711701 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
16711645 GAAGCGCAGT
16711655 ATTTCTTTTTTAAAACGA-A
1 ATTT-TTTTTTAAAACGAGA
16711674 AGTTTTTTTTTAAAATACGAGA
1 A-TTTTTTTTT-AAA-ACGAGA
16711696 ATTTTT
1 ATTTTT
16711702 GAAAACACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 9 0.38
22 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (19 bp):
ATTTTTTTTTAAAACGAGA
Found at i:16711700 original size:18 final size:18
Alignment explanation
Indices: 16711679--16712107 Score: 205
Period size: 18 Copynumber: 24.8 Consensus size: 18
16711669 ACGAAAGTTT
* *
16711679 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
16711697 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
* *
16711715 --TTTGTAAACACGAAAA
1 TTTTTGAAAACACGAGAA
* *
16711731 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
* *
16711748 TTTTAGAAAAAACGA-AA
1 TTTTTGAAAACACGAGAA
* * *
16711765 TTTTCTTAAAACACGACATTT
1 TTTT-TGAAAACACGAGA--A
*
16711786 TTTTCTG-AAACACGGGAA
1 TTTT-TGAAAACACGAGAA
*
16711804 TTTTT-AAAACA-GGGAA
1 TTTTTGAAAACACGAGAA
* *
16711820 ATTTT-AGAAACACGAAAA
1 TTTTTGA-AAACACGAGAA
* *
16711838 TTTTT-AAAACACGACAT
1 TTTTTGAAAACACGAGAA
16711855 TTTTTG-AAACAC--G-A
1 TTTTTGAAAACACGAGAA
*
16711869 --TTT-AAAAAAC-A-AA
1 TTTTTGAAAACACGAGAA
** **
16711882 -AATTG-AAATGCGAGAA
1 TTTTTGAAAACACGAGAA
*
16711898 TATTTTG-AAACACGA-AT
1 T-TTTTGAAAACACGAGAA
** *
16711915 TTTTTTTAAACGCGAGAA
1 TTTTTGAAAACACGAGAA
*
16711933 TTTTTGAAAACATG-GAA
1 TTTTTGAAAACACGAGAA
** *
16711950 ACTTTG-AAACACTGA-AG
1 TTTTTGAAAACAC-GAGAA
16711967 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
* *
16711985 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
16712002 TTTGTGAAAACACGTA-AA
1 TTTTTGAAAACACG-AGAA
* *
16712020 TTTTTTTTAAAACACGAAAA
1 --TTTTTGAAAACACGAGAA
* *
16712040 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAGAA
*
16712057 TTTTTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAGA-A
*
16712075 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAGAA
16712093 TTTTTGAAAACACGA
1 TTTTTGAAAACACGA
16712108 AAACACTAAA
Statistics
Matches: 322, Mismatches: 55, Indels: 68
0.72 0.12 0.15
Matches are distributed among these distances:
12 8 0.02
13 1 0.00
14 6 0.02
15 1 0.00
16 35 0.11
17 110 0.34
18 127 0.39
19 6 0.02
20 22 0.07
21 6 0.02
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:16711806 original size:73 final size:71
Alignment explanation
Indices: 16711720--16711859 Score: 192
Period size: 73 Copynumber: 1.9 Consensus size: 71
16711710 GAGAATTTGT
*
16711720 AAACACGAAAA-TTTTAGAAACACGAAAATTTTAGAAAAAACGAAATTTTCTTAAAACACGACAT
1 AAACACGAAAATTTTTA-AAACACGAAAATTTTAG-AAAAACGAAAATTT-TTAAAACACGACAT
16711784 TTTTTTCTG
63 TTTTTTCTG
** * * *
16711793 AAACACGGGAATTTTTAAAACAGGGAAATTTTAGAAACACGAAAATTTTTAAAACACGACATTTT
1 AAACACGAAAATTTTTAAAACACGAAAATTTTAGAAAAACGAAAATTTTTAAAACACGACATTTT
16711858 TT
66 TT
16711860 GAAACACGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
71 19 0.32
72 12 0.20
73 24 0.40
74 5 0.08
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (71 bp):
AAACACGAAAATTTTTAAAACACGAAAATTTTAGAAAAACGAAAATTTTTAAAACACGACATTTT
TTTCTG
Found at i:16711944 original size:35 final size:34
Alignment explanation
Indices: 16711900--16712110 Score: 137
Period size: 35 Copynumber: 6.0 Consensus size: 34
16711890 TGCGAGAATA
* * *
16711900 TTTTG-AAACACGAATTTTTTTTAAACGCGAGAAT
1 TTTTGAAAACACGAA-TTTTTTGAAACACGAAAAT
* ** *
16711934 TTTTGAAAACATGGAA-ACTTTGAAACACTG-AAGT
1 TTTTGAAAACA-CGAATTTTTTGAAACAC-GAAAAT
* *
16711968 TTTTGAAAACACGAGAATTTGTGAAACACGAAAAT
1 TTTTGAAAACACGA-ATTTTTTGAAACACGAAAAT
* *
16712003 TTGTGAAAACACGTAAATTTTTTTTAAAACACGAAAAT
1 TTTTGAAAACACG--AA--TTTTTTGAAACACGAAAAT
*
16712041 TTTTG-AAACGCCAGAA-TTTTTGAAAACAC-AAAGAT
1 TTTTGAAAAC-AC-GAATTTTTTG-AAACACGAAA-AT
*
16712076 TTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
1 TTTTGAAAACACG-AATTTTTTG-AAACACGAAAA
16712111 CACTAAATTT
Statistics
Matches: 139, Mismatches: 20, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
33 2 0.01
34 37 0.27
35 46 0.33
36 22 0.16
37 10 0.07
38 21 0.15
39 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (34 bp):
TTTTGAAAACACGAATTTTTTGAAACACGAAAAT
Found at i:16712042 original size:55 final size:53
Alignment explanation
Indices: 16711967--16712110 Score: 180
Period size: 55 Copynumber: 2.7 Consensus size: 53
16711957 AACACTGAAG
* * **
16711967 TTTTTGAAAACACGAGAATTTGTGAAACACGAAAATTTGTGAAAACACGTAAATT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTGTGAAAACAC--AAAGA
* * * * *
16712022 TTTTTTAAAACACGAAAATTTTTGAAACGCCAGAATTTTTGAAAACACAAAGA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTGTGAAAACACAAAGA
16712075 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
16712111 CACTAAATTT
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
53 26 0.35
54 8 0.11
55 41 0.55
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (53 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTGTGAAAACACAAAGA
Found at i:16712108 original size:18 final size:18
Alignment explanation
Indices: 16711679--16712110 Score: 234
Period size: 17 Copynumber: 25.0 Consensus size: 18
16711669 ACGAAAGTTT
* * *
16711679 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAAAA
*
16711697 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
16711715 --TTTGTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
16711731 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
16711748 TTTTAGAAAAAACG-AAA
1 TTTTTGAAAACACGAAAA
* **
16711765 TTTTCTTAAAACACGACATTT
1 TTTT-TGAAAACACGA-A-AA
**
16711786 TTTTCTG-AAACACGGGAA
1 TTTT-TGAAAACACGAAAA
* *
16711804 TTTTT-AAAACAGGGAAA
1 TTTTTGAAAACACGAAAA
*
16711821 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
16711838 TTTTT-AAAACACGACAT
1 TTTTTGAAAACACGAAAA
16711855 TTTTTG-AAACACG---A
1 TTTTTGAAAACACGAAAA
*
16711869 --TTT-AAAAAAC-AAAA
1 TTTTTGAAAACACGAAAA
* ** *
16711883 --ATTG-AAATGCGAGAA
1 TTTTTGAAAACACGAAAA
*
16711898 TATTTTG-AAACACG-AAT
1 T-TTTTGAAAACACGAAAA
** * *
16711915 TTTTTTTAAACGCGAGAA
1 TTTTTGAAAACACGAAAA
* *
16711933 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACACGAAAA
* *
16711951 -CTTTG-AAACACTG-AAG
1 TTTTTGAAAACAC-GAAAA
*
16711967 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
16711985 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
16712002 TTTGTGAAAACACGTAAATT
1 TTTTTGAAAACACG-AAA-A
*
16712022 TTTTTTAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
16712040 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAAAA
16712057 TTTTTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAAA-A
16712075 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
16712093 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
16712111 CACTAAATTT
Statistics
Matches: 319, Mismatches: 63, Indels: 64
0.72 0.14 0.14
Matches are distributed among these distances:
12 8 0.03
14 7 0.02
15 3 0.01
16 25 0.08
17 122 0.38
18 119 0.37
19 9 0.03
20 20 0.06
21 6 0.02
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:16712186 original size:8 final size:8
Alignment explanation
Indices: 16712173--16712213 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
16712163 ATTCACGAGA
16712173 ATTTTTTT
1 ATTTTTTT
16712181 A-TTTTTT
1 ATTTTTTT
16712188 ATTATTTTTT
1 A-T-TTTTTT
16712198 ATTTTTTT
1 ATTTTTTT
16712206 ATTTTTTT
1 ATTTTTTT
16712214 TGAAACACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.23
8 15 0.50
9 1 0.03
10 7 0.23
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
ATTTTTTT
Found at i:16712192 original size:10 final size:9
Alignment explanation
Indices: 16712174--16712214 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
16712164 TTCACGAGAA
16712174 TTTTTTTA-
1 TTTTTTTAT
16712182 -TTTTTTAT
1 TTTTTTTAT
16712190 TATTTTTTA-
1 T-TTTTTTAT
16712199 TTTTTTTAT
1 TTTTTTTAT
16712208 TTTTTTT
1 TTTTTTT
16712215 GAAACACGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.24
8 7 0.24
9 8 0.28
10 7 0.24
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:16712197 original size:17 final size:17
Alignment explanation
Indices: 16712174--16712214 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
16712164 TTCACGAGAA
16712174 TTTTTTTA-TTTTTTAT
1 TTTTTTTATTTTTTTAT
16712190 TATTTTTTATTTTTTTAT
1 T-TTTTTTATTTTTTTAT
16712208 TTTTTTT
1 TTTTTTT
16712215 GAAACACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.04
17 13 0.57
18 9 0.39
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTATTTTTTTAT
Found at i:16712214 original size:18 final size:17
Alignment explanation
Indices: 16712174--16712214 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
16712164 TTCACGAGAA
16712174 TTTTTTTATTTTTTATT
1 TTTTTTTATTTTTTATT
*
16712191 ATTTTTTATTTTTTTATT
1 TTTTTTTA-TTTTTTATT
16712209 TTTTTT
1 TTTTTT
16712215 GAAACACGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTATTTTTTATT
Found at i:16712292 original size:17 final size:16
Alignment explanation
Indices: 16712243--16712290 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
16712233 TTGAAAACAC
16712243 GAAAACACGAATTTTT
1 GAAAACACGAATTTTT
16712259 G-AAACACGGAAATTTTT
1 GAAAACAC-G-AATTTTT
16712276 GAAAACACG-ATTTTT
1 GAAAACACGAATTTTT
16712291 TTAGAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 2 0.07
