Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 90 of 117
Found at i:16264766 original size:14 final size:13
Alignment explanation
Indices: 16264749--16264792 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
16264739 TCCTCATTTA
16264749 TTTTTTTATTCTTC
1 TTTTTTTATTC-TC
*
16264763 TTTTTTTTTTCTC
1 TTTTTTTATTCTC
*
16264776 TTTTTTCATTTCTC
1 TTTTTTTA-TTCTC
16264790 TTT
1 TTT
16264793 CTTCGTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTATTCTC
Found at i:16267105 original size:17 final size:17
Alignment explanation
Indices: 16267083--16267116 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16267073 CAGTTCCACA
16267083 TCCTTGTTGCCTTTTTT
1 TCCTTGTTGCCTTTTTT
16267100 TCCTTGTTGCCTTTTTT
1 TCCTTGTTGCCTTTTTT
16267117 CATGGCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.12, T:0.65
Consensus pattern (17 bp):
TCCTTGTTGCCTTTTTT
Found at i:16268759 original size:28 final size:27
Alignment explanation
Indices: 16268685--16268759 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 27
16268675 TTCAAATGTT
16268685 TTTACATAATTTATATTATA-AAAATGAA
1 TTTA-ATAATTTA-ATTATATAAAATGAA
** * *
16268713 TTTACCAA-TTAATAAATATATAAATTAA
1 TTTAATAATTTAAT-TATATA-AAATGAA
16268741 TTTAATAATTTAATTATAT
1 TTTAATAATTTAATTATAT
16268760 TTTACAAACT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
25 2 0.06
26 6 0.17
27 3 0.08
28 20 0.56
29 5 0.14
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (27 bp):
TTTAATAATTTAATTATATAAAATGAA
Found at i:16268970 original size:17 final size:17
Alignment explanation
Indices: 16268950--16269002 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
16268940 ATAAAGAGTG
*
16268950 ATAAAATCATTTTAATA
1 ATAAAATTATTTTAATA
*
16268967 ATAAAATTATTTCAATA
1 ATAAAATTATTTTAATA
* *
16268984 ATTAAATTATTATAATA
1 ATAAAATTATTTTAATA
16269001 AT
1 AT
16269003 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAAAATTATTTTAATA
Found at i:16270268 original size:28 final size:29
Alignment explanation
Indices: 16270237--16270294 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
16270227 AGTTCTTACA
* *
16270237 TTTTT-ATTGTA-CTAAATAAATTTTTAT
1 TTTTTAATTGTATATAAATAAACTTTTAT
*
16270264 TTTTTAATTGTATATAAATAAGCTTTTAT
1 TTTTTAATTGTATATAAATAAACTTTTAT
16270293 TT
1 TT
16270295 CAAACAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 5 0.19
28 6 0.23
29 15 0.58
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (29 bp):
TTTTTAATTGTATATAAATAAACTTTTAT
Found at i:16270403 original size:30 final size:30
Alignment explanation
Indices: 16270336--16270403 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
16270326 ATTTAGGTAT
*
16270336 AAATTAAAAGTTAAGACCATAGTTGGATAC
1 AAATTAAAAGTTAAGAACATAGTTGGATAC
* * * * * *
16270366 AATTTAAAATTTAAGAACTTATTTGGGTGC
1 AAATTAAAAGTTAAGAACATAGTTGGATAC
16270396 AAATTAAA
1 AAATTAAA
16270404 GATTGAGAGC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (30 bp):
AAATTAAAAGTTAAGAACATAGTTGGATAC
Found at i:16274179 original size:12 final size:12
Alignment explanation
Indices: 16274164--16274189 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16274154 AAGAAAAGTG
16274164 AAAAAAAAACAA
1 AAAAAAAAACAA
16274176 AAAAAAAAACAA
1 AAAAAAAAACAA
16274188 AA
1 AA
16274190 TGACATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:16277513 original size:6 final size:5
Alignment explanation
Indices: 16277500--16277600 Score: 58
Period size: 6 Copynumber: 17.8 Consensus size: 5
16277490 ATAAAACAAT
*
16277500 AAATA AAATCA AAACTT AAATA AGAAGTA AAATA AAATA AATATA AATATA
1 AAATA AAAT-A AAA-TA AAATA A-AA-TA AAATA AAATA AA-ATA AA-ATA
** *
16277551 AATATA AATATA TTGATA AAGATA AAATA AAGATA AATATA ACATA AAAT
1 AA-ATA AA-ATA -AAATA AA-ATA AAATA AA-ATA AA-ATA AAATA AAAT
16277601 TATAAAATAA
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
5 26 0.33
6 49 0.62
7 4 0.05
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (5 bp):
AAATA
Found at i:16277551 original size:12 final size:12
Alignment explanation
Indices: 16277527--16277613 Score: 78
Period size: 12 Copynumber: 7.5 Consensus size: 12
16277517 AAATAAGAAG
16277527 TAAA-ATAAA-A
1 TAAATATAAATA
16277537 TAAATATAAATA
1 TAAATATAAATA
16277549 TAAATATAAATA
1 TAAATATAAATA
* *
16277561 T-ATTGATAAAGA
1 TAAAT-ATAAATA
*
16277573 TAAA-ATAAAGA
1 TAAATATAAATA
16277584 TAAATATAACATA
1 TAAATATAA-ATA
16277597 -AAATTATAAA-A
1 TAAA-TATAAATA
16277608 TAAATA
1 TAAATA
16277614 ACAATATATA
Statistics
Matches: 65, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
10 4 0.06
11 21 0.32
12 32 0.49
13 8 0.12
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (12 bp):
TAAATATAAATA
Found at i:16277611 original size:41 final size:40
Alignment explanation
Indices: 16277527--16277619 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 40
16277517 AAATAAGAAG
* **
16277527 TAAAATAAAATAAATATAAATATAAATATAAATATATTGA
1 TAAAATAAAATAAAGATAAATATAAATATAAATATATAAA
16277567 TAAAGATAAAATAAAGATAAATATAACATA-AAAT-TATAAA
1 TAAA-ATAAAATAAAGATAAATATAA-ATATAAATATATAAA
16277607 -ATAAATAACAATA
1 TA-AAATAA-AATA
16277620 TATAAAACAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
39 5 0.11
40 14 0.30
41 24 0.52
42 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (40 bp):
TAAAATAAAATAAAGATAAATATAAATATAAATATATAAA
Found at i:16277623 original size:19 final size:18
Alignment explanation
Indices: 16277583--16277626 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
16277573 TAAAATAAAG
16277583 ATAAATATAACATAAAATT
1 ATAAA-ATAACATAAAATT
16277602 ATAAAATAA-ATAACAATAT
1 ATAAAATAACATAA-AAT-T
16277621 ATAAAA
1 ATAAAA
16277627 CAATATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.17
18 7 0.30
19 12 0.52
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAATAACATAAAATT
Found at i:16277634 original size:14 final size:13
Alignment explanation
Indices: 16277607--16277642 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
16277597 AAATTATAAA
16277607 ATAAATAACAATAT
1 ATAAA-AACAATAT
16277621 AT-AAAACAATAT
1 ATAAAAACAATAT
16277633 ATAAAAACAA
1 ATAAAAACAA
16277643 AGATTGGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.48
13 9 0.43
14 2 0.10
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAAAAACAATAT
Found at i:16277870 original size:39 final size:39
Alignment explanation
Indices: 16277827--16277908 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
16277817 AGACTTCTCA
* * * *
16277827 AAAATAGAGGTACACGACTTTAAAAATTAAAGCTTTTCT
1 AAAATAGAGGCACACAACTTTAAAAAATAAAGCTTTTCC
* * *
16277866 AAAATTGAGGCATACAACTTTAAAAAATAAGGCTTTTCC
1 AAAATAGAGGCACACAACTTTAAAAAATAAAGCTTTTCC
16277905 AAAA
1 AAAA
16277909 CTAAAAGATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (39 bp):
AAAATAGAGGCACACAACTTTAAAAAATAAAGCTTTTCC
Found at i:16277950 original size:41 final size:40
Alignment explanation
Indices: 16277875--16277971 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
16277865 TAAAATTGAG
*
16277875 GCATACAAC-TTT-AAAAAATAAGGCTTTTCCAAAACTAAAA
1 GCATACAACTTTTAAAAAAATAAGGCTTCTCCAAAAC--AAA
*
16277915 G-ATACAACTTTTAAAAAAATAAGG-TTCCTCTAAAACAAA
1 GCATACAACTTTTAAAAAAATAAGGCTT-CTCCAAAACAAA
* *
16277954 GCACATAACTTTTAAAAA
1 GCATACAACTTTTAAAAA
16277972 TAAGACTCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
39 11 0.22
40 20 0.41
41 18 0.37
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (40 bp):
GCATACAACTTTTAAAAAAATAAGGCTTCTCCAAAACAAA
Found at i:16278058 original size:32 final size:32
Alignment explanation
Indices: 16278022--16278082 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
16278012 TAGCCCCCTA
16278022 AAACTAAGGT-AAACAACTTTAAAAATTAAATT
1 AAACTAA-GTCAAACAACTTTAAAAATTAAATT
* * *
16278054 AAACTGAGTCATATAACTTTAAAAATTAA
1 AAACTAAGTCAAACAACTTTAAAAATTAA
16278083 GAAAAACTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.08
32 23 0.92
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.30
Consensus pattern (32 bp):
AAACTAAGTCAAACAACTTTAAAAATTAAATT
Found at i:16278490 original size:15 final size:16
Alignment explanation
Indices: 16278459--16278491 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16278449 GCAATGTATG
16278459 TAATGCAATTGTCAAT
1 TAATGCAATTGTCAAT
*
16278475 TAATGC-ATTTTCAAT
1 TAATGCAATTGTCAAT
16278490 TA
1 TA
16278492 TGGTACATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (16 bp):
TAATGCAATTGTCAAT
Found at i:16279199 original size:12 final size:12
Alignment explanation
Indices: 16279182--16279208 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16279172 GGTCTTGTTT
16279182 TTTTTTTTTTTC
1 TTTTTTTTTTTC
16279194 TTTTTTTTTTTC
1 TTTTTTTTTTTC
16279206 TTT
1 TTT
16279209 CCATGCAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:16279200 original size:16 final size:16
Alignment explanation
Indices: 16279179--16279209 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16279169 TTGGGTCTTG
16279179 TTTTTTTTTTT-TTTC
1 TTTTTTTTTTTCTTTC
16279194 TTTTTTTTTTTCTTTC
1 TTTTTTTTTTTCTTTC
16279210 CATGCAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTTTCTTTC
Found at i:16283156 original size:22 final size:21
Alignment explanation
Indices: 16283116--16283156 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
16283106 TGAGATTTGC
*
16283116 CATCTTTTTTTTCTCTATAAG
