Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 5 of 131
Found at i:863902 original size:6 final size:7
Alignment explanation
Indices: 863884--863913 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
863874 TTTCAAAACA
863884 AAAAAAT
1 AAAAAAT
863891 AGAAAAAT
1 A-AAAAAT
863899 AAAAAAT
1 AAAAAAT
863906 AAAAAAT
1 AAAAAAT
863913 A
1 A
863914 TTGATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:863902 original size:15 final size:14
Alignment explanation
Indices: 863884--863913 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
863874 TTTCAAAACA
863884 AAAAAATAGAAAAAT
1 AAAAAATA-AAAAAT
863899 AAAAAATAAAAAAT
1 AAAAAATAAAAAAT
863913 A
1 A
863914 TTGATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:865255 original size:158 final size:158
Alignment explanation
Indices: 864963--865279 Score: 616
Period size: 158 Copynumber: 2.0 Consensus size: 158
864953 ATTGTGATGA
864963 TTTGTGTTATTTGTTTACTAACATTTTTTTTATCTTGTATTTTATTTTTGGGGCAAGAAACCTAT
1 TTTGTGTTATTTGTTTACTAACATTTTTTTTATCTTGTATTTTATTTTTGGGGCAAGAAACCTAT
*
865028 ATGTTCTTTCACACATACTATCACATGCATTTGCCAAACATAAGCTCTATACCTGAGCTCTATCT
66 ATGTTCTTTCACACATACTATCACATGCATTTGCCAAACATAAGCTCTATACCTGAGCTCTATCC
*
865093 ATCTTAAGAGGGAGTAAAATATCTACGC
131 ATCTTAAAAGGGAGTAAAATATCTACGC
865121 TTTGTGTTATTTGTTTACTAACATTTTTTTTATCTTGTATTTTATTTTTGGGGCAAGAAACCTAT
1 TTTGTGTTATTTGTTTACTAACATTTTTTTTATCTTGTATTTTATTTTTGGGGCAAGAAACCTAT
865186 ATGTTCTTTCACACATACTATCACATGCATTTGCCAAACATAAGCTCTATACCTGAGCTCTATCC
66 ATGTTCTTTCACACATACTATCACATGCATTTGCCAAACATAAGCTCTATACCTGAGCTCTATCC
865251 ATCTTAAAAGGGAGTAAAATATCTACGC
131 ATCTTAAAAGGGAGTAAAATATCTACGC
865279 T
1 T
865280 CTCGTGAGAT
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 157 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (158 bp):
TTTGTGTTATTTGTTTACTAACATTTTTTTTATCTTGTATTTTATTTTTGGGGCAAGAAACCTAT
ATGTTCTTTCACACATACTATCACATGCATTTGCCAAACATAAGCTCTATACCTGAGCTCTATCC
ATCTTAAAAGGGAGTAAAATATCTACGC
Found at i:867072 original size:21 final size:19
Alignment explanation
Indices: 867037--867084 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
867027 GTATAAGTAT
867037 AAAATATGAAATACA-A-AA
1 AAAATATGAAATA-ATACAA
867055 AAAATATGAAATAATACAA
1 AAAATATGAAATAATACAA
867074 AAAATATGAAA
1 AAAATATGAAA
867085 AAAATATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.04
18 14 0.50
19 13 0.46
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (19 bp):
AAAATATGAAATAATACAA
Found at i:869039 original size:25 final size:22
Alignment explanation
Indices: 868993--869041 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
868983 AAAAAGATGA
*
868993 AAAAGAAGAAAAAATAAAAAAT
1 AAAAGAAGAAAAAAGAAAAAAT
869015 AAAAGAATGGAAAAAAGATAAAAAT
1 AAAAGAA--GAAAAAAGA-AAAAAT
869040 AA
1 AA
869042 GATAAAAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
24 8 0.35
25 8 0.35
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAAGAAGAAAAAAGAAAAAAT
Found at i:870424 original size:58 final size:57
Alignment explanation
Indices: 870287--870462 Score: 194
Period size: 59 Copynumber: 3.0 Consensus size: 57
870277 GAATTTTTTA
* *
870287 AATATTTGAATTTCAAATGAGAATTTTTGAGGTGTGAAA-TCTAAAAGTTTATCGAATGTG
1 AATATTTGAATTT-AAATGAGAATCTTT-AGGTGTGAAACT-TAAAA-TTTATCGAATGTC
*
870347 AAT-TTTCGAACTTAAATGAGAATCTTTAAGGTGTGAAACTTAAAATTTATCGAATGTC
1 AATATTT-GAATTTAAATGAGAATCTTT-AGGTGTGAAACTTAAAATTTATCGAATGTC
