Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168326.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_55, 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: 150338
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 2
Found at i:979 original size:23 final size:20
Alignment explanation
Indices: 944--988 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
934 AAAAAATAAA
944 ATATTAAAATAAAAATTTATAT
1 ATATTAAAAT-AAAA-TTATAT
*
966 ATATATAATATAAAATTATAT
1 ATAT-TAAAATAAAATTATAT
987 AT
1 AT
989 TTTATTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 8 0.38
23 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATTAAAATAAAATTATAT
Found at i:10888 original size:2 final size:2
Alignment explanation
Indices: 10881--10926 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
10871 CATCTTTTAG
10881 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10923 CT CT
1 CT CT
10927 ATATATATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10931 original size:2 final size:2
Alignment explanation
Indices: 10926--10965 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10916 TCTCTCTCTC
10926 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10966 CCTAAAGCAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11107 original size:36 final size:36
Alignment explanation
Indices: 11057--11129 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
11047 GATTTTAGTG
*
11057 ATATTGTACGTTCAAGGACGGAGATTAGTGGGGTGA
1 ATATTGTACATTCAAGGACGGAGATTAGTGGGGTGA
*
11093 ATATTGTACATTCAAGGAGGGAGATTAGTGGGGTGA
1 ATATTGTACATTCAAGGACGGAGATTAGTGGGGTGA
11129 A
1 A
11130 CGGGGGTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.07, G:0.36, T:0.27
Consensus pattern (36 bp):
ATATTGTACATTCAAGGACGGAGATTAGTGGGGTGA
Found at i:12887 original size:11 final size:11
Alignment explanation
Indices: 12864--12899 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
12854 TCAATTTAGA
12864 TAAAAATAATTT
1 TAAAAA-AATTT
*
12876 TTAAAAAATTT
1 TAAAAAAATTT
12887 TAAAAAAATTT
1 TAAAAAAATTT
12898 TA
1 TA
12900 TTATCTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAAAAAATTT
Found at i:13468 original size:14 final size:15
Alignment explanation
Indices: 13444--13472 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13434 AATTCAAATG
13444 CAATCAATAAATATT
1 CAATCAATAAATATT
13459 CAAT-AATAAATATT
1 CAATCAATAAATATT
13473 TTGACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
CAATCAATAAATATT
Found at i:16930 original size:18 final size:18
Alignment explanation
Indices: 16907--16948 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16897 CAATAAGCCT
* *
16907 GCAAAAGTAAAAGTAAAA
1 GCAAAAGCAAAAGAAAAA
16925 GCAAAAGCAAAAGAAAAA
1 GCAAAAGCAAAAGAAAAA
*
16943 ACAAAA
1 GCAAAA
16949 ATTAAAACTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.10, G:0.14, T:0.05
Consensus pattern (18 bp):
GCAAAAGCAAAAGAAAAA
Found at i:17756 original size:17 final size:17
Alignment explanation
Indices: 17734--17774 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
17724 AATATTTTTT
17734 TATTGTTTTGATATTTA
1 TATTGTTTTGATATTTA
17751 TATTGTTTTGATATTTA
1 TATTGTTTTGATATTTA
17768 TATTGTT
1 TATTGTT
17775 GTCAATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (17 bp):
TATTGTTTTGATATTTA
Found at i:21825 original size:18 final size:18
Alignment explanation
Indices: 21802--21891 Score: 72
Period size: 18 Copynumber: 4.8 Consensus size: 18
21792 GGTTATTATT
21802 CACCTCAAATGTATCCTC
1 CACCTCAAATGTATCCTC
*
21820 CACCTCTTCAAATGTATCCTA
1 CA-C-C-TCAAATGTATCCTC
* * * *
21841 CAACTTAAATGTATCATT
1 CACCTCAAATGTATCCTC
* * *
21859 TACCACAAATGTATCCCC
1 CACCTCAAATGTATCCTC
*
21877 CACCACAAATGTATC
1 CACCTCAAATGTATC
21892 ATCCTCAAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
18 38 0.68
19 2 0.04
20 1 0.02
21 15 0.27
ACGTcount: A:0.33, C:0.32, G:0.06, T:0.29
Consensus pattern (18 bp):
CACCTCAAATGTATCCTC
Found at i:21909 original size:12 final size:12
Alignment explanation
Indices: 21892--21921 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
21882 CAAATGTATC
21892 ATCCTCAAATAT
1 ATCCTCAAATAT
21904 ATCCTCAAATAT
1 ATCCTCAAATAT
21916 ATCCTC
1 ATCCTC
21922 CACCTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (12 bp):
ATCCTCAAATAT
Found at i:24146 original size:15 final size:15
Alignment explanation
Indices: 24105--24156 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 15
24095 TTTGTTTGAA
24105 AAAAGATTTTTTATTG
1 AAAAGATTTTTT-TTG
*
24121 AAAGGATTTTTTTTG
1 AAAAGATTTTTTTTG
24136 AAAAGACTTTTTTTTTG
1 AAAAGA--TTTTTTTTG
24153 AAAA
1 AAAA
24157 CTTATTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 8 0.25
16 11 0.34
17 13 0.41
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (15 bp):
AAAAGATTTTTTTTG
Found at i:24159 original size:15 final size:17
Alignment explanation
Indices: 24105--24156 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 17
24095 TTTGTTTGAA
*
24105 AAAAGA-TTTTTTATTG
1 AAAAGACTTTTTTTTTG
*
24121 AAAGGA--TTTTTTTTG
1 AAAAGACTTTTTTTTTG
24136 AAAAGACTTTTTTTTTG
1 AAAAGACTTTTTTTTTG
24153 AAAA
1 AAAA
24157 CTTATTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.42
16 5 0.16
17 13 0.42
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (17 bp):
AAAAGACTTTTTTTTTG
Found at i:25645 original size:3 final size:3
Alignment explanation
Indices: 25637--25797 Score: 82
Period size: 3 Copynumber: 52.7 Consensus size: 3
25627 GAAATAAATA
* *
25637 AAT AAT AAT AAT ACT AAT AAAT TAT AAT AAT AAT -AT ATAT ACA- ACAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT
* * *
25684 AAT ACT -AT ACT -AT AAT AAT ACACT ATAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-A-T A-AT AAT AAT AAT AAT AAT AAT
* * * * * *
25730 AAT AAT AAT AAT -AT AA- AAC CAT AGT AAT AACA AAT AAT AGT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* *
25774 ACT AAT AAT AAT GAAT AAC AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AA
25798 AAATGACGAA
Statistics
Matches: 122, Mismatches: 24, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
2 8 0.07
3 96 0.79
4 15 0.12
5 3 0.02
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:25685 original size:22 final size:22
Alignment explanation
Indices: 25629--25742 Score: 60
Period size: 22 Copynumber: 5.2 Consensus size: 22
25619 TAGGAAAAGA
*
25629 AATAAATAAATAATAATAATACT
1 AATAAAT-CATAATAATAATACT
*
25652 AATAAATTATAATAATAATA-T
1 AATAAATCATAATAATAATACT
*
25673 ATATACAA-CATAATACT-ATACT
1 A-ATA-AATCATAATAATAATACT
* * *
25695 -AT-AATAATACACTATACAATAAT
1 AATAAATCATA-A-TA-ATAATACT
* *
25718 AAT-AATAATAATAATAATAAT
1 AATAAATCATAATAATAATACT
25739 AATA
1 AATA
25743 TAAAACCATA
Statistics
Matches: 73, Mismatches: 8, Indels: 21
0.72 0.08 0.21
Matches are distributed among these distances:
18 2 0.03
19 3 0.04
20 3 0.04
21 17 0.23
22 25 0.34
23 14 0.19
24 9 0.12
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAATCATAATAATAATACT
Found at i:25781 original size:65 final size:66
Alignment explanation
Indices: 25641--25797 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 66
25631 TAAATAAATA
* * * *
25641 ATAATAATACTAATAAATTATAATAATAATATATATACAACATAATACTATACTATAATAATACA
1 ATAATAATAATAAT-AATAATAATAATAATATATATAAAACATAATAATATACTATAATAATACA
25706 CT
65 CT
*
25708 ATACAATAATAATAATAATAATAATAATAATA-ATATAAAACCATAGTAATA-AC-A-AATAATA
1 AT--AATAATAATAATAATAATAATAATAATATATATAAAA-CATAATAATATACTATAATAATA
*
25769 GTACT
63 -CACT
*
25774 ACTAATAATAATGAATAACAATAA
1 A-TAATAATAAT-AATAATAATAA
25798 AAATGACGAA
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
65 16 0.21
66 15 0.19
67 12 0.16
68 23 0.30
69 11 0.14
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.31
Consensus pattern (66 bp):
ATAATAATAATAATAATAATAATAATAATATATATAAAACATAATAATATACTATAATAATACAC
T
Found at i:26725 original size:86 final size:86
Alignment explanation
Indices: 26575--26988 Score: 315
Period size: 86 Copynumber: 4.8 Consensus size: 86
26565 ACAAAATTGC
* * * *
26575 AAAGAT-TCAAGATTTGCAAAGGTTTTCAAATTTGCAAGAAA-AAAAGATTCACAAGA-TTTCAA
1 AAAGATCTC-AGATTTGCAAAGATTTTCAGATTCGCAAGAAAGAAAA-ATTCACAAGACTCT-AA
* *
26637 GTTTCGCAGAGGTTTTTGATTCGT
63 GTTTCGCAAAGGTTTTAGATTCGT
* *
26661 AAAGATCTCAGGTTTGAAAAGATTTTCAGATTCGCAAGAAAGAAAAATTCACAAGACTCTAAGTT
1 AAAGATCTCAGATTTGCAAAGATTTTCAGATTCGCAAGAAAGAAAAATTCACAAGACTCTAAGTT
*
26726 TTGCAAAGGTTTTAGATTCGT
66 TCGCAAAGGTTTTAGATTCGT
* * * * *
26747 AAAGATTTTAGATTCT-CAAAGAATTTT-AGATTCGTAAGAAAGAAAGATTCACAAGACTCCAAG
1 AAAGATCTCAGATT-TGCAAAG-ATTTTCAGATTCGCAAGAAAGAAAAATTCACAAGACTCTAAG
* * *
26810 -TTCGTAAAGGTTCTAGATTCAT
64 TTTCGCAAAGGTTTTAGATTCGT
* * * ** * * ** * ** * *
26832 AAATATTTTAGATTCACAAGGACTTTT-AAATTCATAAGAAAGAAAGATTGGCAAGA-TTTCAAA
1 AAAGATCTCAGATTTGCAAAGA-TTTTCAGATTCGCAAGAAAGAAAAATTCACAAGACTCT-AAG
** *
26895 TTTTACAAAGGTTCTAGATTCGT
64 TTTCGCAAAGGTTTTAGATTCGT
* * ** * * *
26918 AAAGATTTTAGATTTGCAAAGACTTTT-AGATTCATAAAAAAGAAAGATTCACAAGACTCCAAGT
1 AAAGATCTCAGATTTGCAAAGA-TTTTCAGATTCGCAAGAAAGAAAAATTCACAAGACTCTAAGT
*
26982 TTTGCAA
65 TTCGCAA
26989 GAGTTAAAAA
Statistics
Matches: 272, Mismatches: 46, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
84 2 0.01
85 66 0.24
86 189 0.69
87 15 0.06
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (86 bp):
AAAGATCTCAGATTTGCAAAGATTTTCAGATTCGCAAGAAAGAAAAATTCACAAGACTCTAAGTT
TCGCAAAGGTTTTAGATTCGT
Found at i:26774 original size:18 final size:17
Alignment explanation
Indices: 26730--26783 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
26720 TAAGTTTTGC
*
26730 AAAGGTTTTAGATTCGT
1 AAAGATTTTAGATTCGT
26747 AAAGATTTTAGATTC-T
1 AAAGATTTTAGATTCGT
26763 CAAAGAATTTTAGATTCGT
1 -AAAG-ATTTTAGATTCGT
26782 AA
1 AA
26784 GAAAGAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 1 0.03
17 18 0.55
18 13 0.39
