Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011744.1 Kokia drynarioides strain JFW-HI SEQ_126738, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 444708
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 121 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:6600 original size:32 final size:28
Alignment explanation
Indices: 6546--6603 Score: 80
Period size: 32 Copynumber: 1.9 Consensus size: 28
6536 ATCGTAATTT
6546 ATTAAATAAATAAATGGATTTAATAGAA
1 ATTAAATAAATAAATGGATTTAATAGAA
6574 ATTAAATAGAATAAGAATAGGATTTAATAG
1 ATTAAATA-AAT-A-AAT-GGATTTAATAG
6604 TAATAGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 8 0.31
29 3 0.12
30 1 0.04
31 3 0.12
32 11 0.42
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (28 bp):
ATTAAATAAATAAATGGATTTAATAGAA
Found at i:8740 original size:13 final size:15
Alignment explanation
Indices: 8722--8783 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 15
8712 GTAGAAAGCC
8722 TATTTT-TTT-CTAG
1 TATTTTATTTACTAG
8735 TATTTTATTTACTAG
1 TATTTTATTTACTAG
* *
8750 TGTGTTTATTTATTAGCG
1 TAT-TTTATTTACTA--G
8768 TATTTTATTTACTAG
1 TATTTTATTTACTAG
8783 T
1 T
8784 GTGTTTATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 6 0.15
14 3 0.08
15 8 0.20
16 10 0.25
17 10 0.25
18 3 0.08
ACGTcount: A:0.21, C:0.06, G:0.11, T:0.61
Consensus pattern (15 bp):
TATTTTATTTACTAG
Found at i:8759 original size:16 final size:16
Alignment explanation
Indices: 8738--8791 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
8728 TTTCTAGTAT
8738 TTTATTTACTAGTGTG
1 TTTATTTACTAGTGTG
* * *
8754 TTTATTTATTAGCGTAT
1 TTTATTTACTAGTGT-G
8771 TTTATTTACTAGTGTG
1 TTTATTTACTAGTGTG
8787 TTTAT
1 TTTAT
8792 CTATAGTGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.20, C:0.06, G:0.15, T:0.59
Consensus pattern (16 bp):
TTTATTTACTAGTGTG
Found at i:10014 original size:5 final size:5
Alignment explanation
Indices: 10004--10037 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
9994 GAACCTTGTC
*
10004 ATATG ATATG ATATG ATATG ATGTG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
10038 ATGTAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:13611 original size:21 final size:22
Alignment explanation
Indices: 13582--13628 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
13572 AAAATCAAAT
* *
13582 AAATAACAT-TAATAAATAATA
1 AAATAACATAAAAAAAATAATA
*
13603 AAATTACATAAAAAAAATAATA
1 AAATAACATAAAAAAAATAATA
13625 AAAT
1 AAAT
13629 GATAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATAACATAAAAAAAATAATA
Found at i:15575 original size:20 final size:19
Alignment explanation
Indices: 15542--15582 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15532 AAAGTGCAAG
15542 AAATAAATAAATAAACAAAA
1 AAATAAATAAATAAA-AAAA
* *
15562 AAATATATATATAAAAAAA
1 AAATAAATAAATAAAAAAA
15581 AA
1 AA
15583 CGAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (19 bp):
AAATAAATAAATAAAAAAA
Found at i:15677 original size:4 final size:4
Alignment explanation
Indices: 15668--15697 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
15658 AAGGTGCTAC
15668 AAAT AAAT AAAT AAAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
15698 AGTAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:15784 original size:4 final size:4
Alignment explanation
Indices: 15775--15851 Score: 72
Period size: 4 Copynumber: 19.2 Consensus size: 4
15765 AGAATGCTAA
*
15775 AAAT AAAT AAAT AACCA- AAAT AAAT AAAT AAAT -AA- AAAT AAAAT AAAC
1 AAAT AAAT AAAT AA--AT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT
*
15823 AAAT AAAT AAAT ATA- AAAT AAAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT A
15852 TGCAAAGGAC
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
3 7 0.11
4 43 0.70
5 10 0.16
6 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:15796 original size:17 final size:16
Alignment explanation
Indices: 15774--15851 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 16
15764 AAGAATGCTA
15774 AAAATAAATAAATAACC
1 AAAATAAATAAATAA-C
15791 AAAATAAATAAATAA-
1 AAAATAAATAAATAAC
*
15806 ATAA-AAATAAAATAA-
1 AAAATAAAT-AAATAAC
*
15821 ACAAATAAATAAAT-AT
1 A-AAATAAATAAATAAC
15837 AAAATAAAATAAATA
1 AAAAT-AAATAAATA
15852 TGCAAAGGAC
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.08
15 15 0.28
16 15 0.28
17 19 0.36
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAATAAATAAC
Found at i:15798 original size:23 final size:20
Alignment explanation
Indices: 15774--15851 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 20
15764 AAGAATGCTA
15774 AAAATAAATAAATAACCAAAAT
1 AAAATAAATAAATAA--AAAAT
15796 -AAATAAATAAAT-AAAAAT
1 AAAATAAATAAATAAAAAAT
*
15814 AAAATAAACAAATAAATAAATAT
1 AAAATAAATAAAT-AA-AAA-AT
15837 AAAATAAAATAAATA
1 AAAAT-AAATAAATA
15852 TGCAAAGGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.10
19 11 0.23
20 1 0.02
21 13 0.27
22 3 0.06
23 8 0.17
24 7 0.15
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAATAAATAAATAAAAAAT
Found at i:17830 original size:102 final size:102
Alignment explanation
Indices: 17566--18238 Score: 661
Period size: 102 Copynumber: 6.7 Consensus size: 102
17556 TCAATTCGAC
* * * * * * ** * * *
17566 CCACTGCAAATTCAAGGG-TATAGGATTTGGTGTGGTAGCTTCATCTTGCTCTATTGCAACTTTA
1 CCACTGCAACTT-TAGGGATATAGGATTTGGTGTTGTGGCTTCACCCTATTCCACTGCAACTTCA
* * * * * *
17630 GAGAGATAAAGATTTGCTACTG-TAGCTTTAATCTGGT
65 GGGAGATTAAGATCTGCTACTGTTAGTTTTAATCCGAT
* * * * *
17667 CC-TTGTAACTTTAGGGATATAGGATTTGG-GTT-T-G--TAACTCC-ATTCCA-TAGTAACTTT
1 CCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCAC-CCTATTCCACT-GCAACTTC
* * *
17724 AGGGAGATTGAGATATGTTACTGTTAGTTTTAATCCGAT
64 AGGGAGATTAAGATCTGCTACTGTTAGTTTTAATCCGAT
* * * * * * *
17763 CCATTGCAAATTCAAGGATATAGGATTTGGTGTTGTGACTACACCCTATTCCATTGCAACTTCAG
1 CCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACCCTATTCCACTGCAACTTCAG
*
17828 GGAGATTAAGATCTGCTACTGTTAGTTTTAATCTGAT
66 GGAGATTAAGATCTGCTACTGTTAGTTTTAATCCGAT
17865 CCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACTCC-ATTCCACTGCAACTTCA
1 CCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCAC-CCTATTCCACTGCAACTTCA
* * * * *
17929 AGGAGATTGAGATCTACTATTGTTAGTTTTAATCCAAT
65 GGGAGATTAAGATCTGCTACTGTTAGTTTTAATCCGAT
* * * * * * *
17967 CCATTGCAACTTCAAGGATATAAGATTTGGTGTTATGGCTTCACTCTATTCCACTACAACGTT-A
1 CCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACCCTATTCCACTGCAAC-TTCA
* * * *
18031 GGGAGATAAAGATCTACCACTGTTAGTTTTAATCTGAT
65 GGGAGATTAAGATCTGCTACTGTTAGTTTTAATCCGAT
* ** * *
18069 CAACTATAACTTTAGGGATATAGGATTTGGTGTTGTGGTTTCACTCC-ATTCCAATGCAACTTCA
1 CCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCAC-CCTATTCCACTGCAACTTCA
* *
18133 GGAAGATTGAGATCTGCTACTGTTAGTTTTAATCCGAT
65 GGGAGATTAAGATCTGCTACTGTTAGTTTTAATCCGAT
* * * *
18171 CCACTGCAACTTTAGGGATATAAGATTTAGTGTTGTGGCTTCACTCTATTCCACTGCAACTTTAG
1 CCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACCCTATTCCACTGCAACTTCAG
18236 GGA
66 GGA
18239 TATAGGATTT
Statistics
Matches: 466, Mismatches: 88, Indels: 35
0.79 0.15 0.06
Matches are distributed among these distances:
94 1 0.00
95 30 0.06
96 15 0.03
97 24 0.05
98 4 0.01
99 7 0.02
100 18 0.04
101 8 0.02
102 353 0.76
103 6 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (102 bp):
CCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACCCTATTCCACTGCAACTTCAG
GGAGATTAAGATCTGCTACTGTTAGTTTTAATCCGAT
Found at i:17926 original size:50 final size:50
Alignment explanation
Indices: 17864--18288 Score: 260
Period size: 50 Copynumber: 8.4 Consensus size: 50
17854 TTTAATCTGA
17864 TCCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACTCCAT
1 TCCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACTCCAT
* * * * * ** * * * * * *
17914 TCCACTGCAACTTCAAGGAGATTGAGATCTACTATTGTTAGTTTTAATCCAA
1 TCCACTGCAACTTTAGGGATATAG-GATTTGGTGTTG-TGGCTTCACTCCAT
* * * * * *
17966 TCCATTGCAACTTCAAGGATATAAGATTTGGTGTTATGGCTTCACTCTAT
1 TCCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACTCCAT
* * * * * ***** * * * * *
18016 TCCACTACAACGTTAGGGAGATAAAGATCTACCACTGTTAGTTTTAATCTGA-
1 TCCACTGCAACTTTAGGGATAT-AGGATTTGGTGTTG-TGGCTTCACTC-CAT
* ** *
18068 TCAACTATAACTTTAGGGATATAGGATTTGGTGTTGTGGTTTCACTCCAT
1 TCCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACTCCAT
* * * * * * * ** * * * *
18118 TCCAATGCAACTTCAGGAAGATTGAGATCTGCTACTGTTAGTTTTAATCCGA-
1 TCCACTGCAACTTTAGGGATATAG-GATTTGGTGTTG-TGGCTTCACTCC-AT
* * *
18170 TCCACTGCAACTTTAGGGATATAAGATTTAGTGTTGTGGCTTCACTCTAT
1 TCCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACTCCAT
18220 TCCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACTCCAT
1 TCCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACTCCAT
**
18270 TCCACTATAACTTTAGGGA
1 TCCACTGCAACTTTAGGGA
18289 GATTGATATC
Statistics
Matches: 268, Mismatches: 97, Indels: 20
0.70 0.25 0.05
Matches are distributed among these distances:
49 2 0.01
50 139 0.52
51 44 0.16
52 81 0.30
53 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (50 bp):
TCCACTGCAACTTTAGGGATATAGGATTTGGTGTTGTGGCTTCACTCCAT
Found at i:17973 original size:204 final size:202
Alignment explanation
Indices: 17570--18238 Score: 805
Period size: 204 Copynumber: 3.3 Consensus size: 202
17560 TTCGACCCAC
* * * * * ** * * *
17570 TGCAAATTCAAGGGTATAGGATTTGGTGTGGT-AGCTTCATCTTGCTCTATTGCAACTTTAGAGA
1 TGCAAATTCAAGGATATAAGATTTGGTGTTGTGA-CTTCACCCTATTCCACTGCAACTTTAGGGA
* * * *
17634 GATAAAGATTTGCTACTG-TAGCTTTAATCTGGTCC-TTGTAACTTTAGGGATATAGGATTTGG-
65 GATAAAGATCTGCTACTGTTAGTTTTAATCTGATCCACTGTAACTTTAGGGATATAGGATTTGGT
* * * * * *
17696 GTT-T-G-TAACTCCATTCCATAGTAACTTTAGGGAGATTGAGATATGTTACTGTTAGTTTTAAT
130 GTTGTGGTTCACTCCATTCCAT-GCAACTTCAAGGAGATTGAGATCTGCTACTGTTAGTTTTAAT
17758 CCGATCCAT
194 CCGATCCAT
* * * *
17767 TGCAAATTCAAGGATATAGGATTTGGTGTTGTGACTACACCCTATTCCATTGCAACTTCAGGGAG
1 TGCAAATTCAAGGATATAAGATTTGGTGTTGTGACTTCACCCTATTCCACTGCAACTTTAGGGAG
* *
17832 ATTAAGATCTGCTACTGTTAGTTTTAATCTGATCCACTGCAACTTTAGGGATATAGGATTTGGTG
66 ATAAAGATCTGCTACTGTTAGTTTTAATCTGATCCACTGTAACTTTAGGGATATAGGATTTGGTG
* *
17897 TTGTGGCTTCACTCCATTCCACTGCAACTTCAAGGAGATTGAGATCTACTATTGTTAGTTTTAAT
131 TTGTGG-TTCACTCCATTCCA-TGCAACTTCAAGGAGATTGAGATCTGCTACTGTTAGTTTTAAT
*
17962 CCAATCCAT
194 CCGATCCAT
* * * * * *
17971 TGCAACTTCAAGGATATAAGATTTGGTGTTATGGCTTCACTCTATTCCACTACAACGTTAGGGAG
1 TGCAAATTCAAGGATATAAGATTTGGTGTTGTGACTTCACCCTATTCCACTGCAACTTTAGGGAG
* * * *
18036 ATAAAGATCTACCACTGTTAGTTTTAATCTGATCAACTATAACTTTAGGGATATAGGATTTGGTG
66 ATAAAGATCTGCTACTGTTAGTTTTAATCTGATCCACTGTAACTTTAGGGATATAGGATTTGGTG
18101 TTGTGGTTTCACTCCATTCCAATGCAACTTC-AGGAAGATTGAGATCTGCTACTGTTAGTTTTAA