1 CATCTTTTTTTCCTCTATAAG
*
16283137 CATCTTTCTTTTCCTTTATA
1 CATCTTT-TTTTCCTCTATA
16283157 TTGTCGACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.17, C:0.22, G:0.02, T:0.59
Consensus pattern (21 bp):
CATCTTTTTTTCCTCTATAAG
Found at i:16288187 original size:21 final size:19
Alignment explanation
Indices: 16288136--16288187 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
16288126 AAGTTTGTCG
16288136 AAAACAAA-AGTTTTCATCA
1 AAAACAAAGA-TTTTCATCA
*
16288155 AAAACTAAGATTTTCATCA
1 AAAACAAAGATTTTCATCA
16288174 AAAATTCAAAGATT
1 AAAA--CAAAGATT
16288188 GTTCGATATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 20 0.71
20 1 0.04
21 7 0.25
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAACAAAGATTTTCATCA
Found at i:16293935 original size:8 final size:8
Alignment explanation
Indices: 16293895--16293953 Score: 55
Period size: 8 Copynumber: 6.8 Consensus size: 8
16293885 ATCAGTAAAT
16293895 GAAAAAAA
1 GAAAAAAA
*
16293903 TAAAAAATA
1 GAAAAAA-A
*
16293912 AAAAAAAA
1 GAAAAAAA
16293920 TGAAAAAAAAA
1 -G--AAAAAAA
16293931 GAAAAAAA
1 GAAAAAAA
16293939 GAAAAAAGA
1 GAAAAAA-A
16293948 GAAAAA
1 GAAAAA
16293954 GGACAATTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
8 21 0.49
9 14 0.33
10 1 0.02
11 7 0.16
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (8 bp):
GAAAAAAA
Found at i:16293950 original size:17 final size:17
Alignment explanation
Indices: 16293895--16293953 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
16293885 ATCAGTAAAT
*
16293895 GAAAAAAATAAAAAATAA
1 GAAAAAAAGAAAAAA-AA
16293913 -AAAAAAATGAAAAAAAAA
1 GAAAAAAA-G-AAAAAAAA
*
16293931 GAAAAAAAGAAAAAAGA
1 GAAAAAAAGAAAAAAAA
16293948 GAAAAA
1 GAAAAA
16293954 GGACAATTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 20 0.56
18 3 0.08
19 13 0.36
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (17 bp):
GAAAAAAAGAAAAAAAA
Found at i:16293986 original size:11 final size:10
Alignment explanation
Indices: 16293904--16293990 Score: 65
Period size: 10 Copynumber: 8.6 Consensus size: 10
16293894 TGAAAAAAAT
*
16293904 AAAAAATAAA
1 AAAAAATGAA
16293914 AAAAAATGAA
1 AAAAAATGAA
*
16293924 AAAAAAAG-A
1 AAAAAATGAA
16293933 AAAAAA-GAA
1 AAAAAATGAA
*
16293942 AAAAGA-GAA
1 AAAAAATGAA
16293951 AAAGGACAATTG-A
1 AAA--A-AA-TGAA
*
16293964 AAAGAATGAA
1 AAAAAATGAA
16293974 AAAAAATGTAA
1 AAAAAATG-AA
16293985 AAAAAA
1 AAAAAA
16293991 AAGACTCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
8 1 0.02
9 21 0.33
10 26 0.41
11 9 0.14
12 1 0.02
13 4 0.06
14 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.13, T:0.08
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:16294109 original size:21 final size:21
Alignment explanation
Indices: 16294077--16294125 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
16294067 ATAATGTGTA
16294077 AATTTAATCCAATTTTATATTG
1 AATTT-ATCCAATTTTATATTG
16294099 AATTTATCCAATTTTATATTG
1 AATTTATCCAATTTTATATTG
16294120 -ATTTAT
1 AATTTAT
16294126 TCATTGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 6 0.22
21 16 0.59
22 5 0.19
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (21 bp):
AATTTATCCAATTTTATATTG
Found at i:16296007 original size:32 final size:31
Alignment explanation
Indices: 16295966--16296028 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
16295956 AGCACTCTAC
* *
16295966 TTTTTTGTTCTTTAAATTTATGCAACTTTAA
1 TTTTTTGTTCATTAAATTTAAGCAACTTTAA
*
16295997 TTTTCTTGTTCATTAATTTTAAGCAACTTTAA
1 TTTT-TTGTTCATTAAATTTAAGCAACTTTAA
16296029 ATTCATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.27, C:0.11, G:0.06, T:0.56
Consensus pattern (31 bp):
TTTTTTGTTCATTAAATTTAAGCAACTTTAA
Found at i:16296094 original size:34 final size:33
Alignment explanation
Indices: 16296051--16296114 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
16296041 TACTTTCTTG
*
16296051 TTTATTTTTC-TAGCACTTTAAATTTTCCTTGGAA
1 TTTAATTTTCATAGCACTTT-AA-TTTCCTTGGAA
*
16296085 TTTAATTTTCATAGCTCTTTAATTTCCTTG
1 TTTAATTTTCATAGCACTTTAATTTCCTTG
16296115 CATTTTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 8 0.30
34 11 0.41
35 8 0.30
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.55
Consensus pattern (33 bp):
TTTAATTTTCATAGCACTTTAATTTCCTTGGAA
Found at i:16297392 original size:3 final size:3
Alignment explanation
Indices: 16297384--16297437 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
16297374 TTAGATTCTT
16297384 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TT- TTA CTTA CTT- TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA
*
16297430 TTT TTA TT
1 TTA TTA TT
16297438 TTTCCTATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 4 0.09
3 32 0.71
4 9 0.20
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:16309459 original size:32 final size:32
Alignment explanation
Indices: 16309379--16309470 Score: 80
Period size: 31 Copynumber: 2.9 Consensus size: 32
16309369 CACATGATTA
* *
16309379 GTGGTTTTATCTCGATCA-TTTATTTTTGACT
1 GTGGTTTCATCTCGGTCACTTTATTTTTGACT
* ** * *
16309410 TTGACTTGATCTTGGTCACTTTA-TTTTGACT
1 GTGGTTTCATCTCGGTCACTTTATTTTTGACT
* *
16309441 CGTGGTTTCATCTCGGTCACATGATTTTTG
1 -GTGGTTTCATCTCGGTCACTTTATTTTTG
16309471 GTTTCATCTG
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
31 20 0.44
32 20 0.44
33 5 0.11
ACGTcount: A:0.15, C:0.16, G:0.18, T:0.50
Consensus pattern (32 bp):
GTGGTTTCATCTCGGTCACTTTATTTTTGACT
Found at i:16309725 original size:89 final size:88
Alignment explanation
Indices: 16309193--16309717 Score: 493
Period size: 89 Copynumber: 5.9 Consensus size: 88
16309183 GATCATTCCT
* * * * *
16309193 CATGATTCATGGTTTCGTCCAGATTATTTATTCTCGACCTCGACTC-AGTCTTGGTCATTTTATT
1 CATGATTCATGGTTTCATCCCGATCATTTATTTTC-ACCTCGACTCGA-TCCTGGTCATTTTATT
*
16309257 TTGACTCGTAGTTTCATCCCGATCA
64 TTGACTCGTGGTTTCATCCCGATCA
** ** * * * * *
16309282 CATGATTTGTGGTTTCGCCCCGATCATTTAGTCTCGACCTTGACTC-AGTCTTGATCATTTTATT
1 CATGATTCATGGTTTCATCCCGATCATTTATTTTC-ACCTCGACTCGA-TCCTGGTCATTTTATT
* *
16309346 TCGACTCGTGGCTTCATCCCGATCA
64 TTGACTCGTGGTTTCATCCCGATCA
* * * * * * * *
16309371 CATGATT-AGTGGTTTTATCTCGATCATTTATTTTTGACTTTGACTTGATCTTGGTCACTTTATT
1 CATGATTCA-TGGTTTCATCCCGATCATTTA-TTTTCACCTCGACTCGATCCTGGTCATTTTATT
* *
16309435 TTGACTCGTGGTTTCATCTCGGTCA
64 TTGACTCGTGGTTTCATCCCGATCA
** * * * * *
16309460 CATGATTTTTGGTTTCAT-CTGGTCATTCATTTTCATCCTCGACACGATCCTGGTCGTTTTATTT
1 CATGATTCATGGTTTCATCCCGATCATTTATTTTCA-CCTCGACTCGATCCTGGTCATTTTATTT
*
16309524 TGACTCATGGTTTCGA-CCCGATCA
65 TGACTCGTGGTTTC-ATCCCGATCA
* * * * * *
16309548 CATGATTCATGGTTTTATCTCGGTTATTTATTTTCAACATCGACTCGATCCTGGTTATTTTATTT
1 CATGATTCATGGTTTCATCCCGATCATTTATTTTC-ACCTCGACTCGATCCTGGTCATTTTATTT
* * *
16309613 TGACTTGTGATTTCATCCCGGTCA
65 TGACTCGTGGTTTCATCCCGATCA
* * *
16309637 CATGATTCATGGTTTCATCCCGATCATTAATTTTCATCCTCAACTCGATCCTGGTCGTTTTATTT
1 CATGATTCATGGTTTCATCCCGATCATTTATTTTCA-CCTCGACTCGATCCTGGTCATTTTATTT
*
16309702 CGACTCGTGGTTTCAT
65 TGACTCGTGGTTTCAT
16309718 TCTGGTCATT
Statistics
Matches: 355, Mismatches: 71, Indels: 20
0.80 0.16 0.04
Matches are distributed among these distances:
87 5 0.01
88 64 0.18
89 282 0.79
90 4 0.01
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (88 bp):
CATGATTCATGGTTTCATCCCGATCATTTATTTTCACCTCGACTCGATCCTGGTCATTTTATTTT
GACTCGTGGTTTCATCCCGATCA
Found at i:16309752 original size:152 final size:152
Alignment explanation
Indices: 16309589--16309869 Score: 366
Period size: 152 Copynumber: 1.8 Consensus size: 152
16309579 TTTCAACATC
* * * ** *
16309589 GACTCGATCCTGGTTATTTTATTTTGACTTGTGATTTCATCCCGGTCACATGATTCATGGTTTCA
1 GACTCGATCCTGGTCACTTTATTTCGACTCATGATTTCATCCCGATCACATGATTCATGGTTTCA
* ** *
16309654 TCCCGATCATTAATTTTCATCC-TCAACTCGATCCTGGTCGTTTTATTTCGACTCGTGGTTTCAT
66 TCCCGATCATTAATTTTCAACCTTCAA-TCGATCCTGGTCACTTTATTTCGACTCGTGATTTCAT
16309718 TCTGGTCATTCATTTTTTACCTT
130 TCTGGTCATTCATTTTTTACCTT
* * * **
16309741 GACTTGATCCTGGTCACTTTATTTCGACTCATGGTTTCATCGCGATCACATGATTCATGGTTTTG
1 GACTCGATCCTGGTCACTTTATTTCGACTCATGATTTCATCCCGATCACATGATTCATGGTTTCA
* * * * *
16309806 TCTCGGTCATTCATTTTCAACCTTGAATCGGTCCTGGTCACTTTATTTCGACTCGTGATTTCAT
66 TCCCGATCATTAATTTTCAACCTTCAATCGATCCTGGTCACTTTATTTCGACTCGTGATTTCAT
16309870 CCTAGTCACA
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
152 105 0.97
153 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.43
Consensus pattern (152 bp):
GACTCGATCCTGGTCACTTTATTTCGACTCATGATTTCATCCCGATCACATGATTCATGGTTTCA
TCCCGATCATTAATTTTCAACCTTCAATCGATCCTGGTCACTTTATTTCGACTCGTGATTTCATT
CTGGTCATTCATTTTTTACCTT
Found at i:16309868 original size:89 final size:89
Alignment explanation
Indices: 16309721--16309888 Score: 248
Period size: 89 Copynumber: 1.9 Consensus size: 89
16309711 GTTTCATTCT
** * * *
16309721 GGTCATTCATTTTTTACCTTGACTTGATCCTGGTCACTTTATTTCGACTCATGGTTTCATCGCGA
1 GGTCATTCATTTTCAACCTTGAATCGATCCTGGTCACTTTATTTCGACTCATGATTTCATC-CGA
16309786 -TCACATGATTCATGGTTTTGTCTC
65 GTCACATGATTCATGGTTTTGTCTC
* * *
16309810 GGTCATTCATTTTCAACCTTGAATCGGTCCTGGTCACTTTATTTCGACTCGTGATTTCATCCTAG
1 GGTCATTCATTTTCAACCTTGAATCGATCCTGGTCACTTTATTTCGACTCATGATTTCATCCGAG
16309875 TCACATGATTCATG
66 TCACATGATTCATG
16309889 TTTCATGAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
88 2 0.03
89 68 0.97
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (89 bp):