19 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (17 bp):
AAAGATTTTAGATTCGT
Found at i:26929 original size:17 final size:18
Alignment explanation
Indices: 26909--26955 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
26899 ACAAAGGTTC
26909 TAGATTCGTAAAGA-TTT
1 TAGATTCGTAAAGACTTT
* *
26926 TAGATTTGCAAAGACTTT
1 TAGATTCGTAAAGACTTT
*
26944 TAGATTCATAAA
1 TAGATTCGTAAA
26956 AAAGAAAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (18 bp):
TAGATTCGTAAAGACTTT
Found at i:27824 original size:12 final size:12
Alignment explanation
Indices: 27807--27907 Score: 50
Period size: 12 Copynumber: 8.5 Consensus size: 12
27797 CTTTTTCCTT
27807 TTTTTTCTTTTC
1 TTTTTTCTTTTC
**
27819 TTTTTTCACTTTGG
1 TTTTTT--CTTTTC
27833 TTTTTTCTTTTC
1 TTTTTTCTTTTC
* *
27845 ACTTATT-TTTTC
1 -TTTTTTCTTTTC
* *
27857 TCTTATT-TTATC
1 T-TTTTTCTTTTC
*
27869 -TTTTT-TTTTG
1 TTTTTTCTTTTC
* *
27879 TTTTTACTTTTT
1 TTTTTTCTTTTC
27891 TTTTTTCTTTT-
1 TTTTTTCTTTTC
27902 TTTTTT
1 TTTTTT
27908 TGCCCCTTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
10 7 0.10
11 10 0.14
12 38 0.55
13 4 0.06
14 10 0.14
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:27882 original size:29 final size:29
Alignment explanation
Indices: 27850--27906 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
27840 TTTTCACTTA
*
27850 TTTTTTCTCTTATTTTATCTTTTTTTTTG
1 TTTTTACTCTTATTTTATCTTTTTTTTTG
* * *
27879 TTTTTACTTTTTTTTTTTCTTTTTTTTT
1 TTTTTACTCTTATTTTATCTTTTTTTTT
27907 TTGCCCCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (29 bp):
TTTTTACTCTTATTTTATCTTTTTTTTTG
Found at i:27902 original size:19 final size:19
Alignment explanation
Indices: 27806--27902 Score: 79
Period size: 19 Copynumber: 4.9 Consensus size: 19
27796 CCTTTTTCCT
27806 TTTTTTTCTTTTCTTTTTTCAC
1 TTTTTTT-TTTTC-TTTTT-AC
** *
27828 TTTGGTTTTTTCTTTTCAC
1 TTTTTTTTTTTCTTTTTAC
* *
27847 TTATTTTTTCTCTTATTTTA-
1 TTTTTTTTTTTC-T-TTTTAC
* *
27867 TCTTTTTTTTTGTTTTTAC
1 TTTTTTTTTTTCTTTTTAC
27886 TTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTCTTTTT
27903 TTTTTTGCCC
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
18 5 0.09
19 26 0.45
20 13 0.22
21 9 0.16
22 5 0.09
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTTTTTTTCTTTTTAC
Found at i:27908 original size:12 final size:12
Alignment explanation
Indices: 27850--27908 Score: 57
Period size: 12 Copynumber: 4.7 Consensus size: 12
27840 TTTTCACTTA
*
27850 TTTTTTCTCTTAT
1 TTTTTTTTCTT-T
27863 TTTATCTTTT-TTT
1 TTT-T-TTTTCTTT
*
27876 TTGTTTTTACTTT
1 TT-TTTTTTCTTT
27889 TTTTTTTTCTTT
1 TTTTTTTTCTTT
27901 TTTTTTTT
1 TTTTTTTT
27909 GCCCCTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 20 0.51
13 12 0.31
14 4 0.10
15 3 0.08
ACGTcount: A:0.05, C:0.08, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:28283 original size:15 final size:15
Alignment explanation
Indices: 28265--28295 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
28255 AATTTCTCCA
28265 TTTTCCTTTTCTTTT
1 TTTTCCTTTTCTTTT
*
28280 TTTTTCTTTTCTTTT
1 TTTTCCTTTTCTTTT
28295 T
1 T
28296 CATTTGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCCTTTTCTTTT
Found at i:31861 original size:13 final size:13
Alignment explanation
Indices: 31843--31867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31833 AAAATATCTT
31843 TTATTATTTTTTA
1 TTATTATTTTTTA
31856 TTATTATTTTTT
1 TTATTATTTTTT
31868 GAAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:32011 original size:19 final size:17
Alignment explanation
Indices: 31982--32017 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
31972 TTTATTATAT
31982 AAAGATTTTTATTTGAAA
1 AAAGATTTTTA-TTGAAA
32000 AAAGATTTTTTATTGAAA
1 AAAGA-TTTTTATTGAAA
32018 GGATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAGATTTTTATTGAAA
Found at i:32032 original size:14 final size:14
Alignment explanation
Indices: 32000--32069 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 14
31990 TTATTTGAAA
32000 AAAGATTTTTTATTG
1 AAAGATTTTTT-TTG
32015 AAAGGATTTTTTTT-
1 AAA-GATTTTTTTTG
32029 AAAGATTTTTTTTG
1 AAAGATTTTTTTTG
*
32043 AAA-A-CTTTTTTG
1 AAAGATTTTTTTTG
32055 AAAAGACTTTTTTTT
1 -AAAGA-TTTTTTTT
32070 TTGTTTAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
12 7 0.15
13 14 0.30
14 7 0.15
15 5 0.11
16 14 0.30
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.54
Consensus pattern (14 bp):
AAAGATTTTTTTTG
Found at i:32065 original size:28 final size:27
Alignment explanation
Indices: 31999--32069 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 27
31989 TTTATTTGAA
*
31999 AAAAGATTTTTTATTGAAAGGATTTTTTT
1 AAAAGATTTTTT-TTGAAA-GATTTTTTG
*
32028 TAAAGATTTTTTTTGAAA-ACTTTTTTG
1 AAAAGATTTTTTTTGAAAGA-TTTTTTG
32055 AAAAGACTTTTTTTT
1 AAAAGA-TTTTTTTT
32070 TTGTTTAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.03
27 11 0.30
28 14 0.38
29 11 0.30
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (27 bp):
AAAAGATTTTTTTTGAAAGATTTTTTG
Found at i:32066 original size:15 final size:15
Alignment explanation
Indices: 31999--32068 Score: 60
Period size: 14 Copynumber: 4.9 Consensus size: 15
31989 TTTATTTGAA
*
31999 AAAAGATTTTTTATTG
1 AAAAGACTTTTT-TTG
*
32015 AAAGGA-TTTTTTT-
1 AAAAGACTTTTTTTG
* *
32028 TAAAGATTTTTTTTG
1 AAAAGACTTTTTTTG
32043 -AAA-AC-TTTTTTG
1 AAAAGACTTTTTTTG
32055 AAAAGACTTTTTTT
1 AAAAGACTTTTTTT
32069 TTTGTTTAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
12 7 0.16
13 8 0.18
14 14 0.31
15 11 0.24
16 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (15 bp):
AAAAGACTTTTTTTG
Found at i:32127 original size:19 final size:19
Alignment explanation
Indices: 32086--32127 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32076 AAGTTTAAGT
*
32086 TTTTGTTTTTCTTTTGCTC
1 TTTTGTTTTTCTTTTGCTA
* *
32105 TTTTGTTTTTTTTTTTCTA
1 TTTTGTTTTTCTTTTGCTA
32124 TTTT
1 TTTT
32128 TCAGAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.81
Consensus pattern (19 bp):
TTTTGTTTTTCTTTTGCTA
Found at i:32177 original size:23 final size:25
Alignment explanation
Indices: 32151--32247 Score: 87
Period size: 24 Copynumber: 3.9 Consensus size: 25
32141 ATTTTTTTAT
32151 ATAAATAAAAA-TAC-AATAAAATA
1 ATAAATAAAAACTACAAATAAAATA
*
32174 ATAATAAAAAAACTACAAATAAAATA
1 ATAA-ATAAAAACTACAAATAAAATA
* *
32200 ATAATAAAAAAAACTACAAAT-AAATG
1 AT-A-AATAAAAACTACAAATAAAATA
*
32226 A-AAATCAAAAAATA-AAATAAAA
1 ATAAAT-AAAAACTACAAATAAAA
32248 ATGAAAAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
23 10 0.16
24 17 0.27
25 3 0.05
26 16 0.25
27 16 0.25
28 1 0.02
ACGTcount: A:0.74, C:0.06, G:0.01, T:0.19
Consensus pattern (25 bp):
ATAAATAAAAACTACAAATAAAATA
Found at i:32194 original size:26 final size:26
Alignment explanation
Indices: 32151--32247 Score: 114
Period size: 26 Copynumber: 3.8 Consensus size: 26
32141 ATTTTTTTAT
*
32151 ATAAATAAAAATAC-AATAAAATAATA
1 ATAAA-AAAACTACAAATAAAATAATA
32177 ATAAAAAAACTACAAATAAAATAATA
1 ATAAAAAAACTACAAATAAAATAATA
32203 ATAAAAAAAACTACAAAT-AAATGAA-A
1 AT-AAAAAAACTACAAATAAAAT-AATA
*
32229 ATCAAAAAA-TA-AAATAAAA
1 ATAAAAAAACTACAAATAAAA
32248 ATGAAAAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
23 4 0.06
24 5 0.08
25 13 0.20
26 26 0.40
27 17 0.26
ACGTcount: A:0.74, C:0.06, G:0.01, T:0.19
Consensus pattern (26 bp):
ATAAAAAAACTACAAATAAAATAATA
Found at i:32237 original size:27 final size:27
Alignment explanation
Indices: 32151--32223 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
32141 ATTTTTTTAT
32151 ATAAATAAAAA-TAC-AATAAAATAATA
1 ATAAA-AAAAACTACAAATAAAATAATA
32177 AT-AAAAAAACTACAAATAAAATAATA
1 ATAAAAAAAACTACAAATAAAATAATA
32203 ATAAAAAAAACTACAAATAAA
1 ATAAAAAAAACTACAAATAAA
32224 TGAAAATCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
24 5 0.11
25 5 0.11
26 16 0.36
27 18 0.41
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (27 bp):
ATAAAAAAAACTACAAATAAAATAATA
Found at i:32238 original size:18 final size:19
Alignment explanation
Indices: 32217--32256 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
32207 AAAAAACTAC
*
32217 AAAT-AAATGAAAATCAAA
1 AAATAAAATAAAAATCAAA
*
32235 AAATAAAATAAAAATGAAA
1 AAATAAAATAAAAATCAAA
32254 AAA
1 AAA
32257 AGAAACCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (19 bp):
AAATAAAATAAAAATCAAA
Found at i:32249 original size:11 final size:11
Alignment explanation
Indices: 32153--32254 Score: 63
Period size: 11 Copynumber: 9.3 Consensus size: 11
32143 TTTTTTATAT
32153 AAATAAAAATA
1 AAATAAAAATA
*
32164 CAAT-AAAATA
1 AAATAAAAATA
32174 ATAAT-AAAA-A
1 A-AATAAAAATA
* *
32184 AACTACAAATA
1 AAATAAAAATA
*
32195 AAATAATAATA
1 AAATAAAAATA
*
32206 AAA-AAAACTA
1 AAATAAAAATA
32216 CAAAT--AAATGA
1 -AAATAAAAAT-A
32227 AAATCAAAAAATA
1 AAAT--AAAAATA
32240 AAATAAAAATGA
1 AAATAAAAAT-A
32252 AAA
1 AAA
32255 AAAGAAACCT
Statistics
Matches: 70, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
9 2 0.03
10 23 0.33
11 32 0.46
12 4 0.06
13 5 0.07
14 4 0.06
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:34321 original size:13 final size:13
Alignment explanation
Indices: 34305--34329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34295 AATTACAAAC
34305 ATAAATAAAATTG
1 ATAAATAAAATTG
34318 ATAAATAAAATT
1 ATAAATAAAATT
34330 ATTACGCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATAAATAAAATTG
Found at i:36009 original size:15 final size:14
Alignment explanation
Indices: 35948--36021 Score: 61
Period size: 12 Copynumber: 5.6 Consensus size: 14
35938 GGTTTATTAA
35948 AAATATTTAA-AA-
1 AAATATTTAATAAT
35960 AAATATTTAA-AAT
1 AAATATTTAATAAT
*
35973 -ATTATTT-ATAATT
1 AAATATTTAATAA-T
*
35986 CAA-ATTTAATCAAT
1 AAATATTTAAT-AAT
*
36000 ACATATTTAATAAT
1 AAATATTTAATAAT
36014 AAATATTT
1 AAATATTT
36022 TGACAAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
11 1 0.02
12 20 0.40
13 5 0.10
14 15 0.30
15 9 0.18