17 9 0.31
18 6 0.21
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (16 bp):
GAAAACACGAATTTTT
Found at i:16712368 original size:17 final size:18
Alignment explanation
Indices: 16712346--16712393 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
16712336 TATTATTATT
16712346 ATTTTGAAACACGTG-AA
1 ATTTTGAAACACGTGAAA
16712363 ATTTTGAAGACA--TGAAA
1 ATTTTGAA-ACACGTGAAA
16712380 ATTTTTGAAACACG
1 A-TTTTGAAACACG
16712394 ATTTTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 10 0.38
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (18 bp):
ATTTTGAAACACGTGAAA
Found at i:16713004 original size:24 final size:24
Alignment explanation
Indices: 16712976--16713022 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
16712966 ACAAAGTGGG
16712976 CTGCTTCTTTCTTATTCTTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTTT
*
16713000 CTGCTTCTTTCTTCTTCTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTT
16713023 GCTGTTTTTT
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:0.02, C:0.23, G:0.04, T:0.70
Consensus pattern (24 bp):
CTGCTTCTTTCTTATTCTTTTTTT
Found at i:16713033 original size:13 final size:14
Alignment explanation
Indices: 16713017--16713051 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
16713007 TTTCTTCTTC
16713017 TTTTTTGC-TGTTT
1 TTTTTTGCTTGTTT
16713030 TTTTTTGCTTTGTTT
1 TTTTTTGC-TTGTTT
16713045 TTTTTTG
1 TTTTTTG
16713052 GGCTGGCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
15 12 0.60
ACGTcount: A:0.00, C:0.06, G:0.14, T:0.80
Consensus pattern (14 bp):
TTTTTTGCTTGTTT
Found at i:16713587 original size:29 final size:29
Alignment explanation
Indices: 16713554--16713670 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
16713544 TGTAATTTTT
*
16713554 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
16713583 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
16713613 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
16713642 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
16713671 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:16713609 original size:30 final size:30
Alignment explanation
Indices: 16713569--16713670 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
16713559 ATTTAGGATT
*
16713569 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
16713599 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
16713629 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
16713659 AAAATGCAATTT
1 AAAATGAAATTT
16713671 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:16713693 original size:14 final size:15
Alignment explanation
Indices: 16713669--16713701 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16713659 AAAATGCAAT
*
16713669 TTTTATTTTTTTAAA
1 TTTTATTTTTTGAAA
16713684 TTTT-TTTTTTGAAA
1 TTTTATTTTTTGAAA
16713698 TTTT
1 TTTT
16713702 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTTGAAA
Found at i:16714027 original size:55 final size:53
Alignment explanation
Indices: 16713943--16714139 Score: 278
Period size: 50 Copynumber: 3.7 Consensus size: 53
16713933 CACGTGAGCC
*
16713943 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAA-TTG-AA
*
16713998 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AA-A-AATAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTG-AA
*
16714048 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAG-AATTGAA
*
16714102 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
16714140 TTTTTTTTTG
Statistics
Matches: 129, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
50 42 0.33
51 2 0.02
52 1 0.01
53 4 0.03
54 39 0.30
55 38 0.29
56 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (53 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTGAA
Found at i:16714140 original size:105 final size:104
Alignment explanation
Indices: 16713943--16714139 Score: 333
Period size: 104 Copynumber: 1.9 Consensus size: 104
16713933 CACGTGAGCC
* *
16713943 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
16714008 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
*
16714048 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
*
16714112 TCACCTCTTGCAATATGAGTTGATTTTT
65 TCACCTCTCGCAATATGAGTTGATTTTT
16714140 TTTTTTTTTG
Statistics
Matches: 87, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
104 39 0.45
105 37 0.43
106 11 0.13
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
Found at i:16714182 original size:13 final size:14
Alignment explanation
Indices: 16714154--16714186 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
16714144 TTTTTGAAAC
16714154 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
16714168 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
16714181 ACAGAA
1 ACAGAA
16714187 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:16714194 original size:14 final size:14
Alignment explanation
Indices: 16714147--16714194 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
16714137 TTTTTTTTTT
*
16714147 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
16714161 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
16714175 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
16714188 TTGAAAA
1 TTGAAAA
16714195 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:16714342 original size:13 final size:14
Alignment explanation
Indices: 16714314--16714346 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
16714304 TTTTTGAAAC
16714314 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
16714328 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
16714341 ACAGAA
1 ACAGAA
16714347 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:16714354 original size:14 final size:14
Alignment explanation
Indices: 16714307--16714354 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
16714297 ATTTTTTTTT
*
16714307 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
16714321 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
16714335 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
16714348 TTGAAAA
1 TTGAAAA
16714355 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:16714360 original size:160 final size:161
Alignment explanation
Indices: 16714052--16714414 Score: 656
Period size: 160 Copynumber: 2.2 Consensus size: 161
16714042 TAGAAAAAGG
* *
16714052 CTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
1 CTCAACTCACCTCTTGCAATATGAGTT-G-ATTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
16714117 TCTTGCAATATGAGTTGATTTTTTTTTTTTTTGAAACACAGAAATTAAAAAACAGAAATTAAAAA
64 TCTTGCAATATGAGTTGA--TTTTTTTTTTTTGAAACACAGAAATTAAAAAACAGAAATTAAAAA
16714182 CAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGA
127 CAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGA
*
16714217 CTCAACTCACCTCTTACAATATGAGTTGATTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTC
1 CTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTC
16714282 TTGCAATATGAGTTGA-TTTTTTTTTTTGAAACACAGAAATTAAAAAACAGAAATTAAAAACAGA
66 TTGCAATATGAGTTGATTTTTTTTTTTTGAAACACAGAAATTAAAAAACAGAAATTAAAAACAGA
16714346 ATTTGAAAAGACCTCAGCGTGTGGCCTGAGA
131 ATTTGAAAAGACCTCAGCGTGTGGCCTGAGA
16714377 CTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAA
1 CTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAA
16714415 GTAGAATTAG
Statistics
Matches: 194, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
160 116 0.60
163 52 0.27
164 1 0.01
165 25 0.13
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (161 bp):
CTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTC
TTGCAATATGAGTTGATTTTTTTTTTTTGAAACACAGAAATTAAAAAACAGAAATTAAAAACAGA
ATTTGAAAAGACCTCAGCGTGTGGCCTGAGA
Found at i:16714482 original size:86 final size:87
Alignment explanation
Indices: 16714342--16714507 Score: 221
Period size: 86 Copynumber: 1.9 Consensus size: 87
16714332 AAATTAAAAA
* *
16714342 CAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAGTT-GA
1 CAGAAATTGAAAAGACCTCAGCG-GTGGCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAGA
16714406 TTTGAAAAAGTAGAATTAGTAAAG
65 TTTG-AAAAGTAGAATTAGTAAAG
* * *
16714430 CAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAG
1 CAGAAATTGAAAAGACCTCAGCGGTGGCC-TGAGACTCAACTCACCTCTCGCAATATGAGTT-AG
*
16714493 TTTTGAAAAGTAGAA
64 ATTTGAAAAGTAGAA
16714508 ATTGAAAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 3 0.04
86 31 0.45
87 10 0.14
88 25 0.36
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (87 bp):
CAGAAATTGAAAAGACCTCAGCGGTGGCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAGAT
TTGAAAAGTAGAATTAGTAAAG
Found at i:16714618 original size:72 final size:72
Alignment explanation
Indices: 16714430--16715451 Score: 1688
Period size: 72 Copynumber: 14.1 Consensus size: 72
16714420 ATTAGTAAAG
* * * *
16714430 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
16714494 TTTGAAAA
65 TTTGAAAA
* * *
16714502 GTAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
16714567 TTTGAAAA
65 TTTGAAAA
16714575 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16714640 TTGAAAA
66 TTGAAAA
*
16714647 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16714712 TTGAAAA
66 TTGAAAA
16714719 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
16714784 TTGAGAAG
66 TTGA-AAA