GGTCATTCATTTTCAACCTTGAATCGATCCTGGTCACTTTATTTCGACTCATGATTTCATCCGAG
TCACATGATTCATGGTTTTGTCTC
Found at i:16310442 original size:26 final size:26
Alignment explanation
Indices: 16310385--16310442 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
16310375 TTCTGATCCT
* * *
16310385 GACCTAATTGGGCCCATTTTGGTCTA
1 GACCTAATTGGACCCATCTTGGTCGA
*
16310411 GGCCTAATTGGACCCATCTTGAGTCGA
1 GACCTAATTGGACCCATCTTG-GTCGA
16310438 -ACCTA
1 GACCTA
16310443 GCTGGGCCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (26 bp):
GACCTAATTGGACCCATCTTGGTCGA
Found at i:16310525 original size:3 final size:3
Alignment explanation
Indices: 16310517--16310581 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
16310507 TATTTTTGTT
*
16310517 ATC ATC ATC ATC ATT ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
16310565 ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC AT
16310582 TATTATTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:16310586 original size:3 final size:3
Alignment explanation
Indices: 16310580--16310636 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
16310570 CATCATCATC
* *
16310580 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
16310628 TTT ATT ATT
1 ATT ATT ATT
16310637 TTTGTTTTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:16310651 original size:21 final size:21
Alignment explanation
Indices: 16310587--16310650 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
16310577 ATCATTATTA
* * *
16310587 TTATTATTATTATTATTATTA
1 TTATTATTATTATTTTTCTTT
16310608 TTATTATTATTATTTTTCTTT
1 TTATTATTATTATTTTTCTTT
16310629 TTATTATT-TT-TGTTTTCTTT
1 TTATTATTATTAT-TTTTCTTT
16310649 TT
1 TT
16310651 TTGCTTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.03
20 12 0.31
21 26 0.67
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (21 bp):
TTATTATTATTATTTTTCTTT
Found at i:16311030 original size:10 final size:10
Alignment explanation
Indices: 16311015--16311052 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
16311005 TCATCTGAAA
16311015 ATTTTTTTAG
1 ATTTTTTTAG
*
16311025 ATTTTTTTTG
1 ATTTTTTTAG
16311035 AATTTTTTTAG
1 -ATTTTTTTAG
16311046 ATTTTTT
1 ATTTTTT
16311053 GGGTTTGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (10 bp):
ATTTTTTTAG
Found at i:16311032 original size:11 final size:11
Alignment explanation
Indices: 16311016--16311052 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
16311006 CATCTGAAAA
16311016 TTTTTTTAGAT
1 TTTTTTTAGAT
*
16311027 TTTTTTT-GAA
1 TTTTTTTAGAT
16311037 TTTTTTTAGAT
1 TTTTTTTAGAT
16311048 TTTTT
1 TTTTT
16311053 GGGTTTGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTTTAGAT
Found at i:16311437 original size:19 final size:19
Alignment explanation
Indices: 16311409--16311445 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16311399 TAATCGTAGG
*
16311409 TTTTTCTTTTTTCATTTTC
1 TTTTTATTTTTTCATTTTC
*
16311428 TTTTTATTTTTTGATTTT
1 TTTTTATTTTTTCATTTT
16311446 GATTTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTTTATTTTTTCATTTTC
Found at i:16311451 original size:20 final size:18
Alignment explanation
Indices: 16311409--16311465 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
16311399 TAATCGTAGG
* *
16311409 TTTTTCTTTTTTCATTTTC
1 TTTTTATTTTTT-ATTTTA
16311428 TTTTTATTTTTTGATTTTGA
1 TTTTTATTTTTT-ATTTT-A
*
16311448 TTTTAATTTATTTATTTT
1 TTTTTATTT-TTTATTTT
16311466 TAACCATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 16 0.50
20 13 0.41
21 3 0.09
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTTTATTTTA
Found at i:16322104 original size:3 final size:3
Alignment explanation
Indices: 16322082--16322134 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
16322072 AAATAGGAAA
*
16322082 AAT AAA AAT AA- AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16322127 AAT AAT AA
1 AAT AAT AA
16322135 CAGAATCTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:16323563 original size:32 final size:31
Alignment explanation
Indices: 16323505--16323567 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
16323495 TTTCATGAAT
*
16323505 TTAAAGTTGCTTAAAATTAATAAACAAGAAAA
1 TTAAAGTTGCATAAAATTAATAAACAA-AAAA
*
16323537 TTAAAGTTGCATAAATTTAA-AGAACAAAAAA
1 TTAAAGTTGCATAAAATTAATA-AACAAAAAA
16323568 GTAGAGTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (31 bp):
TTAAAGTTGCATAAAATTAATAAACAAAAAA
Found at i:16325052 original size:135 final size:134
Alignment explanation
Indices: 16324811--16325062 Score: 414
Period size: 135 Copynumber: 1.9 Consensus size: 134
16324801 ATCCCAACGA
* * *
16324811 AAAGCAAGCCAAACCTAAAATATCAAACTTCATTTATAGAATTTATTGACAACAACCACGTCGAA
1 AAAGCAAGCCAAACCTAAAATATCAAACTTCATTTATAGAATTCAATGACAACAACCACATCGAA
*
16324876 AATACGACACCTAAGTTGAAAGTTCGAAAATCAAGCGGCCATGGCCATGGCCATGTTGGTTCCTC
66 AATACGACACCTAAGTTGAAAGTTCGAAAATCAAGCAGCCATGGCCATGGCCATGTTGGTTCCTC
16324941 ATGG
131 ATGG
*
16324945 AAAGCAAGCCAAACCTAAAGATATCAAACTTCATTTATAGAATTCAATGACACCAACCACATCGA
1 AAAGCAAGCCAAACCTAAA-ATATCAAACTTCATTTATAGAATTCAATGACAACAACCACATCGA
* * * *
16325010 ACATACGACACTTAAGTTGAAAGTTGGAAAATCCAGCAGCCATGGCCATGGCC
65 AAATACGACACCTAAGTTGAAAGTTCGAAAATCAAGCAGCCATGGCCATGGCC
16325063 TTGAATTGGT
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
134 19 0.18
135 89 0.82
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.21
Consensus pattern (134 bp):
AAAGCAAGCCAAACCTAAAATATCAAACTTCATTTATAGAATTCAATGACAACAACCACATCGAA
AATACGACACCTAAGTTGAAAGTTCGAAAATCAAGCAGCCATGGCCATGGCCATGTTGGTTCCTC
ATGG
Found at i:16326380 original size:21 final size:21
Alignment explanation
Indices: 16326342--16326390 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
16326332 AAATCAATGA
* *
16326342 ATAAA-TCAGTATATAATTGG
1 ATAAATTCAATATAAAATTGG
16326362 ATAAATTCAATATAAAATTGG
1 ATAAATTCAATATAAAATTGG
16326383 ATTAAATT
1 A-TAAATT
16326391 TAGACATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.20
21 14 0.56
22 6 0.24
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (21 bp):
ATAAATTCAATATAAAATTGG
Found at i:16328210 original size:14 final size:15
Alignment explanation
Indices: 16328179--16328211 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16328169 AAAATGATAC
16328179 TATTTTATTAATAAA
1 TATTTTATTAATAAA
*
16328194 TATTTTTTTAA-AAA
1 TATTTTATTAATAAA
16328208 TATT
1 TATT
16328212 AATTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTATTAATAAA
Found at i:16328902 original size:16 final size:15
Alignment explanation
Indices: 16328890--16328922 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
16328880 CAAAAAATTT
16328890 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
16328905 AAAAAAAAAAAGAAAG
1 AAAAAAAAAAA-AAAG
16328921 AA
1 AA
16328923 GACAGAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:16328908 original size:12 final size:12
Alignment explanation
Indices: 16328893--16328919 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16328883 AAAATTTAAA
16328893 AAAAAAAAAAAG
1 AAAAAAAAAAAG
16328905 AAAAAAAAAAAG
1 AAAAAAAAAAAG
16328917 AAA
1 AAA
16328920 GAAGACAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:16329729 original size:28 final size:28
Alignment explanation
Indices: 16329698--16329755 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
16329688 TTATTAAATT
16329698 TAATTTTAATTTTTAATTTTTATT-TATA
1 TAATTTTAATTTTTAATTTTT-TTATATA
*
16329726 TAATTTTTATTTTTAATTTTTTTATATA
1 TAATTTTAATTTTTAATTTTTTTATATA
16329754 TA
1 TA
16329756 TGTGAATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (28 bp):
TAATTTTAATTTTTAATTTTTTTATATA
Found at i:16329750 original size:15 final size:13
Alignment explanation
Indices: 16329696--16329746 Score: 75
Period size: 13 Copynumber: 3.8 Consensus size: 13
16329686 TTTTATTAAA
*
16329696 TTTAATTTTAATT
1 TTTAATTTTTATT
16329709 TTTAATTTTTATT
1 TTTAATTTTTATT
16329722 TATATAATTTTTATT
1 T-T-TAATTTTTATT
16329737 TTTAATTTTT
1 TTTAATTTTT
16329747 TTATATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
13 21 0.60
14 2 0.06
15 12 0.34
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTAATTTTTATT
Found at i:16331963 original size:44 final size:43
Alignment explanation
Indices: 16331881--16331963 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 43
16331871 AATTCCATAA
*** * *
16331881 CTTATTTGAAAAGATTTTTTTTTTGGTTTCTTTGTTTTTCAAG
1 CTTATTTGAAAAGATTTTTTTTTAACTCTCTTTCTTTTTCAAG
16331924 CTTATTTGAAAAGACCTTTTTTTTTAACTCT-TTTCTTTTT
1 CTTATTTGAAAAGA--TTTTTTTTTAACTCTCTTTCTTTTT
16331964 TTTCATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
43 14 0.42
44 8 0.24
45 11 0.33
ACGTcount: A:0.19, C:0.11, G:0.10, T:0.60
Consensus pattern (43 bp):
CTTATTTGAAAAGATTTTTTTTTAACTCTCTTTCTTTTTCAAG
Found at i:16332436 original size:23 final size:23
Alignment explanation
Indices: 16332394--16332437 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
16332384 AAAAATTCAT
*
16332394 AAAAAAAAAAACTCATATTTTTC
1 AAAAAAAAAAACTCAGATTTTTC
16332417 AAAAAAAAAAA-TCCAGATTTT
1 AAAAAAAAAAACT-CAGATTTT
16332438 CCCGAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAAAAAAAAACTCAGATTTTTC
Found at i:16332521 original size:21 final size:20
Alignment explanation
Indices: 16332492--16332533 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
16332482 AGAAATTCCT