131 TTGTGG-TTCACTCCATTCC-ATGCAACTTCAAGG-AGATTGAGATCTGCTACTGTTAGTTTTAA
*
18165 TCCGATCCAC
193 TCCGATCCAT
* * * * * *
18175 TGCAACTTTAGGGATATAAGATTTAGTGTTGTGGCTTCACTCTATTCCACTGCAACTTTAGGGA
1 TGCAAATTCAAGGATATAAGATTTGGTGTTGTGACTTCACCCTATTCCACTGCAACTTTAGGGA
18239 TATAGGATTT
Statistics
Matches: 409, Mismatches: 52, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
197 68 0.17
198 16 0.04
199 25 0.06
200 3 0.01
201 1 0.00
202 1 0.00
203 3 0.01
204 290 0.71
205 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (202 bp):
TGCAAATTCAAGGATATAAGATTTGGTGTTGTGACTTCACCCTATTCCACTGCAACTTTAGGGAG
ATAAAGATCTGCTACTGTTAGTTTTAATCTGATCCACTGTAACTTTAGGGATATAGGATTTGGTG
TTGTGGTTCACTCCATTCCATGCAACTTCAAGGAGATTGAGATCTGCTACTGTTAGTTTTAATCC
GATCCAT
Found at i:19255 original size:8 final size:7
Alignment explanation
Indices: 19252--19303 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
19242 GCTTTTCTCT
19252 TTTTTTC
1 TTTTTTC
19259 TTTTTTC
1 TTTTTTC
19266 --TTTT-
1 TTTTTTC
19270 TTTTTTC
1 TTTTTTC
19277 TTTTTT-
1 TTTTTTC
*
19283 TCTTTTC
1 TTTTTTC
19290 TTTCTTTC
1 TTT-TTTC
19298 TTTTTT
1 TTTTTT
19304 GGCAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 4 0.11
6 9 0.24
7 18 0.47
8 7 0.18
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:19266 original size:17 final size:17
Alignment explanation
Indices: 19244--19296 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
19234 TCTCCGTTGC
19244 TTTTCTCTTTTTTTCTT
1 TTTTCTCTTTTTTTCTT
*
19261 TTTTCTTTTTTTTTTCTT
1 TTTTC-TCTTTTTTTCTT
19279 TTTT-TCTTTTCTTTCTT
1 TTTTCTCTTTT-TTTCTT
19296 T
1 T
19297 CTTTTTTGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 5 0.16
17 12 0.38
18 15 0.47
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTCTTTTTTTCTT
Found at i:19269 original size:13 final size:12
Alignment explanation
Indices: 19251--19303 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
19241 TGCTTTTCTC
19251 TTTTTTTCTTTT
1 TTTTTTTCTTTT
*
19263 TTCTTTTTTTTTT
1 TT-TTTTTCTTTT
19276 CTTTTTTTCTTTT
1 -TTTTTTTCTTTT
*
19289 CTTTCTTTCTTTT
1 -TTTTTTTCTTTT
19302 TT
1 TT
19304 GGCAAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 4 0.11
13 30 0.83
14 2 0.06
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:19293 original size:28 final size:26
Alignment explanation
Indices: 19243--19303 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
19233 CTCTCCGTTG
*
19243 CTTTTCTCTTTTTTTCTTTTTTCTTT
1 CTTTTTTCTTTTTTTCTTTTTTCTTT
*
19269 TTTTTTTCTTTTTTTCTTTTCTTTCTTT
1 CTTTTTTCTTTTTTTC-TTT-TTTCTTT
19297 CTTTTTT
1 CTTTTTT
19304 GGCAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 14 0.47
27 3 0.10
28 13 0.43
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (26 bp):
CTTTTTTCTTTTTTTCTTTTTTCTTT
Found at i:22004 original size:95 final size:95
Alignment explanation
Indices: 21836--22023 Score: 306
Period size: 95 Copynumber: 2.0 Consensus size: 95
21826 ACTATACCCA
*
21836 TGTTCCTGGGCAGTAACGATAGGGTGCAACAAACCCCCAGGAAGTATGTAATTACATCGATACAT
1 TGTTCCTGGGCAGTAACGATAGGGTGCAACAAACCCCCAGGAAGTATGTAATTACATCGACACAT
**
21901 ACTTTTGCAATGATAGCCTTTGCCTAGACT
66 ACACTTGCAATGATAGCCTTTGCCTAGACT
* *
21931 TGTTCCTGGGCAGTAACGATGGGGTGCAACAAACCCCCAGGAAGTATGTAATTGCA-CTGACACA
1 TGTTCCTGGGCAGTAACGATAGGGTGCAACAAACCCCCAGGAAGTATGTAATTACATC-GACACA
*
21995 TACACTTGCAATGATAGCCTTTGGCTAGA
65 TACACTTGCAATGATAGCCTTTGCCTAGA
22024 TATTTTTTCT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
94 1 0.01
95 85 0.99
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (95 bp):
TGTTCCTGGGCAGTAACGATAGGGTGCAACAAACCCCCAGGAAGTATGTAATTACATCGACACAT
ACACTTGCAATGATAGCCTTTGCCTAGACT
Found at i:29138 original size:18 final size:18
Alignment explanation
Indices: 29111--29166 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
29101 TGCAGTTTAT
*
29111 TGTGGCTGCATAC-GAGCA
1 TGTGACTGCAT-CTGAGCA
*
29129 TGTGATTGCATCTGAGCA
1 TGTGACTGCATCTGAGCA
*
29147 TGTGACTGCATCTGATCA
1 TGTGACTGCATCTGAGCA
29165 TG
1 TG
29167 ATGTGCCTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (18 bp):
TGTGACTGCATCTGAGCA
Found at i:30522 original size:19 final size:19
Alignment explanation
Indices: 30488--30524 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
30478 AAATTAGGAA
30488 ACAAAGAATAAAATCAACT
1 ACAAAGAATAAAATCAACT
30507 ACAAA-AATAAACATCAAC
1 ACAAAGAATAAA-ATCAAC
30525 CAAACGCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.65, C:0.19, G:0.03, T:0.14
Consensus pattern (19 bp):
ACAAAGAATAAAATCAACT
Found at i:53059 original size:3 final size:3
Alignment explanation
Indices: 53051--53079 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
53041 CCAAAATCAA
53051 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
53080 ATAAAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:53563 original size:90 final size:88
Alignment explanation
Indices: 53357--53606 Score: 276
Period size: 90 Copynumber: 2.8 Consensus size: 88
53347 CGGAGGATAC
* * * **
53357 AGGGTCAAAACATAATTTTAGAAAAGTTTGAGTTGTAAAAATGTAATTTTAGG-AAAGTTTA-GG
1 AGGGTTAAAATATAATTTTGGAAAAGTTT-AGGGGTAAAAATGTAATTTT-GGTAAAGTTTAGGG
*
53420 GTTAAAATACAATTTTAAAAAGTTT
64 GTCAAAATACAATTTTAAAAAGTTT
* * *
53445 AGGTGTTAAAATGA-AAATTTGAAAAAGTTTAGGGGTTAAAATGTAATTTTGGTAAAGTTTAGGG
1 AGG-GTTAAAAT-ATAATTTTGGAAAAGTTTAGGGGTAAAAATGTAATTTTGGTAAAGTTTAGGG
*
53509 GTCAAAATATAATTTTAGAAAAGTTT
64 GTCAAAATACAATTTTA-AAAAGTTT
** *
53535 AAGGGTTAAAATATAATTTTGGAAAAGTTT-GGGAGTCCAAATGTAATTTT-TTAAAAGTTTAGG
1 -AGGGTTAAAATATAATTTTGGAAAAGTTTAGGG-GTAAAAATGTAATTTTGGT-AAAGTTTAGG
53598 GGTCAAAAT
63 GGTCAAAAT
53607 GTGATTTTCA
Statistics
Matches: 138, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
87 2 0.01
88 28 0.20
89 41 0.30
90 64 0.46
91 3 0.02
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (88 bp):
AGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGTAAAAATGTAATTTTGGTAAAGTTTAGGGGT
CAAAATACAATTTTAAAAAGTTT
Found at i:53582 original size:30 final size:30
Alignment explanation
Indices: 53358--53614 Score: 225
Period size: 30 Copynumber: 8.6 Consensus size: 30
53348 GGAGGATACA
** *
53358 GGGTCAAAACATAATTTTAGAAAAGTTTGAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTT-AG
** *
53389 TTGTAAAAATGTAATTTTAGG-AAAGTTTA-
1 GGGTCAAAATGTAATTTT-GGAAAAGTTTAG
* ** *
53418 GGGTTAAAATACAATTTT-AAAAAGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* * * * *
53447 GTGTTAAAATGAAAATTTGAAAAAGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* *
53477 GGGTTAAAATGTAATTTTGGTAAAGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* * *
53507 GGGTCAAAATATAATTTTAGAAAAGTTTAA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* *
53537 GGGTTAAAATATAATTTTGGAAAAGTTT-G
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* **
53566 GGAGTCCAAATGTAATTTTTTAAAAGTTTAG
1 GG-GTCAAAATGTAATTTTGGAAAAGTTTAG
*
53597 GGGTCAAAATGTGATTTT
1 GGGTCAAAATGTAATTTT
53615 CAAAGAAAAT
Statistics
Matches: 184, Mismatches: 36, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
28 8 0.04
29 29 0.16
30 123 0.67
31 23 0.12
32 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTAG
Found at i:53606 original size:60 final size:60
Alignment explanation
Indices: 53358--53606 Score: 254
Period size: 60 Copynumber: 4.2 Consensus size: 60
53348 GGAGGATACA
* * * * * *
53358 GGGTCAAAACATAATTTTAGAAAAGTTTGAGTTGTAAAAATGTAATTTTAGGAAAGTTTA-
1 GGGTTAAAATATAATTTTGGAAAAGTTTG-GGTGTCAAAATGTAATTTTAGAAAAGTTTAG
* * * * * *
53418 GGGTTAAAATACAATTTT-AAAAAGTTTAGGTGTTAAAATGAAAATTT-GAAAAAGTTTAG
1 GGGTTAAAATATAATTTTGGAAAAGTTTGGGTGTCAAAATGTAATTTTAG-AAAAGTTTAG
* * * *
53477 GGGTTAAAATGTAATTTTGGTAAAGTTTAGGG-GTCAAAATATAATTTTAGAAAAGTTTAA
1 GGGTTAAAATATAATTTTGGAAAAGTTT-GGGTGTCAAAATGTAATTTTAGAAAAGTTTAG
* * **
53537 GGGTTAAAATATAATTTTGGAAAAGTTTGGGAGTCCAAATGTAATTTTTTAAAAGTTTAG
1 GGGTTAAAATATAATTTTGGAAAAGTTTGGGTGTCAAAATGTAATTTTAGAAAAGTTTAG
*
53597 GGGTCAAAAT
1 GGGTTAAAAT
53607 GTGATTTTCA
Statistics
Matches: 155, Mismatches: 28, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
57 1 0.01
58 23 0.15
59 27 0.17
60 101 0.65
61 3 0.02
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (60 bp):
GGGTTAAAATATAATTTTGGAAAAGTTTGGGTGTCAAAATGTAATTTTAGAAAAGTTTAG
Found at i:54708 original size:39 final size:39
Alignment explanation
Indices: 54665--54892 Score: 122
Period size: 39 Copynumber: 5.8 Consensus size: 39
54655 GATGGTTGCA
*
54665 ATCTGCCCTAGGCTCAGGGTAAAAGATCGAATGACTTTG
1 ATCTGCCCTAGGCTCAGGGTAAAAGATCGAATGACTATG
* * * ** *
54704 ATCTGCCCTAAGCTC-GAGGTAAGAGATTGGTTGA-TGGTG
1 ATCTGCCCTAGGCTCAG-GGTAAAAGATCGAATGACT-ATG
* * * * **
54743 ATCTGCCTTAGGCTTAAGGTAAAAGATCAAAT-AGCTACA
1 ATCTGCCCTAGGCTCAGGGTAAAAGATCGAATGA-CTATG
* * * * ** *
54782 ATCTGCCCTAGGCTCGGGGTAAGAGTTTGGCTGACAATG
1 ATCTGCCCTAGGCTCAGGGTAAAAGATCGAATGACTATG
* * * * * * **
54821 ATTTACCCCAAGCTCAGGGTAAAAGATCAAATGGCTACA
1 ATCTGCCCTAGGCTCAGGGTAAAAGATCGAATGACTATG
* *
54860 ATCTG-CGTCAGGCTCAGGGTGAAAGATCGAATG
1 ATCTGCCCT-AGGCTCAGGGTAAAAGATCGAATG
54893 GCTGCAATTT
Statistics
Matches: 129, Mismatches: 53, Indels: 14
0.66 0.27 0.07
Matches are distributed among these distances:
38 4 0.03
39 123 0.95
40 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCTGCCCTAGGCTCAGGGTAAAAGATCGAATGACTATG
Found at i:54786 original size:78 final size:78
Alignment explanation
Indices: 54704--54865 Score: 189
Period size: 78 Copynumber: 2.1 Consensus size: 78
54694 AATGACTTTG
* *** * ** * *
54704 ATCTGCCCTAAGCTCGAGGTAAGAGATTGGTTGATGGTGATCTGCCTTAGGCTTAAGGTAAAAGA
1 ATCTGCCCTAAGCTCGAGGTAAGAGATTGGCTGACAATGATCTACCCCAAGCTCAAGGTAAAAGA
54769 TCAAATAGCTACA
66 TCAAATAGCTACA
* * * * *
54782 ATCTGCCCTAGGCTCGGGGTAAGAGTTTGGCTGACAATGATTTACCCCAAGCTCAGGGTAAAAGA
1 ATCTGCCCTAAGCTCGAGGTAAGAGATTGGCTGACAATGATCTACCCCAAGCTCAAGGTAAAAGA
*
54847 TCAAATGGCTACA
66 TCAAATAGCTACA
54860 ATCTGC
1 ATCTGC
54866 GTCAGGCTCA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (78 bp):
ATCTGCCCTAAGCTCGAGGTAAGAGATTGGCTGACAATGATCTACCCCAAGCTCAAGGTAAAAGA
TCAAATAGCTACA
Found at i:54864 original size:117 final size:117
Alignment explanation
Indices: 54743--54991 Score: 318
Period size: 117 Copynumber: 2.1 Consensus size: 117
54733 GTTGATGGTG
* * * * *
54743 ATCTGCCTTAGGCTTAAGGTAAAAGATCAAATAGCTACAATCTGCCCTAGGCTCGGGGTAAGAGT
1 ATCTGCCTCAGGCTCAAGGTAAAAGATCAAATAGCTACAATCTGCCCCAAGCTCGGGGTAAGAGA
* *
54808 TTGGCTGACAATGATTTACCCCAAGCTCAGGGTAAAAGATCAAATGGCTACA
66 TTAGCTGACAATGATCTACCCCAAGCTCAGGGTAAAAGATCAAATGGCTACA
* * * * * * *
54860 ATCTGCGTCAGGCTCAGGGTGAAAGATCGAATGGCTGCAATTTGCCCCAAGCTCGGGGTAAGAGA
1 ATCTGCCTCAGGCTCAAGGTAAAAGATCAAATAGCTACAATCTGCCCCAAGCTCGGGGTAAGAGA
** * * *
54925 TTAGCTGACGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTGCA