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATATTTAATAAT
Found at i:37612 original size:17 final size:18
Alignment explanation
Indices: 37585--37619 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
37575 TAAAATTTAA
37585 TTTATAAAATAAAAAATT
1 TTTATAAAATAAAAAATT
37603 TTTA-AAAATAAAAAATT
1 TTTATAAAATAAAAAATT
37620 ATTTTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTATAAAATAAAAAATT
Found at i:37625 original size:20 final size:21
Alignment explanation
Indices: 37585--37642 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
37575 TAAAATTTAA
*
37585 TTTATAAAAT-AAAAA--ATT
1 TTTAAAAAATAAAAAATTATT
37603 TTT-AAAAATAAAAAATTATT
1 TTTAAAAAATAAAAAATTATT
*
37623 TTTGAAAAAATAAAATATTA
1 TTT-AAAAAATAAAAAATTA
37643 AAATAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 5 0.15
18 8 0.24
20 6 0.18
22 14 0.42
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TTTAAAAAATAAAAAATTATT
Found at i:45687 original size:6 final size:6
Alignment explanation
Indices: 45674--45715 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
45664 TGATAAGCCT
* * *
45674 GCAAAA GTAAAA GTAAAA ACAAAA GCAAAA GCAAAA GCAAAA
1 GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA
45716 AATAAAACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.69, C:0.12, G:0.14, T:0.05
Consensus pattern (6 bp):
GCAAAA
Found at i:46044 original size:20 final size:20
Alignment explanation
Indices: 46005--46044 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45995 AATGCGAGAG
* *
46005 AAAATGAGAGATGAAAAAAA
1 AAAAGGAGAGAAGAAAAAAA
46025 AAAAGGAGAGAAGAAGAAAA
1 AAAAGGAGAGAAGAA-AAAA
46045 TTTTGGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (20 bp):
AAAAGGAGAGAAGAAAAAAA
Found at i:46193 original size:16 final size:18
Alignment explanation
Indices: 46172--46212 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
46162 GATTGGGTGT
*
46172 GGTGGGGTATT-GGG-GG
1 GGTGGGGCATTGGGGAGG
46188 GGTGGGGCATTGGGGAGG
1 GGTGGGGCATTGGGGAGG
46206 GGTGGGG
1 GGTGGGG
46213 GTTGAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 3 0.14
18 9 0.41
ACGTcount: A:0.07, C:0.02, G:0.71, T:0.20
Consensus pattern (18 bp):
GGTGGGGCATTGGGGAGG
Found at i:46490 original size:20 final size:19
Alignment explanation
Indices: 46452--46491 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46442 TGTATATGAA
*
46452 TTTTAATATTTTTTTATTG
1 TTTTAATATTTTATTATTG
*
46471 TTTTGATATTTATATTATTG
1 TTTTAATATTT-TATTATTG
46491 T
1 T
46492 CAATTCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTAATATTTTATTATTG
Found at i:46729 original size:26 final size:25
Alignment explanation
Indices: 46687--46737 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
46677 TAAAAAATAA
* *
46687 AAAATATAGGTTTAAAAATTTTATT
1 AAAATATAAGTTGAAAAATTTTATT
*
46712 AAAATATAAGTCTGAAAATTTTTATT
1 AAAATATAAGT-TGAAAAATTTTATT
46738 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (25 bp):
AAAATATAAGTTGAAAAATTTTATT
Found at i:52648 original size:13 final size:13
Alignment explanation
Indices: 52630--52654 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52620 AAAATATCTT
52630 TTATTATTTTTTA
1 TTATTATTTTTTA
52643 TTATTATTTTTT
1 TTATTATTTTTT
52655 GAAACAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:52821 original size:14 final size:15
Alignment explanation
Indices: 52784--52827 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
52774 TTTATTTGAA
52784 AAAAGATTTTTTATTG
1 AAAAGATTTTTT-TTG
*
52800 AAAGGATTTTTTTT-
1 AAAAGATTTTTTTTG
52814 AAAAGATTTTTTTT
1 AAAAGATTTTTTTT
52828 TTGAAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 13 0.50
15 2 0.08
16 11 0.42
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (15 bp):
AAAAGATTTTTTTTG
Found at i:52826 original size:16 final size:16
Alignment explanation
Indices: 52784--52834 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
52774 TTTATTTGAA
* *
52784 AAAAGATTTTTTATTG
1 AAAAGATTTTTTTTTT
*
52800 AAAGGA--TTTTTTTT
1 AAAAGATTTTTTTTTT
52814 AAAAGATTTTTTTTTT
1 AAAAGATTTTTTTTTT
52830 GAAAA
1 -AAAA
52835 CTTATTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 11 0.39
16 13 0.46
17 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (16 bp):
AAAAGATTTTTTTTTT
Found at i:52827 original size:15 final size:15
Alignment explanation
Indices: 52784--52828 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
52774 TTTATTTGAA
*
52784 AAAAGATTTTTTATTG
1 AAAAGATTTTTT-TTT
*
52800 AAAGGA-TTTTTTTT
1 AAAAGATTTTTTTTT
52814 AAAAGATTTTTTTTT
1 AAAAGATTTTTTTTT
52829 TGAAAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 7 0.28
15 13 0.52
16 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (15 bp):
AAAAGATTTTTTTTT
Found at i:52856 original size:30 final size:30
Alignment explanation
Indices: 52775--52855 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
52765 GTAAGAAATT
* *
52775 TTATTTGAAAAAAGATTTTTTATTGAAAGGAT
1 TTATTTGAAAAAA-TTTTTTTATTGAAA-GAC
* * * *
52807 TTTTTTTAAAAGATTTTTTTTTTGAAA-AC
1 TTATTTGAAAAAATTTTTTTATTGAAAGAC
52836 TTATTTGAAAAAATTTTTTT
1 TTATTTGAAAAAATTTTTTT
52856 TGTTTAAGTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 18 0.45
31 12 0.30
32 10 0.25
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.53
Consensus pattern (30 bp):
TTATTTGAAAAAATTTTTTTATTGAAAGAC
Found at i:52880 original size:28 final size:28
Alignment explanation
Indices: 52850--52909 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
52840 TTGAAAAAAT
*
52850 TTTTTTTG-T-TTAAGTTTTTTCTTTTA
1 TTTTTTTGTTCTTTAGTTTTTTCTTTTA
*
52876 TTTTTTTGTTCTTTTGTTTTTTCTTTTA
1 TTTTTTTGTTCTTTAGTTTTTTCTTTTA
52904 TTTTTT
1 TTTTTT
52910 AGAAAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.27
27 1 0.03
28 21 0.70
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.82
Consensus pattern (28 bp):
TTTTTTTGTTCTTTAGTTTTTTCTTTTA
Found at i:52887 original size:16 final size:15
Alignment explanation
Indices: 52864--52909 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
52854 TTTGTTTAAG
52864 TTTTTTCTTTTATTT
1 TTTTTTCTTTTATTT
*
52879 TTTTGTTC--TT-TTG
1 TTTT-TTCTTTTATTT
52892 TTTTTTCTTTTATTT
1 TTTTTTCTTTTATTT
52907 TTT
1 TTT
52910 AGAAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 3 0.12
13 6 0.24
14 4 0.16
15 9 0.36
16 3 0.12
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.85
Consensus pattern (15 bp):
TTTTTTCTTTTATTT
Found at i:53027 original size:25 final size:24
Alignment explanation
Indices: 52986--53032 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
52976 TACAAACTTT
* *
52986 AAAACGTAAAAATAAATGAAAATC
1 AAAAAGTAAAAAAAAATGAAAATC
53010 AAAAAGTAAAATAAAAATGAAAA
1 AAAAAGTAAAA-AAAAATGAAAA
53033 AAGGTGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (24 bp):
AAAAAGTAAAAAAAAATGAAAATC
Found at i:53909 original size:21 final size:21
Alignment explanation
Indices: 53885--53924 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
53875 CCAAAATTTT
53885 CAAAAAACCTA-AATTCCTACC
1 CAAAAAACCTAGAA-TCCTACC
*
53906 CAAAAATCCTAGAATCCTA
1 CAAAAAACCTAGAATCCTA
53925 ATTCTCGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (21 bp):
CAAAAAACCTAGAATCCTACC
Found at i:54342 original size:14 final size:14
Alignment explanation
Indices: 54323--54352 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54313 TTAGGAAAGG
54323 AAATAAATAAAAAT
1 AAATAAATAAAAAT
*
54337 AAATAAATAATAAT
1 AAATAAATAAAAAT
54351 AA
1 AA
54353 TACTAATAAA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:55619 original size:414 final size:413
Alignment explanation
Indices: 54850--55673 Score: 1452
Period size: 414 Copynumber: 2.0 Consensus size: 413
54840 CACAAATGAA
* *
54850 TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGGGCTGAAATCAGATGACTAGGAC
1 TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGAGCTGAAATCAGATGACTAAGAC
* *
54915 AATGTTGTGAGCCTAAAAGCGATCAGGATTGAGTCGAGGTCGAAGATGAATGATTGAGATGATAC
66 AATGTTATGAGCCTAAAAGCGATCAGGATTGAGTCGAGGTCGAAGATGAATGATCGAGATGATAC
* *
54980 CATAAGTAACGAAATGATCTAGCCTGAGCTAAGATTGGATGACTGAGATGATGCCACGAGTTTAA
131 CACAAGTAACGAAATGATCTAGCCTGAGCCAAGATTGGATGACTGAGATGATGCCACGAGTTTAA
55045 AAGAGACCAAGATCGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCAAGCAAAT
196 AAGAGACCAAGATCGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCAAGCAAAT
*
55110 GATTTGGCTTAAGCTGAGATCAGATGATTGGGATGATGCCATAGGTTAGAAAAATAAAGTTTAAA
261 GATTTGGCTTAAGCTGAGATCAGATGATTGGGATGATGCCATAGGTTAGAAAAATAAAGTTCAAA
* *
55175 ATTTCACTCTAAATCCAAATATTCACAATTTGACCATTCAAAAATTTGTGAGGTTCCATAATAGA
326 ATTTCACTATAAATCCAAAGATTCACAATTTGACCATTCAAAAATTTGTGAGGTTCCATAATAGA
55240 AGTTGAAAGATCCCAAGTTTAAC
391 AGTTGAAAGATCCCAAGTTTAAC
*
55263 TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGAGCTGAGATCAGATGACTAAGAC
1 TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGAGCTGAAATCAGATGACTAAGAC
* * *
55328 AATGTTATGAGCCTAAAAGTGATCAGGATTGAGTCGTGGTCGAAGATGAATGATCGGGATGATAC
66 AATGTTATGAGCCTAAAAGCGATCAGGATTGAGTCGAGGTCGAAGATGAATGATCGAGATGATAC
55393 CACAAGTAACGAAAATGATCTAGCCTGAGCCAAGATTGGATGACTGAGATGATGCCACGAGTTTA
131 CACAAGTAACG-AAATGATCTAGCCTGAGCCAAGATTGGATGACTGAGATGATGCCACGAGTTTA
* *
55458 AAAGAGACCAAGATTGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCAAGTAAA
195 AAAGAGACCAAGATCGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCAAGCAAA
* *
55523 TGATTTGGCTTAAGCT-AGGATTAGATGATTGGGATGATGCCATAGGTTAGAAAAATATAGTTCA
260 TGATTTGGCTTAAGCTGA-GATCAGATGATTGGGATGATGCCATAGGTTAGAAAAATAAAGTTCA
* *
55587 AATTTTCACTATAAATCCAAAGATTCACAATTTGACCATTCAAAAATTTGTGATGTTCCATAATA
324 AAATTTCACTATAAATCCAAAGATTCACAATTTGACCATTCAAAAATTTGTGAGGTTCCATAATA
55652 GAAGTTGAAAGATCCCAAGTTT
389 GAAGTTGAAAGATCCCAAGTTT
55674 CACAAAATTG
Statistics
Matches: 390, Mismatches: 19, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
413 133 0.34
414 257 0.66