*
16332492 AGAAACCTAAATCTAAGCCCA
1 AGAAACCT-AATCTAAACCCA
*
16332513 AGAACCCTAATCTAAACCCA
1 AGAAACCTAATCTAAACCCA
16332533 A
1 A
16332534 AAATTTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.48, C:0.31, G:0.07, T:0.14
Consensus pattern (20 bp):
AGAAACCTAATCTAAACCCA
Found at i:16332931 original size:10 final size:10
Alignment explanation
Indices: 16332916--16332968 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
16332906 AAAAATAGTA
16332916 ATAATAATAT
1 ATAATAATAT
16332926 ATAATAATAT
1 ATAATAATAT
16332936 ATAAT-ATAAT
1 ATAATAAT-AT
*
16332946 ATAACAATA-
1 ATAATAATAT
16332955 ATACTATAATAT
1 ATA--ATAATAT
16332967 AT
1 AT
16332969 TACAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 5 0.14
10 22 0.61
11 7 0.19
12 2 0.06
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATAATAT
Found at i:16332944 original size:5 final size:5
Alignment explanation
Indices: 16332924--16333046 Score: 51
Period size: 5 Copynumber: 24.6 Consensus size: 5
16332914 TAATAATAAT
* * * *
16332924 ATATA ATA-A TATATA ATATA ATAT- A-ACA ATAATA CTATA ATATA TTACA
1 ATATA ATATA -ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
* * * * *
16332973 ATATA ATATA CTAT- GT-TA ATATA CTA-A ACTTTA ACATA TATAATA
1 ATATA ATATA ATATA ATATA ATATA ATATA A-TATA ATATA -AT-ATA
* *
16333018 ATATA ACATA ATAATA ATATA ATGTA ATA
1 ATATA ATATA AT-ATA ATATA ATATA ATA
16333047 ATACTAATAA
Statistics
Matches: 85, Mismatches: 21, Indels: 24
0.65 0.16 0.18
Matches are distributed among these distances:
3 2 0.02
4 6 0.07
5 60 0.71
6 14 0.16
7 3 0.04
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:16333033 original size:16 final size:16
Alignment explanation
Indices: 16333004--16333049 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
16332994 TACTAAACTT
16333004 TAACATATATAATAATA
1 TAACATA-ATAATAATA
16333021 TAACATAATAATAATA
1 TAACATAATAATAATA
**
16333037 TAATGTAATAATA
1 TAACATAATAATA
16333050 CTAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (16 bp):
TAACATAATAATAATA
Found at i:16333522 original size:24 final size:24
Alignment explanation
Indices: 16333468--16333525 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
16333458 ATTGTTTGAT
*
16333468 ATTATGATAAAAATAATTAAAAAA
1 ATTATAATAAAAATAATTAAAAAA
*
16333492 ATGTTATAATCAAAATGAA-TAAAAAA
1 A--TTATAATAAAAAT-AATTAAAAAA
16333518 ATTATAAT
1 ATTATAAT
16333526 TATTTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 8 0.28
26 19 0.66
27 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (24 bp):
ATTATAATAAAAATAATTAAAAAA
Found at i:16334790 original size:29 final size:29
Alignment explanation
Indices: 16334757--16334858 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
16334747 GGCACCATTG
*
16334757 CCACCATGCCCTACGCC-CCACCCCTCTTA
1 CCACCATGCCCTAC-CCTCCACCCCTCTGA
* **
16334786 TCACCATGCCCTACCCTCCACCTTTCTGA
1 CCACCATGCCCTACCCTCCACCCCTCTGA
* **
16334815 CCACCATGCCCTACCCTCCATCTTTCTGA
1 CCACCATGCCCTACCCTCCACCCCTCTGA
16334844 CCACCATGCCCTACC
1 CCACCATGCCCTACC
16334859 ACCCATCCCG
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 2 0.03
29 64 0.97
ACGTcount: A:0.18, C:0.53, G:0.07, T:0.23
Consensus pattern (29 bp):
CCACCATGCCCTACCCTCCACCCCTCTGA
Found at i:16334865 original size:29 final size:29
Alignment explanation
Indices: 16334787--16334858 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
16334777 CCCCTCTTAT
*
16334787 CACCATGCCCTACCCTCCACCTTTCTGAC
1 CACCATGCCCTACCCTCCATCTTTCTGAC
16334816 CACCATGCCCTACCCTCCATCTTTCTGAC
1 CACCATGCCCTACCCTCCATCTTTCTGAC
16334845 CACCATGCCCTACC
1 CACCATGCCCTACC
16334859 ACCCATCCCG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.18, C:0.51, G:0.07, T:0.24
Consensus pattern (29 bp):
CACCATGCCCTACCCTCCATCTTTCTGAC
Found at i:16336110 original size:18 final size:19
Alignment explanation
Indices: 16336071--16336114 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
16336061 TTTTCAATAC
16336071 AATAAA-AAAAATTTTAAGT
1 AATAAATAAAAA-TTTAAGT
*
16336090 AATAAATAAAAA-TTAATT
1 AATAAATAAAAATTTAAGT
16336108 AATAAAT
1 AATAAAT
16336115 TAAGAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 6 0.26
20 5 0.22
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AATAAATAAAAATTTAAGT
Found at i:16336128 original size:18 final size:18
Alignment explanation
Indices: 16336071--16336131 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
16336061 TTTTCAATAC
*
16336071 AATAAA-AAAAATTTTAAGT
1 AATAAATAAAAA--TTAAAT
*
16336090 AATAAATAAAAATTAATT
1 AATAAATAAAAATTAAAT
*
16336108 AATAAATTAAGAA-TAAAT
1 AATAAA-TAAAAATTAAAT
16336126 AATAAA
1 AATAAA
16336132 AATGAGAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 21 0.57
19 11 0.30
20 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AATAAATAAAAATTAAAT
Found at i:16336177 original size:129 final size:130
Alignment explanation
Indices: 16336044--16336309 Score: 446
Period size: 130 Copynumber: 2.1 Consensus size: 130
16336034 CAGTGTATTG
16336044 AAGTATTTAT-AAAAAAATTTTCAATACAATAAAAAAAATTTT-AAGTAATAAATAAAAATTAAT
1 AAGTATTTATAAAAAAAATTTT-AATACAATAAAAAAAATTTTAAAGTAATAAATAAAAATTAAT
*
16336107 TAATAAATTAAGAATAAATAATAAAAATGAGAAGAAAAGAAATTTTATCCAATGATGGGATTCTA
65 TAATAAATTAAGAATAAATAATAAAAATAAGAAGAAAAGAAATTTTATCCAATGATGGGATTCTA
16336172 A
130 A
*****
16336173 AAGTATTTATAAAAAAAATTTTAATACAATAAATTTTTTTTTAAAGTAATAAATAAAAATTAATT
1 AAGTATTTATAAAAAAAATTTTAATACAATAAAAAAAATTTTAAAGTAATAAATAAAAATTAATT
*
16336238 AATAAATTAAGAATAAGTAATAAAAATAAGAAGAAAAGAAATTTTATCCAATGATGGGATTCTAA
66 AATAAATTAAGAATAAATAATAAAAATAAGAAGAAAAGAAATTTTATCCAATGATGGGATTCTAA
16336303 AAGTATT
1 AAGTATT
16336310 CAAAGTAGAG
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
129 25 0.20
130 103 0.80
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (130 bp):
AAGTATTTATAAAAAAAATTTTAATACAATAAAAAAAATTTTAAAGTAATAAATAAAAATTAATT
AATAAATTAAGAATAAATAATAAAAATAAGAAGAAAAGAAATTTTATCCAATGATGGGATTCTAA
Found at i:16336258 original size:18 final size:18
Alignment explanation
Indices: 16336216--16336261 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
16336206 TTTTTTTTTA
16336216 AAGTAATAAATAAAAATT
1 AAGTAATAAATAAAAATT
* *
16336234 AATTAATAAATTAAGAA-T
1 AAGTAATAAA-TAAAAATT
16336252 AAGTAATAAA
1 AAGTAATAAA
16336262 AATAAGAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
AAGTAATAAATAAAAATT
Found at i:16342575 original size:12 final size:12
Alignment explanation
Indices: 16342558--16342583 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16342548 GGTATGAAAA
16342558 ATTGCTTTGATG
1 ATTGCTTTGATG
16342570 ATTGCTTTGATG
1 ATTGCTTTGATG
16342582 AT
1 AT
16342584 CCTAATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.50
Consensus pattern (12 bp):
ATTGCTTTGATG
Found at i:16343003 original size:8 final size:8
Alignment explanation
Indices: 16342992--16343065 Score: 66
Period size: 8 Copynumber: 9.4 Consensus size: 8
16342982 TTTTTACATT
16342992 TTTTTTCA
1 TTTTTTCA
16343000 TTTTTTCA
1 TTTTTTCA
*
16343008 -TTTTTCC
1 TTTTTTCA
16343015 TTTTTCTC-
1 TTTTT-TCA
16343023 TTTTTT-A
1 TTTTTTCA
*
16343030 TTTTTTTA
1 TTTTTTCA
*
16343038 TTTTTTTTA
1 -TTTTTTCA
16343047 TTTTTT-A
1 TTTTTTCA
16343054 TTTTTTTCA
1 -TTTTTTCA
16343063 TTT
1 TTT
16343066 ATTGATATCT
Statistics
Matches: 58, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
7 14 0.24
8 33 0.57
9 11 0.19
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCA
Found at i:16343013 original size:15 final size:15
Alignment explanation
Indices: 16342993--16343042 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
16342983 TTTTACATTT
16342993 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCA
*
16343008 TTTTTCCTTTTTCTC-
1 TTTTTCATTTTT-TCA
* *
16343023 TTTTTTATTTTTTTA
1 TTTTTCATTTTTTCA
16343038 TTTTT
1 TTTTT
16343043 TTTATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.03
15 26 0.90
16 2 0.07
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:16349861 original size:15 final size:16
Alignment explanation
Indices: 16349801--16349871 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 16
16349791 TTTACAATAA
16349801 TAATTATATTTTTAATT
1 TAATTATATTTTT-ATT
*
16349818 TATGATTA-ATATTTATT
1 TA--ATTATATTTTTATT
*
16349835 CAAATTATATTTATT-TT
1 -TAATTATATTT-TTATT
16349852 TAATTA-ATTTTTATT
1 TAATTATATTTTTATT
16349867 TAATT
1 TAATT
16349872 TAAAATTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
14 2 0.05
15 11 0.25
16 9 0.20
17 10 0.23
18 8 0.18
19 4 0.09
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (16 bp):
TAATTATATTTTTATT
Found at i:16350525 original size:20 final size:19
Alignment explanation
Indices: 16350480--16350527 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
16350470 CATGGACTTG
* *
16350480 AATTTAAATATTTTATTAT
1 AATTTAAAAATTATATTAT
*
16350499 ACCTTTAAAAATTATATTAAT
1 A-ATTTAAAAATTATATT-AT
16350520 AATTTAAA
1 AATTTAAA
16350528 TTATATAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
AATTTAAAAATTATATTAT
Found at i:16354686 original size:15 final size:15
Alignment explanation
Indices: 16354666--16354704 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
16354656 CATAATGCTC
*
16354666 AAATTCAATTGATTA
1 AAATTCAATTAATTA
16354681 AAATTCAATTAATTA
1 AAATTCAATTAATTA
16354696 AAATTCAAT
1 AAATTCAAT