66 TTAGCTGACAATGATCTACCCCAAGCTCAGGGTAAAAGATCAAATGGCTACA
*
54977 ATCTACCTCAGGCTC
1 ATCTGCCTCAGGCTC
54992 GGGGTAAGAG
Statistics
Matches: 111, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
117 111 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (117 bp):
ATCTGCCTCAGGCTCAAGGTAAAAGATCAAATAGCTACAATCTGCCCCAAGCTCGGGGTAAGAGA
TTAGCTGACAATGATCTACCCCAAGCTCAGGGTAAAAGATCAAATGGCTACA
Found at i:54942 original size:78 final size:78
Alignment explanation
Indices: 54860--55200 Score: 416
Period size: 78 Copynumber: 4.4 Consensus size: 78
54850 AATGGCTACA
* * * * * *
54860 ATCTGCGTCAGGCTCAGGGTGAAAGATCGAATGGCTGCAATTTGCCCCAAGCTCGGGGTAAGAGA
1 ATCTGCCTCAGGCTCGGGGTAAAAGATCGAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGA
54925 TTAGCTGACGGTG
66 TTAGCTGACGGTG
* * * *
54938 ATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTGCAATCTACCTCAGGCTCGGGGTAAGAGA
1 ATCTGCCTCAGGCTCGGGGTAAAAGATCGAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGA
* *
55003 TTAGTTGATGGTG
66 TTAGCTGACGGTG
* * * *
55016 ATTTGCCTCAGGCTCGGAGTAAAAGATCGAATGGTTGCAATCTACCTCAGGCTCGGGGTAAGAGA
1 ATCTGCCTCAGGCTCGGGGTAAAAGATCGAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGA
* *
55081 TTGGCTGATGGTG
66 TTAGCTGACGGTG
* *
55094 ATCTGCC-CTAGGCTCGGGGTAAAAAAAT-GAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGA
1 ATCTGCCTC-AGGCTCGGGGT-AAAAGATCGAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGA
* * * *
55157 TATTGGATGACAGTG
64 GATTAGCTGACGGTG
**
55172 ATCTGCCTCAAACTCGGGGTAAAAGATCG
1 ATCTGCCTCAGGCTCGGGGTAAAAGATCG
55201 GATAACTGTG
Statistics
Matches: 226, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
77 7 0.03
78 212 0.94
79 7 0.03
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (78 bp):
ATCTGCCTCAGGCTCGGGGTAAAAGATCGAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGA
TTAGCTGACGGTG
Found at i:54956 original size:39 final size:39
Alignment explanation
Indices: 54902--55237 Score: 185
Period size: 39 Copynumber: 8.6 Consensus size: 39
54892 GGCTGCAATT
* *
54902 TGCCCCAAGCTCGGGGTAAGAGATTAGCTGACGGTGATC
1 TGCCCCAGGCTCGGGGTAAGAGATTAGATGACGGTGATC
* * * * * * **
54941 TGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTGCAATC
1 TGCCCCAGGCTCGGGGTAAGAGATTAGATGACGGTGATC
* * * * *
54980 TACCTCAGGCTCGGGGTAAGAGATTAGTTGATGGTGATT
1 TGCCCCAGGCTCGGGGTAAGAGATTAGATGACGGTGATC
* * * * *
55019 TGCCTCAGGCTCGGAGTAAAAGA-TCGAATG--GTTGCAATC
1 TGCCCCAGGCTCGGGGTAAGAGATTAG-ATGACGGTG--ATC
* * * * *
55058 TACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATC
1 TGCCCCAGGCTCGGGGTAAGAGATTAGATGACGGTGATC
* * * * * * **
55097 TGCCCTAGGCTCGGGGTAAAAAAAT-GAATGGCTGCAATC
1 TGCCCCAGGCTCGGGGTAAGAGATTAG-ATGACGGTGATC
* * *
55136 TGCCCCAGGCTCGGGGTAAGATATTGGATGACAGTGATC
1 TGCCCCAGGCTCGGGGTAAGAGATTAGATGACGGTGATC
* ** * ** * *
55175 TGCCTCAAACTCGGGGTAAAAGATCGGATAACTGTGATC
1 TGCCCCAGGCTCGGGGTAAGAGATTAGATGACGGTGATC
***
55214 TGCCCCATTATCGGGGTAAGAGAT
1 TGCCCCAGGCTCGGGGTAAGAGAT
55238 CAGAATCTTC
Statistics
Matches: 222, Mismatches: 67, Indels: 16
0.73 0.22 0.05
Matches are distributed among these distances:
37 3 0.01
38 3 0.01
39 210 0.95
40 3 0.01
41 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (39 bp):
TGCCCCAGGCTCGGGGTAAGAGATTAGATGACGGTGATC
Found at i:55228 original size:156 final size:156
Alignment explanation
Indices: 54881--55237 Score: 392
Period size: 156 Copynumber: 2.3 Consensus size: 156
54871 GCTCAGGGTG
** * * * *
54881 AAAGATCGAATGGCTGCAATTTGCCCCAAGCTCGGGGTAAGAGATTAGCTGACGGTGATCTGCCC
1 AAAGATCGAATAACTGCAATCTACCCCAGGATCGGGGTAAGAGATTAGCTGACGGTGATCTGCCC
* * *
54946 CAAGCTCGGGGTAAAAGATCAAATGGCTGCAATCTACCTCAGGCTCGGGGTAAGAGATTAGTTGA
66 CAAGCTCGGGGTAAAAAATCAAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTAGATGA
** * **
55011 TGGTGATTTGCCTCAGGCTCGGAGTA
131 CAGTGATCTGCCTCAAACTCGGAGTA
*** * * * *
55037 AAAGATCGAATGGTTGCAATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCC
1 AAAGATCGAATAACTGCAATCTACCCCAGGATCGGGGTAAGAGATTAGCTGACGGTGATCTGCCC
* * * * * *
55102 TAGGCTCGGGGTAAAAAAAT-GAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGATATTGGATG
66 CAAGCTCGGGGT-AAAAAATCAAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTAGATG
*
55166 ACAGTGATCTGCCTCAAACTCGGGGTA
130 ACAGTGATCTGCCTCAAACTCGGAGTA
* ** * **
55193 AAAGATCGGATAACTGTGATCTGCCCCATTATCGGGGTAAGAGAT
1 AAAGATCGAATAACTGCAATCTACCCCAGGATCGGGGTAAGAGAT
55238 CAGAATCTTC
Statistics
Matches: 167, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
156 161 0.96
157 6 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (156 bp):
AAAGATCGAATAACTGCAATCTACCCCAGGATCGGGGTAAGAGATTAGCTGACGGTGATCTGCCC
CAAGCTCGGGGTAAAAAATCAAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTAGATGA
CAGTGATCTGCCTCAAACTCGGAGTA
Found at i:55643 original size:49 final size:47
Alignment explanation
Indices: 55542--56056 Score: 327
Period size: 49 Copynumber: 10.5 Consensus size: 47
55532 GCCATTTTGA
* * * * * *
55542 CCTCAACCTTTCCCTTCAAATCTTCATGGTACCGAATTTGTCGTTACGG
1 CCTCAACC-TTCCCATCACATCTTCATGGTA-CGAGTTCGCCGTTGCGG
* *
55591 CCTCAATCCTTCCCATCACATCTTCTAAGGTATCGAGTTCGCC-TTGCAG
1 CCTCAA-CCTTCCCATCACATCTTC-ATGGTA-CGAGTTCGCCGTTGCGG
* * * * *
55640 CCTCAACCTTTACCTTTAAATCTTCATGGTACTAGGTTCGCCGTTGCGG
1 CCTCAACC-TTCCCATCACATCTTCATGGTACGA-GTTCGCCGTTGCGG
* * * * *
55689 CCTCAATCCTTTCCATCACATCTTCTAAGATATCGGGTTCACCGTTGCGG
1 CCTCAA-CCTTCCCATCACATCTTC-ATGGTA-CGAGTTCGCCGTTGCGG
* * * *
55739 CCTCAACCTTTCCCTTTAAATCTTCATGGTACCAGGTTCGCCGTTGCGG
1 CCTCAACC-TTCCCATCACATCTTCATGGTACGA-GTTCGCCGTTGCGG
* * * * * * *
55788 CCTCAAACTTTTCCATCACAT-TTCATTGTACTAGATTCGTCGTTACAG
1 CCTC-AACCTTCCCATCACATCTTCATGGTACGAG-TTCGCCGTTGCGG
* * * *
55836 CCTCAATCCTTCCCATCACATGTTCTAAGGTACCAGGTTCACCGTTGCGG
1 CCTCAA-CCTTCCCATCACATCTTC-ATGGTACGA-GTTCGCCGTTGCGG
** * * * *
55886 CCTCAACCTTTCCTTTTAAATCTTCATGGTACTAGGTTCGCTGTTGCGG
1 CCTCAACC-TTCCCATCACATCTTCATGGTACGA-GTTCGCCGTTGCGG
* * * *
55935 CCTCAACCTTTCCCATCACAT-TTCATGGTACTGAATTCGTCATTGCAG
1 CCTCAACC-TTCCCATCACATCTTCATGGTAC-GAGTTCGCCGTTGCGG
* * *
55983 CCTCAATCTTTCCCATCACATCTTC-TGAGGTATCGAGTTCGCTGTTGCGC
1 CCTCAA-CCTTCCCATCACATCTTCAT--GGTA-CGAGTTCGCCGTTGCGG
* * *
56033 CCTTAACCTTTCCCTTCATATCTT
1 CCTCAACC-TTCCCATCACATCTT
56057 TATATTTCCT
Statistics
Matches: 359, Mismatches: 83, Indels: 47
0.73 0.17 0.10
Matches are distributed among these distances:
47 5 0.01
48 89 0.25
49 144 0.40
50 118 0.33
51 3 0.01
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.34
Consensus pattern (47 bp):
CCTCAACCTTCCCATCACATCTTCATGGTACGAGTTCGCCGTTGCGG
Found at i:55839 original size:147 final size:147
Alignment explanation
Indices: 55627--56048 Score: 553
Period size: 147 Copynumber: 2.9 Consensus size: 147
55617 AAGGTATCGA
* * * * * * *
55627 GTTCGCC-TTGCAGCCTCAACCTTTACCTTTAAATCTTCATGGTACTAGGTTCGCCGTTGCGGCC
1 GTTCGCCGTTGCGGCCTCAACCTTTACCATCACAT-TTCATGGTACTAGATTCGTCGTTGCAGCC
*
55691 TCAATCCTTTCCATCACATCTTCTAAGATATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTT
65 TCAATCCTTTCCATCACATCTTCTAAGGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTT
55756 AAATCTTCATGGTACCAG
130 AAATCTTCATGGTACCAG
* * * *
55774 GTTCGCCGTTGCGGCCTCAAACTTTTCCATCACATTTCATTGTACTAGATTCGTCGTTACAGCCT
1 GTTCGCCGTTGCGGCCTCAACCTTTACCATCACATTTCATGGTACTAGATTCGTCGTTGCAGCCT
* * * * *
55839 CAATCCTTCCCATCACATGTTCTAAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTTCCTTTTA
66 CAATCCTTTCCATCACATCTTCTAAGGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTA
*
55904 AATCTTCATGGTACTAG
131 AATCTTCATGGTACCAG
* * *
55921 GTTCGCTGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACT-GAATTCGTCATTGCAGCC
1 GTTCGCCGTTGCGGCCTCAACCTTTACCATCACATTTCATGGTACTAG-ATTCGTCGTTGCAGCC
* * * * * *
55985 TCAAT-CTTTCCCATCACATCTTCTGAGGTATCGAGTTCGCTGTTGCGCCCTTAACCTTTCCCTT
65 TCAATCCTTT-CCATCACATCTTCTAAGGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTT
56049 CATATCTTTA
Statistics
Matches: 237, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
146 4 0.02
147 212 0.89
148 21 0.09
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (147 bp):
GTTCGCCGTTGCGGCCTCAACCTTTACCATCACATTTCATGGTACTAGATTCGTCGTTGCAGCCT
CAATCCTTTCCATCACATCTTCTAAGGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTA
AATCTTCATGGTACCAG
Found at i:57023 original size:9 final size:9
Alignment explanation
Indices: 57003--57052 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
56993 TCTCCTTTTC
*
57003 TTTTTCCCT
1 TTTTTCTCT
*
57012 TTTTTCTATT
1 TTTTTCT-CT
*
57022 TTCTTTTTCT
1 TT-TTTCTCT
57032 TTTTTCTCT
1 TTTTTCTCT
57041 TTTTTCTCT
1 TTTTTCTCT
57050 TTT
1 TTT
57053 CTTTTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 24 0.71
10 6 0.18
11 4 0.12
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:57042 original size:29 final size:28
Alignment explanation
Indices: 56999--57058 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 28
56989 GATCTCTCCT
56999 TTTCTTTTTCCCTTTTTTCTATTTTCTT
1 TTTCTTTTTCCCTTTTTTCTATTTTCTT
* *
57027 TTTCTTTTTTCTCTTTTTTCTCTTTTCTT
1 TTTC-TTTTTCCCTTTTTTCTATTTTCTT
57056 TTT
1 TTT
57059 TATTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (28 bp):
TTTCTTTTTCCCTTTTTTCTATTTTCTT
Found at i:57059 original size:7 final size:7
Alignment explanation
Indices: 56998--57059 Score: 63
Period size: 7 Copynumber: 8.6 Consensus size: 7
56988 CGATCTCTCC
56998 TTTTCTT
1 TTTTCTT
*
57005 TTTCCCTT
1 TTT-TCTT
*
57013 TTTTCTA
1 TTTTCTT
57020 TTTTC-T
1 TTTTCTT
57026 TTTTCTTT
1 TTTTC-TT
57034 TTTCTCTT
1 TTT-TCTT
*
57042 TTTTCTC
1 TTTTCTT
57049 TTTTCTT
1 TTTTCTT
57056 TTTT
1 TTTT
57060 ATTTATTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 5 0.11
7 23 0.51
8 15 0.33
9 2 0.04
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:57068 original size:23 final size:23
Alignment explanation
Indices: 56998--57069 Score: 80
Period size: 22 Copynumber: 3.2 Consensus size: 23
56988 CGATCTCTCC
*
56998 TTTTCTTTTTCCCTTTTT-TC-TA
1 TTTTCTTTTT-CTTTTTTATCTTA
*
57020 TTTTCTTTTTCTTTTTTCTCTT-
1 TTTTCTTTTTCTTTTTTATCTTA
57042 TTTTCTCTTTTCTTTTTTAT-TTA
1 TTTTCT-TTTTCTTTTTTATCTTA
57065 TTTTC
1 TTTTC
57070 CTTCATCGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.14
22 20 0.45
23 18 0.41
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTTCTTTTTTATCTTA
Found at i:58096 original size:60 final size:59
Alignment explanation
Indices: 58032--58252 Score: 200
Period size: 60 Copynumber: 3.7 Consensus size: 59
58022 ATACGAGGTC
*
58032 AAAATATAATTTTAGAAAAGTTCGAGGGGTAAAAATGTAATTTTAGGAAAGTTTAGGGTT
1 AAAATATAATTTTAGAAAAGTT-GAGGGGTAAAAATGTAATTTTAGAAAAGTTTAGGGTT
* * * * * *