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (413 bp):
TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGAGCTGAAATCAGATGACTAAGAC
AATGTTATGAGCCTAAAAGCGATCAGGATTGAGTCGAGGTCGAAGATGAATGATCGAGATGATAC
CACAAGTAACGAAATGATCTAGCCTGAGCCAAGATTGGATGACTGAGATGATGCCACGAGTTTAA
AAGAGACCAAGATCGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCAAGCAAAT
GATTTGGCTTAAGCTGAGATCAGATGATTGGGATGATGCCATAGGTTAGAAAAATAAAGTTCAAA
ATTTCACTATAAATCCAAAGATTCACAATTTGACCATTCAAAAATTTGTGAGGTTCCATAATAGA
AGTTGAAAGATCCCAAGTTTAAC
Found at i:55859 original size:86 final size:86
Alignment explanation
Indices: 55708--56099 Score: 326
Period size: 86 Copynumber: 4.6 Consensus size: 86
55698 TTGAAAAGGT
* * * * * ** * * ** *
55708 TTTCAAATTTGCAAGAATGAAAGATTCACAAGATTTCAAGTTTCATAGAGGTTTTTTATTAGTAA
1 TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTCGCAAAGGTTCTAGATTCGTAA
*
55773 AGATCTCAGGTT-TGCAAAGA-
66 AGATTTCAGGTTAT-CAAAGAC
* *
55793 TTTACAAATTCGCAAGAAAGAAAAATTCACAAGACTCTAAGTTTTGCAAAGGTGTC-AGATTCGT
1 TTT-CAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTCGCAAAGGT-TCTAGATTCGT
* *
55857 AAAGATTTTAGATTATCAAAGAC
64 AAAGATTTCAGGTTATCAAAGAC
* * * *
55880 TTTTAGATTCGTAAGAAAGAAAAATTCACAAGACTCCAAGTTTCGCAAAGGTTCTAGATTCATAA
1 TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTCGCAAAGGTTCTAGATTCGTAA
*
55945 AGATTTCAGGTTCA-CAAGGAC
66 AGATTTCAGGTT-ATCAAAGAC
* * * * ** * * * * * *
55966 TTTTAAATTCACAAAAAAGAAAATTTTGCAAGATTTCAAATTTCGCAAAAGTTCTATATTCATAA
1 TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTCGCAAAGGTTCTAGATTCGTAA
* *
56031 AGATTTTAGATT-TGCAAAGAC
66 AGATTTCAGGTTAT-CAAAGAC
* * ** * *
56052 TTTTAGATTCATAAAAAAGAAAGATTCACAAGACTCCAAGTTTCGCAA
1 TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTCGCAA
56100 GAGTTAAAAA
Statistics
Matches: 249, Mismatches: 50, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
85 5 0.02
86 238 0.96
87 6 0.02
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (86 bp):
TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTCGCAAAGGTTCTAGATTCGTAA
AGATTTCAGGTTATCAAAGAC
Found at i:55869 original size:17 final size:18
Alignment explanation
Indices: 55849--55893 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
55839 CAAAGGTGTC
55849 AGATTCGTAAAGA-TTTT
1 AGATTCGTAAAGACTTTT
*
55866 AGATT-ATCAAAGACTTTT
1 AGATTCGT-AAAGACTTTT
55884 AGATTCGTAA
1 AGATTCGTAA
55894 GAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 1 0.04
17 10 0.43
18 11 0.48
19 1 0.04
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (18 bp):
AGATTCGTAAAGACTTTT
Found at i:56942 original size:14 final size:12
Alignment explanation
Indices: 56917--56995 Score: 56
Period size: 12 Copynumber: 6.5 Consensus size: 12
56907 CCCTTTTTTC
56917 TCTTTTTTCTTT
1 TCTTTTTTCTTT
56929 TCTTTTTTCACTTT
1 TCTTTTTT--CTTT
** *
56943 GGTTTTTTCTTC
1 TCTTTTTTCTTT
*
56955 TCTTATTTTATCTT
1 TCTT-TTTTCT-TT
56969 TC-TTTTT-TTT
1 TCTTTTTTCTTT
*
56979 TGTTTTTTCTTT
1 TCTTTTTTCTTT
56991 T-TTTT
1 TCTTTT
56996 CTTTTGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
10 3 0.06
11 10 0.19
12 21 0.40
13 6 0.11
14 13 0.25
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:56950 original size:21 final size:21
Alignment explanation
Indices: 56909--56953 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
56899 CTAAGTCTCC
* *
56909 CTTTTTTCTCTTTTTTCTTTT
1 CTTTTTTCACTTTGTTCTTTT
56930 CTTTTTTCACTTTGGTT-TTTT
1 CTTTTTTCACTTT-GTTCTTTT
56951 CTT
1 CTT
56954 CTCTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
CTTTTTTCACTTTGTTCTTTT
Found at i:56974 original size:26 final size:25
Alignment explanation
Indices: 56917--56976 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
56907 CCCTTTTTTC
*
56917 TCTTTTTTCTTTTCTTTTTTCACTT
1 TCTTTTTTCTTCTCTTTTTTCACTT
*
56942 TGGTTTTTTCTTCTCTTATTTT-ATCTT
1 T-CTTTTTTCTTCTCTT-TTTTCA-CTT
56969 TCTTTTTT
1 TCTTTTTT
56977 TTTGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 20 0.69
27 8 0.28
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (25 bp):
TCTTTTTTCTTCTCTTTTTTCACTT
Found at i:56984 original size:36 final size:36
Alignment explanation
Indices: 56910--56989 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 36
56900 TAAGTCTCCC
*
56910 TTTT-TTCTCTTTTTTCTTTTCTTTTTTCACTTTGGTT
1 TTTTCTTCTCTTTTTTATTTTCTTTTTT--CTTTGGTT
56947 TTTTCTTCTCTTATTTTATCTTTCTTTTTT-TTT-GTT
1 TTTTCTTCTCTT-TTTTAT-TTTCTTTTTTCTTTGGTT
56983 TTTTCTT
1 TTTTCTT
56990 TTTTTTCTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
36 10 0.26
37 7 0.18
38 7 0.18
39 5 0.13
40 10 0.26
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.78
Consensus pattern (36 bp):
TTTTCTTCTCTTTTTTATTTTCTTTTTTCTTTGGTT
Found at i:56989 original size:21 final size:20
Alignment explanation
Indices: 56960--57021 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
56950 TCTTCTCTTA
*
56960 TTTTATCTTTCTTTTTTTTTG
1 TTTTTTCTTT-TTTTTTTTTG
56981 TTTTTTCTTTTTTTTCTTTTG
1 TTTTTTCTTTTTTTT-TTTTG
* *
57002 TTTTTGCCTTTTTTTTTTTG
1 TTTTTTCTTTTTTTTTTTTG
57022 CCTCACTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.27
21 27 0.73
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.82
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTTTTTG
Found at i:56997 original size:26 final size:26
Alignment explanation
Indices: 56967--57020 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
56957 TTATTTTATC
**
56967 TTTCTTTT-TTTTTGTTTTTTCTTTTT
1 TTTCTTTTGTTTTTGCCTTTT-TTTTT
56993 TTTCTTTTGTTTTTGCCTTTTTTTTT
1 TTTCTTTTGTTTTTGCCTTTTTTTTT
57019 TT
1 TT
57021 GCCTCACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (26 bp):
TTTCTTTTGTTTTTGCCTTTTTTTTT
Found at i:57000 original size:14 final size:14
Alignment explanation
Indices: 56912--57006 Score: 68
Period size: 14 Copynumber: 6.7 Consensus size: 14
56902 AGTCTCCCTT
*
56912 TTTTCTCTTTTTTC
1 TTTTCTTTTTTTTC
**
56926 TTTTCTTTTTTCAC
1 TTTTCTTTTTTTTC
**
56940 TTTGGTTTTTTCTTC
1 TTTTCTTTTTT-TTC
* *
56955 TCTTATTTTATCTTTC
1 TTTTCTTTT-T-TTTC
*
56971 TTTT-TTTTTGTT-
1 TTTTCTTTTTTTTC
56983 TTTTCTTTTTTTTC
1 TTTTCTTTTTTTTC
*
56997 TTTTGTTTTT
1 TTTTCTTTTT
57007 GCCTTTTTTT
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
12 4 0.06
13 9 0.15
14 30 0.48
15 11 0.18
16 7 0.11
17 1 0.02
ACGTcount: A:0.03, C:0.14, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTTTTTC
Found at i:58491 original size:59 final size:58
Alignment explanation
Indices: 58253--58548 Score: 327
Period size: 59 Copynumber: 5.1 Consensus size: 58
58243 TTGTACAAGA
* * *
58253 AAAATTGATACTTTCAATTTTTCCTCAAAAA-A-TTTTTTAG-AAACTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAAC-TT-ATTTTAAAG
* **** *
58310 AAAATTGATACTTTCAACTTTTTCTCAAAAATCCACTTTT-GAAAACTTATTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTAAAG
* *
58367 AAAAATTGATACTTTCAACTTTT-CTCCAAAAAAATTTTTTTTAAGAAAGCTTATTTTAAAGG
1 -AAAATTGATACTTTCAACTTTTCCT-CAAAAATA-TTTTTTT-AGAAAACTTATTTTAAA-G
*
58429 AAAATTGATACTTTCATCTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTT-AAAG
* * **
58488 AAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTTTG-AATTTTA-TTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTAAAG
58544 AAAAT
1 AAAAT
58549 AAAATAAAAT
Statistics
Matches: 206, Mismatches: 22, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
56 9 0.04
57 41 0.20
58 36 0.17
59 65 0.32
60 10 0.05
61 42 0.20
62 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTAAAG
Found at i:58553 original size:120 final size:118
Alignment explanation
Indices: 58249--58528 Score: 333
Period size: 120 Copynumber: 2.4 Consensus size: 118
58239 ACTTTTGTAC
* * *
58249 AAGAAAAATTGATACTTTCAA-TTTT-TCCTCAAAAAA--TTTTTTAGAAA-CTTTAATTTT-GA
1 AAGAAAAATTAATACTTTCAACTTTTCTCC-AAAAAAATTTTTTTTAGAAAGC-TT-ATTTTAAA
* * *
58308 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATCCACTTTTGAAAACTTATTTTT
63 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATACACTTTTGAAAACTTATTTTA
*
58364 AAGAAAAATTGATACTTTCAACTTTTCTCCAAAAAAATTTTTTTTAAGAAAGCTTATTTTAAAGG
1 AAGAAAAATTAATACTTTCAACTTTTCTCCAAAAAAATTTTTTTT-AGAAAGCTTATTTTAAAGG
* ***
58429 AAAATTGATACTTTCATCTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCA
65 AAAATTGATACTTTCAACTTTTCCTCAAAAATACACTTTT-GAAAACTTATTTT-A
*
58485 AAG-AAAATTAATACTTTCAACTTTTC-CTCAAAAATATTTTTTTT
1 AAGAAAAATTAATACTTTCAACTTTTCTC-CAAAAAAATTTTTTTT
58529 GAATTTTATT
Statistics
Matches: 144, Mismatches: 11, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
115 21 0.15
116 10 0.07
117 3 0.02
118 11 0.08
119 45 0.31
120 51 0.35
121 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (118 bp):
AAGAAAAATTAATACTTTCAACTTTTCTCCAAAAAAATTTTTTTTAGAAAGCTTATTTTAAAGGA
AAATTGATACTTTCAACTTTTCCTCAAAAATACACTTTTGAAAACTTATTTTA
Found at i:58565 original size:6 final size:6
Alignment explanation
Indices: 58544--58607 Score: 84
Period size: 6 Copynumber: 11.5 Consensus size: 6
58534 TTATTTAAAG
*
58544 AAAAT- AAAAT- AAAATA AAAATA AAAAT- -AAAGA AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
58587 AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
58608 TGTATTAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
4 3 0.06
5 15 0.28
6 35 0.66
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:58579 original size:27 final size:27
Alignment explanation
Indices: 58549--58600 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
58539 TAAAGAAAAT
58549 AAAATAAAATAAAAATAAAAATAAAGA
1 AAAATAAAATAAAAATAAAAATAAAGA
58576 AAAATAAAATAAAAATAAAAATAAA
1 AAAATAAAATAAAAATAAAAATAAA
58601 AATAAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (27 bp):
AAAATAAAATAAAAATAAAAATAAAGA
Found at i:59234 original size:28 final size:27
Alignment explanation
Indices: 59194--59247 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
59184 ATCGAAATCT
** *
59194 AAAAATTTTCCAAAAATTTTCAAAAAAA