* *
16714792 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16714857 TTGAAAA
66 TTGAAAA
16714864 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16714929 TTGAAAA
66 TTGAAAA
16714936 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
16715001 TTGAGAAG
66 TTGA-AAA
*
16715009 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16715074 TTGAAAA
66 TTGAAAA
16715081 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16715146 TTGAAAA
66 TTGAAAA
16715153 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
16715218 TTGAGAAG
66 TTGA-AAA
* * * *
16715226 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16715291 TTGAAAA
66 TTGAAAA
* * *
16715298 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
*
16715363 TTTTAACAA
65 TTTGAA-AA
* * * ** * *
16715372 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16715436 TTGAAAAA
66 TTG-AAAA
*
16715444 CATAAATT
1 CAGAAATT
16715452 AAAAGGCTTA
Statistics
Matches: 904, Mismatches: 38, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
72 566 0.63
73 278 0.31
74 60 0.07
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:16714811 original size:217 final size:217
Alignment explanation
Indices: 16714430--16715439 Score: 1738
Period size: 217 Copynumber: 4.6 Consensus size: 217
16714420 ATTAGTAAAG
* * * *
16714430 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
* * *
16714494 TTTGAAAAGTAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
* *
16714559 AGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
129 AGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
16714623 GCAATATGAGTTGAATTTTGAAAA
194 GCAATATGAGTTGAATTTTGAAAA
*
16714647 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16714712 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
16714777 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
16714842 AATATGAGTTAAATTTTGAAAA
196 AATATGAGTTGAATTTTGAAAA
16714864 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16714929 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
16714994 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
16715059 AATATGAGTTGAATTTTGAAAA
196 AATATGAGTTGAATTTTGAAAA
16715081 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
16715146 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* *
16715211 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
16715276 AATATAAGTTGAATTTTGAAAA
196 AATATGAGTTGAATTTTGAAAA
* * *
16715298 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
* * * * ** *
16715363 TTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATG
65 TTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
*
16715428 AATTG-ATTTTGA
129 AGTTGAATTTTGA
16715440 AAAACATAAA
Statistics
Matches: 762, Mismatches: 27, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
216 66 0.09
217 625 0.82
218 15 0.02
219 56 0.07
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (217 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
AATATGAGTTGAATTTTGAAAA
Found at i:16714887 original size:145 final size:144
Alignment explanation
Indices: 16714430--16715451 Score: 1681
Period size: 145 Copynumber: 7.1 Consensus size: 144
16714420 ATTAGTAAAG
* * * *
16714430 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
* *
16714494 TTTGAAAAGTAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
16714559 AGTTGAATTTTGAAAA
129 AGTTGAATTTTGAAAA
16714575 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
16714640 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
16714705 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
16714719 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
16714784 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
16714849 GTTAAATTTTGAAAA
130 GTTGAATTTTGAAAA
16714864 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
16714929 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
16714994 TTGAATTTTGAGAAG
131 TTGAATTTTGA-AAA
*
16715009 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
16715074 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
16715139 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
16715153 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * * *
16715218 TTGAGAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
16715283 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
* * *
16715298 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
* * * ** *
16715363 TTTTAACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATAT
65 TTTGAA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
*
16715427 GAATTG-ATTTTGAAAAA
128 GAGTTGAATTTTG-AAAA
*
16715444 CATAAATT
1 CAGAAATT
16715452 AAAAGGCTTA
Statistics
Matches: 834, Mismatches: 35, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
144 276 0.33
145 488 0.59
146 70 0.08
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (144 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAA
Found at i:16727482 original size:18 final size:18
Alignment explanation
Indices: 16727461--16727501 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
16727451 ACCGGAAATT
*
16727461 TTTTTAAAAACACGAGGA
1 TTTTTAAAAACACGAAGA
*
16727479 TTTTTGAAAACACGAAGA
1 TTTTTAAAAACACGAAGA
16727497 TTTTT
1 TTTTT
16727502 TTTTAACGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTTTAAAAACACGAAGA
Found at i:16727589 original size:16 final size:16
Alignment explanation
Indices: 16727568--16727654 Score: 75
Period size: 16 Copynumber: 5.2 Consensus size: 16
16727558 AAAAAATATA
16727568 AAAAATTTTAAAACAC
1 AAAAATTTTAAAACAC
*
16727584 AAAAATTTGTGAAACAC
1 AAAAATTT-TAAAACAC
* *
16727601 GAGAATTATTGAAAACAC
1 AAAAATT-TT-AAAACAC
* *
16727619 GAAAAATTTGAAAATAC
1 -AAAAATTTTAAAACAC
* *
16727636 GAAAATTTAAAAACAC
1 AAAAATTTTAAAACAC
16727652 AAA
1 AAA
16727655 TTTTTTTTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
16 23 0.42
17 19 0.35
18 8 0.15
19 5 0.09
ACGTcount: A:0.59, C:0.10, G:0.09, T:0.22
Consensus pattern (16 bp):
AAAAATTTTAAAACAC
Found at i:16727682 original size:23 final size:21
Alignment explanation
Indices: 16727644--16727691 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 21
16727634 ACGAAAATTT
16727644 AAAAACACAAATTTTTTTTTA
1 AAAAACACAAATTTTTTTTTA
16727665 AAAAACACGAAAATTTTTTTTTA
1 AAAAACAC--AAATTTTTTTTTA
16727688 AAAA
1 AAAA
16727692 CATAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 8 0.32
23 17 0.68
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAAACACAAATTTTTTTTTA
Found at i:16727698 original size:21 final size:20
Alignment explanation
Indices: 16727641--16727698 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 20
16727631 AATACGAAAA
*
16727641 TTTAAAAACACAAATTTTTT
1 TTTAAAAACAAAAATTTTTT
16727661 TTTAAAAAACACGAAAATTTTTT
1 TTT-AAAAACA--AAAATTTTTT
16727684 TTTAAAAACATAAAA
1 TTTAAAAACA-AAAA
16727699 AATTTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 11 0.33
22 7 0.21
23 12 0.36
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTAAAAACAAAAATTTTTT
Found at i:16727699 original size:22 final size:23
Alignment explanation
Indices: 16727644--16727704 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
16727634 ACGAAAATTT
16727644 AAAAACAC--AAATTTTTTTTTA
1 AAAAACACAAAAATTTTTTTTTA
*
16727665 AAAAACACGAAAATTTTTTTTT-
1 AAAAACACAAAAATTTTTTTTTA
* *
16727687 AAAAACATAAAAAATTTT
1 AAAAACACAAAAATTTTT
16727705 AAAACACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.23
22 15 0.43
23 12 0.34
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAAACACAAAAATTTTTTTTTA
Found at i:16727700 original size:23 final size:23
Alignment explanation
Indices: 16727652--16727704 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
16727642 TTAAAAACAC
**
16727652 AAATTTTTTTTTAAAAAACACGA
1 AAATTTTTTTTTAAAAAACAAAA
16727675 AAATTTTTTTTT-AAAAACATAAA
1 AAATTTTTTTTTAAAAAACA-AAA
16727698 AAATTTT
1 AAATTTT
16727705 AAAACACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTTTTTTTTAAAAAACAAAA
Found at i:16727722 original size:128 final size:129
Alignment explanation
Indices: 16727538--16727771 Score: 380
Period size: 128 Copynumber: 1.8 Consensus size: 129
16727528 AAAATTTTTG
* *
16727538 AAACACGACAATCTTTTTTAAAAAAATATAAAAAATTTTAAAACACAAAAATTTGTGAAACACGA
1 AAACACGAAAATCTTTTTTAAAAAAACATAAAAAATTTTAAAACACAAAAATTTGTGAAACACGA
*
16727603 GAATTATTGAAAACACGAAAAATTTGAAAATACGAAAATTTAAAAACACAAATTTTTTTTTAAA
66 GAATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTTAAAAACACAAATTTTTTTTTAAA
** * *
16727667 AAACACGAAAAT-TTTTTTTTAAAAACATAAAAAATTTTAAAACACGAGAATTTGTGAAACACGA
1 AAACACGAAAATCTTTTTTAAAAAAACATAAAAAATTTTAAAACACAAAAATTTGTGAAACACGA
* *
16727731 GAATTGTTGAAAACACGAAAATTTTGAAAACACGAAAATTT
66 GAATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTT
16727772 TTGAAACATA
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
128 85 0.89
129 11 0.11
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.28
Consensus pattern (129 bp):
AAACACGAAAATCTTTTTTAAAAAAACATAAAAAATTTTAAAACACAAAAATTTGTGAAACACGA
GAATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTTAAAAACACAAATTTTTTTTTAAA
Found at i:16727746 original size:18 final size:17
Alignment explanation
Indices: 16727697--16727807 Score: 111
Period size: 17 Copynumber: 6.4 Consensus size: 17