58092 AAAATACATTTTTAGAAAAGTTTG-GGGG-ATCAAATATAATTTAAGAAAAGTTTAAGGGTC
1 AAAATATAATTTTAGAAAAG-TTGAGGGGTA-AAAATGTAATTTTAGAAAAGTTT-AGGGTT
* * * * * *
58152 AAAATGTAATTTTGGAAAAGTTTAGAGGTTAAAATGTAATTTT-GAAGAAGTTTAGTTGTT
1 AAAATATAATTTTAGAAAAGTTGAGGGGTAAAAATGTAATTTTAGAA-AAGTTTAG-GGTT
* * * *
58212 AAAATGTAATTTT-GAAAAGTT-TGGGGTCAAAATATAATTTT
1 AAAATATAATTTTAGAAAAGTTGAGGGGTAAAAATGTAATTTT
58253 TAAAGAAAAT
Statistics
Matches: 131, Mismatches: 23, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
58 17 0.13
59 38 0.29
60 74 0.56
61 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (59 bp):
AAAATATAATTTTAGAAAAGTTGAGGGGTAAAAATGTAATTTTAGAAAAGTTTAGGGTT
Found at i:58139 original size:30 final size:29
Alignment explanation
Indices: 58032--58252 Score: 169
Period size: 30 Copynumber: 7.4 Consensus size: 29
58022 ATACGAGGTC
*
58032 AAAATATAATTTTAGAAAAGTTCGAGGGGT
1 AAAATATAATTTTAGAAAAGTTTG-GGGGT
* * * *
58062 AAAAATGTAATTTTAGGAAAGTTTAGGGTT
1 -AAAATATAATTTTAGAAAAGTTTGGGGGT
* *
58092 AAAATACATTTTTAGAAAAGTTTGGGGGAT
1 AAAATATAATTTTAGAAAAGTTTGGGGG-T
* * **
58122 CAAATATAATTTAAGAAAAGTTTAAGGGT
1 AAAATATAATTTTAGAAAAGTTTGGGGGT
* * * *
58151 CAAAATGTAATTTTGGAAAAGTTTAGAGGTT
1 -AAAATATAATTTTAGAAAAGTTT-GGGGGT
* ** *
58182 AAAATGTAATTTT-GAAGAAGTTTAGTTGTT
1 AAAATATAATTTTAGAA-AAGTTT-GGGGGT
*
58212 AAAATGTAATTTT-GAAAAGTTT-GGGGT
1 AAAATATAATTTTAGAAAAGTTTGGGGGT
58239 CAAAATATAATTTT
1 -AAAATATAATTTT
58253 TAAAGAAAAT
Statistics
Matches: 156, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
27 2 0.01
28 12 0.08
29 32 0.21
30 86 0.55
31 24 0.15
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (29 bp):
AAAATATAATTTTAGAAAAGTTTGGGGGT
Found at i:58203 original size:90 final size:88
Alignment explanation
Indices: 58032--58252 Score: 241
Period size: 90 Copynumber: 2.5 Consensus size: 88
58022 ATACGAGGTC
* *
58032 AAAATATAATTTTAGAAAAGTTCGAGGGGTAAAAATGTAATTTTAGGAAAGTTTAGGGTTAAAAT
1 AAAATATAA-TTTAGAAAAGTT-TAGGGGTCAAAATGTAATTTTAGGAAAGTTTAGGGTTAAAAT
* *
58097 ACATTTTTAGAAAAGTTTGGGGGAT
64 ACAATTTTAGAAAAGTTTAGGGGAT
* *
58122 CAAATATAATTTAAGAAAAGTTTAAGGGTCAAAATGTAATTTT-GGAAAAGTTTAGAGGTTAAAA
1 AAAATATAATTT-AGAAAAGTTTAGGGGTCAAAATGTAATTTTAGG-AAAGTTTAG-GGTTAAAA
** ** *
58186 TGTAATTTT-GAAGAAGTTTAGTTGTT
63 TACAATTTTAGAA-AAGTTTAGGGGAT
* * *
58212 AAAATGTAATTTTGAAAAGTTT-GGGGTCAAAATATAATTTT
1 AAAATATAATTTAGAAAAGTTTAGGGGTCAAAATGTAATTTT
58253 TAAAGAAAAT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
88 19 0.17
89 42 0.38
90 50 0.45
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (88 bp):
AAAATATAATTTAGAAAAGTTTAGGGGTCAAAATGTAATTTTAGGAAAGTTTAGGGTTAAAATAC
AATTTTAGAAAAGTTTAGGGGAT
Found at i:65214 original size:39 final size:39
Alignment explanation
Indices: 65168--65360 Score: 262
Period size: 39 Copynumber: 5.0 Consensus size: 39
65158 AATTTATATT
** *
65168 GTATTGCAGTGTTTACAGTGTCACTGCCAGTTCAACATG
1 GTATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTATC
*
65207 GTATTGCAGTGTTTACAGTGTCACTGCTAGTTCAGTATC
1 GTATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTATC
* * * *
65246 GTATTGTAGTGTTTGCAGTGTCATTG-CAGTTCTGTATC
1 GTATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTATC
* * *
65284 GTATTACAGTGTTTACAGTGTCACAGCCAGTTCTGTATC
1 GTATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTATC
* *
65323 GTATTACAGTGTTTACAGTGTCACTACCAGTTCAGTAT
1 GTATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTAT
65361 TTTGAGAACT
Statistics
Matches: 136, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 31 0.23
39 105 0.77
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (39 bp):
GTATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTATC
Found at i:65294 original size:77 final size:78
Alignment explanation
Indices: 65132--65356 Score: 256
Period size: 77 Copynumber: 2.9 Consensus size: 78
65122 TACTCATAGC
* * * * * * *
65132 ATTACAGTTTTTATAGTGTCACCGTCAATTTA-TATTGTATTGCAGTGTTTACAGTGTCACTGCC
1 ATTACAGTGTTTACAGTGTCACAGCCAGTTCAGTATCGTATTGCAGTGTTTACAGTGTCACTGCC
*
65196 AGTTCAACATGGT
66 AGTTCAACATCGT
* * * * * *
65209 ATTGCAGTGTTTACAGTGTCACTGCTAGTTCAGTATCGTATTGTAGTGTTTGCAGTGTCATTG-C
1 ATTACAGTGTTTACAGTGTCACAGCCAGTTCAGTATCGTATTGCAGTGTTTACAGTGTCACTGCC
***
65273 AGTTCTGTATCGT
66 AGTTCAACATCGT
* * *
65286 ATTACAGTGTTTACAGTGTCACAGCCAGTTCTGTATCGTATTACAGTGTTTACAGTGTCACTACC
1 ATTACAGTGTTTACAGTGTCACAGCCAGTTCAGTATCGTATTGCAGTGTTTACAGTGTCACTGCC
65351 AGTTCA
66 AGTTCA
65357 GTATTTTGAG
Statistics
Matches: 120, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
77 88 0.73
78 32 0.27
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (78 bp):
ATTACAGTGTTTACAGTGTCACAGCCAGTTCAGTATCGTATTGCAGTGTTTACAGTGTCACTGCC
AGTTCAACATCGT
Found at i:66652 original size:21 final size:21
Alignment explanation
Indices: 66626--66667 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
66616 TAAATAACAT
*
66626 TAATAAATAATACAATTAATA
1 TAATAAATAACACAATTAATA
66647 TAATAAATAACACAATTAATA
1 TAATAAATAACACAATTAATA
66668 AAATGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (21 bp):
TAATAAATAACACAATTAATA
Found at i:66868 original size:4 final size:4
Alignment explanation
Indices: 66859--66919 Score: 63
Period size: 4 Copynumber: 15.5 Consensus size: 4
66849 AAAGTGCAAG
* *
66859 AAAT AAAT AAAT AAAT AAAC AAAT AAAAT AAA- AAAT AAAT ATAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
* *
66906 AAAT GAAT AGAT AA
1 AAAT AAAT AAAT AA
66920 GCAAAGGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 6 0.13
4 36 0.78
5 4 0.09
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:67096 original size:4 final size:4
Alignment explanation
Indices: 67087--67162 Score: 52
Period size: 4 Copynumber: 18.8 Consensus size: 4
67077 AGTGCTAAAT
*
67087 ATAA ATAA ATAA CCA-AA ATAA ATAA ATAA AT-A A-AA ATAAA ATAA ACAA
1 ATAA ATAA ATAA --ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA
* *
67135 ATAA ACAT A-AA ATAAA ATAAA ATAA ATA
1 ATAA ATAA ATAA AT-AA AT-AA ATAA ATA
67163 TGCAAAGGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
3 7 0.12
4 36 0.61
5 15 0.25
6 1 0.02
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:67129 original size:5 final size:5
Alignment explanation
Indices: 67101--67160 Score: 58
Period size: 5 Copynumber: 12.6 Consensus size: 5
67091 ATAAATAACC
*
67101 AAAAT -AAAT -AAAT -AAAT AAAAAT AAAAT -AAA- CAAAT AAACAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT
67148 AAAAT AAAAT AAA
1 AAAAT AAAAT AAA
67161 TATGCAAAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
4 18 0.37
5 22 0.45
6 9 0.18
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:67130 original size:19 final size:19
Alignment explanation
Indices: 67082--67160 Score: 79
Period size: 19 Copynumber: 3.9 Consensus size: 19
67072 ATAAGAGTGC
67082 TAAATATAAATAAATAACCAAA
1 TAAA-ATAAATAAATAA--AAA
67104 -ATAAATAAATAAATAAAAA
1 TA-AAATAAATAAATAAAAA
* *
67123 TAAAATAAACAAATAAACA
1 TAAAATAAATAAATAAAAA
67142 TAAAATAAAATAAAATAAA
1 TAAAAT-AAAT-AAATAAA
67161 TATGCAAAGG
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
19 24 0.48
20 4 0.08
21 20 0.40
22 2 0.04
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (19 bp):
TAAAATAAATAAATAAAAA
Found at i:70616 original size:17 final size:17
Alignment explanation
Indices: 70594--70627 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
70584 AGCAAGTTTT
*
70594 ATTATAGCCTTCAAATC
1 ATTATAGCCTACAAATC
70611 ATTATAGCCTACAAATC
1 ATTATAGCCTACAAATC
70628 GAAAATAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (17 bp):
ATTATAGCCTACAAATC
Found at i:80531 original size:23 final size:23
Alignment explanation
Indices: 80505--80557 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
80495 AGTTAAATAT
*
80505 ATATGTAAATATATACATGTGTA
1 ATATGTAAATATATACATATGTA
80528 ATATGTAAATATATACATATGTA
1 ATATGTAAATATATACATATGTA
80551 ATATGTA
1 ATATGTA
80558 TATTGCAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (23 bp):
ATATGTAAATATATACATATGTA
Found at i:80661 original size:24 final size:24
Alignment explanation
Indices: 80634--80762 Score: 118
Period size: 24 Copynumber: 5.4 Consensus size: 24
80624 TTCTTATCTG
*
80634 ATAAACTGACGAGCATAAAAGTAT
1 ATAAGCTGACGAGCATAAAAGTAT
* * *
80658 ATAAGCTGATGAGCATAAATGTTT
1 ATAAGCTGACGAGCATAAAAGTAT
* *
80682 ATAAGCTGACGATCGTAAATA-TAT
1 ATAAGCTGACGAGCATAAA-AGTAT
* *
80706 ATAAGCTGACAAG-AGTAAATGTAT
1 ATAAGCTGACGAGCA-TAAAAGTAT
* * * *
80730 ATAAGCTGACGAACGTTAATGTAT
1 ATAAGCTGACGAGCATAAAAGTAT
80754 ATAAGCTGA
1 ATAAGCTGA
80763 AGAACAGAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
24 84 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (24 bp):
ATAAGCTGACGAGCATAAAAGTAT
Found at i:80692 original size:48 final size:48
Alignment explanation
Indices: 80634--80762 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
80624 TTCTTATCTG
* * * ** *
80634 ATAAACTGACGAGCATAAAAGTATATAAGCTGATGAGCA-TAAATGTTT
1 ATAAGCTGACGAACGTAAAAGTATATAAGCTGACAAG-AGTAAATGTAT
*
80682 ATAAGCTGACGATCGTAAATA-TATATAAGCTGACAAGAGTAAATGTAT
1 ATAAGCTGACGAACGTAAA-AGTATATAAGCTGACAAGAGTAAATGTAT
* *
80730 ATAAGCTGACGAACGTTAATGTATATAAGCTGA
1 ATAAGCTGACGAACGTAAAAGTATATAAGCTGA
80763 AGAACAGAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 67 0.97
49 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (48 bp):
ATAAGCTGACGAACGTAAAAGTATATAAGCTGACAAGAGTAAATGTAT
Found at i:88947 original size:32 final size:30
Alignment explanation
Indices: 88897--88963 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
88887 TACTCACGAA
*
88897 TTTTACTTTTTTTATTTCAACTCATTT-T-TC
1 TTTTTCTTTTTTTATTTC-ACT-ATTTCTCTC
88927 TTTTTCTTTTTTTATTTTTCACTATTTCTCTC
1 TTTTTCTTTTTTTA--TTTCACTATTTCTCTC
88959 TTTTT
1 TTTTT
88964 GGCTAACTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 17 0.53
31 4 0.12
32 11 0.34
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (30 bp):
TTTTTCTTTTTTTATTTCACTATTTCTCTC
Found at i:97154 original size:20 final size:21
Alignment explanation
Indices: 97117--97156 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97107 GTATTTGTTT
*
97117 ATTTACTTTTATTTGTTTCAC
1 ATTTACTTTTAGTTGTTTCAC
97138 ATTTACTTTT-GTTGTTTCA
1 ATTTACTTTTAGTTGTTTCA
97157 AATTCCTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.12, G:0.07, T:0.62
Consensus pattern (21 bp):
ATTTACTTTTAGTTGTTTCAC
Found at i:99032 original size:18 final size:15
Alignment explanation
Indices: 98990--99022 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
98980 ATAACCTGTT
98990 GAAG-AAAA-AGGAA
1 GAAGAAAAAGAGGAA
99003 GAAGAAAAAGAGGAA
1 GAAGAAAAAGAGGAA
99018 GAAGA
1 GAAGA