16354705 CGTATTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTCAATTAATTA
Found at i:16359734 original size:23 final size:23
Alignment explanation
Indices: 16359708--16359751 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16359698 CTCGAATAAT
*
16359708 TAATTGATTAAATTATATAAAAC
1 TAATTGATGAAATTATATAAAAC
*
16359731 TAATTGGTGAAATTATATAAA
1 TAATTGATGAAATTATATAAA
16359752 GATATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (23 bp):
TAATTGATGAAATTATATAAAAC
Found at i:16368356 original size:129 final size:129
Alignment explanation
Indices: 16368186--16368458 Score: 347
Period size: 129 Copynumber: 2.1 Consensus size: 129
16368176 TATAGGAATT
* * * *
16368186 ATTTTA-ATTAT-TTAACATTTAAAAAGTAATTTAATAGGGGTATTGT-AGTAAATTTTAAACAA
1 ATTTTATATTATATTAAAATTTAAAAAGTAAATTAATAAGGGTATTATCA-TAAATTTTAAACAA
* * * * *
16368248 AATTTCACATGTCAAATTTTTATGAAGTAATGACAAAGATATTTTAGTAATTTAATATGTC-GTT
65 AATGTCACATGTCAAATTTTTATAAAGCAATGACAAAAATATTTTAATAATTTAATATG-CAGTT
16368312 A
129 A
* * * * *
16368313 ATTTTATATTATATTAAAATTTCACATGTAAATTAATAAGGGTATTATCATAATTTTTAAATAAA
1 ATTTTATATTATATTAAAATTTAAAAAGTAAATTAATAAGGGTATTATCATAAATTTTAAACAAA
** *
16368378 ATGTCACATGTCAAATTTTTATAAAGCAATGGTAAAAATATTTTAATAATTTAATATGCATTTA
66 ATGTCACATGTCAAATTTTTATAAAGCAATGACAAAAATATTTTAATAATTTAATATGCAGTTA
16368442 ATTTTATATTATATTAA
1 ATTTTATATTATATTAA
16368459 TTTAATATAT
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
127 6 0.05
128 6 0.05
129 112 0.90
130 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (129 bp):
ATTTTATATTATATTAAAATTTAAAAAGTAAATTAATAAGGGTATTATCATAAATTTTAAACAAA
ATGTCACATGTCAAATTTTTATAAAGCAATGACAAAAATATTTTAATAATTTAATATGCAGTTA
Found at i:16368443 original size:16 final size:16
Alignment explanation
Indices: 16368424--16368466 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16368414 AATATTTTAA
16368424 TAATTTAATATGCAT-T
1 TAATTTAATAT-CATAT
* *
16368440 TAATTTTATATTATAT
1 TAATTTAATATCATAT
16368456 TAATTTAATAT
1 TAATTTAATAT
16368467 ATAATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (16 bp):
TAATTTAATATCATAT
Found at i:16368551 original size:129 final size:128
Alignment explanation
Indices: 16368288--16368563 Score: 288
Period size: 128 Copynumber: 2.1 Consensus size: 128
16368278 TGACAAAGAT
* * * *
16368288 ATTTTAGTAATTTAATATGTCGTTAATTTTATATTATATTAAAATTTCACATGTAAATTAATAAG
1 ATTTTAATAATTTAATATGTCGTTAATTTTATATTATATT-AAATTTAACATATAAATTAATAAA
* * * ** ** *
16368353 GGTATTATCATAATTTTTAAATAAAATGTCACATGTCAAATTTTTATAAAGCAATGGTAAAAAT
65 GGTATTATCATAATTTTAAAAAAAAATGCCACATGTCAAATTTCAATAAAGCAATCATAAAAAC
* * *
16368417 ATTTTAATAATTTAATATG-CATTTAATTTTATATTATATT-AATTTAATATATAATTTAATAAA
1 ATTTTAATAATTTAATATGTC-GTTAATTTTATATTATATTAAATTTAACATATAAATTAATAAA
* * * * * *
16368480 TGTATTAT-AGTAATTTTGAAAAAAAAATGCCATATGTCAACTTTCAATGAAGTACTCATAAAAA
65 GGTATTATCA-TAATTTT-AAAAAAAAATGCCACATGTCAAATTTCAATAAAGCAATCATAAAAA
16368544 C
128 C
*
16368545 ATTTTTATAATTATAATAT
1 ATTTTAATAATT-TAATAT
16368564 AATAAGTATT
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
126 1 0.01
127 32 0.26
128 46 0.38
129 42 0.35
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (128 bp):
ATTTTAATAATTTAATATGTCGTTAATTTTATATTATATTAAATTTAACATATAAATTAATAAAG
GTATTATCATAATTTTAAAAAAAAATGCCACATGTCAAATTTCAATAAAGCAATCATAAAAAC
Found at i:16369092 original size:129 final size:126
Alignment explanation
Indices: 16368846--16369149 Score: 298
Period size: 129 Copynumber: 2.4 Consensus size: 126
16368836 GTTATTTAAT
* ** * *
16368846 ATTTAATAAGTAATTTAACAAGATTATTATAGTAAATTTCAAACAAAATTTCACATGTCAAATTT
1 ATTTAATAAGTAATTTAATAAGGGTATTATAGT-AATTTTAAAAAAAATTTCACATGTCAAATTT
* * ** *
16368911 TTATGAATCAATGATGAAGGTATTTTACTAATTTAATAAGTAGTTAGTTTTATATTATAATAAA
65 TTATAAATCAATGA-GAAGGTATTTTAATAATTTAATAAGTAGTTAAATTTATAGTAT-ATAAA
* *
16368975 ATTTCATAAGTAATTTAATAAGGGTATTATAGTAATTTTAAAATAAAATGTT-GCATGTCAAATT
1 ATTTAATAAGTAATTTAATAAGGGTATTATAGTAATTTTAAAA-AAAAT-TTCACATGTCAAATT
* * *
16369039 TTTATAAAGT-AATG-GCAAGGTTATTTTAATAATTTAATATGT-GATTAAATTTATAGTATGTT
64 TTTATAAA-TCAATGAG-AAGG-TATTTTAATAATTTAATAAGTAG-TTAAATTTATAGTATATA
16369101 AA
125 AA
* *
16369103 ATGTTGAT-A-TAATTTAAT-AGAGGTATTATAATAATTTTGAAAAAAAA
1 AT-TTAATAAGTAATTTAATAAG-GGTATTATAGTAATTTT-AAAAAAAA
16369150 GAAAAACCAA
Statistics
Matches: 149, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
126 2 0.01
127 30 0.20
128 23 0.15
129 91 0.61
130 3 0.02
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (126 bp):
ATTTAATAAGTAATTTAATAAGGGTATTATAGTAATTTTAAAAAAAATTTCACATGTCAAATTTT
TATAAATCAATGAGAAGGTATTTTAATAATTTAATAAGTAGTTAAATTTATAGTATATAAA
Found at i:16369464 original size:33 final size:35
Alignment explanation
Indices: 16369427--16369540 Score: 119
Period size: 34 Copynumber: 3.4 Consensus size: 35
16369417 AAATTTTATA
* *
16369427 ACTTCTTGGAAATAAATTT-TTGATAA-TCATAAC
1 ACTTCTTAGAAATAAATTTCTCGATAAGTCATAAC
*
16369460 ACTTC-TAGAAATATATTTCTCGATAAGTCATAAC
1 ACTTCTTAGAAATAAATTTCTCGATAAGTCATAAC
* * * **
16369494 ACTTCTAAGAAATATATTTC-CGAGAAACCATAAC
1 ACTTCTTAGAAATAAATTTCTCGATAAGTCATAAC
*
16369528 ACTTCTTATAAAT
1 ACTTCTTAGAAAT
16369541 GTATTTTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
32 11 0.16
33 11 0.16
34 34 0.49
35 13 0.19
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (35 bp):
ACTTCTTAGAAATAAATTTCTCGATAAGTCATAAC
Found at i:16369496 original size:34 final size:34
Alignment explanation
Indices: 16369435--16369533 Score: 123
Period size: 34 Copynumber: 2.9 Consensus size: 34
16369425 TAACTTCTTG
* *
16369435 GAAATAAATTT-TTGATAATCATAACACTTCT-A
1 GAAATATATTTCTCGATAATCATAACACTTCTAA
16369467 GAAATATATTTCTCGATAAGTCATAACACTTCTAA
1 GAAATATATTTCTCGATAA-TCATAACACTTCTAA
* *
16369502 GAAATATATTTC-CGAGAAACCATAACACTTCT
1 GAAATATATTTCTCGA-TAATCATAACACTTCT
16369534 TATAAATGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
32 10 0.17
33 6 0.10
34 28 0.47
35 15 0.25
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (34 bp):
GAAATATATTTCTCGATAATCATAACACTTCTAA
Found at i:16370087 original size:23 final size:24
Alignment explanation
Indices: 16370045--16370090 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
16370035 AAAATAATTT
*
16370045 TTTTATTAATTTTAAATTTTTTAA
1 TTTTATTAATTATAAATTTTTTAA
*
16370069 TTTT-TTAATTATAATTTTTTTA
1 TTTTATTAATTATAAATTTTTTA
16370091 CACTAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTAATTATAAATTTTTTAA
Found at i:16370260 original size:34 final size:34
Alignment explanation
Indices: 16370170--16370260 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
16370160 TGCTTTTTTG
* *
16370170 AAAAGTGTTATGACTTATCGAAAATACATTTCTA
1 AAAAGTGTTATGACTTTTTGAAAATACATTTCTA
* **
16370204 AGAAGTGTTATGA-TTTTATGAAAATTTATTT-TCA
1 AAAAGTGTTATGACTTTT-TGAAAATACATTTCT-A
*
16370238 AAAAGTGTTATAACTTTTTGAAA
1 AAAAGTGTTATGACTTTTTGAAA
16370261 TACTAAATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
33 4 0.09
34 39 0.83
35 4 0.09
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.41
Consensus pattern (34 bp):
AAAAGTGTTATGACTTTTTGAAAATACATTTCTA
Found at i:16377013 original size:15 final size:14
Alignment explanation
Indices: 16376979--16377022 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
16376969 ATTCAAGATT
*
16376979 TCAAAAAAATAAAA
1 TCAAAAAAAAAAAA
*
16376993 TAAAAACAAAAAAAA
1 TCAAAA-AAAAAAAA
16377008 TCAAAAAAAGAAAAA
1 TCAAAAAAA-AAAAA
16377023 AGAGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.82, C:0.07, G:0.02, T:0.09
Consensus pattern (14 bp):
TCAAAAAAAAAAAA
Found at i:16377013 original size:16 final size:14
Alignment explanation
Indices: 16376981--16377033 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 14
16376971 TCAAGATTTC
*
16376981 AAAAAAATAAAATA
1 AAAAAAAAAAAATA
16376995 AAAACAAAAAAAATCA
1 AAAA-AAAAAAAAT-A
*
16377011 AAAAAAGAAAAAAGA
1 AAAAAA-AAAAAATA
16377026 GAAAAAAA
1 -AAAAAAA
16377034 GTTTTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 4 0.12
15 12 0.36
16 17 0.52
ACGTcount: A:0.85, C:0.04, G:0.06, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAAATA
Found at i:16377602 original size:15 final size:14
Alignment explanation
Indices: 16377568--16377618 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 14
16377558 GACCTCACAA
16377568 AAAAAAT-AAAAAT
1 AAAAAATAAAAAAT
*
16377581 --AAAATAAAAAGT
1 AAAAAATAAAAAAT
16377593 AAAAAGATAAAAAAAT
1 AAAAA-AT-AAAAAAT
16377609 AAAAAATAAA
1 AAAAAATAAA
16377619 CAAAAGGGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
11 5 0.16
12 5 0.16
14 6 0.19
15 4 0.13
16 11 0.35
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:16377623 original size:16 final size:17
Alignment explanation
Indices: 16377566--16377624 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
16377556 GGGACCTCAC
* * *
16377566 AAAAAAAATAAAAATAA
1 AAAAAAAGTAAAAAGAT
16377583 AATAAAAAGTAAAAAGAT
1 AA-AAAAAGTAAAAAGAT
16377601 AAAAAAA-TAAAAA-AT
1 AAAAAAAGTAAAAAGAT
16377616 AAACAAAAG
1 AAA-AAAAG
16377625 GGACATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 5 0.14
16 10 0.28
17 7 0.19
18 14 0.39
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAAAGTAAAAAGAT
Found at i:16378400 original size:22 final size:23
Alignment explanation