16727687 AAAAACATAA
16727697 AAAATTTT-AAAACACG
1 AAAATTTTGAAAACACG
*
16727713 AGAATTTGTG-AAACACG
1 AAAATTT-TGAAAACACG
*
16727730 AGAATTGTTGAAAACACG
1 AAAATT-TTGAAAACACG
16727748 AAAATTTTGAAAACACG
1 AAAATTTTGAAAACACG
*
16727765 AAAATTTTTG-AAACATAG
1 AAAA-TTTTGAAAACA-CG
*
16727783 AAATTTTTAGAAAAACACG
1 AAAATTTT-G-AAAACACG
16727802 AAAATT
1 AAAATT
16727808 AGAAATTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
16 6 0.08
17 40 0.50
18 23 0.29
19 6 0.08
20 5 0.06
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (17 bp):
AAAATTTTGAAAACACG
Found at i:16727754 original size:35 final size:35
Alignment explanation
Indices: 16727569--16727807 Score: 120
Period size: 35 Copynumber: 6.7 Consensus size: 35
16727559 AAAAATATAA
*
16727569 AAAATTTT-AAAACACAAAAATT-TGTG-AAACACG
1 AAAATTTTGAAAACACGAAAATTGT-TGAAAACACG
* * *
16727602 AGAATTATTGAAAACACGAAAAAT-TTGAAAATACG
1 AAAATT-TTGAAAACACGAAAATTGTTGAAAACACG
* * * *
16727637 AAAA-TTTAAAAACAC-AAATTTTTTTTTAAAAAACACG
1 AAAATTTTGAAAACACGAAA---ATTGTT-GAAAACACG
* **
16727674 AAAATTTTTTTTTAAAAACATAAAAAATT-TT-AAAACACG
1 AAAA-----TTTTGAAAACA-CGAAAATTGTTGAAAACACG
* *
16727713 AGAATTTGTG-AAACACGAGAATTGTTGAAAACACG
1 AAAATTT-TGAAAACACGAAAATTGTTGAAAACACG
* *
16727748 AAAATTTTGAAAACACGAAAATTTTTG-AAACATAG
1 AAAATTTTGAAAACACGAAAATTGTTGAAAACA-CG
*
16727783 AAATTTTTAGAAAAACACGAAAATT
1 AAAATTTT-G-AAAACACGAAAATT
16727808 AGAAATTTTT
Statistics
Matches: 161, Mismatches: 22, Indels: 42
0.72 0.10 0.19
Matches are distributed among these distances:
32 3 0.02
33 19 0.12
34 22 0.14
35 61 0.38
36 3 0.02
37 25 0.16
39 11 0.07
41 2 0.01
42 2 0.01
43 10 0.06
45 3 0.02
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (35 bp):
AAAATTTTGAAAACACGAAAATTGTTGAAAACACG
Found at i:16727790 original size:128 final size:127
Alignment explanation
Indices: 16727538--16727807 Score: 364
Period size: 128 Copynumber: 2.1 Consensus size: 127
16727528 AAAATTTTTG
* *
16727538 AAACACGACAATCTTTTTTAAAAAAATATAAAAAATTTTAAAACACAAAAATTTGTGAAACACGA
1 AAACACGAAAAT-TTTTTTAAAAAAACATAAAAAATTTTAAAACACAAAAATTTGTGAAACACGA
* *
16727603 GAATTATTGAAAACACGAAAAATTTGAAAATACGAAAATTTAAAAACACAAATTTTTTTTTA-AA
65 GAATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTTAAAAACACAAA--TATTTTTAGAA
** * *
16727667 AAACACGAAAATTTTTTTTTAAAAACATAAAAAATTTTAAAACACGAGAATTTGTGAAACACGAG
1 AAACACGAAAATTTTTTTAAAAAAACATAAAAAATTTTAAAACACAAAAATTTGTGAAACACGAG
* * ** *
16727732 AATTGTTGAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACATAGAA-ATTTTTAGAA
66 AATTATTGAAAACACGAAAAATTTGAAAACACGAAAA-TTTAAAAACACA-AATATTTTTAGAA
16727795 AAACACGAAAATT
1 AAACACGAAAATT
16727808 AGAAATTTTT
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
127 6 0.05
128 97 0.78
129 20 0.16
130 2 0.02
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.28
Consensus pattern (127 bp):
AAACACGAAAATTTTTTTAAAAAAACATAAAAAATTTTAAAACACAAAAATTTGTGAAACACGAG
AATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTTAAAAACACAAATATTTTTAGAA
Found at i:16728995 original size:30 final size:30
Alignment explanation
Indices: 16728955--16729026 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
16728945 ATTTAGGATT
* *
16728955 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
16728985 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
16729015 AAAATGAAATTT
1 AAAATGAAATTT
16729027 TTATTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.31
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:16729984 original size:8 final size:7
Alignment explanation
Indices: 16729955--16729980 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16729945 ATATATTCGG
16729955 TTTTTCT
1 TTTTTCT
16729962 TTTTTCT
1 TTTTTCT
16729969 TTTTTCT
1 TTTTTCT
16729976 TTTTT
1 TTTTT
16729981 TCTTCACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:16731473 original size:19 final size:21
Alignment explanation
Indices: 16731449--16731496 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
16731439 ACAATAATAT
16731449 AAAATA-AT-GATATGTACAA
1 AAAATATATAGATATGTACAA
* *
16731468 AAAATATATATATATGTACAT
1 AAAATATATAGATATGTACAA
16731489 AAAATATA
1 AAAATATA
16731497 CACTAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 2 0.08
21 17 0.68
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (21 bp):
AAAATATATAGATATGTACAA
Found at i:16731505 original size:21 final size:21
Alignment explanation
Indices: 16731458--16731510 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
16731448 TAAAATAATG
* *
16731458 ATATGTACAAAAAATATATAT
1 ATATGTACATAAAATATACAT
16731479 ATATGTACATAAAATATACACT
1 ATATGTACATAAAATATACA-T
16731501 A-ATGTA-ATAA
1 ATATGTACATAA
16731511 TAATTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.14
21 23 0.79
22 2 0.07
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (21 bp):
ATATGTACATAAAATATACAT
Found at i:16731601 original size:16 final size:16
Alignment explanation
Indices: 16731579--16731613 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16731569 GTATTTTAAA
16731579 ATATATATATATATATTT
1 ATATATA-ATA-ATATTT
16731597 ATATATAATAATATTT
1 ATATATAATAATATTT
16731613 A
1 A
16731614 AGAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 3 0.18
18 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATAATAATATTT
Found at i:16731714 original size:11 final size:11
Alignment explanation
Indices: 16731687--16731729 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
16731677 TTGCATTAAA
*
16731687 AAAATATATAC
1 AAAATATATAT
*
16731698 ATAATATATAT
1 AAAATATATAT
*
16731709 AAAATACATAT
1 AAAATATATAT
*
16731720 AATATATATA
1 AAAATATATA
16731730 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:16731797 original size:29 final size:30
Alignment explanation
Indices: 16731765--16731824 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
16731755 AACACACTAC
16731765 ATAAGTAAATAAAATA-TAATAATA-CTAAA
1 ATAAGTAAATAAAATAGTAA-AATAGCTAAA
* * *
16731794 ATAATTAATTTAAATAGTAAAATAGCTAAA
1 ATAAGTAAATAAAATAGTAAAATAGCTAAA
16731824 A
1 A
16731825 AATGATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (30 bp):
ATAAGTAAATAAAATAGTAAAATAGCTAAA
Found at i:16733703 original size:75 final size:75
Alignment explanation
Indices: 16733398--16733904 Score: 650
Period size: 75 Copynumber: 6.7 Consensus size: 75
16733388 TCTGAAGCTT
*
16733398 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTTAGCA
1 AACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCA
*
16733463 TGTGAAC-CGAGGCTC
63 TGT---CTTGAGGCTC
* * * *
16733478 AACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAA-ATAGAAATTGAAAATACCTCAACGT
1 AACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCAT
16733542 GTCTTGAGGCTC
64 GTCTTGAGGCTC
** * *
16733554 AACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAATT-AAAATTACCTCAGCGTG
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA-TACCTCAGCATG
**
16733615 TCCCGAGGCTC
65 TCTTGAGGCTC
*
16733626 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGT
16733691 CTTGAGGCTC
66 CTTGAGGCTC
** *
16733701 AACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGT
16733766 CTTGAGGCTC
66 CTTGAGGCTC
** * *
16733776 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACA-ACAGAAATTGAAATTACCTCAGCA
1 AACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCA
*
16733840 TGTCCTGAGGCTC
63 TGTCTTGAGGCTC
* *
16733853 CACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA
16733905 ACGGAAATTG
Statistics
Matches: 384, Mismatches: 33, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
71 4 0.01
72 60 0.16
74 18 0.05
75 140 0.36
76 34 0.09
77 57 0.15
78 33 0.09
79 13 0.03
80 25 0.07
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (75 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGT
CTTGAGGCTC
Found at i:16733879 original size:227 final size:226
Alignment explanation
Indices: 16733398--16734049 Score: 785
Period size: 227 Copynumber: 2.8 Consensus size: 226
16733388 TCTGAAGCTT
* *
16733398 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTTAGCA
1 AACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCA
* * *
16733463 TGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAATAGAAATTGA
63 TGT--ACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAACAGAAATTGA
* *
16733528 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-----ATTTTGAA
124 AAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAA
*
16733588 AACAGAAATTAAAATTACCTCAGCGTGTCCCGAGGCTC
189 AACAGAAATTAAAATTACCTCAGCATGTCCCGAGGCTC
16733626 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
** *
16733691 -CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATA
66 AC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATA
* *
16733755 CCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAACAG
129 CCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAG
* *
16733820 AAATTGAAATTACCTCAGCATGTCCTGAGGCTC
194 AAATTAAAATTACCTCAGCATGTCCCGAGGCTC
* *
16733853 CACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTT--------GAAA--G-ACAA---AAATTGAAA
* * * * * *
16733918 ATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAAC
52 ATACCTCAGCATGT-A-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAC
* * ** *