1 AAAAATTCACCAAAAATTCT-AAAAAAA
59222 AAAAATTCACCAAAAATTCTAAAAAA
1 AAAAATTCACCAAAAATTCTAAAAAA
59248 TTCCCATCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (27 bp):
AAAAATTCACCAAAAATTCTAAAAAAA
Found at i:59594 original size:42 final size:39
Alignment explanation
Indices: 59544--59658 Score: 117
Period size: 39 Copynumber: 2.9 Consensus size: 39
59534 AAATCAAATC
* *
59544 AAATAAAAATGTTAATAGATAATTAAAGAAAAATAATTAGAT
1 AAATAAAAATATTAA-AGATAAATAAA-AAAAATAA-TAGAT
*
59586 AAATAAAAATATTAAAGATAAATAAAAATAATAATAGAT
1 AAATAAAAATATTAAAGATAAATAAAAAAAATAATAGAT
* * *
59625 AAATTATAATA-TATAA-ATAAATAAATAATAATAA
1 AAATAAAAATATTA-AAGATAAATAAA-AAAAATAA
59659 ATACATATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
38 11 0.17
39 24 0.36
40 7 0.11
41 10 0.15
42 14 0.21
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (39 bp):
AAATAAAAATATTAAAGATAAATAAAAAAAATAATAGAT
Found at i:59604 original size:19 final size:20
Alignment explanation
Indices: 59544--59658 Score: 110
Period size: 19 Copynumber: 5.8 Consensus size: 20
59534 AAATCAAATC
**
59544 AAATAAAAATGTTAATAGAT
1 AAATAAAAATAATAATAGAT
* *
59564 AATTAAAGAAAAATAATTAGAT
1 AAATAAA-AATAATAA-TAGAT
*
59586 AAATAAAAATATTAA-AGAT
1 AAATAAAAATAATAATAGAT
59605 AAATAAAAATAATAATAGAT
1 AAATAAAAATAATAATAGAT
* * *
59625 AAATTATAAT-AT-ATAAAT
1 AAATAAAAATAATAATAGAT
59643 AAATAAATAATAATAA
1 AAATAAA-AATAATAA
59659 ATACATATAT
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
18 10 0.13
19 23 0.30
20 20 0.26
21 12 0.16
22 11 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAATAAAAATAATAATAGAT
Found at i:59610 original size:4 final size:4
Alignment explanation
Indices: 59603--59884 Score: 78
Period size: 4 Copynumber: 70.2 Consensus size: 4
59593 AATATTAAAG
* * *
59603 ATAA ATAA AAATA AT-A ATAG ATAA ATTATA ATAT ATAA ATAA ATAA AT-A
1 ATAA ATAA ATA-A ATAA ATAA ATAA A-TA-A ATAA ATAA ATAA ATAA ATAA
* * * * * *
59652 AT-A ATAA ATAC ATAT AT-A TTATA ATAT ATAA ATAG ATAAA CATAT ATAA
1 ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA AT-AA -ATAA ATAA
* * * *
59701 ATATTA AT-A ATAT ATAA ATAG ATAA ATATA TATAA ATATTA ACAG ATAA
1 ATA--A ATAA ATAA ATAA ATAA ATAA ATA-A -ATAA ATA--A ATAA ATAA
* * *
59750 A-AA A-AC ATAA ATATA TATTA ATAA ATAGTA A-CA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATA-A -ATAA ATAA ATA--A ATAA ATAA ATAA ATAA
* * *
59795 AT-A ATAA ACAC ATAA GATAC A-AA A-AA ATAA A-AA AT-A A-AA ATAA
1 ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* *
59838 A-AA ATAA A-AA ATAAA ATAA AGAT ATAAA ATAA A-AA ATAA A-AA ATAA
1 ATAA ATAA ATAA AT-AA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA
59884 A
1 A
59885 ATGGGCTTAC
Statistics
Matches: 203, Mismatches: 41, Indels: 68
0.65 0.13 0.22
Matches are distributed among these distances:
3 47 0.23
4 114 0.56
5 25 0.12
6 17 0.08
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:59673 original size:42 final size:39
Alignment explanation
Indices: 59603--59735 Score: 134
Period size: 35 Copynumber: 3.4 Consensus size: 39
59593 AATATTAAAG
59603 ATAAATAAAAATAATAATAGATA-A-ATTATAATATATAA
1 ATAAATAAAAATAATAATA-ATATATATTATAATATATAA
59641 ATAAATAAATAATAATAAATACATATATATTATAATATATAA
1 ATAAATAAA-AATAAT-AATA-ATATATATTATAATATATAA
* * *
59683 ATAGATAAACAT-AT-ATAA-ATAT-TAATAATATATAA
1 ATAAATAAAAATAATAATAATATATATTATAATATATAA
* *
59718 ATAGATAAATATATATAA
1 ATAAATAAAAATA-ATAA
59736 ATATTAACAG
Statistics
Matches: 83, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
35 23 0.28
36 4 0.05
37 3 0.04
38 13 0.16
39 6 0.07
40 9 0.11
41 3 0.04
42 22 0.27
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (39 bp):
ATAAATAAAAATAATAATAATATATATTATAATATATAA
Found at i:59678 original size:10 final size:8
Alignment explanation
Indices: 59603--59732 Score: 87
Period size: 8 Copynumber: 16.4 Consensus size: 8
59593 AATATTAAAG
59603 ATAAATA-
1 ATAAATAT
59610 A-AAATA-
1 ATAAATAT
*
59616 AT-AATAG
1 ATAAATAT
59623 ATAAAT-T
1 ATAAATAT
59630 AT-AATAT
1 ATAAATAT
*
59637 ATAAATAA
1 ATAAATAT
59645 ATAAATAAT
1 ATAAAT-AT
*
59654 AATAAATAC
1 -ATAAATAT
*
59663 ATATATAT
1 ATAAATAT
59671 -TATAATAT
1 ATA-AATAT
*
59679 ATAAATAG
1 ATAAATAT
59687 ATAAACATAT
1 AT-AA-ATAT
59697 ATAAATAT
1 ATAAATAT
59705 -TAATAATAT
1 AT-A-AATAT
*
59714 ATAAATAG
1 ATAAATAT
59722 ATAAATAT
1 ATAAATAT
59730 ATA
1 ATA
59733 TAAATATTAA
Statistics
Matches: 98, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
6 13 0.13
7 11 0.11
8 48 0.49
9 14 0.14
10 12 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (8 bp):
ATAAATAT
Found at i:59718 original size:35 final size:35
Alignment explanation
Indices: 59640--59742 Score: 138
Period size: 35 Copynumber: 3.0 Consensus size: 35
59630 ATAATATATA
* * *
59640 AATAAATAAATA-ATAATAAATACATATATATT-AT
1 AATATATAAATAGATAA-AAATATATAAATATTAAT
*
59674 AATATATAAATAGATAAACATATATAAATATTAAT
1 AATATATAAATAGATAAAAATATATAAATATTAAT
*
59709 AATATATAAATAGATAAATATATATAAATATTAA
1 AATATATAAATAGATAAAAATATATAAATATTAA
59743 CAGATAAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
34 23 0.37
35 39 0.63
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (35 bp):
AATATATAAATAGATAAAAATATATAAATATTAAT
Found at i:59802 original size:7 final size:7
Alignment explanation
Indices: 59584--59883 Score: 76
Period size: 7 Copynumber: 42.1 Consensus size: 7
59574 AAATAATTAG
59584 ATAAATA
1 ATAAATA
59591 A-AAATA
1 ATAAATA
* *
59597 TTAAA-G
1 ATAAATA
59603 ATAAATA
1 ATAAATA
59610 A-AAATA
1 ATAAATA
59616 AT-AATA
1 ATAAATA
*
59622 GATAAATT
1 -ATAAATA
59630 AT-AAT-
1 ATAAATA
*
59635 ATATA-A
1 ATAAATA
59641 ATAAATA
1 ATAAATA
59648 A-ATAATA
1 ATA-AATA
59655 ATAAATA
1 ATAAATA
*
59662 CATATATA
1 -ATAAATA
*
59670 TTATAATA
1 ATA-AATA
59678 TATAAATA
1 -ATAAATA
59686 GATAAACATA
1 -AT-AA-ATA
59696 TATAAATA
1 -ATAAATA
*
59704 TTAATAATA
1 AT-A-AATA
59713 TATAAATA
1 -ATAAATA
59721 GATAAAT-
1 -ATAAATA
*
59728 ATATATA
1 ATAAATA
*
59735 A-ATATTA
1 ATA-AATA
* *
59742 ACAGATA
1 ATAAATA
*
59749 A-AAAAA
1 ATAAATA
59755 CATAAAT-
1 -ATAAATA
*
59762 ATATATTA
1 ATA-AATA
59770 ATAAATA
1 ATAAATA
* *
59777 GT-AACA
1 ATAAATA
59783 ATAAATAA
1 ATAAAT-A
59791 ATAAATA
1 ATAAATA
*
59798 ATAAACA
1 ATAAATA
59805 CATAAGATA
1 -ATAA-ATA
*
59814 CA-AAAAA
1 -ATAAATA
*
59821 ATAAAAA
1 ATAAATA
59828 ATAAA-A
1 ATAAATA
*
59834 ATAAAAA
1 ATAAATA
*
59841 ATAAAAA
1 ATAAATA
59848 AT-AA-A
1 ATAAATA
*
59853 ATAAAGA
1 ATAAATA
59860 TATAAAATA
1 -AT-AAATA
*
59869 AAAAATA
1 ATAAATA
*
59876 AAAAATA
1 ATAAATA
59883 A
1 A
59884 AATGGGCTTA
Statistics
Matches: 223, Mismatches: 35, Indels: 70
0.68 0.11 0.21
Matches are distributed among these distances:
5 5 0.02
6 55 0.25
7 82 0.37
8 56 0.25
9 19 0.09
10 6 0.03
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:59856 original size:32 final size:32
Alignment explanation
Indices: 59782--59886 Score: 113
Period size: 32 Copynumber: 3.1 Consensus size: 32
59772 AAATAGTAAC
* *
59782 AATAAATAAATAAATAATAAACACATAAGATACAAAAA
1 AATAAA-AAATAAA-AATAAA-AAATAA-A-A-AATAA
59820 AATAAAAAATAAAAATAAAAAATAAAAAATAA
1 AATAAAAAATAAAAATAAAAAATAAAAAATAA
*
59852 AAT-AAAGATATAAAATAAAAAATAAAAAATAA
1 AATAAAAAATA-AAAATAAAAAATAAAAAATAA
59884 AAT
1 AAT
59887 GGGCTTACCC
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
31 6 0.10
32 31 0.49
33 1 0.02
34 1 0.02
35 5 0.08
36 6 0.10
37 7 0.11
38 6 0.10
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (32 bp):
AATAAAAAATAAAAATAAAAAATAAAAAATAA
Found at i:59877 original size:25 final size:25
Alignment explanation
Indices: 59783--59878 Score: 97
Period size: 25 Copynumber: 3.8 Consensus size: 25
59773 AATAGTAACA
* *
59783 ATAAATAAATAAATAATAAACACATAAG
1 ATAAA-AAATAAAAAATAAA-ATA-AAG
* * *
59811 ATACAAAA-AAATAA-AAAATAAAA
1 ATAAAAAATAAAAAATAAAATAAAG
59834 ATAAAAAATAAAAAATAAAATAAAG
1 ATAAAAAATAAAAAATAAAATAAAG
*
59859 ATATAAAATAAAAAATAAAA
1 ATAAAAAATAAAAAATAAAA
59879 AATAAAATGG
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
23 9 0.15
24 7 0.12
25 30 0.51
26 6 0.10
27 3 0.05
28 4 0.07
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (25 bp):
ATAAAAAATAAAAAATAAAATAAAG
Found at i:59884 original size:7 final size:7
Alignment explanation
Indices: 59816--59885 Score: 94
Period size: 7 Copynumber: 10.6 Consensus size: 7
59806 ATAAGATACA
59816 AAAAAAT
1 AAAAAAT
59823 AAAAAAT
1 AAAAAAT
59830 -AAAAAT
1 AAAAAAT
59836 AAAAAAT
1 AAAAAAT
59843 AAAAAAT
1 AAAAAAT
59850 --AAAAT
1 AAAAAAT
*
59855 -AAAGAT
1 AAAAAAT
*
59861 ATAAAAT
1 AAAAAAT
59868 AAAAAAT
1 AAAAAAT
59875 AAAAAAT
1 AAAAAAT
59882 AAAA
1 AAAA
59886 TGGGCTTACC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
5 5 0.09
6 10 0.18
7 41 0.73
ACGTcount: A:0.83, C:0.00, G:0.01, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:60159 original size:42 final size:42
Alignment explanation
Indices: 60067--60304 Score: 213
Period size: 45 Copynumber: 5.6 Consensus size: 42
60057 ATCAAAACTC
* * *
60067 CTCTAAGCAGAGGCTCAATGACTTTGAAAAACATAAACAAAG-TT
1 CTCTAATCAGAGGCTCAACGACTTTG--AAA-ATAAATAAAGCTT
* *
60111 CCTCTAATCAGAGGTTTAACGACTTTGAAAATAAATAAAGCTT
1 -CTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTT
* *
60154 CTCTAATCAGAGGATCAATGACTTTTGAAAATAAATAAACAAAGC-T
1 CTCTAATCAGAGGCTCAACGAC-TTTGAAAATAAAT----AAAGCTT
* *
60200 CCCTTAATCAGAGGCTCAACGACTTTG-AAATAAAT--AGCTC
1 CTC-TAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTT
* * *
60240 CTCTAATCAGAGACTCAATGACTTTTGAAAAT-AA-AAGGC-T
1 CTCTAATCAGAGGCTCAACGAC-TTTGAAAATAAATAAAGCTT
60280 CTCTAATCAGAGGCTCAACGACTTT
1 CTCTAATCAGAGGCTCAACGACTTT
60305 TGGAAAGTAA
Statistics
Matches: 162, Mismatches: 19, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
39 23 0.14
40 28 0.17
41 6 0.04
42 28 0.17
43 18 0.11
45 30 0.19
46 7 0.04
47 22 0.14