99023 GAATGAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 4 0.22
15 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
GAAGAAAAAGAGGAA
Found at i:114569 original size:26 final size:26
Alignment explanation
Indices: 114528--114588 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
114518 TACCCTATTT
* *
114528 CTAGGTCAATGCAAAGAAAAGGTATG
1 CTAGGTCAACGAAAAGAAAAGGTATG
*
114554 CTGGGTCAACGAAAAGAAAAGGTATG
1 CTAGGTCAACGAAAAGAAAAGGTATG
114580 CTAGGTCAA
1 CTAGGTCAA
114589 TTATACAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.28, T:0.18
Consensus pattern (26 bp):
CTAGGTCAACGAAAAGAAAAGGTATG
Found at i:116395 original size:15 final size:15
Alignment explanation
Indices: 116375--116410 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
116365 TTTACATTTT
*
116375 CTTTTATTTGTTTCA
1 CTTTTACTTGTTTCA
116390 CTTTTACTTGTTTCA
1 CTTTTACTTGTTTCA
*
116405 TTTTTA
1 CTTTTA
116411 AATTTTATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.67
Consensus pattern (15 bp):
CTTTTACTTGTTTCA
Found at i:118765 original size:17 final size:18
Alignment explanation
Indices: 118743--118776 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
118733 TAGATTGCAT
118743 ACATTTT-TATTGTCATC
1 ACATTTTATATTGTCATC
*
118760 ACATTTTATTTTGTCAT
1 ACATTTTATATTGTCAT
118777 TGCATTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (18 bp):
ACATTTTATATTGTCATC
Found at i:119404 original size:21 final size:21
Alignment explanation
Indices: 119380--119430 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
119370 TTTGTGAATG
119380 AGAAAAAGAGAAAAAAAGAAA
1 AGAAAAAGAGAAAAAAAGAAA
* *
119401 AGAAAAAGAGAGAAAGAGAAA
1 AGAAAAAGAGAAAAAAAGAAA
119422 AGAAAAAGA
1 AGAAAAAGA
119431 AATATTGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
AGAAAAAGAGAAAAAAAGAAA
Found at i:124912 original size:25 final size:25
Alignment explanation
Indices: 124873--124922 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
124863 AAAATCGAAC
*
124873 TTGTCAAAAGCAAATGCAACTACAA
1 TTGTCAAAAACAAATGCAACTACAA
* *
124898 TTGTCAAAAATAAATGTAACTACAA
1 TTGTCAAAAACAAATGCAACTACAA
124923 GTAGTTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (25 bp):
TTGTCAAAAACAAATGCAACTACAA
Found at i:126709 original size:30 final size:30
Alignment explanation
Indices: 126675--126765 Score: 137
Period size: 30 Copynumber: 3.0 Consensus size: 30
126665 GTCAAATTCA
* * * * *
126675 AATTTTTAGAAATTTCGGGGGTCGAAACAT
1 AATTTTTATAAAGTTCGAGGGCCAAAACAT
126705 AATTTTTATAAAGTTCGAGGGCCAAAACAT
1 AATTTTTATAAAGTTCGAGGGCCAAAACAT
126735 AATTTTTATAAAGTTCGAGGGCCAAAACAT
1 AATTTTTATAAAGTTCGAGGGCCAAAACAT
126765 A
1 A
126766 GAATTTTGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (30 bp):
AATTTTTATAAAGTTCGAGGGCCAAAACAT
Found at i:128533 original size:46 final size:46
Alignment explanation
Indices: 128384--128796 Score: 464
Period size: 46 Copynumber: 9.0 Consensus size: 46
128374 AGATAGTAGT
* *
128384 TTCAATCTGCCCCTCTCGA-TTAGGGGTAAAATATTGGATGATGAC
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGAC
* * *
128429 TTCAATCTG-CCCT-ATGA-TCA-GGGTAAGAA-ATTGGATAGTGATGTC
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAA-AAGATTGG--A-TGATGAC
* * * *
128474 TTCAATATGCCCCTCTTGACTTAGGGGTAAAATATTAGATGGTGAC
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGAC
* * * *
128520 TTTAATTTGCCCCTCTTGACTTTGGGGTAAAAGATTGGAAGGTGATGTC
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGG-A--TGATGAC
* * **
128569 TTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGAATGATGGT
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGAC
* * *
128615 TTCAATCTGCCCCTCTTGACTTAGGAGTAAAAGATTGAATGATGGC
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGAC
*
128661 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT-GAGTGATGGC
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGA-TGATGAC
* * *
128707 TTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTGGATGGTG-G
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGAC
* *
128752 TTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTGAATGATGA
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGA
128797 TGTCACTTCA
Statistics
Matches: 319, Mismatches: 34, Indels: 29
0.84 0.09 0.08
Matches are distributed among these distances:
42 11 0.03
43 6 0.02
44 5 0.02
45 66 0.21
46 171 0.54
47 7 0.02
48 5 0.02
49 48 0.15
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (46 bp):
TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGAC
Found at i:128680 original size:187 final size:182
Alignment explanation
Indices: 128384--128796 Score: 523
Period size: 187 Copynumber: 2.2 Consensus size: 182
128374 AGATAGTAGT
* * *
128384 TTCAATCTGCCCCTCTCGA-TTAGGGGTAAAATATTGGATGATGACTTCAATCTGCCCTATGATC
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAATGATGACTTCAATCTGCCCTATGATC
* *
128448 AGGGTAAGAAATTGGATAGTGATGTCTTCAATATGCCCCTCTTGACTTAGGGGTAAAATATT-AG
66 AGGGTAAGAAATTGGATAGTGATGGCTTCAATATGCCCCTCTTGACTTAGGGGTAAAAGATTGAG
* * * * *
128512 ATGGTGACTTTAATTTGCCCCTCTTGACTTTGGGGTAAAAGATTGGAAGGTGATG
131 -TGATGACTTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTGGAAGGTG--G
* ** *
128567 TCTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGAATGATGGTTTCAATCTGCCCCTCTT
1 --TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAATGATGACTTCAATCTG-CCCT-AT
* *
128632 GACTTAGGAGTAA-AAGATT-GA-A-TGATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAA
62 GA-TCAGG-GTAAGAA-ATTGGATAGTGATGGCTTCAATATGCCCCTCTTGACTTAGGGGTAAAA
* *
128693 GATTGAGTGATGGCTTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTGGATGGTGG
124 GATTGAGTGATGACTTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTGGAAGGTGG
*
128752 TTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTGAATGATGA
1 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAATGATGA
128797 TGTCACTTCA
Statistics
Matches: 200, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
183 42 0.21
185 19 0.09
186 30 0.15
187 88 0.44
188 6 0.03
189 8 0.04
190 7 0.04
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (182 bp):
TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAATGATGACTTCAATCTGCCCTATGATC
AGGGTAAGAAATTGGATAGTGATGGCTTCAATATGCCCCTCTTGACTTAGGGGTAAAAGATTGAG
TGATGACTTCAATCTGCCCCTCTTAACTTAGGGGTAAAAGATTGGAAGGTGG
Found at i:129118 original size:96 final size:95
Alignment explanation
Indices: 128814--129281 Score: 532
Period size: 96 Copynumber: 4.9 Consensus size: 95
128804 TCACTCCATC
* * * * *
128814 CCACTGTAGCCTCAGGGACATTGAGATTTG-TT-ACCTATTTTGACCCACTTCTTTGTATCTCAT
1 CCACTGTAACCTCAGGGACATTGAGCTCTGCTTCA-TTATTTTGATCCACTT-TTTGTATCTCAT
*
128877 CAGGAAGAT-AGGTTTGAAGTTTCGCTCCACT
64 CAGGAAGATGGGGTTTGAAGTTTCGCTCCACT
* * * * *
128908 CCACTGTAACCTCAGAGACATTGAGCTCTGCTTCATT-TTTAGGATTCACTTCTTTGAATCTTAT
1 CCACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTATTT-TGATCCACTT-TTTGTATCTCAT
128972 CAGGAAGAT-GGGTTTGAAGTTTCGCTCCACT
64 CAGGAAGATGGGGTTTGAAGTTTCGCTCCACT
* * * * *
129003 CCACTGTAACCTCAAGGACATTGAGCTTTGCTTTATTGTTTTGATCCACTTTTCTGTATCTCATT
1 CCACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTATTTTGATCCACTTTT-TGTATCTCATC
129068 AGGAAGATGGGGTTTGAAGTTTCGCTCCACT
65 AGGAAGATGGGGTTTGAAGTTTCGCTCCACT
* *
129099 CCACTGTAAACTCAGGGACATTGATCTCTGCTTCATTATTTTGATCCACTTTTTTGTATCTCATC
1 CCACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTATTTTGATCCAC-TTTTTGTATCTCATC
* * * *
129164 AAGAAGATGAGGTTTGAAGTTTCACTCTACT
65 AGGAAGATGGGGTTTGAAGTTTCGCTCCACT
* ** * * * * * * * *
129195 CTACTGTAACCTCAGGGATGTTAAGCTCTACCTCAATATTTTGATTCACTTCTCTATATCTCATG
1 CCACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTATTTTGATCCACTT-TTTGTATCTCATC
*
129260 AGGAAGATGGAGTTTGAAGTTT
65 AGGAAGATGGGGTTTGAAGTTT
129282 TGCTGTAATT
Statistics
Matches: 319, Mismatches: 47, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
94 31 0.10
95 110 0.34
96 174 0.55
97 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (95 bp):
CCACTGTAACCTCAGGGACATTGAGCTCTGCTTCATTATTTTGATCCACTTTTTGTATCTCATCA
GGAAGATGGGGTTTGAAGTTTCGCTCCACT
Found at i:130270 original size:6 final size:6
Alignment explanation
Indices: 130259--130322 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
130249 TTGACCTCTC
*
130259 CTTTTT CTTTTT CTTCTTT -TTTTT CTTTTTT CTTTTCC CTTTTT C-TTTT
1 CTTTTT CTTTTT CTT-TTT CTTTTT C-TTTTT CTTTT-T CTTTTT CTTTTT
130308 C-TTTT C-TTTT CTTTT
1 CTTTTT CTTTTT CTTTT
130323 CTATCTCTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
5 18 0.35
6 19 0.37
7 14 0.27
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:130287 original size:5 final size:5
Alignment explanation
Indices: 130261--130334 Score: 62
Period size: 5 Copynumber: 14.0 Consensus size: 5
130251 GACCTCTCCT
*
130261 TTTTC TTTT- TCTTC TTTT- TTTTC TTTTTTC TTTTCCC TTTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC --TTTTC TTTT--C -TTTTC TTTTC
*
130309 TTTTC TTTTC TTTTC TATCTC TTTTC
1 TTTTC TTTTC TTTTC T-TTTC TTTTC
130335 CCTTTTTTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
4 7 0.12
5 35 0.61
6 5 0.09
7 6 0.11
8 4 0.07
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:130288 original size:25 final size:25
Alignment explanation
Indices: 130260--130312 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
130250 TGACCTCTCC
* *
130260 TTTTTCTTTT-TCTTCTTTTTTTTCT
1 TTTTTCTTTTCCCTT-TTTCTTTTCT
130285 TTTTTCTTTTCCCTTTTTCTTTTCT
1 TTTTTCTTTTCCCTTTTTCTTTTCT
130310 TTT
1 TTT
130313 CTTTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTCTTTTCCCTTTTTCTTTTCT
Found at i:130332 original size:39 final size:38
Alignment explanation
Indices: 130258--130341 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 38
130248 CTTGACCTCT
* *
130258 CCTTTTTCTTTTTCTTCTTTTTTTTCTTTTTTCTTTTC
1 CCTTTTTCTTTTTCTTCTTTTTTTTCTTATCTCTTTTC
*
130296 CCTTTTTCTTTTCTTTTCTTTTCTTTTC-TATCTCTTTTC
1 CCTTTTTCTTTT-TCTTCTTTT-TTTTCTTATCTCTTTTC
130335 CCTTTTT
1 CCTTTTT
130342 TTGGTAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
38 12 0.29
39 24 0.59
40 5 0.12
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (38 bp):
CCTTTTTCTTTTTCTTCTTTTTTTTCTTATCTCTTTTC
Found at i:131097 original size:130 final size:130
Alignment explanation
Indices: 130860--131120 Score: 441
Period size: 130 Copynumber: 2.0 Consensus size: 130
130850 ATTTGTGATA
130860 TTTGATTTTGAACTGAAGGCAGACCCTTGCTTTTGTGCTATTTGTTCAAATTTAGTGTGTTGTTA
1 TTTGATTTTGAACTGAAGGCAGACCCTTGCTTTTGTGCTATTTGTTCAAATTTAGTGTGTTGTTA
* ** *
130925 GATATGATCCTTTCTGGCATTGACATGTAATATTTTTTGAAAATTTTCTCATTGTAGGTCTTGTG
66 GATATGATCCTTTCTAGCATTGACATGTAATATTTTCCGAAAATTTACTCATTGTAGGTCTTGTG
* * *