16733983 AGAAATTGAAATTACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTT
115 AGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
16734048 TT
180 TT
16734050 AAAAAATACC
Statistics
Matches: 368, Mismatches: 32, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
221 11 0.03
222 60 0.16
223 30 0.08
225 37 0.10
227 73 0.20
228 26 0.07
235 4 0.01
237 1 0.00
238 3 0.01
241 21 0.06
242 62 0.17
243 39 0.11
244 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (226 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
ACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACC
TCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAA
ATTAAAATTACCTCAGCATGTCCCGAGGCTC
Found at i:16733972 original size:91 final size:88
Alignment explanation
Indices: 16733819--16733993 Score: 244
Period size: 91 Copynumber: 2.0 Consensus size: 88
16733809 TTTGACAACA
* * * *
16733819 GAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
16733884 TTGA-AAGGCAGAAATTGAAAAACG
66 TTGACAA--CAGAAATTGAAAAACG
* * *
16733908 GAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCATGT--CCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
16733973 TTTTGACAACAGAAATTGAAA
64 TTTTGACAACAGAAATTGAAA
16733994 TTACCTCAGT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 21 0.28
90 12 0.16
91 41 0.54
92 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
TTGACAACAGAAATTGAAAAACG
Found at i:16734016 original size:165 final size:164
Alignment explanation
Indices: 16733743--16734049 Score: 454
Period size: 165 Copynumber: 1.9 Consensus size: 164
16733733 TGAAAGACAA
* * ** *
16733743 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGA--TTTT
*
16733808 TTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATG
64 TTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
16733873 AGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGG
129 AGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGG
* * *
16733909 AAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TTT
1 AAATTGAAAATACCTCAGCATGT--CCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
** *
16733973 TTTTGACAACAGAAATTGAAATTACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
64 TTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
16734038 AGTTTATTTTTT
129 AGTTGATTTTTT
16734050 AAAAAATACC
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
165 75 0.60
166 21 0.17
168 30 0.24
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (164 bp):
AAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTT
TTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAGGCAGAAATTGAAAAACGG
Found at i:16734117 original size:61 final size:61
Alignment explanation
Indices: 16733990--16734117 Score: 157
Period size: 61 Copynumber: 2.1 Consensus size: 61
16733980 AACAGAAATT
* * * * * *** **
16733990 GAAATTACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTA
1 GAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATACA
*
16734051 AAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATACA
1 GAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATACA
16734112 GAAAAT
1 GAAAAT
16734118 TAACAATACC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (61 bp):
GAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATACA
Found at i:16744235 original size:17 final size:18
Alignment explanation
Indices: 16744208--16744351 Score: 177
Period size: 18 Copynumber: 8.1 Consensus size: 18
16744198 AACACTGGAG
*
16744208 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
16744226 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
16744243 TTTGTGAAAACACGTAAAT
1 TTTTTGAAAACACG-AAAA
*
16744262 TTTTTTAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
16744280 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAAAA
16744297 TTTTTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAAA-A
16744315 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
16744333 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
16744351 T
1 T
16744352 ACTAAATTTG
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
17 32 0.29
18 59 0.54
19 18 0.17
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:16744426 original size:8 final size:8
Alignment explanation
Indices: 16744413--16744454 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
16744403 ATTCACGAGA
16744413 ATTTTTTT
1 ATTTTTTT
16744421 ATTTTTTT
1 ATTTTTTT
16744429 ATTATTTTTT
1 A-T-TTTTTT
*
16744439 ATTATTTT
1 ATTTTTTT
16744447 ATTTTTTT
1 ATTTTTTT
16744455 TTGAAACACG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 21 0.70
9 2 0.07
10 7 0.23
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (8 bp):
ATTTTTTT
Found at i:16744456 original size:10 final size:10
Alignment explanation
Indices: 16744414--16744456 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
16744404 TTCACGAGAA
16744414 TTTTTTTATT
1 TTTTTTTATT
16744424 TTTTTATTATT
1 TTTTT-TTATT
*
16744435 TTTTATTATT
1 TTTTTTTATT
16744445 TTATTTTT-TT
1 TT-TTTTTATT
16744455 TT
1 TT
16744457 GAAACACGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 16 0.55
11 13 0.45
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:16744456 original size:18 final size:18
Alignment explanation
Indices: 16744414--16744456 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
16744404 TTCACGAGAA
*
16744414 TTTTTTTATTTTTTTATT
1 TTTTTTTATTATTTTATT
*
16744432 ATTTTTTATTATTTTATT
1 TTTTTTTATTATTTTATT
16744450 TTTTTTT
1 TTTTTTT
16744457 GAAACACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTATTATTTTATT
Found at i:16744470 original size:20 final size:21
Alignment explanation
Indices: 16744447--16744486 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
16744437 TTATTATTTT
16744447 ATTTTTTTTTG-AAACACGAG
1 ATTTTTTTTTGAAAACACGAG
16744467 ATTTTTTTTTGAAAACACGA
1 ATTTTTTTTTGAAAACACGA
16744487 AAACACGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (21 bp):
ATTTTTTTTTGAAAACACGAG
Found at i:16744534 original size:17 final size:16
Alignment explanation
Indices: 16744485--16744532 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
16744475 TTGAAAACAC
16744485 GAAAACACGAATTTTT
1 GAAAACACGAATTTTT
16744501 G-AAACACGGAAATTTTT
1 GAAAACAC-G-AATTTTT
16744518 GAAAACACG-ATTTTT
1 GAAAACACGAATTTTT
16744533 TTAGAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 2 0.07
17 9 0.31
18 6 0.21
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (16 bp):
GAAAACACGAATTTTT
Found at i:16744610 original size:17 final size:18
Alignment explanation
Indices: 16744588--16744635 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
16744578 TATTATTATT
16744588 ATTTTGAAACACGTG-AA
1 ATTTTGAAACACGTGAAA
16744605 ATTTTGAAGACA--TGAAA
1 ATTTTGAA-ACACGTGAAA
16744622 ATTTTTGAAACACG
1 A-TTTTGAAACACG
16744636 ATTTTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 10 0.38
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (18 bp):
ATTTTGAAACACGTGAAA
Found at i:16745251 original size:24 final size:24
Alignment explanation
Indices: 16745223--16745270 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
16745213 ACAAAGTGGG
16745223 CTGCTTCTTTCTTATTCTTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTTT
*
16745247 CTGCTTCTTTCTTCTTCTTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTTT
16745271 GCTGTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.02, C:0.23, G:0.04, T:0.71
Consensus pattern (24 bp):
CTGCTTCTTTCTTATTCTTTTTTT
Found at i:16745281 original size:12 final size:13
Alignment explanation
Indices: 16745264--16745296 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
16745254 TTTCTTCTTC
16745264 TTTTTTTGC-TGT
1 TTTTTTTGCTTGT
16745276 TTTTTTTGCTTTGT
1 TTTTTTTGC-TTGT
16745290 TTTTTTT
1 TTTTTTT
16745297 TTGGGCTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (13 bp):
TTTTTTTGCTTGT
Found at i:16745837 original size:29 final size:29
Alignment explanation
Indices: 16745804--16745920 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
16745794 TGTAATTTTT
*
16745804 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
16745833 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
16745863 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
16745892 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
16745921 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:16745859 original size:30 final size:30
Alignment explanation
Indices: 16745819--16745920 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
16745809 ATTTAGGATT
*
16745819 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
16745849 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
16745879 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
16745909 AAAATGCAATTT
1 AAAATGAAATTT
16745921 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:16745942 original size:15 final size:17
Alignment explanation
Indices: 16745916--16745953 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
16745906 GTCAAAATGC
16745916 AATTTTTATTTTTTT-A
1 AATTTTTATTTTTTTGA
16745932 AATTTTT-TTTTTTTGA
1 AATTTTTATTTTTTTGA
16745948 AATTTT
1 AATTTT
16745954 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
AATTTTTATTTTTTTGA
Found at i:16750298 original size:7 final size:7
Alignment explanation