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (42 bp):
CTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTT
Found at i:60274 original size:86 final size:88
Alignment explanation
Indices: 60064--60274 Score: 290
Period size: 86 Copynumber: 2.4 Consensus size: 88
60054 TTGATCAAAA
* * * * *
60064 CTCCTCTAAGCAGAGGCTCAATGAC-TTTGAAAA-ACATAAACAAAGTTCCTCTAATCAGAGGTT
1 CTCCTCTAATCAGAGACTCAATGACTTTTGAAAATAAATAAACAAAGTCCCTCTAATCAGAGGCT
*
60127 TAACGACTTTGAAAATAAATAAAG
66 CAACGACTTTGAAAATAAAT-AAG
*
60151 CTTCTCTAATCAGAGGA-TCAATGACTTTTGAAAATAAATAAACAAAGCTCCCT-TAATCAGAGG
1 CTCCTCTAATCAGA-GACTCAATGACTTTTGAAAATAAATAAACAAAG-TCCCTCTAATCAGAGG
60214 CTCAACGACTTTG-AAATAAAT-AG
64 CTCAACGACTTTGAAAATAAATAAG
60237 CTCCTCTAATCAGAGACTCAATGACTTTTGAAAATAAA
1 CTCCTCTAATCAGAGACTCAATGACTTTTGAAAATAAA
60275 AGGCTCTCTA
Statistics
Matches: 111, Mismatches: 8, Indels: 11
0.85 0.06 0.08
Matches are distributed among these distances:
85 2 0.02
86 36 0.32
87 20 0.18
88 17 0.15
89 32 0.29
90 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (88 bp):
CTCCTCTAATCAGAGACTCAATGACTTTTGAAAATAAATAAACAAAGTCCCTCTAATCAGAGGCT
CAACGACTTTGAAAATAAATAAG
Found at i:60284 original size:40 final size:40
Alignment explanation
Indices: 60067--60357 Score: 191
Period size: 42 Copynumber: 6.9 Consensus size: 40
60057 ATCAAAACTC
* * *
60067 CTCTAAGCAGAGGCTCAATGAC-TTTGAAAAACATAAACAAAGTT
1 CTCTAATCAGAGGCTCAACGACTTTTG--AAA-AT-AA-AAAGCT
* *
60111 CCTCTAATCAGAGGTTTAACGAC-TTTGAAAATAAATAAAGCTT
1 -CTCTAATCAGAGGCTCAACGACTTTTGAAAAT-AA-AAAGC-T
* *
60154 CTCTAATCAGAGGATCAATGACTTTTGAAAATAAATAAACAAAGCT
1 CTCTAATCAGAGGCTCAACGACTTTTG---A-AAAT-AA-AAAGCT
* *
60200 CCCTTAATCAGAGGCTCAACGAC-TTTG-AAATAAATAGCT
1 CTC-TAATCAGAGGCTCAACGACTTTTGAAAATAAAAAGCT
* * *
60239 CCTCTAATCAGAGACTCAATGACTTTTGAAAATAAAAGGCT
1 -CTCTAATCAGAGGCTCAACGACTTTTGAAAATAAAAAGCT
* **
60280 CTCTAATCAGAGGCTCAACGACTTTTGGAAAGTAAATTGCT
1 CTCTAATCAGAGGCTCAACGACTTTT-GAAAATAAAAAGCT
*
60321 CCTTTGAA-CAGAGGCATCAAC-AC-TTTGAAAAATAAAA
1 -CTCT-AATCAGAGGC-TCAACGACTTTTG-AAAATAAAA
60358 TTGCTCCCTT
Statistics
Matches: 204, Mismatches: 27, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
39 22 0.11
40 33 0.16
41 35 0.17
42 40 0.20
43 15 0.07
45 22 0.11
46 8 0.04
47 29 0.14
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (40 bp):
CTCTAATCAGAGGCTCAACGACTTTTGAAAATAAAAAGCT
Found at i:60346 original size:42 final size:42
Alignment explanation
Indices: 60197--60369 Score: 127
Period size: 40 Copynumber: 4.2 Consensus size: 42
60187 AATAAACAAA
*
60197 GCTCCCTT-AATCAGAGGCTCAACGACTTTG--AAAT-AAATA
1 GCTCCCTTGAA-CAGAGGCTCAACGACTTTGAAAAATAAAATT
* * *
60236 GCT-CCTCT-AATCAGAGACTCAATGACTTTTG-AAAATAAAA-G
1 GCTCCCT-TGAA-CAGAGGCTCAACGAC-TTTGAAAAATAAAATT
* * *
60277 GCTCTC-T-AATCAGAGGCTCAACGACTTTTGGAAAGT-AAATT
1 GCTCCCTTGAA-CAGAGGCTCAACGAC-TTTGAAAAATAAAATT
*
60318 GCTCCTTTGAACAGAGGCATCAAC-ACTTTGAAAAATAAAATT
1 GCTCCCTTGAACAGAGGC-TCAACGACTTTGAAAAATAAAATT
60360 GCTCCCTTGA
1 GCTCCCTTGA
60370 TAATCCAAGT
Statistics
Matches: 110, Mismatches: 13, Indels: 19
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 20 0.18
40 29 0.26
41 23 0.21
42 28 0.25
43 7 0.06
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (42 bp):
GCTCCCTTGAACAGAGGCTCAACGACTTTGAAAAATAAAATT
Found at i:60346 original size:82 final size:79
Alignment explanation
Indices: 60064--60357 Score: 227
Period size: 89 Copynumber: 3.5 Consensus size: 79
60054 TTGATCAAAA
* * * * * * *
60064 CTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAACATAAACAAAGTTCCTCTAATCAGAGGTTTA
1 CTCCTCTAATCAGAGACTCAATCACTTTG-AAAA-AT-AA-AAGGCT-CTCTAATCAGAGGCTCA
60129 ACGACTTTGAAAATAAATAAAG
61 ACGACTTTG-AAATAAAT--AG
* * * *
60151 CTTCTCTAATCAGAGGA-TCAATGACTTTTGAAAATAAATAAACAAAGCTCCCTTAATCAGAGGC
1 CTCCTCTAATCAGA-GACTCAATCAC-TTTG--AA-AAAT-AA-AAGGCTCTC-TAATCAGAGGC
60215 TCAACGACTTTGAAATAAATAG
58 TCAACGACTTTGAAATAAATAG
*
60237 CTCCTCTAATCAGAGACTCAATGACTTTTG-AAAATAAAAGGCTCTCTAATCAGAGGCTCAACGA
1 CTCCTCTAATCAGAGACTCAATCAC-TTTGAAAAATAAAAGGCTCTCTAATCAGAGGCTCAACGA
*
60301 CTTTTGGAAAGTAAATTG
65 C-TTT-GAAA-TAAATAG
* *
60319 CTCCTTTGAA-CAGAGGCATCAA-CACTTTGAAAAATAAAA
1 CTCCTCT-AATCAGAGAC-TCAATCACTTTGAAAAATAAAA
60358 TTGCTCCCTT
Statistics
Matches: 181, Mismatches: 14, Indels: 29
0.81 0.06 0.13
Matches are distributed among these distances:
79 19 0.10
80 10 0.06
81 10 0.06
82 33 0.18
83 7 0.04
85 2 0.01
86 28 0.15
87 20 0.11
88 15 0.08
89 35 0.19
90 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (79 bp):
CTCCTCTAATCAGAGACTCAATCACTTTGAAAAATAAAAGGCTCTCTAATCAGAGGCTCAACGAC
TTTGAAATAAATAG
Found at i:61382 original size:8 final size:8
Alignment explanation
Indices: 61369--61400 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
61359 TTGAGTCTTC
61369 TTTTTTTA
1 TTTTTTTA
61377 TTTTTTTA
1 TTTTTTTA
61385 TTTTTTTA
1 TTTTTTTA
61393 TTTTTTTA
1 TTTTTTTA
61401 AAGCATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:71960 original size:58 final size:58
Alignment explanation
Indices: 71777--72051 Score: 394
Period size: 58 Copynumber: 4.7 Consensus size: 58
71767 TGTACAAAAA
* * *
71777 AAAATTGATATTTTCAACTTTTCCTCAAAAA-ATTTTTTAGAAA-CTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGC-TTATTTTCAAGG
*
71834 AAAATTGATACTTTTAACTTTTTCC-CAAAAATATTTTTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATA---TTTTTTAGAAAGCTTATTTTCAAGG
* *
71895 AAAATTGATACTTTCATCTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
* *
71953 AAAATTGATACTTTCATCTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAGCTTATTTTCAAGG
72012 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
72052 TAAAATTTTA
Statistics
Matches: 199, Mismatches: 10, Indels: 16
0.88 0.04 0.07
Matches are distributed among these distances:
57 22 0.11
58 65 0.33
59 60 0.30
60 6 0.03
61 45 0.23
62 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
Found at i:72027 original size:117 final size:118
Alignment explanation
Indices: 71777--72073 Score: 419
Period size: 117 Copynumber: 2.5 Consensus size: 118
71767 TGTACAAAAA
* * *
71777 AAAATTGATATTTTCAACTTTTCCTCAAAAA-ATTTTTTAGAAACTTTAATTTCGAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTTAATTTCAAAGAAAATTG
* *
71841 ATACTTTTAACTTTTTCCCAAAAATATTTTTTTTTAGAAAGCTTATTTTCAAGG
66 ATACTTTCAACTTTTTCCCAAAAATA-TTTTTTTTAGAAAACTTATTTTCAAGG
* *
71895 AAAATTGATACTTTCATCTTTTCCTCAAAAATATTTTTTAGAAAGC-TTATTTTCAAAGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAA-CTTTAATTTCAAAGAAAATT
*
71959 GATACTTTCATC-TTTTCCTCAAAAATA-TTTTTTTAGAAAACTTATTTTCAAGG
65 GATACTTTCAACTTTTTCC-CAAAAATATTTTTTTTAGAAAACTTATTTTCAAGG
*
72012 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTA-AAA-TTTTATTT-AAAGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATATTTTTTAGAAACTTTAATTTCAAAGAAAAT
72074 AAAATTAAAT
Statistics
Matches: 162, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
116 9 0.06
117 55 0.34
118 42 0.26
119 55 0.34
120 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTTAATTTCAAAGAAAATTG
ATACTTTCAACTTTTTCCCAAAAATATTTTTTTTAGAAAACTTATTTTCAAGG
Found at i:72064 original size:59 final size:60
Alignment explanation
Indices: 71777--72053 Score: 390
Period size: 59 Copynumber: 4.7 Consensus size: 60
71767 TGTACAAAAA
* * *
71777 AAAATTGATATTTTCAACTTTTCCTC-AAAA-A-ATTTTTTAGAAA-CTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTAGAAAGC-TTATTTTCAAGG
* *
71834 AAAATTGATACTTTTAACTTTTTCC-CAAAAATATTTTTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATA-TATTTTTTAGAAAGCTTATTTTCAAGG
* *
71895 AAAATTGATACTTTCATCTTTTCCTC-AAAA-ATATTTTTTAGAAAGCTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTAGAAAGCTTATTTTCAAGG
* *
71953 AAAATTGATACTTTCATCTTTTCCTCAAAAATAT-TTTTTTAGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTAGAAAGCTTATTTTCAAGG
72012 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTA
72054 AAATTTTATT
Statistics
Matches: 198, Mismatches: 12, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
57 17 0.09
58 61 0.31
59 62 0.31
60 19 0.10
61 38 0.19
62 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTAGAAAGCTTATTTTCAAGG
Found at i:72077 original size:5 final size:5
Alignment explanation
Indices: 72069--72141 Score: 76
Period size: 5 Copynumber: 14.0 Consensus size: 5
72059 TTATTTAAAG
* *
72069 AAAAT AAAATT AAATT AAAAAT GAAAAT AAAAT TAAA- AAAAT AAAAAT
1 AAAAT AAAA-T AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT -AAAAT
*
72117 AAAAT AAAAC AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
72142 GTATTAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
4 3 0.05
5 36 0.63
6 18 0.32
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:72110 original size:20 final size:20
Alignment explanation
Indices: 72068--72141 Score: 87
Period size: 20 Copynumber: 3.5 Consensus size: 20
72058 TTTATTTAAA
72068 GAAAATAAAATTAAATTAAAAAT
1 GAAAATAAAATT-AA--AAAAAT
72091 GAAAATAAAATTAAAAAAAT
1 GAAAATAAAATTAAAAAAAT
* *
72111 AAAAATAAAATAAAACAAAAT
1 GAAAATAAAATTAAA-AAAAT
72132 -AAAATAAAAT
1 GAAAATAAAAT
72142 GTATTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
20 29 0.60
21 5 0.10
22 2 0.04
23 12 0.25
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (20 bp):
GAAAATAAAATTAAAAAAAT
Found at i:72111 original size:14 final size:14
Alignment explanation
Indices: 72092--72135 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
72082 ATTAAAAATG
*
72092 AAAATAAAATTAAA
1 AAAATAAAAATAAA
72106 AAAATAAAAATAAA
1 AAAATAAAAATAAA
72120 ATAAA-ACAAAATAAA
1 A-AAATA-AAAATAAA
72135 A
1 A
72136 TAAAATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:72177 original size:19 final size:19
Alignment explanation
Indices: 72128--72178 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
72118 AAATAAAACA
* *
72128 AAATAAAATAA-AATGTATT
1 AAAT-AAATAATAATCTAAT