130990 TTTGATTTTGAACTGACGGCATACCCTTGCTTTTGTGCTGTTTGTTCAAATTTAGTGTGTTGTTA
1 TTTGATTTTGAACTGAAGGCAGACCCTTGCTTTTGTGCTATTTGTTCAAATTTAGTGTGTTGTTA
* *
131055 GATGTGATCCTTTCTAGCATTGACATGTAATCTTTTCCGAAAATTTACTCATTGTAGGTCTTGTG
66 GATATGATCCTTTCTAGCATTGACATGTAATATTTTCCGAAAATTTACTCATTGTAGGTCTTGTG
131120 T
1 T
131121 AGAAAGCAGC
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 122 1.00
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.46
Consensus pattern (130 bp):
TTTGATTTTGAACTGAAGGCAGACCCTTGCTTTTGTGCTATTTGTTCAAATTTAGTGTGTTGTTA
GATATGATCCTTTCTAGCATTGACATGTAATATTTTCCGAAAATTTACTCATTGTAGGTCTTGTG
Found at i:131410 original size:14 final size:13
Alignment explanation
Indices: 131379--131417 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
131369 ATCTCAACCC
*
131379 TTTTCTTTTTCTT
1 TTTTCTTTTTCCT
131392 TTTTCTTTCTTCCT
1 TTTTCTTT-TTCCT
131406 TTTTCCTTTTTC
1 TTTT-CTTTTTC
131418 TACCTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 8 0.35
14 11 0.48
15 4 0.17
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCTTTTTCCT
Found at i:135452 original size:24 final size:24
Alignment explanation
Indices: 135420--135468 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
135410 ACTGAAGTTT
135420 TCTGTTTGTTTCTCGGGAAAATAC
1 TCTGTTTGTTTCTCGGGAAAATAC
*
135444 TCTGTTTGTTTCTCGGGAAAGTAC
1 TCTGTTTGTTTCTCGGGAAAATAC
135468 T
1 T
135469 AAACCCATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.43
Consensus pattern (24 bp):
TCTGTTTGTTTCTCGGGAAAATAC
Found at i:135826 original size:16 final size:16
Alignment explanation
Indices: 135805--135857 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
135795 GATGATGATG
135805 ATTTTAATAATTTTAT
1 ATTTTAATAATTTTAT
***
135821 ATTTTAA-AAAAATA-
1 ATTTTAATAATTTTAT
135835 ATTTTAATAATTTTAT
1 ATTTTAATAATTTTAT
135851 ATTTTAA
1 ATTTTAA
135858 AAAACAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 7 0.24
15 8 0.28
16 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTAATAATTTTAT
Found at i:135869 original size:29 final size:30
Alignment explanation
Indices: 135805--135878 Score: 132
Period size: 29 Copynumber: 2.5 Consensus size: 30
135795 GATGATGATG
*
135805 ATTTTAATAATTTTATATTTTAAAAAAATA
1 ATTTTAATAATTTTATATTTTAAAAAAACA
135835 ATTTTAATAATTTTATATTTT-AAAAAACA
1 ATTTTAATAATTTTATATTTTAAAAAAACA
135864 ATTTTAATAATTTTA
1 ATTTTAATAATTTTA
135879 AAATCATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 22 0.51
30 21 0.49
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTTTAATAATTTTATATTTTAAAAAAACA
Found at i:137320 original size:20 final size:21
Alignment explanation
Indices: 137294--137352 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
137284 TAAATTAAAA
137294 CAAAAATGAAAATTTTGGGGT
1 CAAAAATGAAAATTTTGGGGT
**
137315 -AAAAATGTGAAAA-TAAGGGGT
1 CAAAAA--TGAAAATTTTGGGGT
137336 CAAAAATG-AAATTTTGG
1 CAAAAATGAAAATTTTGG
137353 AAAGCTTGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 6 0.20
22 11 0.37
ACGTcount: A:0.47, C:0.03, G:0.24, T:0.25
Consensus pattern (21 bp):
CAAAAATGAAAATTTTGGGGT
Found at i:137415 original size:59 final size:58
Alignment explanation
Indices: 137347--137520 Score: 179
Period size: 59 Copynumber: 2.9 Consensus size: 58
137337 AAAAATGAAA
**
137347 TTTTGGAAAGCTTGAGGGCCAAATTCAAATTTTTGGAAAGTTTAGGGTCAAATTAAAAT
1 TTTTGGAAAG-TTGAGGGCCAAATTCAAATTTTTGGAAAGTTTAGGGTCAAAACAAAAT
* * ** * *
137406 TTTTAGAAAGTTTGAGGGTCAAATTTGAATTTTTGGAAAGTTTAAGGGCCAAAACATAAT
1 TTTTGGAAAG-TTGAGGGCCAAATTCAAATTTTTGGAAAGTTT-AGGGTCAAAACAAAAT
* * *
137466 TTTTGGAAAGTTTAGGGGCCAAA-ACATAATTTTTTAGAAAGTTTAGGGGTCAAAA
1 TTTTGGAAAGTTGA-GGGCCAAATTCA-AA-TTTTTGGAAAGTTTA-GGGTCAAAA
137521 TGGAATTTTG
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
59 41 0.44
60 31 0.33
61 21 0.23
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.34
Consensus pattern (58 bp):
TTTTGGAAAGTTGAGGGCCAAATTCAAATTTTTGGAAAGTTTAGGGTCAAAACAAAAT
Found at i:137440 original size:89 final size:91
Alignment explanation
Indices: 137330--137529 Score: 255
Period size: 89 Copynumber: 2.2 Consensus size: 91
137320 TGTGAAAATA
* * * *
137330 AGGGGTCAAAAATGAAATTTTGGAAAGCTTGAGGGCCAAATTCA-AATTTTTGGAAAGTTTA-GG
1 AGGGGTCAAAATTGAATTTTTGGAAAGCTTAAGGGCCAAA-ACATAATTTTTGGAAAGTTTAGGG
* **
137393 GTCAAATTA-AAATTTTTAGAAAGTTT
65 GCCAAAACATAAATTTTTAGAAAGTTT
* *
137419 -GAGGGTCAAATTTGAATTTTTGGAAAGTTTAAGGGCCAAAACATAATTTTTGGAAAGTTTAGGG
1 AG-GGGTCAAAATTGAATTTTTGGAAAGCTTAAGGGCCAAAACATAATTTTTGGAAAGTTTAGGG
*
137483 GCCAAAACATAATTTTTTAGAAAGTTT
65 GCCAAAACATAAATTTTTAGAAAGTTT
*
137510 AGGGGTCAAAATGGAATTTT
1 AGGGGTCAAAATTGAATTTT
137530 GAAGAGTTCA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
88 3 0.03
89 50 0.53
90 8 0.09
91 32 0.34
92 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (91 bp):
AGGGGTCAAAATTGAATTTTTGGAAAGCTTAAGGGCCAAAACATAATTTTTGGAAAGTTTAGGGG
CCAAAACATAAATTTTTAGAAAGTTT
Found at i:137489 original size:30 final size:30
Alignment explanation
Indices: 137330--137520 Score: 160
Period size: 30 Copynumber: 6.4 Consensus size: 30
137320 TGTGAAAATA
* *
137330 AGGGGTCAAAA-ATGAAATTTTGGAAAGCTT
1 AGGGGTCAAAACAT-AATTTTTGGAAAGTTT
* *
137360 -GAGGGCCAAATTCA-AATTTTTGGAAAGTTT
1 AG-GGGTCAAA-ACATAATTTTTGGAAAGTTT
** * *
137390 A-GGGTCAAATTAAAATTTTTAGAAAGTTT
1 AGGGGTCAAAACATAATTTTTGGAAAGTTT
**
137419 -GAGGGTC-AAATTTGAATTTTTGGAAAGTTT
1 AG-GGGTCAAAACAT-AATTTTTGGAAAGTTT
* *
137449 AAGGGCCAAAACATAATTTTTGGAAAGTTT
1 AGGGGTCAAAACATAATTTTTGGAAAGTTT
* *
137479 AGGGGCCAAAACATAATTTTTTAGAAAGTTT
1 AGGGGTCAAAACATAA-TTTTTGGAAAGTTT
137510 AGGGGTCAAAA
1 AGGGGTCAAAA
137521 TGGAATTTTG
Statistics
Matches: 132, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.02
29 26 0.20
30 76 0.58
31 27 0.20
32 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (30 bp):
AGGGGTCAAAACATAATTTTTGGAAAGTTT
Found at i:140059 original size:18 final size:18
Alignment explanation
Indices: 140036--140071 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
140026 CAATTCATAC
140036 CACTTTCAATTCCAATTT
1 CACTTTCAATTCCAATTT
* *
140054 CACTTTCACTTTCAATTT
1 CACTTTCAATTCCAATTT
140072 TGATCACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (18 bp):
CACTTTCAATTCCAATTT
Found at i:150220 original size:52 final size:52
Alignment explanation
Indices: 150137--150428 Score: 343
Period size: 52 Copynumber: 5.6 Consensus size: 52
150127 AATGAAAAAG
* * * *
150137 GGTCTGATGACTAAGTCTCGTTGTGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * *
150189 GGTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTATACGGATTGTGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * * *
150241 GGTCTGATGACTAAGTGTCTTTGTGAGTATATGAATCTTTTACGGATTATGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * * *
150293 GGTCCGATGACTAAGTGTCATCATGAGAAAATGAATCCTTTACGGATTGTGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * * ** *
150345 GGTCCGATGACTAAGTGTCATCGTAAGTACATGAATTTCCTTTACGAAACAAGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAA--TCCTTTACGGATTATGA
* *
150399 GGTCTGATGACCATA-TGTCATCGTGAGTAT
1 GGTCCGATGACTA-AGTGTCATCGTGAGTAT
150429 TAAATGAAAT
Statistics
Matches: 202, Mismatches: 35, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
52 165 0.82
54 36 0.18
55 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (52 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
Found at i:150465 original size:60 final size:61
Alignment explanation
Indices: 150381--150494 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 61
150371 GTACATGAAT
* *
150381 TTCCTTTACGAAACAAGAGGTCTGATGACCATATGTCATCGTGAGTATTAAATGAAATGAG
1 TTCCATTACGAAACAAGAGGTCTGATGACCATATGTCATCGTGAGTATCAAATGAAATGAG
** ** **
150442 TTCCATTACGAATTAAG-GGTCTGATGACTTTATGTCATTTTGAGTATCAAATG
1 TTCCATTACGAAACAAGAGGTCTGATGACCATATGTCATCGTGAGTATCAAATG
150495 CGAGTTGAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
60 31 0.69
61 14 0.31
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (61 bp):
TTCCATTACGAAACAAGAGGTCTGATGACCATATGTCATCGTGAGTATCAAATGAAATGAG
Found at i:152534 original size:116 final size:117
Alignment explanation
Indices: 152389--152609 Score: 365
Period size: 116 Copynumber: 1.9 Consensus size: 117
152379 CTAAAAATCT
**
152389 TACCCTGCTACTTCTACCAATACAAGTATGTGAACTACCGATACTTCTAAAT-ACATGACTACCG
1 TACCCTGCTACTTCTACCAATACAAGTATGCAAACTACCGATACTTCT-AATCACATGACTACCG
152453 ATACTTGTTATTCATCAACCGATACAACCCAAGTCAGTAAATAATGTGTCTCC
65 ATACTTGTTATTCATCAACCGATACAACCCAAGTCAGTAAATAATGTGTCTCC
* * *
152506 TACCCTG-TACTTCTACCAATACAGGTATGCAAACTACCGGTACTTCTAATCACATGACTAGCGA
1 TACCCTGCTACTTCTACCAATACAAGTATGCAAACTACCGATACTTCTAATCACATGACTACCGA
*
152570 TACTTGTTATTCATCTACCGATACAACCCAAGTCAGTAAA
66 TACTTGTTATTCATCAACCGATACAACCCAAGTCAGTAAA
152610 CAACCTCTCT
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
115 3 0.03
116 87 0.90
117 7 0.07
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (117 bp):
TACCCTGCTACTTCTACCAATACAAGTATGCAAACTACCGATACTTCTAATCACATGACTACCGA
TACTTGTTATTCATCAACCGATACAACCCAAGTCAGTAAATAATGTGTCTCC
Found at i:152631 original size:116 final size:116
Alignment explanation
Indices: 152389--152644 Score: 361
Period size: 116 Copynumber: 2.2 Consensus size: 116
152379 CTAAAAATCT
**
152389 TACCCTGCTACTTCTACCAATACAAGTATGTGAACTACCGATACTTCTAAATACATGACTACCGA
1 TACCCTG-TACTTCTACCAATACAAGTATGCAAACTACCGATACTTCTAAATACATGACTACCGA
* ** *
152454 TACTTGTTATTCATCAACCGATACAACCCAAGTCAGTAAATAATGTGTCTCC
65 TACTTGTTATTCATCAACCGATACAACCCAAGTCAGTAAACAACCTCTCTCC
* * *
152506 TACCCTGTACTTCTACCAATACAGGTATGCAAACTACCGGTACTTCT-AATCACATGACTAGCGA
1 TACCCTGTACTTCTACCAATACAAGTATGCAAACTACCGATACTTCTAAAT-ACATGACTACCGA
* *
152570 TACTTGTTATTCATCTACCGATACAACCCAAGTCAGTAAACAACCTCTCTCT
65 TACTTGTTATTCATCAACCGATACAACCCAAGTCAGTAAACAACCTCTCTCC
** *
152622 TACTTTGTACTTCTACCGATACA
1 TACCCTGTACTTCTACCAATACA
152645 TGCATGGGTT
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
115 3 0.02
116 114 0.92
117 7 0.06
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.30
Consensus pattern (116 bp):
TACCCTGTACTTCTACCAATACAAGTATGCAAACTACCGATACTTCTAAATACATGACTACCGAT
ACTTGTTATTCATCAACCGATACAACCCAAGTCAGTAAACAACCTCTCTCC
Found at i:154318 original size:21 final size:21
Alignment explanation
Indices: 154294--154348 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
154284 TCATTAAGCT
*
154294 TTAATTAATCATTTTTTAATC
1 TTAATTAATCATTATTTAATC
* *
154315 TTAATTAAAC-CTATTTAATC
1 TTAATTAATCATTATTTAATC
154335 TTAATATAAATCAT
1 TTAAT-T-AATCAT
154349 GCTAATCCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 13 0.50
21 10 0.38
22 3 0.12
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTAATCATTATTTAATC
Found at i:156515 original size:7 final size:6
Alignment explanation
Indices: 156496--156827 Score: 86
Period size: 6 Copynumber: 55.3 Consensus size: 6
156486 AATTAATGCA
* * * * * *
156496 TTTATT TTTATT TTTAAT TTTCTT TTTCTT TTTCTT TTTCTTT TTTCTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT-ATT TTTATT
* * * * * * *
156545 TTTCTT TTTCA-T TTTGTT TTTCTT TTTCTT TTTCTT TTTCTT TTT-CT
1 TTTATT TTT-ATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * * * * **
156592 TTT-TC TTT-TT TTTCTT TTTCTT TTTCTT TTTCTT TCTCTT TTCCTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
156638 TTTCATT TTTCATT TTTCA-- TTCATT TTTCATT TTTCATT CTTT-TT
1 TTT-ATT TTT-ATT TTT-ATT TTTATT TTT-ATT TTT-ATT -TTTATT
* * * * * *
156683 TCT-TT TTTCTT TTT-TC TTT-TT TCT-TT TTTCTT TTT-TC TTT-TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * *
156725 TCT-TT TTTCTT TTT-TCT TTT-TT CTT-TT TTCATAT TTCATT TTTCATT
1 TTTATT TTTATT TTTAT-T TTTATT TTTATT TTTAT-T TTTATT TTT-ATT
156772 TTTCATT TTTCATT TTTCATT TTTCATT TTTCATT TTTCATT TTTATT
1 TTT-ATT TTT-ATT TTT-ATT TTT-ATT TTT-ATT TTT-ATT TTTATT
156820 TTTATT TT
1 TTTATT TT
156828 GTTTTATTAT
Statistics
Matches: 277, Mismatches: 33, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
4 1 0.00
5 48 0.17
6 142 0.51
7 83 0.30
8 3 0.01
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:156547 original size:14 final size:14
Alignment explanation
Indices: 156513--156822 Score: 266
Period size: 14 Copynumber: 22.2 Consensus size: 14
156503 TTATTTTTAA
156513 TTTTC-TTTTTC-T
1 TTTTCTTTTTTCTT
156525 TTTTC-TTTTTCTT
1 TTTTCTTTTTTCTT
156538 TTTTC-TTTTTC-T
1 TTTTCTTTTTTCTT
* *
156550 TTTTC-ATTTT-GT
1 TTTTCTTTTTTCTT
156562 TTTTC-TTTTTC-T
1 TTTTCTTTTTTCTT
156574 TTTTC-TTTTTC-T
1 TTTTCTTTTTTCTT
156586 TTTTC-TTTTTCTT
1 TTTTCTTTTTTCTT
*
156599 TTTTTTCTTTTTCTT
1 TTTTCT-TTTTTCTT
* *
156614 TTTCTTTTTCTTTCTC
1 TTT-TCTTT-TTTCTT
* *
156630 TTTTCCTTTTTCAT
1 TTTTCTTTTTTCTT
*
156644 TTTTCATTTTTCATTCAT
1 TTTTC--TTTT--TTCTT
156662 TTTTCATTTTTCATTCTT
1 TTTTC--TTTT--TTCTT
156680 TTTTCTTTTTTCTT
1 TTTTCTTTTTTCTT
156694 TTTTCTTTTTTCTT
1 TTTTCTTTTTTCTT
156708 TTTTCTTTTTTCTT
1 TTTTCTTTTTTCTT
156722 TTTTCTTTTTTCTT
1 TTTTCTTTTTTCTT
156736 TTTTCTTTTTTCTT
1 TTTTCTTTTTTCTT
* * *
156750 TTTTCATATTTCAT
1 TTTTCTTTTTTCTT
* *
156764 TTTTCATTTTTCAT
1 TTTTCTTTTTTCTT
* *
156778 TTTTCATTTTTCAT
1 TTTTCTTTTTTCTT
* *
156792 TTTTCATTTTTCAT
1 TTTTCTTTTTTCTT
* *
156806 TTTTCATTTTTATT
1 TTTTCTTTTTTCTT
156820 TTT
1 TTT
156823 ATTTTGTTTT
Statistics
Matches: 270, Mismatches: 16, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
12 55 0.20
13 17 0.06
14 137 0.51
15 16 0.06
16 18 0.07
18 27 0.10
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTTTCTT
Found at i:156767 original size:1 final size:1
Alignment explanation
Indices: 156513--156753 Score: 68
Period size: 1 Copynumber: 241.0 Consensus size: 1
156503 TTATTTTTAA
* * * * * * ** * * *
156513 TTTTCTTTTTCTTTTTCTTTTTCTTTTTTCTTTTTCTTTTTCATTTTGTTTTTCTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * ** **
156578 CTTTTTCTTTTTCTTTTTCTTTTTTTTCTTTTTCTTTTTCTTTTTCTTTCTCTTTTCCTTTTTCA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** ** ** ** * * * * *
156643 TTTTTCATTTTTCATTCATTTTTCATTTTTCATTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
156708 TTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
156754 CATATTTCAT
Statistics
Matches: 157, Mismatches: 83, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
1 157 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (1 bp):
T
Found at i:159651 original size:43 final size:43
Alignment explanation
Indices: 159566--159771 Score: 222
Period size: 43 Copynumber: 4.8 Consensus size: 43
159556 CTAAATTAAC
* * *
159566 TTATGCTCTCTTCC-AGTCATAAGTTCTTCCATTTACAAATAATA
1 TTATGCTCT-ATCCGAGACATAAG-TCTTCCATTTATAAATAATA
* * * *
159610 TTATGCTCTTTTCGAGTCATAAGTCTTCCATTTATAAATAATC
1 TTATGCTCTATCCGAGACATAAGTCTTCCATTTATAAATAATA
* *
159653 TCATGCTCTATCCGAGACTTAAGTCTTCC-TTTCATAAATAATA
1 TTATGCTCTATCCGAGACATAAGTCTTCCATTT-ATAAATAATA
* * *
159696 TTATGCTCTAACCGAGACATAAGTCTTCC--TTATAAAACAATC
1 TTATGCTCTATCCGAGACATAAGTCTTCCATTTAT-AAATAATA
* *
159738 TTATGCTCTAACCGAGACATAAGTCTTCTATTTA
1 TTATGCTCTATCCGAGACATAAGTCTTCCATTTA
159772 GTATCACCAA
Statistics
Matches: 142, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
41 2 0.01
42 39 0.27
43 80 0.56
44 21 0.15
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (43 bp):
TTATGCTCTATCCGAGACATAAGTCTTCCATTTATAAATAATA
Found at i:161568 original size:12 final size:13
Alignment explanation
Indices: 161545--161582 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
161535 TTAATATAAT
161545 TAAAATATAAAAA
1 TAAAATATAAAAA
161558 TAAAA-ATAAAAA
1 TAAAATATAAAAA
*
161570 TAACATA-AAAAA
1 TAAAATATAAAAA
161582 T
1 T
161583 GCAACATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAATATAAAAA
Found at i:161678 original size:13 final size:13
Alignment explanation
Indices: 161662--161688 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
161652 GTAACAAATG
161662 AATAATAATTAAA
1 AATAATAATTAAA
161675 AATAATAATTAAA
1 AATAATAATTAAA
161688 A
1 A
161689 TCATGCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAATAATTAAA
Found at i:161731 original size:37 final size:37
Alignment explanation
Indices: 161665--161754 Score: 128
Period size: 37 Copynumber: 2.4 Consensus size: 37
161655 ACAAATGAAT
* *
161665 AATAATTAAAAATAA-TAATTAAAATCATGCAAATTA
1 AATAAATAAAAATAAGCAATTAAAATCATGCAAATTA
*
161701 AATAAATAAAAATAAGCAATTAATATCATGCAAATTA
1 AATAAATAAAAATAAGCAATTAAAATCATGCAAATTA
*
161738 AATAAATAGAACATAAG
1 AATAAATA-AAAATAAG
161755 GGGACCCAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 14 0.29
37 27 0.56
38 7 0.15
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.27
Consensus pattern (37 bp):
AATAAATAAAAATAAGCAATTAAAATCATGCAAATTA
Found at i:164597 original size:11 final size:11
Alignment explanation
Indices: 164578--164610 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
164568 TTAGGATATT
164578 ATTTATATTTA
1 ATTTATATTTA
*
164589 ATTTGTATTTA
1 ATTTATATTTA
164600 ATTTATATTTA
1 ATTTATATTTA
164611 TCTTTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:164623 original size:14 final size:14
Alignment explanation
Indices: 164601--164630 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
164591 TTGTATTTAA
*
164601 TTTATATTTATCTT
1 TTTAGATTTATCTT
164615 TTTAGATTTATCTT
1 TTTAGATTTATCTT
164629 TT
1 TT
164631 AAAGTTTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:167459 original size:52 final size:52
Alignment explanation
Indices: 167381--167612 Score: 383
Period size: 52 Copynumber: 4.5 Consensus size: 52
167371 AAAAGATCCA
* *
167381 ATGACTATGTATCATCCTGAGTATATGAATCCTTTACGGATTATAAGGTCCG
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCG
* *
167433 ATGACTATGTGTCACCGTGAGTATATGAATCCTTTATGGATTATAAGGTCCG
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCG
167485 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCG
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCG
* * *
167537 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTTCAGATTATGAGGTCCG
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCG
* *
167589 ATGACAATGTATCATCGTGAGTAT
1 ATGACTATGTGTCATCGTGAGTAT
167613 TAAATGAGAA
Statistics
Matches: 169, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 169 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (52 bp):
ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCG
Found at i:168399 original size:21 final size:21
Alignment explanation
Indices: 168375--168419 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
168365 ATTTGTTTCG
*
168375 GTAGAATCT-TCATTAGTATCA
1 GTAGAA-CTGTCATAAGTATCA
168396 GTAGAACTGTCATAAGTATCA
1 GTAGAACTGTCATAAGTATCA
168417 GTA
1 GTA
168420 AAATTCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (21 bp):
GTAGAACTGTCATAAGTATCA
Found at i:172022 original size:16 final size:17
Alignment explanation
Indices: 172001--172040 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
171991 AGATTAATTT
*
172001 ATATTTAAT-ACATATA
1 ATATTTAATAACAAATA
172017 ATATTT-ATAACAAATA
1 ATATTTAATAACAAATA
172033 A-ATTTAAT
1 ATATTTAAT
172041 CATGCGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATTTAATAACAAATA
Found at i:174501 original size:2 final size:2
Alignment explanation
Indices: 174494--174519 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
174484 TCTTCGAAGG
174494 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
174520 ACACACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:184297 original size:21 final size:21
Alignment explanation
Indices: 184273--184325 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
184263 ATGTAAGTGG
184273 AATCTTATATTCAGAGTGATA
1 AATCTTATATTCAGAGTGATA
184294 AATCTTATATTCAGAGTGATA
1 AATCTTATATTCAGAGTGATA
184315 AATCTTATATT
1 AATCTTATATT
184326 TAGGACTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (21 bp):
AATCTTATATTCAGAGTGATA
Found at i:192000 original size:44 final size:44
Alignment explanation
Indices: 191916--192002 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
191906 TATCAAAGCC
* * * * * *
191916 AATTATAATTATTTTTAAATTTGTAATTATCAGAACTTCTATTA
1 AATTATAATTATTGTTAAATGTATAATTATAACAAATTCTATTA
191960 AATTATAATTATTGTTAAATGTATAATTATAACAAATTCTATT
1 AATTATAATTATTGTTAAATGTATAATTATAACAAATTCTATT
192003 TTACTCAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (44 bp):
AATTATAATTATTGTTAAATGTATAATTATAACAAATTCTATTA
Found at i:192788 original size:23 final size:23
Alignment explanation
Indices: 192724--192800 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 23
192714 ACCAGTTATT
* * *
192724 ATTAT-TTTGTAACTCTCATACC
1 ATTATGTTTGTAACTATCCTGCC
* *
192746 ATTATGTTTGTAACTCTCCTGTC
1 ATTATGTTTGTAACTATCCTGCC
192769 ATTATGTTTGTAACTATCCTGCC
1 ATTATGTTTGTAACTATCCTGCC
*
192792 ATAATGTTT
1 ATTATGTTT
192801 TATCTTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 5 0.10
23 43 0.90
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.47
Consensus pattern (23 bp):
ATTATGTTTGTAACTATCCTGCC
Found at i:193301 original size:15 final size:16
Alignment explanation
Indices: 193274--193303 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
193264 ATTAATAATC
193274 ACTTAATTAATATTAG
1 ACTTAATTAATATTAG
193290 ACTTAATT-ATATTA
1 ACTTAATTAATATTA
193304 ATTAGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (16 bp):
ACTTAATTAATATTAG
Found at i:196245 original size:26 final size:27
Alignment explanation