Indices: 16750286--16750315 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
16750276 TAACAAATTT
16750286 ATATTAA
1 ATATTAA
16750293 ATATTAA
1 ATATTAA
16750300 ATATTAA
1 ATATTAA
*
16750307 ATATCAA
1 ATATTAA
16750314 AT
1 AT
16750316 TTTATTTTTA
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (7 bp):
ATATTAA
Found at i:16758880 original size:6 final size:7
Alignment explanation
Indices: 16758868--16758904 Score: 51
Period size: 6 Copynumber: 5.4 Consensus size: 7
16758858 TTTAAATTTT
16758868 TATAAAA
1 TATAAAA
16758875 TA-AAAA
1 TATAAAA
16758881 TATAAAA
1 TATAAAA
16758888 CTATAAAA
1 -TATAAAA
16758896 TA-AAAA
1 TATAAAA
16758902 TAT
1 TAT
16758905 TAATGTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 12 0.44
7 8 0.30
8 7 0.26
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (7 bp):
TATAAAA
Found at i:16758886 original size:13 final size:14
Alignment explanation
Indices: 16758868--16758904 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
16758858 TTTAAATTTT
16758868 TATAAAATA-AAAA
1 TATAAAATATAAAA
16758881 TATAAAACTATAAAA
1 TATAAAA-TATAAAA
16758896 TA-AAAATAT
1 TATAAAATAT
16758905 TAATGTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 6 0.27
15 6 0.27
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
TATAAAATATAAAA
Found at i:16772675 original size:21 final size:22
Alignment explanation
Indices: 16772646--16772692 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
16772636 CAGAAGGAGT
*
16772646 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
16772668 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
16772689 GAGT
1 GAGT
16772693 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:16774340 original size:3 final size:3
Alignment explanation
Indices: 16774332--16774374 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
16774322 ACCAAAGAAA
16774332 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16774375 GTAAGGAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16774829 original size:15 final size:15
Alignment explanation
Indices: 16774811--16774840 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16774801 AATAAAAAAT
*
16774811 TTTAAAATATATAAA
1 TTTAAAAAATATAAA
16774826 TTTAAAAAATATAAA
1 TTTAAAAAATATAAA
16774841 AATATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAAAAAATATAAA
Found at i:16774831 original size:25 final size:24
Alignment explanation
Indices: 16774803--16774857 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
16774793 GCCATGTCAA
* *
16774803 TAAAAAATTTTAAAATATATAAATT
1 TAAAAAATATAAAAATATATAAA-T
*
16774828 TAAAAAATATAAAAATATATATAT
1 TAAAAAATATAAAAATATATAAAT
16774852 TAAAAA
1 TAAAAA
16774858 TCCAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAAAAATATAAAAATATATAAAT
Found at i:16779583 original size:2 final size:2
Alignment explanation
Indices: 16779576--16779602 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16779566 TACTCACATT
16779576 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
16779603 TCATATGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16782377 original size:16 final size:17
Alignment explanation
Indices: 16782356--16782390 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
16782346 ACATTTGTAA
16782356 TAAAT-ATATTGATTAT
1 TAAATAATATTGATTAT
16782372 TAAATAGATATTGATTAT
1 TAAATA-ATATTGATTAT
16782390 T
1 T
16782391 GTTATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (17 bp):
TAAATAATATTGATTAT
Found at i:16783401 original size:6 final size:6
Alignment explanation
Indices: 16783390--16783426 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
16783380 TTTGTGTACC
* *
16783390 GTTACT GTTACT ATTACT GTTACT GTTACC GTTACT G
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT G
16783427 ACACAGTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (6 bp):
GTTACT
Found at i:16787316 original size:48 final size:48
Alignment explanation
Indices: 16787245--16787343 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
16787235 ATAAGTGTGC
16787245 TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
1 TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
16787293 TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
1 TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
16787341 TAC
1 TAC
16787344 ATCTTCCTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (48 bp):
TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
Found at i:16790569 original size:28 final size:28
Alignment explanation
Indices: 16790509--16790604 Score: 147
Period size: 28 Copynumber: 3.4 Consensus size: 28
16790499 TCGGGCAAGA
* * * *
16790509 TGGGTCATATAAATGTGATTTGGGCCTAA
1 TGGGCCATATGAATGAGA-TTGGGCCTAG
16790538 TGGGCCATATGAATGAGATTGGGCCTAG
1 TGGGCCATATGAATGAGATTGGGCCTAG
16790566 TGGGCCATATGAATGAGATTGGGCCTAG
1 TGGGCCATATGAATGAGATTGGGCCTAG
16790594 TGGGCCATATG
1 TGGGCCATATG
16790605 CATGTATGTA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 48 0.76
29 15 0.24
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (28 bp):
TGGGCCATATGAATGAGATTGGGCCTAG
Found at i:16802162 original size:23 final size:23
Alignment explanation
Indices: 16802128--16802184 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
16802118 GATGCCTATA
16802128 TGGCATGA-TCTACAAAGCCTT-AG
1 TGGCAT-ATTCTACAAAG-CTTGAG
* *
16802151 TGGCATATTCTATAAAGCTTGTG
1 TGGCATATTCTACAAAGCTTGAG
16802174 TGGCATATTCT
1 TGGCATATTCT
16802185 GTATCGCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGCATATTCTACAAAGCTTGAG
Found at i:16803802 original size:13 final size:13
Alignment explanation
Indices: 16803784--16803809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16803774 AAGCTACCTT
16803784 ACACGGGCGTGTC
1 ACACGGGCGTGTC
16803797 ACACGGGCGTGTC
1 ACACGGGCGTGTC
16803810 CCTGTCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:16807282 original size:4 final size:4
Alignment explanation
Indices: 16807273--16807322 Score: 100
Period size: 4 Copynumber: 12.5 Consensus size: 4
16807263 TATAAGATAA
16807273 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
16807321 AC
1 AC
16807323 TTCCTTAACC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:16808386 original size:26 final size:27
Alignment explanation
Indices: 16808341--16808391 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
16808331 CAAATACCAC
* *
16808341 AAAAATTTCAAGAGATCCTATAATGCT
1 AAAAATTTCAAGAGAACCTAAAATGCT
*
16808368 AAAAGTTTCAAGA-AACCTAAAATG
1 AAAAATTTCAAGAGAACCTAAAATG
16808392 AAGAAAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (27 bp):
AAAAATTTCAAGAGAACCTAAAATGCT
Found at i:16811177 original size:23 final size:25
Alignment explanation
Indices: 16811146--16811192 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
16811136 TTATATGAAA
16811146 ATATACTCAATAAGATT-TAATTCC
1 ATATACTCAATAAGATTCTAATTCC
* *
16811170 ATAT-CTCACTCAGATTCTAATTC
1 ATATACTCAATAAGATTCTAATTC
16811193 AATTTCTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.38
Consensus pattern (25 bp):
ATATACTCAATAAGATTCTAATTCC
Found at i:16815783 original size:22 final size:21
Alignment explanation
Indices: 16815719--16815785 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
16815709 CAGAAAATAA
*
16815719 ATATTGCTGCTATTTTTTATT
1 ATATTGCTACTATTTTTTATT
* **
16815740 ATTTTGCTA-TCATTTCACTATT
1 ATATTGCTACT-ATTT-TTTATT
16815762 ATATTGCTACTATTTTGTTATT
1 ATATTGCTACTATTTT-TTATT
16815784 AT
1 AT
16815786 TATCTGGATA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 22 0.63
23 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.58
Consensus pattern (21 bp):
ATATTGCTACTATTTTTTATT
Found at i:16819267 original size:46 final size:46
Alignment explanation
Indices: 16819217--16819392 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
16819207 TGGTTGAGCA
16819217 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16819263 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16819308 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16819356 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16819393 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 29 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16819373 original size:93 final size:93
Alignment explanation
Indices: 16819214--16819385 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
16819204 GGATGGTTGA
* * *
16819214 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
16819279 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
16819307 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
16819372 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
16819386 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:16822332 original size:15 final size:15
Alignment explanation
Indices: 16822312--16822380 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
16822302 GTATCTTGGG
16822312 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
16822327 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
16822342 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
16822357 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
16822372 TTTCTTTAT
1 TTTCTTTAT
16822381 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:16822381 original size:30 final size:30
Alignment explanation