*
72147 AAA-AAATTATAATCTAAT
1 AAATAAATAATAATCTAAT
72165 AAATAAATAATAAT
1 AAATAAATAATAAT
72179 AATAATTGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 12 0.46
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATAAATAATAATCTAAT
Found at i:72433 original size:12 final size:12
Alignment explanation
Indices: 72416--72446 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
72406 TTAAATATTG
72416 AAAATTAGTCTT
1 AAAATTAGTCTT
72428 AAAATTAGTCTT
1 AAAATTAGTCTT
72440 AAAATTA
1 AAAATTA
72447 TCCCAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (12 bp):
AAAATTAGTCTT
Found at i:72766 original size:13 final size:13
Alignment explanation
Indices: 72748--72772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72738 AAAATATCTT
72748 TTATTATTTTTTA
1 TTATTATTTTTTA
72761 TTATTATTTTTT
1 TTATTATTTTTT
72773 GAAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:73026 original size:10 final size:10
Alignment explanation
Indices: 73011--73040 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
73001 CATCTTTTAG
73011 CTCTTTCTCT
1 CTCTTTCTCT
73021 CTCTTTCTCT
1 CTCTTTCTCT
*
73031 CTCTCTCTCT
1 CTCTTTCTCT
73041 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (10 bp):
CTCTTTCTCT
Found at i:75136 original size:12 final size:12
Alignment explanation
Indices: 75102--75127 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
75092 ATGGTTTATT
75102 AAAAATATTTAA
1 AAAAATATTTAA
75114 AAAAATATTTAA
1 AAAAATATTTAA
75126 AA
1 AA
75128 TATTATTTAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAATATTTAA
Found at i:76774 original size:19 final size:18
Alignment explanation
Indices: 76718--76774 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 18
76708 TAAAATTTAA
* * *
76718 TTTATAAAATAAAAAAAT
1 TTTAAAAAATAAAATATT
*
76736 TTTAAAAATAAAAAATTATT
1 TTTAAAAA-ATAAAA-TATT
76756 TTTGAAAAAATAAAATATT
1 TTT-AAAAAATAAAATATT
76775 AAAATAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.23
19 9 0.29
20 10 0.32
21 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TTTAAAAAATAAAATATT
Found at i:79061 original size:370 final size:371
Alignment explanation
Indices: 78200--79199 Score: 1736
Period size: 369 Copynumber: 2.7 Consensus size: 371
78190 GTAGTGCGAA
* *
78200 TGTCACAGGTCGAGACTTAAGCTCCGAACTCGCGCAGCTCCGGGACTCGGGCATTCACCCTTCCG
1 TGTCACAGGTCGAGACTTAAGCTCCGAACTCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
* *
78265 GCGTCTCGGATCAGTCTATTCGTCACGGTTCACACCCTTGTGAGGTATTGTTCGCTCTGGCCCCC
66 GCGTCTCGGATCAGCCTATTCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
* *
78330 TCTGGCCTCACGGTTTTGTCCTACAAAAGGTGCATCACAAGGCGGAGATGGTGTGAACCCTTTTA
131 -CTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCTTTTA
*
78395 TACCCTAGGGACCCTCCTATTATGTTCAATGTGGGATTCAGGACTCCCCCTTAGGTCCGTGACAT
195 TACCCTAGGGACCCTCCTATTATGTTCAATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACAT
*
78460 TCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGCCTACCTCCCTCAA
260 TCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGAAGGCTGGCCACCCTGCCTACCTCCCTCAA
*
78525 GGTGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACCACT
325 GGTGCTCGGCGTGGATCGAACGGTATAGGGCTGGCTCTGATACCACT
* *
78572 TGTCACGGGTCGAGACTTAAGCTCCGAACTCGTGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
1 TGTCACAGGTCGAGACTTAAGCTCCGAACTCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
* * * *
78637 GCATCCCAGATCAGCCT-TCCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
66 GCGTCTCGGATCAGCCTATTCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
* *
78701 CTGACCTCACGGTTTTGTCCTATAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCTTTTAT
131 CTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCTTTTAT
* *
78766 ACTCC-AGTGACCCTCCTATTATGTTCGATGTGGGATTCAGGACT-CTCCTTAGGTCCGTGACAT
196 AC-CCTAGGGACCCTCCTATTATGTTCAATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACAT
* *
78829 TCTCCCGCACCCAACCTCGTGACGCCTTCGTCACGAAGGCTGGCCACCCTGCCTACCTCCCTCGA
260 TCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGAAGGCTGGCCACCCTGCCTACCTCCCTCAA
*
78894 GGTGCTTGGCGTGGATCGAACGGTATAGGGCTGGCTCTGATACCACT
325 GGTGCTCGGCGTGGATCGAACGGTATAGGGCTGGCTCTGATACCACT
*
78941 TGTCACAGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
1 TGTCACAGGTCGAGACTTAAGCTCCGAACTCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
79006 GCGTCTCGGATCAGCCTATTCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCTCCC
66 GCGTCTCGGATCAGCCTATTCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGC-CCC
*
79071 TCTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCTTTTA
130 CCTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCTTTTA
79136 TACCCTAGGGACCCTCCTATTATGTTCAATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACA
195 TACCCTAGGGACCCTCCTATTATGTTCAATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACA
79200 CGAACACTAG
Statistics
Matches: 589, Mismatches: 34, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
369 201 0.34
370 144 0.24
371 152 0.26
372 92 0.16
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (371 bp):
TGTCACAGGTCGAGACTTAAGCTCCGAACTCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
GCGTCTCGGATCAGCCTATTCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
CTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCTTTTAT
ACCCTAGGGACCCTCCTATTATGTTCAATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACATT
CTCCCGCACCCAACCTCGTGACGCCCTCGTCACGAAGGCTGGCCACCCTGCCTACCTCCCTCAAG
GTGCTCGGCGTGGATCGAACGGTATAGGGCTGGCTCTGATACCACT
Found at i:81019 original size:6 final size:6
Alignment explanation
Indices: 81006--81047 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
80996 TGATAAGCCT
* * *
81006 GCAAAA GTAAAA GTAAAA ACAAAA GCAAAA GCAAAA GCAAAA
1 GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA
81048 AATAAAACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.69, C:0.12, G:0.14, T:0.05
Consensus pattern (6 bp):
GCAAAA
Found at i:81375 original size:19 final size:19
Alignment explanation
Indices: 81337--81375 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
81327 AATGCGAGAG
* *
81337 AAAATGAGAGATGAAAAAA
1 AAAAGGAGAGAAGAAAAAA
81356 AAAAGGAGAGAAGAAGAAAA
1 AAAAGGAGAGAAGAA-AAAA
81376 TTTTGGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (19 bp):
AAAAGGAGAGAAGAAAAAA
Found at i:81761 original size:20 final size:19
Alignment explanation
Indices: 81736--81773 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
81726 TTTGATTGTG
*
81736 TTGTATATTAATTTATAATT
1 TTGTATATGAATTT-TAATT
81756 TTGTATATGAATTTTAAT
1 TTGTATATGAATTTTAAT
81774 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTGTATATGAATTTTAATT
Found at i:81793 original size:18 final size:20
Alignment explanation
Indices: 81767--81805 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
81757 TGTATATGAA
81767 TTTTAATATTT-T-TTATTG
1 TTTTAATATTTATGTTATTG
*
81785 TTTTGATATTTATGTTATTG
1 TTTTAATATTTATGTTATTG
81805 T
1 T
81806 CAATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (20 bp):
TTTTAATATTTATGTTATTG
Found at i:82043 original size:26 final size:25
Alignment explanation
Indices: 82001--82051 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
81991 TAAAAAATAA
* *
82001 AAAATATAGGTTTAAAAATTTTATT
1 AAAATATAAGTTGAAAAATTTTATT
*
82026 AAAATATAAGTCTGAAAATTTTTATT
1 AAAATATAAGT-TGAAAAATTTTATT
82052 TTTTTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (25 bp):
AAAATATAAGTTGAAAAATTTTATT
Found at i:87962 original size:13 final size:13
Alignment explanation
Indices: 87944--87968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87934 AAAATATCTT
87944 TTATTATTTTTTA
1 TTATTATTTTTTA
87957 TTATTATTTTTT
1 TTATTATTTTTT
87969 GAAATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:88135 original size:14 final size:15
Alignment explanation
Indices: 88098--88141 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
88088 TTTATTTGAA
88098 AAAAGATTTTTTATTG
1 AAAAGATTTTTT-TTG
*
88114 AAAGGATTTTTTTT-
1 AAAAGATTTTTTTTG
88128 AAAAGATTTTTTTT
1 AAAAGATTTTTTTT
88142 TTGAAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 13 0.50
15 2 0.08
16 11 0.42
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (15 bp):
AAAAGATTTTTTTTG
Found at i:88140 original size:16 final size:16
Alignment explanation
Indices: 88098--88148 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
88088 TTTATTTGAA
* *
88098 AAAAGATTTTTTATTG
1 AAAAGATTTTTTTTTT
*
88114 AAAGGA--TTTTTTTT
1 AAAAGATTTTTTTTTT
88128 AAAAGATTTTTTTTTT
1 AAAAGATTTTTTTTTT
88144 GAAAA
1 -AAAA
88149 CTTATTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 11 0.39
16 13 0.46
17 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (16 bp):
AAAAGATTTTTTTTTT
Found at i:88141 original size:15 final size:15
Alignment explanation
Indices: 88098--88142 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
88088 TTTATTTGAA
*
88098 AAAAGATTTTTTATTG
1 AAAAGATTTTTT-TTT
*
88114 AAAGGA-TTTTTTTT
1 AAAAGATTTTTTTTT
88128 AAAAGATTTTTTTTT
1 AAAAGATTTTTTTTT
88143 TGAAAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 7 0.28
15 13 0.52
16 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (15 bp):
AAAAGATTTTTTTTT
Found at i:88195 original size:29 final size:29
Alignment explanation
Indices: 88164--88225 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
88154 TTGAAGAAAT
*
88164 TTTTTTTTG-T-TTAAGTTTTTTCTTTTA
1 TTTTTTTTGTTCTTTAGTTTTTTCTTTTA
*
88191 TTTTTTTTGTTCTTTTGTTTTTTCTTTTA
1 TTTTTTTTGTTCTTTAGTTTTTTCTTTTA
88220 TTTTTT
1 TTTTTT
88226 AGAAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 9 0.29
28 1 0.03
29 21 0.68
ACGTcount: A:0.06, C:0.05, G:0.06, T:0.82
Consensus pattern (29 bp):
TTTTTTTTGTTCTTTAGTTTTTTCTTTTA
Found at i:88203 original size:17 final size:16