Indices: 196192--196248 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
196182 TCTAATCATA
196192 TAATAAATTATTAATATAAATTCTAATTT
1 TAATAAATTATTAATAT--ATTCTAATTT
196221 TAATAAATTATTTAATAT-TTC-AATTT
1 TAATAAATTA-TTAATATATTCTAATTT
196247 TA
1 TA
196249 TTTTAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 7 0.26
27 3 0.11
29 10 0.37
30 7 0.26
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATAAATTATTAATATATTCTAATTT
Found at i:196264 original size:13 final size:14
Alignment explanation
Indices: 196247--196286 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
196237 ATTTCAATTT
196247 TATTTTAATAATAA
1 TATTTTAATAATAA
196261 -ATTTTAA-AATAA
1 TATTTTAATAATAA
196273 TATTTTAAATAATA
1 TATTTT-AATAATA
196287 TTCTTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.22
13 12 0.52
14 2 0.09
15 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTTTAATAATAA
Found at i:196282 original size:12 final size:12
Alignment explanation
Indices: 196247--196288 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
196237 ATTTCAATTT
196247 TATTTT-AATAA
1 TATTTTAAATAA
196258 TAAATTTTAAAATAA
1 T--ATTTT-AAATAA
196273 TATTTTAAATAA
1 TATTTTAAATAA
196285 TATT
1 TATT
196289 CTTCATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.04
12 10 0.37
13 10 0.37
15 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTTTAAATAA
Found at i:196871 original size:28 final size:28
Alignment explanation
Indices: 196823--196879 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
196813 TGTAATTTAA
196823 ATTAAGTTTTACATAAGCATT-ATTTATT
1 ATTAAGTTTTACATAAGCATTGA-TTATT
* *
196851 ATTAAG-TTTATATATGACATTGATTATT
1 ATTAAGTTTTACATAAG-CATTGATTATT
196879 A
1 A
196880 CAAAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 8 0.32
28 16 0.64
29 1 0.04
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (28 bp):
ATTAAGTTTTACATAAGCATTGATTATT
Found at i:197159 original size:18 final size:18
Alignment explanation
Indices: 197133--197168 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
197123 ATATTCATTT
*
197133 AAATGTTAAAAAATATTA
1 AAATGTTAAAAAAAATTA
*
197151 AAATTTTAAAAAAAATTA
1 AAATGTTAAAAAAAATTA
197169 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AAATGTTAAAAAAAATTA
Found at i:197174 original size:17 final size:18
Alignment explanation
Indices: 197154--197192 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
197144 AATATTAAAA
197154 TTTTAAAAA-AAATTATT
1 TTTTAAAAATAAATTATT
197171 TTTTAAAAATAAATTATT
1 TTTTAAAAATAAATTATT
197189 TTTT
1 TTTT
197193 TGATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTAAAAATAAATTATT
Found at i:201640 original size:29 final size:29
Alignment explanation
Indices: 201584--201642 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
201574 TCACTTTATA
*
201584 TATTTTTGAAATTTTTATTACTTTTATTT
1 TATTTTTGAAATTTTTATAACTTTTATTT
* *
201613 TATTTTT-AATTTTTTATAATTTTCTATTT
1 TATTTTTGAAATTTTTATAACTTT-TATTT
201642 T
1 T
201643 TAAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (29 bp):
TATTTTTGAAATTTTTATAACTTTTATTT
Found at i:203133 original size:29 final size:29
Alignment explanation
Indices: 203087--203159 Score: 119
Period size: 29 Copynumber: 2.4 Consensus size: 29
203077 GTGATGGTAC
203087 AAATGAGTAGTTTTGTGAAAATAAAATAAG
1 AAAT-AGTAGTTTTGTGAAAATAAAATAAG
203117 AAATAGTAGTTTTGTGAAAATAAAATAAG
1 AAATAGTAGTTTTGTGAAAATAAAATAAG
*
203146 AAATATGAAGTTTT
1 AAATA-GTAGTTTT
203160 TCACTAAGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 30 0.73
30 11 0.27
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (29 bp):
AAATAGTAGTTTTGTGAAAATAAAATAAG
Found at i:209655 original size:9 final size:9
Alignment explanation
Indices: 209641--209676 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
209631 ATTTTCGAAT
*
209641 TCGAATAAC
1 TCGAATAAA
*
209650 TCGAATAAT
1 TCGAATAAA
209659 TCGAATAAA
1 TCGAATAAA
209668 TCGAATAAA
1 TCGAATAAA
209677 ACTATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (9 bp):
TCGAATAAA
Found at i:209659 original size:18 final size:18
Alignment explanation
Indices: 209638--209675 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
209628 TGAATTTTCG
*
209638 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
209656 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
209674 AA
1 AA
209676 AACTATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:209852 original size:33 final size:34
Alignment explanation
Indices: 209810--209884 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 34
209800 CATAAACTAA
*
209810 ACCCAAATATTTTTAA-CTTTTA-CATTTTATCTT
1 ACCCAAATATTTTTAATCTTTTATC-TTTTACCTT
*
209843 ACCCAAATATTTTTAATTTTTTATCTTTTACCTT
1 ACCCAAATATTTTTAATCTTTTATCTTTTACCTT
209877 ACCCAAAT
1 ACCCAAAT
209885 GTTGTTTACT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 16 0.42
34 21 0.55
35 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (34 bp):
ACCCAAATATTTTTAATCTTTTATCTTTTACCTT
Found at i:212160 original size:15 final size:16
Alignment explanation
Indices: 212119--212160 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
212109 TTTTCATGTT
212119 AAAGGACTAAAATATA
1 AAAGGACTAAAATATA
* * *
212135 AAAGTAGTAAAA-GTA
1 AAAGGACTAAAATATA
212150 AAAGGACTAAA
1 AAAGGACTAAA
212161 TTGAATCAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.62, C:0.05, G:0.17, T:0.17
Consensus pattern (16 bp):
AAAGGACTAAAATATA
Found at i:212690 original size:28 final size:28
Alignment explanation
Indices: 212652--212706 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
212642 TGAGCAGCAT
*
212652 CATGACCTTTGGGTCAATAGGGAGTAAG
1 CATGACCTTTGGGTCAACAGGGAGTAAG
*
212680 CATGACCTTTGGGTCGACAGGGAGTAA
1 CATGACCTTTGGGTCAACAGGGAGTAA
212707 ATTGGATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (28 bp):
CATGACCTTTGGGTCAACAGGGAGTAAG
Found at i:215744 original size:35 final size:36
Alignment explanation
Indices: 215696--215764 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
215686 CCAAAAGTTA
*
215696 CAAAATGGGAAT-GGGATGAGGCCTCAACTGAATTG
1 CAAAATGGAAATGGGGATGAGGCCTCAACTGAATTG
215731 CAAAATGGAAATGGGGATGAGGCCTCAACTGAAT
1 CAAAATGGAAATGGGGATGAGGCCTCAACTGAAT
215765 GTGGTGTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.19
Consensus pattern (36 bp):
CAAAATGGAAATGGGGATGAGGCCTCAACTGAATTG
Found at i:217008 original size:25 final size:25
Alignment explanation
Indices: 216980--217045 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
216970 CTTCCAGAAT
*
216980 TTAGCTCATACGAGCCTAGA-AAAGG
1 TTAGCTCTTACGAGCCTAGATAAA-G
217005 TTAGCTCTTACGAGCCTAGATAAAG
1 TTAGCTCTTACGAGCCTAGATAAAG
*
217030 TTAGCTCTTACAAGCC
1 TTAGCTCTTACGAGCC
217046 CAAACAAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 35 0.92
26 3 0.08
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (25 bp):
TTAGCTCTTACGAGCCTAGATAAAG
Found at i:217054 original size:25 final size:25
Alignment explanation
Indices: 217004--217056 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
216994 CCTAGAAAAG
* * * *
217004 GTTAGCTCTTACGAGCCTAGATAAA
1 GTTAGCTCTTACAAGCCCAAACAAA
217029 GTTAGCTCTTACAAGCCCAAACAAA
1 GTTAGCTCTTACAAGCCCAAACAAA
217054 GTT
1 GTT
217057 TAACTAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (25 bp):
GTTAGCTCTTACAAGCCCAAACAAA
Found at i:225365 original size:32 final size:32
Alignment explanation
Indices: 225306--225375 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
225296 TTTGGTTCAC
*
225306 TGTAATGGAATAAGGCTATAATGGAATAGAGT
1 TGTAATGGAATAAGGCTATAATGGAATAGAAT
* * *
225338 TGTATTGGAA-AAGGGCTGTAATTGAATAGAAT
1 TGTAATGGAATAA-GGCTATAATGGAATAGAAT
225370 TGTAAT
1 TGTAAT
225376 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 2 0.06
32 30 0.94
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.31
Consensus pattern (32 bp):
TGTAATGGAATAAGGCTATAATGGAATAGAAT
Found at i:232716 original size:26 final size:26
Alignment explanation
Indices: 232680--232729 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
232670 TAGAAAAATT
*
232680 ATTAAATTTTAATAAAAATATAAAAA
1 ATTAAAATTTAATAAAAATATAAAAA
* *
232706 ATTAAAATTTATTAAAAATTTAAA
1 ATTAAAATTTAATAAAAATATAAA
232730 TTTTTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
ATTAAAATTTAATAAAAATATAAAAA
Found at i:232724 original size:17 final size:18
Alignment explanation
Indices: 232697--232742 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
232687 TTTAATAAAA
232697 ATATAAAAAATTAAAATTT
1 ATAT-AAAAATTAAAATTT
*
232716 AT-TAAAAATTTAAATTT
1 ATATAAAAATTAAAATTT
*
232733 TTATAAAAAT
1 ATATAAAAAT
232743 CATAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 14 0.58
18 8 0.33
19 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAAAAATTAAAATTT
Found at i:232767 original size:45 final size:44
Alignment explanation
Indices: 232656--232772 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 44
232646 AAAAAGTTAC
*
232656 AAAAAAATAAATTTTAG-AAAAATTATTAAATTTTAATAAAAATAT
1 AAAAAAATAAAATTTAGTAAAAA-T-TTAAATTTTAATAAAAATAT
* * *
232701 AAAAAATTAAAATTTATTAAAAATTTAAATTTTTATAAAAATCAT
1 AAAAAAATAAAATTTAGTAAAAATTTAAATTTTAATAAAAAT-AT
*
232746 AAAAAAATAAAAATTT-GTAAAATTTTA
1 AAAAAAAT-AAAATTTAGTAAAAATTTA
232773 CAGAAATCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 17 0.27
45 33 0.53
46 12 0.19
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.37
Consensus pattern (44 bp):
AAAAAAATAAAATTTAGTAAAAATTTAAATTTTAATAAAAATAT
Found at i:232768 original size:44 final size:44
Alignment explanation
Indices: 232657--232772 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 44
232647 AAAAGTTACA
*
232657 AAAAAAT-AAATTTTAG-AAAAATTATTAAATTTTAATAAAAATAT
1 AAAAAATAAAAATTTAGTAAAAA-T-TTAAATTTTAATAAAAATAT
* * *
232701 AAAAAATTAAAATTTATTAAAAATTTAAATTTTTATAAAAATCAT
1 AAAAAATAAAAATTTAGTAAAAATTTAAATTTTAATAAAAAT-AT
*
232746 AAAAAAATAAAAATTT-GTAAAATTTTA
1 -AAAAAATAAAAATTTAGTAAAAATTTA
232773 CAGAAATCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
44 24 0.39
45 19 0.31
46 19 0.31
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (44 bp):
AAAAAATAAAAATTTAGTAAAAATTTAAATTTTAATAAAAATAT
Found at i:232772 original size:37 final size:35
Alignment explanation
Indices: 232718--232789 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 35
232708 TAAAATTTAT
* *
232718 TAAAAATTTAAATTTTTATAAAAATCATAAAAAAA
1 TAAAAATTTAAAATTTTACAAAAATCATAAAAAAA
*
232753 TAAAAATTTGTAAAATTTTACAGAAATCATAAAAAAA
1 TAAAAA-TT-TAAAATTTTACAAAAATCATAAAAAAA
232790 AATATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 6 0.19
36 2 0.06
37 24 0.75
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (35 bp):
TAAAAATTTAAAATTTTACAAAAATCATAAAAAAA
Done.