Indices: 16378334--16378413 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 23
16378324 ATCCTAGTCA
* * *
16378334 ATTCTGTAAGACCTTCAAGCATG
1 ATTCTCTAAGACCTCCGAGCATG
* **
16378357 A-T-TCTAAAACCTCCGAAAATG
1 ATTCTCTAAGACCTCCGAGCATG
*
16378378 ATTCT-TAAGACCTCCGGGCATG
1 ATTCTCTAAGACCTCCGAGCATG
16378400 ATT-TCTAAGACCTC
1 ATTCTCTAAGACCTC
16378414 TGCACATAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
21 15 0.34
22 27 0.61
23 2 0.05
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (23 bp):
ATTCTCTAAGACCTCCGAGCATG
Found at i:16378492 original size:154 final size:153
Alignment explanation
Indices: 16378201--16378547 Score: 401
Period size: 154 Copynumber: 2.2 Consensus size: 153
16378191 TGTCCTAGTC
* * * * * * **
16378201 GATTCTATAAGACCTCCGGACATTATTCTAAGACTTTCGAGCATGATTTTTAAGACCTCCTGGGC
1 GATTCTA-AA-ACCTCCGAAAATGATTCTAAGACCTCCGAGCATGATTTCTAAGACCTCCTGCAC
* * * * *
16378266 ATAATTTTAATTCGCGATGTTATCCTGATCTATTCATTATTTTTTAACTTGCGGTGTTATCCTAG
64 ATAAATTCAATTCGCGATGTTATCCTGATCGATTCATTATTTTTTAACTTGCGGTGTTATCCCAA
16378331 TCAATTCTGTAAGACCTTCAAG-CAT
129 TCAATTCTGTAAGACC-TCAAGACAT
*
16378356 GATTCTAAAACCTCCGAAAATGATTCTTAAGACCTCCGGGCATGATTTCTAAGACCT-CTGCACA
1 GATTCTAAAACCTCCGAAAATGATTC-TAAGACCTCCGAGCATGATTTCTAAGACCTCCTGCACA
* * * *
16378420 TAAATTCGATTCGTGATGTTATCCCTGATCGATTCATTATTTTTTGACTTGCGGTGTTGTCCCAA
65 TAAATTCAATTCGCGATGTTAT-CCTGATCGATTCATTATTTTTTAACTTGCGGTGTTATCCCAA
* **
16378485 TCTATTCTGTAAGACCTCCGGACAT
129 TCAATTCTGTAAGACCTCAAGACAT
***
16378510 GATTCCTAAAACCTCCGGGCATGATTTCTAAGACCTCC
1 GATT-CTAAAACCTCCGAAAATGA-TTCTAAGACCTCC
16378548 AAGTATAATT
Statistics
Matches: 163, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
153 40 0.25
154 87 0.53
155 33 0.20
156 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (153 bp):
GATTCTAAAACCTCCGAAAATGATTCTAAGACCTCCGAGCATGATTTCTAAGACCTCCTGCACAT
AAATTCAATTCGCGATGTTATCCTGATCGATTCATTATTTTTTAACTTGCGGTGTTATCCCAATC
AATTCTGTAAGACCTCAAGACAT
Found at i:16378523 original size:22 final size:22
Alignment explanation
Indices: 16378498--16378547 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
16378488 ATTCTGTAAG
16378498 ACCTCCGGACATGATTCCTAAA
1 ACCTCCGGACATGATTCCTAAA
* * *
16378520 ACCTCCGGGCATGATTTCTAAG
1 ACCTCCGGACATGATTCCTAAA
16378542 ACCTCC
1 ACCTCC
16378548 AAGTATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (22 bp):
ACCTCCGGACATGATTCCTAAA
Found at i:16378656 original size:132 final size:131
Alignment explanation
Indices: 16378375--16378746 Score: 391
Period size: 132 Copynumber: 2.8 Consensus size: 131
16378365 ACCTCCGAAA
* *
16378375 ATGATTCTTAAGACCTCCGGGCATGATTTCTAAGACCTCTGCACA-TA-AA-TTCGATTCGTG-A
1 ATGATTCCTAAGACCTCCGGGCATGATTTCTAAGACCTC--CA-AGTATAATTTTGATT--TGCA
* * * * *
16378436 TGTTATCCCTGATCGATTCATTATTTTTTGACTTGCGGTGTTGTCCCAATCTATTCTGTAAGACC
61 TGTTATCCC-GATCGATTCCTTATTTTTTAAATTACGGTGTTGTCCCAATCGATTCTGTAAGACC
*
16378501 TCCGGAC
125 TCCAGAC
*
16378508 ATGATTCCTAAAACCTCCGGGCATGATTTCTAAGACCTCCAAGTATAATTTTGATTTGCAGTGTT
1 ATGATTCCTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGTATAATTTTGATTTGCA-TGTT
* * *
16378573 ATCCCGATCAATTCCTTATTTTTTAAATTATGGTGTTG-CCCTAGTCGATTCTGTAAGACCTCCA
65 ATCCCGATCGATTCCTTATTTTTTAAATTACGGTGTTGTCCC-AATCGATTCTGTAAGACCTCCA
16378637 -AGC
129 GA-C
* * * *
16378640 AT-AGTTCCTAAGACCTCCGGGCATGATTTCTAAAACATCCAAGCATAATTTTGATTCGCAATGT
1 ATGA-TTCCTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGTATAATTTTGATTTGC-ATGT
* * * * * *
16378704 TGTCCCAATCGATTTCTTA-TTTTTGACTTACGGTGATGTCCCA
64 TATCCCGATCGATTCCTTATTTTTTAAATTACGGTGTTGTCCCA
16378747 GTCACTTTTG
Statistics
Matches: 204, Mismatches: 25, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
130 1 0.00
131 27 0.13
132 123 0.60
133 53 0.26
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (131 bp):
ATGATTCCTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGTATAATTTTGATTTGCATGTTA
TCCCGATCGATTCCTTATTTTTTAAATTACGGTGTTGTCCCAATCGATTCTGTAAGACCTCCAGA
C
Found at i:16380414 original size:9 final size:11
Alignment explanation
Indices: 16380387--16380417 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
16380377 TTGAGGAATT
16380387 ATTATAAAAAA
1 ATTATAAAAAA
16380398 ATTATAAAAAA
1 ATTATAAAAAA
16380409 ATTA-AAAAA
1 ATTATAAAAA
16380418 GTAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
ATTATAAAAAA
Found at i:16380425 original size:3 final size:3
Alignment explanation
Indices: 16380419--16380454 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
16380409 ATTAAAAAAG
16380419 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16380455 ATTTTCATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16380643 original size:29 final size:28
Alignment explanation
Indices: 16380611--16380775 Score: 92
Period size: 28 Copynumber: 5.8 Consensus size: 28
16380601 ATTTTTAAAC
*
16380611 CCCAAAACCTCTAAACCTTAAAATCAAA
1 CCCAAAACCTCTAAACCCTAAAATCAAA
* * *
16380639 TCCC-AAACCT-TCAACCCCTATAATTAAA
1 -CCCAAAACCTCT-AAACCCTAAAATCAAA
* * *
16380667 CCCCAAACCTCCAAA-CCTAAAAATTAAA
1 CCCAAAACCTCTAAACCCT-AAAATCAAA
16380695 CCCTAAATA-CTCTAAACCCTAAAA-CTAAGA
1 CCC-AAA-ACCTCTAAACCCTAAAATC-AA-A
* *
16380725 CTTC-AAACCTC-AAACCTTAAAATCAAA
1 C-CCAAAACCTCTAAACCCTAAAATCAAA
* *
16380752 TCCCTAAAACTTCCAAACCCTAAA
1 -CCC-AAAACCTCTAAACCCTAAA
16380776 TTTCAAAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 31
0.70 0.10 0.21
Matches are distributed among these distances:
27 9 0.09
28 51 0.49
29 29 0.28
30 15 0.14
31 1 0.01
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (28 bp):
CCCAAAACCTCTAAACCCTAAAATCAAA
Found at i:16380798 original size:16 final size:15
Alignment explanation
Indices: 16380747--16380789 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
16380737 AACCTTAAAA
* *
16380747 TCAAATCCCTAAAACT
1 TCAAAACCCT-AAATT
*
16380763 TCCAAACCCTAAATT
1 TCAAAACCCTAAATT
16380778 TCAAAACCCTAA
1 TCAAAACCCTAA
16380790 CCTTTCAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
TCAAAACCCTAAATT
Found at i:16380799 original size:30 final size:30
Alignment explanation
Indices: 16380734--16380800 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
16380724 ACTTCAAACC
* *
16380734 TCAAACCTTAAAATCAAATCCCTAAAACTT
1 TCAAACCCTAAAATCAAAACCCTAAAACTT
* * *
16380764 CCAAACCCTAAATTTCAAAACCCT-AACCTT
1 TCAAACCCTAAA-ATCAAAACCCTAAAACTT
16380794 TCAAACC
1 TCAAACC
16380801 TCGGCTTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (30 bp):
TCAAACCCTAAAATCAAAACCCTAAAACTT
Found at i:16381006 original size:17 final size:16
Alignment explanation
Indices: 16380978--16381009 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16380968 AATAATTGTT
16380978 TAATAAAAAATGAGAA
1 TAATAAAAAATGAGAA
16380994 TAATAATAAAATGAGA
1 TAATAA-AAAATGAGA
16381010 TCTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (16 bp):
TAATAAAAAATGAGAA
Found at i:16382325 original size:14 final size:15
Alignment explanation
Indices: 16382299--16382329 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
16382289 GGAGTGTGAC
16382299 ATGAATATTTCAAAA
1 ATGAATATTTCAAAA
16382314 ATGAAT-TTTCAAAA
1 ATGAATATTTCAAAA
16382328 AT
1 AT
16382330 TATTAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (15 bp):
ATGAATATTTCAAAA
Found at i:16383476 original size:20 final size:20
Alignment explanation
Indices: 16383451--16383495 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
16383441 TCATTAAAGA
16383451 ATAATCCCTTTATACCTAAG
1 ATAATCCCTTTATACCTAAG
*
16383471 ATAATCCCTTTATGCCTAAG
1 ATAATCCCTTTATACCTAAG
16383491 ATAAT
1 ATAAT
16383496 TTGTTTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (20 bp):
ATAATCCCTTTATACCTAAG
Found at i:16385959 original size:109 final size:108
Alignment explanation
Indices: 16385819--16386056 Score: 336
Period size: 109 Copynumber: 2.2 Consensus size: 108
16385809 AAAGATGTTA
** *
16385819 ATTTCTAAGACCTCCGGGCATAAATTTGATTCGCGGTGTTATCCCAATCGATTC-TTGATTTTTT
1 ATTT-TAAGACCTCCAAGCATAAATTTGATTCGCGATGTTATCCCAATCGATTCATT-ATTTTTT
* *
16385883 TACTTGCGATGTTATCCCAGTCGATTCTGTAAGACCTCTAGGCATG
64 GACTTACGATGTTATCCCAGTCGATTCTGTAAGACCT-TAGGCATG
*
16385929 ATTCTTAAGACCTCC-AGCATAAATTTGATTCGTGATGTTATCCCAATCGATTCATTATTTTTTG
1 ATT-TTAAGACCTCCAAGCATAAATTTGATTCGCGATGTTATCCCAATCGATTCATTATTTTTTG
* * * *
16385993 ACTTACGGTGTTATCCTAGTCGATTTTGTAAGACCTTCGGCATG
65 ACTTACGATGTTATCCCAGTCGATTCTGTAAGACCTTAGGCATG
16386037 ATTTTAAGACCTCCAAGCAT
1 ATTTTAAGACCTCCAAGCAT
16386057 GATTCTAAGA
Statistics
Matches: 116, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
107 11 0.09
108 15 0.13
109 74 0.64
110 15 0.13
111 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (108 bp):
ATTTTAAGACCTCCAAGCATAAATTTGATTCGCGATGTTATCCCAATCGATTCATTATTTTTTGA
CTTACGATGTTATCCCAGTCGATTCTGTAAGACCTTAGGCATG
Found at i:16386046 original size:20 final size:21
Alignment explanation
Indices: 16386021--16386090 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
16386011 GTCGATTTTG
16386021 TAAGACCTTC-GGCATGATTT
1 TAAGACCTTCAGGCATGATTT
* * *
16386041 TAAGACCTCCAAGCATGATTC
1 TAAGACCTTCAGGCATGATTT
* *
16386062 TAAGA-CATCGGGCATGATTTT
1 TAAGACCTTCAGGCATGA-TTT
16386083 TAAGACCT
1 TAAGACCT
16386091 CTGGGCATAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
20 17 0.45
21 20 0.53
22 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (21 bp):