Indices: 16822303--16822390 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
16822293 CATAGTATCG
* * * *
16822303 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
16822333 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
16822363 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
16822391 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:16824826 original size:46 final size:46
Alignment explanation
Indices: 16824779--16824951 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
16824769 TTGAGCATCT
* *
16824779 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * * *
16824825 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * *
16824872 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* *
16824918 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16824952 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 60 0.59
47 28 0.27
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:16824932 original size:93 final size:93
Alignment explanation
Indices: 16824773--16824944 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
16824763 GGATGGTTGA
* * * * *
16824773 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
16824838 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
16824866 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
16824931 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
16824945 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:16827472 original size:33 final size:33
Alignment explanation
Indices: 16827430--16827496 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
16827420 TACTTTTATC
16827430 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
1 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
16827463 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
1 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
16827496 A
1 A
16827497 CCCGAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (33 bp):
AAATTCATCGGCACTTGGCCTACTAGGTATAAA
Found at i:16827597 original size:39 final size:39
Alignment explanation
Indices: 16827513--16827645 Score: 223
Period size: 39 Copynumber: 3.4 Consensus size: 39
16827503 ATTATATTAT
* * *
16827513 CAGCACAAAGCCTGCGGGACTTTAACCCAG-TACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
16827551 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
16827590 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
16827629 CAGCACGAAGCCTGCGG
1 CAGCACGAAGCCTGCGG
16827646 ACCCTAAGTC
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 26 0.29
39 63 0.71
ACGTcount: A:0.24, C:0.32, G:0.26, T:0.19
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:16827659 original size:39 final size:39
Alignment explanation
Indices: 16827543--16827741 Score: 226
Period size: 39 Copynumber: 5.1 Consensus size: 39
16827533 TTTAACCCAG
* ** *
16827543 TACATTTCCAGCACGAAGCCTGCGGGA-CTTTGGCCCGGA
1 TACATTTCCAGCACGAAGCCTGC-GGACCCTAAGTCCGGA
* * *
16827582 TACATTTCCAGCACGAAGCCTGCGGGA-CTTTAGCCCGGA
1 TACATTTCCAGCACGAAGCCTGC-GGACCCTAAGTCCGGA
16827621 TACATTTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGA
1 TACATTTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGA
* * *
16827660 TATAGTTCCAGTAC-ATAGCCTGCGGACCCTAAGTCCGGA
1 TACATTTCCAGCACGA-AGCCTGCGGACCCTAAGTCCGGA
* *
16827699 TATAATTCCAGCAC-ATAGCCTGCGGACCCTAAGTCCGGA
1 TACATTTCCAGCACGA-AGCCTGCGGACCCTAAGTCCGGA
16827738 TACA
1 TACA
16827742 CATCAAATAT
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
38 4 0.03
39 144 0.97
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (39 bp):
TACATTTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGA
Found at i:16827659 original size:78 final size:77
Alignment explanation
Indices: 16827513--16827741 Score: 250
Period size: 78 Copynumber: 2.9 Consensus size: 77
16827503 ATTATATTAT
* * * **
16827513 CAGCACAAAGCCTGCGGGACTTTAACCCAG-TACATTTCCAGCACGAAGCCTGCGGGA-CTTTGG
1 CAGCAC-AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGC-GGACCCTAAG
* *
16827576 CCCGGATACATTTC
64 TCCGGATACAGTTC
16827590 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGACCCTAAGT
1 CAGCAC-AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGACCCTAAGT
*
16827655 CCGGATATAGTTC
65 CCGGATACAGTTC
* * * * * *
16827668 CAGTACATAGCCTGC-GGACCCTAAGTCCGGATATAATTCCAGCAC-ATAGCCTGCGGACCCTAA
1 CAGCACA-AGCCTGCGGGA-CTTTAGCCCGGATACATTTCCAGCACGA-AGCCTGCGGACCCTAA
16827731 GTCCGGATACA
63 GTCCGGATACA
16827742 CATCAAATAT
Statistics
Matches: 131, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
77 35 0.27
78 96 0.73
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.20
Consensus pattern (77 bp):
CAGCACAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGACCCTAAGTC
CGGATACAGTTC
Found at i:16830578 original size:41 final size:43
Alignment explanation
Indices: 16830502--16830594 Score: 127
Period size: 41 Copynumber: 2.2 Consensus size: 43
16830492 GTACCTAATA
*
16830502 CCTCATCGGATTTAATCCAAAGCAATAATACGACAC-ATAGTG
1 CCTCATCGGAATTAATCCAAAGCAATAATACGACACAATAGTG
* * *
16830544 CCTCATCGGAATT-ATCCGAAGCAATATTATGACACATATAGTG
1 CCTCATCGGAATTAATCCAAAGCAATAATACGACACA-ATAGTG
16830587 CCTCATCG
1 CCTCATCG
16830595 ACTCGAGGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
41 19 0.42
42 12 0.27
43 14 0.31
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
CCTCATCGGAATTAATCCAAAGCAATAATACGACACAATAGTG
Found at i:16831554 original size:16 final size:17
Alignment explanation
Indices: 16831526--16831559 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16831516 TTTTCTTCTC
16831526 TGTTTCAATTTCTATTA
1 TGTTTCAATTTCTATTA
*
16831543 TGTTTC-ATTTCTTTTA
1 TGTTTCAATTTCTATTA
16831559 T
1 T
16831560 TTGTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TGTTTCAATTTCTATTA
Found at i:16835540 original size:22 final size:22
Alignment explanation
Indices: 16835506--16835556 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
16835496 AAATTTAATA
16835506 TAAAATTA--TAA-TTAACTCG
1 TAAAATTATTTAATTTAACTCG
16835525 TAAATATTATTTAATTTAACTCG
1 TAAA-ATTATTTAATTTAACTCG
16835548 TAAAATTAT
1 TAAAATTAT
16835557 GGAAACGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
22 8 0.29
23 12 0.43
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (22 bp):
TAAAATTATTTAATTTAACTCG
Found at i:16848125 original size:125 final size:125
Alignment explanation
Indices: 16847985--16848223 Score: 361
Period size: 125 Copynumber: 1.9 Consensus size: 125
16847975 CTTATTATAA
* * * *
16847985 AATAAATTTCGTCTGTCTAGAGAAAATGCTATTATAAATTTATAATGTTTTGTAGCAAATATATT
1 AATAAATTTCATCTGTCCAAAGAAAATGCTATTATAAATTTATAATATTTTGTAGCAAATATATT
* * *
16848050 TATATTTAGACTTATCCATGGATTAAGTAACCAACCCAGCTCGACTTGATGAGATTGGAT
66 TATATTTAAACTTATCCACGGATTAAATAACCAACCCAGCTCGACTTGATGAGATTGGAT
* *
16848110 AATAAATTTTATCTGTCCAAAGAAAATGTTATTATAAATTTATAATATTTTGTAGCAAATATATT
1 AATAAATTTCATCTGTCCAAAGAAAATGCTATTATAAATTTATAATATTTTGTAGCAAATATATT
* * * *
16848175 TATATTTAAATTTATCCACGGATTAAATGACCAGCTCAGCTCGACTTGA
66 TATATTTAAACTTATCCACGGATTAAATAACCAACCCAGCTCGACTTGA
16848224 CGGGATTGTG
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 101 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (125 bp):
AATAAATTTCATCTGTCCAAAGAAAATGCTATTATAAATTTATAATATTTTGTAGCAAATATATT
TATATTTAAACTTATCCACGGATTAAATAACCAACCCAGCTCGACTTGATGAGATTGGAT
Found at i:16853331 original size:86 final size:87
Alignment explanation
Indices: 16853214--16853375 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 87
16853204 GTTGGTATTG
* * * *
16853214 ATCTAAATTATTGTGTAAGACCGTGTCTGGGAC-GCAGGCAACGA-ATTGAAATTTACGTGTAAG
1 ATCTAAATTATTGTATAAGACCGTGTCTGGGACAG-AGACAACGATACTG-AA-TTACATGTAAG
16853277 ACCATGTCCGGGACATCGGTATCGT
63 ACCATGTCCGGGACATCGGTATCGT
*
16853302 ATCT-AATT-TTGTATAAGACTC-TGTCTGGGACAGAGACATCGATACTGAATTACATGTAAGAC
1 ATCTAAATTATTGTATAAGAC-CGTGTCTGGGACAGAGACAACGATACTGAATTACATGTAAGAC
16853364 CATGTCCGGGAC
65 CATGTCCGGGAC
16853376 GTTGGCATTA
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
85 24 0.36
86 29 0.44
87 9 0.14
88 4 0.06
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (87 bp):
ATCTAAATTATTGTATAAGACCGTGTCTGGGACAGAGACAACGATACTGAATTACATGTAAGACC
ATGTCCGGGACATCGGTATCGT
Found at i:16865918 original size:46 final size:46
Alignment explanation
Indices: 16865865--16866087 Score: 203
Period size: 47 Copynumber: 4.8 Consensus size: 46
16865855 TATTTGGGCA
*
16865865 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
16865911 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---G
*
16865956 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
16866004 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
16866049 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16866088 GCGAGTTACA
Statistics
Matches: 144, Mismatches: 14, Indels: 34
0.75 0.07 0.18
Matches are distributed among these distances:
42 10 0.07
43 8 0.06
45 5 0.03
46 52 0.36
47 53 0.37
48 4 0.03
50 5 0.03
51 7 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:16865972 original size:93 final size:93
Alignment explanation
Indices: 16865861--16866087 Score: 409
Period size: 93 Copynumber: 2.4 Consensus size: 93
16865851 TGGATATTTG
* *
16865861 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
*