Alignment explanation
Indices: 88179--88223 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
88169 TTTGTTTAAG
88179 TTTTTTCTTTTATTTT
1 TTTTTTCTTTTATTTT
*
88195 TTTTGTTCTTTTGTTTT
1 TTTT-TTCTTTTATTTT
*
88212 TTCTTTTATTTT
1 TT-TTTTCTTTT
88224 TTAGAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.16
17 19 0.76
18 2 0.08
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.84
Consensus pattern (16 bp):
TTTTTTCTTTTATTTT
Found at i:89225 original size:21 final size:21
Alignment explanation
Indices: 89201--89240 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
89191 CCAAAATTTT
89201 CAAAAAACCTA-AATTCCTACC
1 CAAAAAACCTAGAA-TCCTACC
*
89222 CAAAAATCCTAGAATCCTA
1 CAAAAAACCTAGAATCCTA
89241 ATTCTCGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (21 bp):
CAAAAAACCTAGAATCCTACC
Found at i:89658 original size:14 final size:14
Alignment explanation
Indices: 89639--89668 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89629 TTAGGAAAGG
89639 AAATAAATAAAAAT
1 AAATAAATAAAAAT
*
89653 AAATAAATAATAAT
1 AAATAAATAAAAAT
89667 AA
1 AA
89669 TACTAATAAA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:90935 original size:414 final size:413
Alignment explanation
Indices: 90166--90989 Score: 1432
Period size: 414 Copynumber: 2.0 Consensus size: 413
90156 CACAAATGAA
* *
90166 TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGGGCTAAAATCAGATGACTAGGAC
1 TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGAGCTAAAATCAGATGACTAAGAC
* *
90231 AATGTTGTGAGCCTAAAAGCGATCAGGATTGAGTCGAGGTCGAAGATGAATGATTGAGATGATAC
66 AATGTTATGAGCCTAAAAGCGATCAGGATTGAGTCGAGGTCGAAGATGAATGATCGAGATGATAC
* *
90296 CATAAGTAACGAAATGATCTAGCCTGAGCTAAGATTGGATGACTGAGATGATGCCACGAGTTTAA
131 CACAAGTAACGAAATGATCTAGCCTGAGCCAAGATTGGATGACTGAGATGATGCCACGAGTTTAA
*
90361 AAGAGACCAAGATCGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCCAGCAAAT
196 AAGAGACCAAGATCGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCAAGCAAAT
*
90426 GATTTGGCTTAAGCTGAGATCAGATGATTGGGATGATGCCATAGGTTAGAAAAATAAAGTTTAAA
261 GATTTGGCTTAAGCTGAGATCAGATGATTGGGATGATGCCATAGGTTAGAAAAATAAAGTTCAAA
* *
90491 ATTTCACTCTAAATCCAAATATTCACAATTTGACCATTCAAAAATTTGTGAGGTTCCATAATAGA
326 ATTTCACTATAAATCCAAAGATTCACAATTTGACCATTCAAAAATTTGTGAGGTTCCATAATAGA
*
90556 AGTTGAAAGATCCTAAGTTTAAC
391 AGTTGAAAGATCCCAAGTTTAAC
* *
90579 TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGAGCTGAGATCAGATGACTAAGAC
1 TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGAGCTAAAATCAGATGACTAAGAC
* * * *
90644 AATGTTATGAGCCTAAAAGTGATCATGATTGAGTCGTGGTCGAAGATGAATGATCGGGATGATAC
66 AATGTTATGAGCCTAAAAGCGATCAGGATTGAGTCGAGGTCGAAGATGAATGATCGAGATGATAC
90709 CACAAGTAACGAAAATGATCTAGCCTGAGCCAAGATTGGATGACTGAGATGATGCCACGAGTTTA
131 CACAAGTAACG-AAATGATCTAGCCTGAGCCAAGATTGGATGACTGAGATGATGCCACGAGTTTA
*
90774 AAAGAGACCAAGATTGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCAAGCAAA
195 AAAGAGACCAAGATCGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCAAGCAAA
* * *
90839 TGATTTGGCTTAAGCTGGGATTAGATGATTGGGATGATGCCATAGGTTAGAAAAATATAGTTCAA
260 TGATTTGGCTTAAGCTGAGATCAGATGATTGGGATGATGCCATAGGTTAGAAAAATAAAGTTCAA
* *
90904 ATTTTCACTATAAATCCAAAGATTCACAATTTGACCATTCAAAAATTTGTGATGTTCCATAATAG
325 AATTTCACTATAAATCCAAAGATTCACAATTTGACCATTCAAAAATTTGTGAGGTTCCATAATAG
90969 AAGTTGAAAGATCCCAAGTTT
390 AAGTTGAAAGATCCCAAGTTT
90990 CACAAAATTG
Statistics
Matches: 387, Mismatches: 23, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
413 130 0.34
414 257 0.66
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (413 bp):
TGACCAAGATGATGTCGTCAGTTAAAAAAATGATTTGGCTTGAGCTAAAATCAGATGACTAAGAC
AATGTTATGAGCCTAAAAGCGATCAGGATTGAGTCGAGGTCGAAGATGAATGATCGAGATGATAC
CACAAGTAACGAAATGATCTAGCCTGAGCCAAGATTGGATGACTGAGATGATGCCACGAGTTTAA
AAGAGACCAAGATCGAGTCGAGGTTAAAGATGAATAACCATGATGATGCCACTAGTCAAGCAAAT
GATTTGGCTTAAGCTGAGATCAGATGATTGGGATGATGCCATAGGTTAGAAAAATAAAGTTCAAA
ATTTCACTATAAATCCAAAGATTCACAATTTGACCATTCAAAAATTTGTGAGGTTCCATAATAGA
AGTTGAAAGATCCCAAGTTTAAC
Found at i:91175 original size:86 final size:86
Alignment explanation
Indices: 91024--91415 Score: 301
Period size: 86 Copynumber: 4.6 Consensus size: 86
91014 TTGAAAAGGT
* * * * * * ** *
91024 TTTCAAATTTGCAAGAATGAAAGATTCACAAGATTTCAAG-TTT-CATAGAGGTTTTTTATTAGT
1 TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTTGCA-A-AGGTTCTAGATTCGT
*
91087 AAAGATCTCAGGTT-TGCAAAGA-
64 AAAGATTTCAGGTTCT-CAAAGAC
* * *
91109 TTTACAAATTCGCAAGAAAGAAAAATTCACAAGACTCTAAGTTTTGCAAATGTGTC-AGATTTGT
1 TTT-CAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTTGCAAAGGT-TCTAGATTCGT
* *
91173 AAAGATTTTAGATTCTCAAAGAC
64 AAAGATTTCAGGTTCTCAAAGAC
* * * *
91196 TTTTAGATTCGTAAGAAAGAAAAATTCACAAGACTCCAAGTTTTGCAAAGGTTCTAGATTCATAA
1 TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTTGCAAAGGTTCTAGATTCGTAA
* *
91261 AGATTTCAGGTTCACAAGGAC
66 AGATTTCAGGTTCTCAAAGAC
* * * * ** * * * * * *
91282 TTTTAAATTCACAAAAAAGAAAATTTTGCAAGATTTCAAATTTCGCAAAAGTTCTAGATTCATAA
1 TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTTGCAAAGGTTCTAGATTCGTAA
* *
91347 AGATTTTAGATT-TGCAAAGAC
66 AGATTTCAGGTTCT-CAAAGAC
* * ** * * * *
91368 TTTTAGATTCATAAAAAAGAAAGATTCACAAGACTACAAGTTTCGCAA
1 TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTTGCAA
91416 GAGTTAAAAA
Statistics
Matches: 249, Mismatches: 50, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
85 5 0.02
86 233 0.94
87 9 0.04
88 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (86 bp):
TTTCAAATTCGCAAGAAAGAAAAATTCACAAGACTCCAAGTTTTGCAAAGGTTCTAGATTCGTAA
AGATTTCAGGTTCTCAAAGAC
Found at i:91211 original size:17 final size:16
Alignment explanation
Indices: 91172--91205 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
91162 GTCAGATTTG
91172 TAAAGATTTTAGATTC
1 TAAAGATTTTAGATTC
91188 TCAAAGACTTTTAGATTC
1 T-AAAGA-TTTTAGATTC
91206 GTAAGAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 5 0.31
18 10 0.62
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (16 bp):
TAAAGATTTTAGATTC
Found at i:91350 original size:35 final size:35
Alignment explanation
Indices: 91311--91382 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
91301 AAAATTTTGC
*
91311 AAGATTTCAAATTTCGCAAA-AGTTCTAGATTCATA
1 AAGATTTCAAATTT-GCAAAGACTTCTAGATTCATA
* * *
91346 AAGATTTTAGATTTGCAAAGACTTTTAGATTCATA
1 AAGATTTCAAATTTGCAAAGACTTCTAGATTCATA
91381 AA
1 AA
91383 AAAGAAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 5 0.16
35 27 0.84
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (35 bp):
AAGATTTCAAATTTGCAAAGACTTCTAGATTCATA
Found at i:91358 original size:17 final size:18
Alignment explanation
Indices: 91336--91382 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
91326 GCAAAAGTTC
91336 TAGATTCATAAAGA-TTT
1 TAGATTCATAAAGACTTT
***
91353 TAGATTTGCAAAGACTTT
1 TAGATTCATAAAGACTTT
91371 TAGATTCATAAA
1 TAGATTCATAAA
91383 AAAGAAAGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (18 bp):
TAGATTCATAAAGACTTT
Found at i:92258 original size:14 final size:12
Alignment explanation
Indices: 92233--92323 Score: 55
Period size: 12 Copynumber: 7.6 Consensus size: 12
92223 CCCTTTTTTC
92233 TCTTTTTTCTTT
1 TCTTTTTTCTTT
92245 TCTTTTTTCACTTT
1 TCTTTTTT--CTTT
** *
92259 GGTTTTTTCTTC
1 TCTTTTTTCTTT
*
92271 TCTTATTTTATCTT
1 TCTT-TTTTCT-TT
92285 TC-TTTTT-TTT
1 TCTTTTTTCTTT
* *
92295 TGTTTTTAC-TT
1 TCTTTTTTCTTT
92306 T-TTTTTTCTTT
1 TCTTTTTTCTTT
*
92317 TGTTTTT
1 TCTTTTT
92324 GCCCTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
10 9 0.15
11 11 0.18
12 22 0.36
13 6 0.10
14 13 0.21
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.78
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:92266 original size:21 final size:21
Alignment explanation
Indices: 92225--92269 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
92215 CTAAGTCTCC
* *
92225 CTTTTTTCTCTTTTTTCTTTT
1 CTTTTTTCACTTTGTTCTTTT
92246 CTTTTTTCACTTTGGTT-TTTT
1 CTTTTTTCACTTT-GTTCTTTT
92267 CTT
1 CTT
92270 CTCTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
CTTTTTTCACTTTGTTCTTTT
Found at i:92290 original size:26 final size:25
Alignment explanation
Indices: 92233--92315 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 25
92223 CCCTTTTTTC
*
92233 TCTTTTTTCTTTTCTTTTTTCACTT
1 TCTTTTTTCTTCTCTTTTTTCACTT
*
92258 TGGTTTTTTCTTCTCTTATTTT-ATCTT
1 T-CTTTTTTCTTCTCTT-TTTTCA-CTT
*
92285 TCTTTTTT-TT-T-GTTTTT-ACTT
1 TCTTTTTTCTTCTCTTTTTTCACTT
92306 T-TTTTTTCTT
1 TCTTTTTTCTT
92316 TTGTTTTTGC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 6 0.12
21 6 0.12
22 5 0.10
23 1 0.02
24 1 0.02
25 3 0.06
26 20 0.40
27 8 0.16
ACGTcount: A:0.05, C:0.14, G:0.04, T:0.77
Consensus pattern (25 bp):
TCTTTTTTCTTCTCTTTTTTCACTT
Found at i:92300 original size:36 final size:35
Alignment explanation
Indices: 92226--92301 Score: 84
Period size: 40 Copynumber: 2.1 Consensus size: 35
92216 TAAGTCTCCC
*
92226 TTTTTTCTCTTTTTTCTTTTCTTTTTTCACTTTGGTT
1 TTTTTTCTCTTTTTTATTTTCTTTTTT--CTTTGGTT
92263 TTTTCTTCTCTTATTTTATCTTTCTTTTTT-TTT-GTT
1 TTTT-TTCTCTT-TTTTAT-TTTCTTTTTTCTTTGGTT
92299 TTT
1 TTT
92302 ACTTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
36 6 0.17
37 7 0.20
38 7 0.20
39 5 0.14
40 10 0.29
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (35 bp):
TTTTTTCTCTTTTTTATTTTCTTTTTTCTTTGGTT
Found at i:92317 original size:16 final size:15
Alignment explanation
Indices: 92261--92323 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
92251 TTCACTTTGG
* *
92261 TTTTTTCTTCTCTTA
1 TTTTTTCTTTTCTTT
*
92276 TTTTATC-TTTCTTT
1 TTTTTTCTTTTCTTT
*
92290 TTTTTTGTTTTTACTTT
1 TTTTTT-CTTTT-CTTT
*
92307 TTTTTTCTTTTGTTT
1 TTTTTTCTTTTCTTT
92322 TT
1 TT
92324 GCCCTTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
14 10 0.26
15 11 0.29
16 7 0.18
17 10 0.26
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTTTCTTTTCTTT
Done.