TAAGACCTTCAGGCATGATTT
Found at i:16386187 original size:149 final size:151
Alignment explanation
Indices: 16385923--16386227 Score: 377
Period size: 150 Copynumber: 2.0 Consensus size: 151
16385913 AAGACCTCTA
***
16385923 GGCATGATTCTTAAGACCTCCAGCATAAATTTGATTCGTGATGTTATCCCAATCGATTCATTATT
1 GGCATGATTCTTAAGACCTCCAGCATAAATTTGATTCACAATGTTATCCCAATCGATTCATTATT
* * * *
16385988 TTTTGACTTACGGTGTTATCCTAGTCGATTTTGTAAGACCTTCGGCATGATT-TTAAGACCTCCA
66 TTTTGACTTACGATGTTATCCTAGTCGATTCTATAAGACCTTCGGCATGATTCTTAAAACCTCCA
16386052 AGCATGATTCTAAGA-CATCG
131 AGCATGATTCTAAGACCATCG
* ** * **
16386072 GGCATGATTTTTAAGACCTCTGGGCATAAATTTGATTTACAATGTTATCCTTATCGATTC-TTGA
1 GGCATGATTCTTAAGACCTC-CAGCATAAATTTGATTCACAATGTTATCCCAATCGATTCATT-A
* *
16386136 TTTTTTGACTTGCGATGTT-TCCTAGTCGATTCTATAAGA-CTTCGAGCATGATTCTTAAAACGT
64 TTTTTTGACTTACGATGTTATCCTAGTCGATTCTATAAGACCTTCG-GCATGATTCTTAAAACCT
** * *
16386199 CTGAGCATGATTTTAAGACCTTCG
128 CCAAGCATGATTCTAAGACCATCG
16386223 GGCAT
1 GGCAT
16386228 AAATTTGATT
Statistics
Matches: 132, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
148 5 0.04
149 47 0.36
150 71 0.54
151 9 0.07
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (151 bp):
GGCATGATTCTTAAGACCTCCAGCATAAATTTGATTCACAATGTTATCCCAATCGATTCATTATT
TTTTGACTTACGATGTTATCCTAGTCGATTCTATAAGACCTTCGGCATGATTCTTAAAACCTCCA
AGCATGATTCTAAGACCATCG
Found at i:16386288 original size:129 final size:128
Alignment explanation
Indices: 16386052--16386304 Score: 325
Period size: 129 Copynumber: 2.0 Consensus size: 128
16386042 AAGACCTCCA
* *
16386052 AGCATGATTCTAAGACATCGGGCATGATTTTTAAGACCTCTGGGCATAAATTTGATTTACAATGT
1 AGCATGATTCTAAAACATCGAGCATGATTTTTAAGACCTCTGGGCATAAATTTGATTTACAATGT
** *
16386117 TATCCTTATCGATTCTTGATTTTTTGACTTGCGATGTTTCCTAGTCGATTCTATAAGACTTCG
66 TATCCCAATCGATTCTTGATTTTTTGACTTACGATGTTTCCTAGTCGATTCTATAAGACTTCG
* **
16386180 AGCATGATTCTTAAAACGTCTGAGCATGA-TTTTAAGACCT-TCGGGCATAAATTTGA-TTACGG
1 AGCATGATTC-TAAAACATC-GAGCATGATTTTTAAGACCTCT-GGGCATAAATTTGATTTACAA
* * * *
16386242 TGTTATCCCAATCGATTCATT-ATTTTTTGATTTATGGTGTTGTCCTAGTCGATTCTGTAAGAC
63 TGTTATCCCAATCGATTC-TTGATTTTTTGACTTACGATGTT-TCCTAGTCGATTCTATAAGAC
16386305 CTCCGGACTT
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
128 47 0.44
129 54 0.50
130 7 0.06
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (128 bp):
AGCATGATTCTAAAACATCGAGCATGATTTTTAAGACCTCTGGGCATAAATTTGATTTACAATGT
TATCCCAATCGATTCTTGATTTTTTGACTTACGATGTTTCCTAGTCGATTCTATAAGACTTCG
Found at i:16386348 original size:88 final size:87
Alignment explanation
Indices: 16386212--16386402 Score: 265
Period size: 88 Copynumber: 2.2 Consensus size: 87
16386202 AGCATGATTT
* * ** *
16386212 TAAGACCTTCGGGCATAAATTTGATTACGGTGTTATCCCAATCGATTCATTATTTTTTGATTTAT
1 TAAGACCTCCGGACATAAATTTGATTACGGTGTTATCCCAATCGATTCATTATTTTTAAACTTAT
* *
16386277 GGTGTTGTCCTAGTCGATTCTG
66 GATGTTGTCCTAGTCGATTCTA
* * ***
16386299 TAAGACCTCCGGACTTAAATTTGATTTGCGGTGTTATCTTGATCGATTCATTATTTTTAAACTTA
1 TAAGACCTCCGGACATAAATTTGA-TTACGGTGTTATCCCAATCGATTCATTATTTTTAAACTTA
16386364 TGATGTTGTCCTAGTCGATTCTA
65 TGATGTTGTCCTAGTCGATTCTA
16386387 TAAGACCTCCGGACAT
1 TAAGACCTCCGGACAT
16386403 GATTCTAAGA
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
87 21 0.23
88 69 0.77
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (87 bp):
TAAGACCTCCGGACATAAATTTGATTACGGTGTTATCCCAATCGATTCATTATTTTTAAACTTAT
GATGTTGTCCTAGTCGATTCTA
Found at i:16386439 original size:22 final size:22
Alignment explanation
Indices: 16386380--16386468 Score: 112
Period size: 22 Copynumber: 4.0 Consensus size: 22
16386370 TGTCCTAGTC
16386380 GATTCTATAAGACCTCCG-GACAT
1 GATTCT-TAAGACCTCCGAG-CAT
16386403 GATTC-TAAGACCTCCGAGCAT
1 GATTCTTAAGACCTCCGAGCAT
*
16386424 GATTCTTAAGATCTCCGAGCAT
1 GATTCTTAAGACCTCCGAGCAT
16386446 GACTT-TTAAGACCTCCTGAGCAT
1 GA-TTCTTAAGACCTCC-GAGCAT
16386469 AATTTCAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
21 19 0.32
22 28 0.47
23 13 0.22
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (22 bp):
GATTCTTAAGACCTCCGAGCAT
Found at i:16386601 original size:22 final size:23
Alignment explanation
Indices: 16386534--16386614 Score: 64
Period size: 22 Copynumber: 3.7 Consensus size: 23
16386524 TATCCTAGTC
* * *
16386534 GATTCTGTAAGACCTTCAGGCAT
1 GATTCTCTAAGACCTCCAGACAT
* * *
16386557 GA-T-TCTAAAACCT-CTGAAAAT
1 GATTCTCTAAGACCTCCAG-ACAT
16386578 GATTCT-TAAGACCTCCAGACAT
1 GATTCTCTAAGACCTCCAGACAT
16386600 GATT-TCTAAGACCTC
1 GATTCTCTAAGACCTC
16386615 TGAACATAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
20 2 0.04
21 13 0.29
22 25 0.56
23 5 0.11
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (23 bp):
GATTCTCTAAGACCTCCAGACAT
Found at i:16386601 original size:43 final size:45
Alignment explanation
Indices: 16386534--16386618 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
16386524 TATCCTAGTC
* *
16386534 GATTCTGTAAGACCTTCAGGCATGA-TTCTAAAACCTCTGAAAAT
1 GATTCTGTAAGACCTCCAGACATGATTTCTAAAACCTCTGAAAAT
*
16386578 GATTCT-TAAGACCTCCAGACATGATTTCTAAGACCTCTGAA
1 GATTCTGTAAGACCTCCAGACATGATTTCTAAAACCTCTGAA
16386619 CATAAATTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 16 0.43
44 21 0.57
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (45 bp):
GATTCTGTAAGACCTCCAGACATGATTTCTAAAACCTCTGAAAAT
Found at i:16386621 original size:22 final size:21
Alignment explanation
Indices: 16386554--16386621 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
16386544 GACCTTCAGG
*
16386554 CATGATTCTAAAACCTCTGAA
1 CATGATTCTAAGACCTCTGAA
* *
16386575 AATGATTCTTAAGACCTC-CAGA
1 CATGATTC-TAAGACCTCTGA-A
16386597 CATGATTTCTAAGACCTCTGAA
1 CATGA-TTCTAAGACCTCTGAA
16386619 CAT
1 CAT
16386622 AAATTCAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 8 0.21
22 26 0.68
23 4 0.11
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (21 bp):
CATGATTCTAAGACCTCTGAA
Found at i:16386694 original size:153 final size:156
Alignment explanation
Indices: 16386330--16386752 Score: 551
Period size: 154 Copynumber: 2.8 Consensus size: 156
16386320 TGATTTGCGG
* * * * *
16386330 TGTTATCTTGATC-GATTCATTATTTTTAAACTTATGATGTTGTCCTAGTCGATTCTATAAGACC
1 TGTTATCCTAATCTGATTCATTATTTTTTAACTTATGGTGTTGTCCTAGTCGATTCTGTAAGACC
* *
16386394 TCCGGACATGATTCTAAGACCTCCGAGCATGATTCTTAAGATCTCC-GAGCATGACTTTTAAGAC
66 TCCGGACATGATTCTAAGACCTCCGAACATGATTCTTAAGACCTCCAGAGCATGACTTTTAAGAC
* *
16386458 CTCCTGAGCATAATTTCAATTCACGA
131 CTCCTGAACATAAATTCAATTCACGA
* *
16386484 TGTTATCCTGATCT-ATTCATTATTTTTTAACTTATGGTGTTATCCTAGTCGATTCTGTAAGACC
1 TGTTATCCTAATCTGATTCATTATTTTTTAACTTATGGTGTTGTCCTAGTCGATTCTGTAAGACC
* * * *
16386548 TTCAGG-CATGATTCTAAAACCTCTGAAAATGATTCTTAAGACCTCCAGA-CATGA-TTTCTAAG
66 -TCCGGACATGATTCTAAGACCTCCGAACATGATTCTTAAGACCTCCAGAGCATGACTTT-TAAG
**
16386610 ACCT-CTGAACATAAATTCAATTCGTGA
129 ACCTCCTGAACATAAATTCAATTCACGA
* * * * *
16386637 TGTTATCCTAAT-TGATTCATTATTTTTTGACTTACGGTGTTGTTCTAGCCTATTCTGTAAGACC
1 TGTTATCCTAATCTGATTCATTATTTTTTAACTTATGGTGTTGTCCTAGTCGATTCTGTAAGACC
16386701 TCCGGACATGATTCTTAAGACCTCCGAACATGATT-TTAAGACCTCCA-AGCAT
66 TCCGGACATGATTC-TAAGACCTCCGAACATGATTCTTAAGACCTCCAGAGCAT
16386753 AATTTAGATT
Statistics
Matches: 235, Mismatches: 26, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
152 6 0.03
153 100 0.43
154 123 0.52
155 6 0.03
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (156 bp):
TGTTATCCTAATCTGATTCATTATTTTTTAACTTATGGTGTTGTCCTAGTCGATTCTGTAAGACC
TCCGGACATGATTCTAAGACCTCCGAACATGATTCTTAAGACCTCCAGAGCATGACTTTTAAGAC
CTCCTGAACATAAATTCAATTCACGA
Found at i:16386741 original size:21 final size:22
Alignment explanation
Indices: 16386688--16386746 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
16386678 GTTCTAGCCT
*
16386688 ATTCTGTAAGACCTCCGGACATG
1 ATTCT-TAAGACCTCCGAACATG
16386711 ATTCTTAAGACCTCCGAACATG
1 ATTCTTAAGACCTCCGAACATG
16386733 ATT-TTAAGACCTCC
1 ATTCTTAAGACCTCC
16386747 AAGCATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 11 0.31
22 19 0.54
23 5 0.14
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (22 bp):
ATTCTTAAGACCTCCGAACATG
Found at i:16386757 original size:21 final size:21
Alignment explanation
Indices: 16386694--16386757 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
16386684 GCCTATTCTG
* *
16386694 TAAGACCTCCGGACATGATTCT
1 TAAGACCTCCGAACATAATT-T
*
16386716 TAAGACCTCCGAACATGATTT
1 TAAGACCTCCGAACATAATTT
16386737 TAAGACCTCC-AAGCATAATTT
1 TAAGACCTCCGAA-CATAATTT
16386758 AGATTCGCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
20 2 0.05
21 18 0.46
22 19 0.49
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (21 bp):
TAAGACCTCCGAACATAATTT
Found at i:16386807 original size:131 final size:133
Alignment explanation
Indices: 16386576--16386857 Score: 351
Period size: 131 Copynumber: 2.1 Consensus size: 133
16386566 ACCTCTGAAA
* *
16386576 ATGATTCTTAAGACCTCC-AGACATGATTTCTAAGACCTCTGAACATAAATTCAATTCGTGATGT
1 ATGATTCTTAAGACCTCCGAGACATGATTTCTAAGACCTCTCAACATAAATTCAATTCGCGATGT
* ** * * * *
16386640 TATCCTAATTGATTCATTATTTTTTGACTTACGGTGTTGTTCTAGCCTATTCTGTAAGACCTCC-
66 TATCCCAATCAATTCATTATTTTTTGAATTACGGTGTTATCCTAGCCGATTCTGTAAGACCTCCA
*
16386704 GGAC
131 AG-C
*
16386708 ATGATTCTTAAGACCTCCGA-ACATGATTT-TAAGACCTC-CAAGCAT-AATTTAGATTCGCGAT
1 ATGATTCTTAAGACCTCCGAGACATGATTTCTAAGACCTCTCAA-CATAAATTCA-ATTCGCGAT