16865926 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
16865954 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
16866019 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
16866047 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16866088 GCGAGTTACA
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:16866079 original size:47 final size:47
Alignment explanation
Indices: 16865911--16866080 Score: 215
Period size: 47 Copynumber: 3.6 Consensus size: 47
16865901 GATGCGAACG
*
16865911 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * *
16865958 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
*
16866004 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
16866051 TCCGAACTCGTTGAGTTGAGTCCGAGTTCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCG
16866081 CTTATGGGCG
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 27 0.26
47 56 0.54
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:16868143 original size:19 final size:19
Alignment explanation
Indices: 16868119--16868166 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
16868109 TGTGTCACGC
16868119 CCGTGTGCAAGTGCTCAAG
1 CCGTGTGCAAGTGCTCAAG
16868138 CCGTGTGCAAGTGCTCAAG
1 CCGTGTGCAAGTGCTCAAG
*
16868157 CTGTGTGCAA
1 CCGTGTGCAA
16868167 TTCTAACTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (19 bp):
CCGTGTGCAAGTGCTCAAG
Found at i:16876066 original size:273 final size:273
Alignment explanation
Indices: 16875260--16876079 Score: 1471
Period size: 272 Copynumber: 3.0 Consensus size: 273
16875250 CGCCTTACCT
*
16875260 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAGGAATACTCATGACTTTTGTTGCCTC
1 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCATGACTTTTGTTGCCTC
* *
16875325 TTCAGTAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATTTATAAGTTC
66 TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
*
16875390 AGGAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
131 AGAAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
16875455 CCCAGGCCTCATTCCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
196 CCCAGGCCTCATTCCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
16875520 AGCAATCCTTTCG
261 AGCAATCCTTTCG
16875533 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCAT-ACTTTTGTTGCCTC
1 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCATGACTTTTGTTGCCTC
16875597 TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
66 TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
*
16875662 AGAAACTAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
131 AGAAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
16875727 CCCAGGCCTCATTCCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
196 CCCAGGCCTCATTCCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
16875792 AGCAATCCTTTCG
261 AGCAATCCTTTCG
* * *
16875805 CTCCAAGCCTGTCGATCTTCATATAAATGATAGGAGAGAAGACTACTCATGACTTTTGTTGCCTC
1 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCATGACTTTTGTTGCCTC
* *
16875870 TTCAATAGACATAAACTAGTAATTACATCCTCATTCTACTTCCTCGAATTTTGATATATAAGTTC
66 TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
* * *
16875935 AGAAACCAATCTTAGATTTTAACCCGTTACATTTCTTTGAAGCTCATAGTTCTCGAAGTTTGGCA
131 AGAAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
* * * * *
16876000 CCCAGGCATCATTTCATATCGATATTCTAGTTCTCATTCCCACCCTCCAACACATGCCTAATTGG
196 CCCAGGCCTCATTCCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
16876065 AGCAATCCTTTCG
261 AGCAATCCTTTCG
16876078 CT
1 CT
16876080 GCCTAAATGC
Statistics
Matches: 527, Mismatches: 19, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
272 265 0.50
273 262 0.50
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (273 bp):
CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCATGACTTTTGTTGCCTC
TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
AGAAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
CCCAGGCCTCATTCCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
AGCAATCCTTTCG
Found at i:16881090 original size:20 final size:20
Alignment explanation
Indices: 16881065--16881106 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
16881055 AATTCTTTAT
16881065 TAAATTTAAATCTATTATAA
1 TAAATTTAAATCTATTATAA
16881085 TAAATTTAAATCTATTATAA
1 TAAATTTAAATCTATTATAA
16881105 TA
1 TA
16881107 TTTTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATTTAAATCTATTATAA
Found at i:16889147 original size:23 final size:23
Alignment explanation
Indices: 16889121--16889168 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
16889111 ATCGGCTTTC
*
16889121 CTTGAGTAATTCCTTGCCTCCTA
1 CTTGAGTAATTCATTGCCTCCTA
16889144 CTTGAGTAATTCATTGCCTCCTA
1 CTTGAGTAATTCATTGCCTCCTA
16889167 CT
1 CT
16889169 CTCTGTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (23 bp):
CTTGAGTAATTCATTGCCTCCTA
Found at i:16903103 original size:46 final size:45
Alignment explanation
Indices: 16903020--16903191 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
16903010 CTAGTAGCTG
* * **
16903020 ATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTTGAGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATC-TGAGGCCA
* * **
16903066 ATGCATGTCCCAGACATGTCTTACACTAACTCTCATCTCACTACCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGA-GGCCA
* ** * *
16903112 ATGCCATGTCCCTGACATGTTCTTACACTAGCTCTTGTAATGTGGCCA
1 ATG-CATGTCCCAGACATG-TCTTACACTAGCTCTCAT-CTGAGGCCA
16903160 ATGCATGTCCCAGACATGTCTTACACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTC
16903192 ACAATAGTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 50 0.49
47 29 0.28
48 21 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGAGGCCA
Found at i:16906539 original size:22 final size:21
Alignment explanation
Indices: 16906504--16906552 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
16906494 TGTATTTATA
* *
16906504 TATTTTTTATAATTTTCTATT
1 TATTTTTTAGAATTTTCAATT
16906525 TATTCTTTTAGAATTTTCAATT
1 TATT-TTTTAGAATTTTCAATT
16906547 TCATTT
1 T-ATTT
16906553 AAAAGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.17
22 17 0.71
23 3 0.12
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTTTTTAGAATTTTCAATT
Found at i:16906575 original size:20 final size:21
Alignment explanation
Indices: 16906534--16906583 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
16906524 TTATTCTTTT
16906534 AGAATTTTCAATTTCATTTAAA
1 AGAATTTTCAATTT-ATTTAAA
*
16906556 AGAATTTTGAATTT-TTTAAA
1 AGAATTTTCAATTTATTTAAA
*
16906576 ATAATTTT
1 AGAATTTT
16906584 TATATAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 13 0.50
22 13 0.50
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (21 bp):
AGAATTTTCAATTTATTTAAA
Found at i:16912799 original size:17 final size:17
Alignment explanation
Indices: 16912773--16912805 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16912763 TAAAGAAAAT
*
16912773 TTAAAGCAACTTATAAA
1 TTAAAACAACTTATAAA
16912790 TTAAAACAACTTATAA
1 TTAAAACAACTTATAA
16912806 TTGGGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (17 bp):
TTAAAACAACTTATAAA
Found at i:16914100 original size:3 final size:3
Alignment explanation
Indices: 16914092--16914119 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16914082 AATCTAATTC
16914092 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
16914120 GATATCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:16920240 original size:174 final size:174
Alignment explanation
Indices: 16919827--16920318 Score: 670
Period size: 174 Copynumber: 2.8 Consensus size: 174
16919817 ATTAAACTAC
* * * *
16919827 TATGATGAATTTGCA-TATTTGTTGCTGTGATGATTATATTAAAATTTATGAAAATTTTGTGAAT
1 TATG-TGAATATGCAGT-TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAA-TTTATGAAA
* *
16919891 CATCGGCAACTATGTCGATCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCTA-TCTCT
63 CATCGACAACTATGTCGATCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTC-AGTTTCT
* * * *
16919955 TTGTAGATTTATCACATTGTTTTAATCGTCTTACAATTAATCTTATTG
127 TTGTTGATTTATTACACTGCTTTAATCGTCTTACAATTAATCTTATTG
16920003 TATGTGAATATGCAGTTTTGTTGCTGTGATGATTATATTAGAATTTATGAAAAATTTATGAAACA
1 TATGTGAATATGCAGTTTTGTTGCTGTGATGATTATATTAGAATTTATG-AAAATTTATGAAACA
*
16920068 TCGACAACTATGTCGATCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAGTTTCCTTG
65 TCGACAACTATGTCGATCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAGTTTCTTTG
* * * ** *
16920133 TTGATTTATTACGCT-CTTTAGTTGTCTTATGA-TACATTTTATTG
130 TTGATTTATTACACTGCTTTAATCGTCTTACAATTA-ATCTTATTG
* *
16920177 TATGTGAATCTG-TGATTTTGTTGCTGTGATGATTATATTAGAATTTATGAAAATTTAATGAAAC
1 TATGTGAATATGCAG-TTTTGTTGCTGTGATGATTATATTAGAATTTATGAAAATTT-ATGAAAC
* * *
16920241 ATTGACAACCATGTCGATCTGAGCGGTTACATGAGCAACAAAATTTGTTCAAATTCAGTTTCTTT
64 ATCGACAACTATGTCGATCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAGTTTCTTT
*
16920306 CTTGATTTATTAC
129 GTTGATTTATTAC
16920319 TTTGGTTTAG
Statistics
Matches: 286, Mismatches: 24, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
173 10 0.03
174 146 0.51
175 121 0.42
176 9 0.03
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (174 bp):
TATGTGAATATGCAGTTTTGTTGCTGTGATGATTATATTAGAATTTATGAAAATTTATGAAACAT
CGACAACTATGTCGATCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAGTTTCTTTGT
TGATTTATTACACTGCTTTAATCGTCTTACAATTAATCTTATTG
Done.