* * * * *
16386769 GTTGTCCCGATCAATTCTTTATTTTTTGAATTATGGTGTTATCCTAGTCGATTCTGTAAGACCTC
64 GTTATCCCAATCAATTCATTATTTTTTGAATTACGGTGTTATCCTAGCCGATTCTGTAAGACCTC
16386834 CAAGC
129 CAAGC
16386839 ATGATTCTTAAGACCTCCG
1 ATGATTCTTAAGACCTCCG
16386858 GGTATAATTT
Statistics
Matches: 130, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
130 7 0.05
131 94 0.72
132 28 0.22
133 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (133 bp):
ATGATTCTTAAGACCTCCGAGACATGATTTCTAAGACCTCTCAACATAAATTCAATTCGCGATGT
TATCCCAATCAATTCATTATTTTTTGAATTACGGTGTTATCCTAGCCGATTCTGTAAGACCTCCA
AGC
Found at i:16386926 original size:131 final size:131
Alignment explanation
Indices: 16386576--16386937 Score: 342
Period size: 131 Copynumber: 2.8 Consensus size: 131
16386566 ACCTCTGAAA
* * * * *
16386576 ATGATTCTTAAGACCTCC-AGACATGATTTCTAAGACCTCTGAA-CATAAATTCA-ATTCGTGAT
1 ATGATTCTTAAGACCTCCGA-ACATAATTT-TAAAACATC-CAAGCAT-AATTTAGATTCGTGAT
* * * * *
16386638 GTTATCCTAATTGATTCATTATTTTTTGACTTACGGTGTTGTTCTAGCCTATTCTGTAAGACCTC
62 GTTATCCCAATCGATTCATTATTTTTTGACTTACGGTGTTATCCTAGCCGATTCTGTAAGACCTC
*
16386703 CGGAC
127 CAGAC
* * * * *
16386708 ATGATTCTTAAGACCTCCGAACATGATTTTAAGACCTCCAAGCATAATTTAGATTCGCGATGTTG
1 ATGATTCTTAAGACCTCCGAACATAATTTTAAAACATCCAAGCATAATTTAGATTCGTGATGTTA
* * * * * *
16386773 TCCCGATCAATTCTTTATTTTTTGAATTATGGTGTTATCCTAGTCGATTCTGTAAGACCTCCA-A
66 TCCCAATCGATTCATTATTTTTTGACTTACGGTGTTATCCTAGCCGATTCTGTAAGACCTCCAGA
16386837 GC
131 -C
*** * ** *
16386839 ATGATTCTTAAGACCTCCGGGTATAATTTTTAAAACATTCGGGCATAATTTTGATTCGT-AGTGT
1 ATGATTCTTAAGACCTCCGAACATAA-TTTTAAAACATCCAAGCATAATTTAGATTCGTGA-TGT
16386903 TATCCCAATCGATTTC-TTA-TTTTTGACTTACGGTG
64 TATCCCAATCGA-TTCATTATTTTTTGACTTACGGTG
16386938 ATGTGCCAGT
Statistics
Matches: 191, Mismatches: 32, Indels: 15
0.80 0.13 0.06
Matches are distributed among these distances:
130 8 0.04
131 112 0.59
132 67 0.35
133 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (131 bp):
ATGATTCTTAAGACCTCCGAACATAATTTTAAAACATCCAAGCATAATTTAGATTCGTGATGTTA
TCCCAATCGATTCATTATTTTTTGACTTACGGTGTTATCCTAGCCGATTCTGTAAGACCTCCAGA
C
Found at i:16388577 original size:11 final size:11
Alignment explanation
Indices: 16388561--16388600 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
16388551 TTAGGGAATT
16388561 ATTATAAAAAA
1 ATTATAAAAAA
16388572 ATTAT--AAAA
1 ATTATAAAAAA
*
16388581 ATTATTAAAAA
1 ATTATAAAAAA
16388592 ATTA-AAAAA
1 ATTATAAAAA
16388601 GTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
9 9 0.35
10 4 0.15
11 13 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
ATTATAAAAAA
Found at i:16388590 original size:20 final size:19
Alignment explanation
Indices: 16388561--16388600 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
16388551 TTAGGGAATT
16388561 ATTATAAAAAAATTATAAAA
1 ATTATAAAAAAATTA-AAAA
*
16388581 ATTATTAAAAAATTAAAAA
1 ATTATAAAAAAATTAAAAA
16388600 A
1 A
16388601 GTAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATTATAAAAAAATTAAAAA
Found at i:16388610 original size:3 final size:3
Alignment explanation
Indices: 16388602--16388637 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
16388592 ATTAAAAAAG
16388602 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16388638 ATTTTCATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16388838 original size:29 final size:28
Alignment explanation
Indices: 16388759--16388970 Score: 100
Period size: 28 Copynumber: 7.4 Consensus size: 28
16388749 GTATTTTTTT
*
16388759 TAAACCCTAAAATTAAACCCTAAAA-C-C
1 TAAACCCTAAAATCAAACCC-AAAACCTC
* *
16388786 -AGACCCTAAAATTTTTAAACCCCAAAACCTC
1 TAAACCCTAAAA---TCAAA-CCCAAAACCTC
*
16388817 TAAACCTTAAAATCAAATCCC-AAACCT-
1 TAAACCCTAAAATCAAA-CCCAAAACCTC
* * *
16388844 TCAAACCCTATAATTAAACCCCAAACCTC
1 T-AAACCCTAAAATCAAACCCAAAACCTC
* *
16388873 CAAA-CCTAAAAATTAAACCCTAAATA-CTC
1 TAAACCCT-AAAATCAAACCC-AAA-ACCTC
* *
16388902 TAAACCCTAAAACTAAAACTTC-AAACCTC
1 TAAACCCTAAAA-TCAAAC-CCAAAACCTC
* * *
16388931 -AAATCTTAAAATCAAATCCCTAAAACGTC
1 TAAACCCTAAAATCAAA-CCC-AAAACCTC
*
16388960 CAAACCCTAAA
1 TAAACCCTAAA
16388971 TTTCAAAACC
Statistics
Matches: 143, Mismatches: 21, Indels: 39
0.70 0.10 0.19
Matches are distributed among these distances:
26 10 0.07
27 12 0.08
28 50 0.35
29 39 0.27
30 21 0.15
31 2 0.01
32 9 0.06
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.21
Consensus pattern (28 bp):
TAAACCCTAAAATCAAACCCAAAACCTC
Found at i:16388843 original size:28 final size:28
Alignment explanation
Indices: 16388810--16388950 Score: 101
Period size: 28 Copynumber: 5.0 Consensus size: 28
16388800 TTAAACCCCA
16388810 AAACCTCTAAACCTTAAAATCAAATCCC
1 AAACCTCTAAACCTTAAAATCAAATCCC
* * * *
16388838 AAACCT-TCAAACCCTATAATTAAACCCC
1 AAACCTCT-AAACCTTAAAATCAAATCCC
* * *
16388866 AAACCTCCAAACCTAAAAATTAAA-CCC
1 AAACCTCTAAACCTTAAAATCAAATCCC
* * * *
16388893 TAAATACTCTAAACCCTAAAA-CTAAAACTTC
1 -AAA-CCTCTAAACCTTAAAATC-AAATC-CC
*
16388924 AAACCTC-AAATCTTAAAATCAAATCCC
1 AAACCTCTAAACCTTAAAATCAAATCCC
16388951 TAAAACGTCC
Statistics
Matches: 86, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
27 5 0.06
28 57 0.66
29 19 0.22
30 4 0.05
31 1 0.01
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (28 bp):
AAACCTCTAAACCTTAAAATCAAATCCC
Found at i:16388987 original size:58 final size:55
Alignment explanation
Indices: 16388800--16388987 Score: 173
Period size: 57 Copynumber: 3.3 Consensus size: 55
16388790 CCTAAAATTT
* * *
16388800 TTAAACCCCAAAACCTCTAAACCTTAAAATCAAATCCC-AAACCTTCAAACCCTATAA
1 TTAAAACCC-AAACCTC-AAACCTTAAAATCAAATCCCTAAAACTCCAAACCCTA-AA
* * * *
16388857 TTAAACCCCAAACCTCCAAACCTAAAAATTAAA-CCCTAAATACTCTAAACCCTAAAA
1 TTAAAACCCAAACCT-CAAACCTTAAAATCAAATCCCTAAA-ACTCCAAACCCT-AAA
* * *
16388914 CTAAAACTTCAAACCTCAAATCTTAAAATCAAATCCCTAAAACGTCCAAACCCTAAA
1 TTAAAAC-CCAAACCTCAAACCTTAAAATCAAATCCCTAAAAC-TCCAAACCCTAAA
*
16388971 TTTCAAAACCCTAACCT
1 -TT-AAAACCCAAACCT
16388988 TTAAAACCTC
Statistics
Matches: 107, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
55 3 0.03
56 23 0.21
57 45 0.42
58 31 0.29
59 5 0.05
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (55 bp):
TTAAAACCCAAACCTCAAACCTTAAAATCAAATCCCTAAAACTCCAAACCCTAAA
Found at i:16390527 original size:15 final size:15
Alignment explanation
Indices: 16390499--16390528 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
16390489 GGGTGTGACT
16390499 TGAATATTTCAAAAA
1 TGAATATTTCAAAAA
16390514 TGAAT-TTTCAAAAA
1 TGAATATTTCAAAAA
16390528 T
1 T
16390529 TATTAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
TGAATATTTCAAAAA
Found at i:16393097 original size:16 final size:18
Alignment explanation
Indices: 16393065--16393097 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16393055 TATTATTTTA
16393065 ATAAATATAATATGTAAT
1 ATAAATATAATATGTAAT
16393083 ATAAATA-AATA-GTAA
1 ATAAATATAATATGTAA
16393098 AAATTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
ATAAATATAATATGTAAT
Found at i:16398731 original size:13 final size:13
Alignment explanation
Indices: 16398715--16398743 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16398705 TATGAGTTAA
16398715 TATTAAATTTTAT
1 TATTAAATTTTAT
16398728 TATTAAATTTTAT
1 TATTAAATTTTAT
16398741 TAT
1 TAT
16398744 AATTCAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTAAATTTTAT
Found at i:16399207 original size:3 final size:3
Alignment explanation
Indices: 16399199--16399252 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
16399189 TAGAACTGTT
16399199 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16399247 ATA ATA
1 ATA ATA
16399253 GTACTCTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16406830 original size:15 final size:17
Alignment explanation
Indices: 16406810--16406843 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16406800 AAACTGTTTA
16406810 AATTT-ATTAAA-ATTT
1 AATTTAATTAAATATTT
16406825 AATTTAATTAAATATTT
1 AATTTAATTAAATATTT
16406842 AA
1 AA
16406844 AACAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 6 0.35
17 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTAATTAAATATTT
Found at i:16407979 original size:26 final size:26
Alignment explanation
Indices: 16407950--16408007 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
16407940 CATAAAATTA
16407950 ATAAAAAAGAAAATATTTATATTTAT
1 ATAAAAAAGAAAATATTTATATTTAT
*
16407976 ATAAAAATGAAAATATTTATATTTAT
1 ATAAAAAAGAAAATATTTATATTTAT
16408002 ATAAAA
1 ATAAAA
16408008 TTAATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (26 bp):
ATAAAAAAGAAAATATTTATATTTAT
Found at i:16414385 original size:2 final size:2
Alignment explanation
Indices: 16414380--16414411 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16414370 AGAAAATAGG
16414380 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
16414412 AACTGAACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16418526 original size:14 final size:14
Alignment explanation
Indices: 16418507--16418536 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16418497 CTCATAATTT
*
16418507 TATCTCACAAAAAA
1 TATCTCAAAAAAAA
16418521 TATCTCAAAAAAAA
1 TATCTCAAAAAAAA
16418535 TA
1 TA
16418537 ATATAAATTT
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:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (14 bp):
TATCTCAAAAAAAA
Done.