* * * * *
870405 AATATTTAAATTTTAATGAGAATCTTTAGGATGTGAAACCCTAAAATTTGTCAAATGT
1 AATATTTGAATTTAAATGAGAATCTTTAGG-TGTGAAA-CTTAAAATTTATCGAATGT
870463 GAGCTTTTAG
Statistics
Matches: 101, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
57 3 0.03
58 39 0.39
59 50 0.50
60 9 0.09
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (57 bp):
AATATTTGAATTTAAATGAGAATCTTTAGGTGTGAAACTTAAAATTTATCGAATGTC
Found at i:870575 original size:22 final size:23
Alignment explanation
Indices: 870547--870596 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
870537 TGTTGGATGC
*
870547 GAATCTTGCAAT-TTACAAATAT
1 GAATCTTGAAATCTTACAAATAT
*
870569 GAATCTTGAAATCTTACAAATTT
1 GAATCTTGAAATCTTACAAATAT
870592 GAATC
1 GAATC
870597 CTTATGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (23 bp):
GAATCTTGAAATCTTACAAATAT
Found at i:870938 original size:84 final size:84
Alignment explanation
Indices: 870763--871079 Score: 426
Period size: 84 Copynumber: 3.8 Consensus size: 84
870753 ATGATCACTA
* ** *
870763 AGGAGCATTTATTTTCTCAAAGTTGTTATGCCTCTATTTAGAGGAGCAATTTA--TTTTTCAAAA
1 AGGAGCATTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAG
*
870826 TTACGGTGCCTTTGTTTAG
66 TTATGGTGCCTTTGTTTAG
* * *
870845 ATGAACATTTATTTTTTCAAAGTTGTGGTGCTTCTATTTAGAGGAGCAATTTATTTTTTTCAAAG
1 AGGAGCATTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAG
*
870910 TTATGGTACCTTTGTTTAG
66 TTATGGTGCCTTTGTTTAG
* * *
870929 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGC-ATTT-TATTTTTCAAA
1 AGGAGCA-TTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTTC-AA
* *
870992 AGTTATGCTGCCTCTGTTTAG
64 AGTTATGGTGCCTTTGTTTAG
* * *
871013 AGGAGCATTTTTATTTTTCAAAGTTGTGGTGCTTCTATTTAGAGGAGCATTTTATTTTTTTCAAA
1 AGGAGCATTTAT-TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAA
871078 GT
65 GT
871080 CGTTGAGCTT
Statistics
Matches: 204, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
82 47 0.23
83 11 0.05
84 94 0.46
85 45 0.22
86 7 0.03
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.45
Consensus pattern (84 bp):
AGGAGCATTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAG
TTATGGTGCCTTTGTTTAG
Found at i:870968 original size:42 final size:42
Alignment explanation
Indices: 870763--871079 Score: 365
Period size: 42 Copynumber: 7.6 Consensus size: 42
870753 ATGATCACTA
* ** *
870763 AGGAGCA-TTTATTTTCTCAAAGTTGTTATGCCTCTATTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * ** *
870804 AGGAGCAATTTA-TTTTTCAAAATTACGGTGCCTTTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * * *
870845 ATGAACA-TTTATTTTTTCAAAGTTGTGGTGCTTCTATTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * * *
870886 AGGAGCAATTTATTTTTTTCAAAGTTATGGTACCTTTGTTTAG
1 AGGAGCATTTTA-TTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
870929 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * *
870971 AAGAGCATTTTA-TTTTTCAAAAGTTATGCTGCCTCTGTTTAG
1 AGGAGCATTTTATTTTTTC-AAAGTTGTGGTGCCTCTGTTTAG
* *
871013 AGGAGCATTTT-TATTTTTCAAAGTTGTGGTGCTTCTATTTAG
1 AGGAGCATTTTAT-TTTTTCAAAGTTGTGGTGCCTCTGTTTAG
871055 AGGAGCATTTTATTTTTTTCAAAGT
1 AGGAGCATTTTA-TTTTTTCAAAGT
871080 CGTTGAGCTT
Statistics
Matches: 232, Mismatches: 35, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.02
41 67 0.29
42 107 0.46
43 53 0.23
44 1 0.00
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.45
Consensus pattern (42 bp):
AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
Found at i:871090 original size:43 final size:42
Alignment explanation
Indices: 870763--871121 Score: 345
Period size: 42 Copynumber: 8.5 Consensus size: 42
870753 ATGATCACTA
* ** *
870763 AGGAGCA-TTTATTTTCTCAAAGTTGTTATGCCTCTATTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCTTCTATTTAG
* * ** *
870804 AGGAGCAATTTA-TTTTTCAAAATTACGGTGCCTT-TGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTG-CTTCTATTTAG
* *
870845 ATGAACA-TTTATTTTTTCAAAGTTGTGGTGCTTCTATTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCTTCTATTTAG
* * * *
870886 AGGAGCAATTTATTTTTTTCAAAGTTATGGTACCTT-TGTTTAG
1 AGGAGCATTTTA-TTTTTTCAAAGTTGTGGT-GCTTCTATTTAG
* *
870929 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCTTCTATTTAG
* * * * *
870971 AAGAGCATTTTA-TTTTTCAAAAGTTATGCTGCCTCTGTTTAG
1 AGGAGCATTTTATTTTTTC-AAAGTTGTGGTGCTTCTATTTAG
871013 AGGAGCATTTT-TATTTTTCAAAGTTGTGGTGCTTCTATTTAG
1 AGGAGCATTTTAT-TTTTTCAAAGTTGTGGTGCTTCTATTTAG
* * *
871055 AGGAGCATTTTATTTTTTTCAAAGTCGTTGAGCTTCTATTTAG
1 AGGAGCATTTTA-TTTTTTCAAAGTTGTGGTGCTTCTATTTAG
* * *
871098 ATGAGCTTTGTTTACTTTTTCAAA
1 AGGAGC-AT-TTTATTTTTTCAAA
871122 AATAAAAAAT
Statistics
Matches: 266, Mismatches: 37, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
40 7 0.03
41 64 0.24
42 106 0.40
43 71 0.27
44 14 0.05
45 4 0.02
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.46
Consensus pattern (42 bp):
AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCTTCTATTTAG
Found at i:871347 original size:18 final size:17
Alignment explanation
Indices: 871326--871370 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
871316 TATGTGAATT
871326 GTTGAATTGGGTTGTAAA
1 GTTGAATTGGGTT-TAAA
*
871344 GTTGAAGTTGGGTTTAAG
1 GTTGAA-TTGGGTTTAAA
871362 GTTGGAATT
1 GTT-GAATT
871371 CAAAGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (17 bp):
GTTGAATTGGGTTTAAA
Found at i:871739 original size:17 final size:17
Alignment explanation
Indices: 871693--871740 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
871683 AGCTGCCTCC
*
871693 TATTTTGAGTATTTTTT
1 TATTTTGAGTATTTATT
* *
871710 TACTTT-ATTTATTTATT
1 TATTTTGA-GTATTTATT
871727 TATTTTGAGTATTT
1 TATTTTGAGTATTT
871741 TTGCATGATT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
16 1 0.04
17 22 0.92
18 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (17 bp):
TATTTTGAGTATTTATT
Found at i:872485 original size:54 final size:55
Alignment explanation
Indices: 872349--872562 Score: 196
Period size: 54 Copynumber: 4.0 Consensus size: 55
872339 ATAAATTAAG
*
872349 AGAAAATATTTCTAAATTGACCCAAATGATGAAAAATTTAGAAATCCAACAAAAAA
1 AGAAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAAT-CAACAAAAAA
* * * ****
872405 AGAAAGA-ATTTCTAAA-TAAGCCCAAATGGTGAAAATTTTAAAAAT-TTTGAAAAA
1 AGAAA-ATATTTCTAAATTGA-CCCAAATGGTGAAAAATTTAGAAATCAACAAAAAA
* *
872459 AGAAAATATTTCTAAATTGACTCAAATGGTGAAAAATTTAGAAATC--CAACGAAA
1 AGAAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCAACAA-AAAA
* * * *
872513 A-AAAA-A--TCTAAATAGGCCCAAATTGTGAAAAATTTAGAAATTAA-AAAAAA
1 AGAAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCAACAAAAAA
872563 TATTTCTAAT
Statistics
Matches: 129, Mismatches: 21, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
50 34 0.26
51 2 0.02
52 1 0.01
53 6 0.05
54 45 0.35
55 4 0.03
56 36 0.28
57 1 0.01
ACGTcount: A:0.54, C:0.10, G:0.11, T:0.25
Consensus pattern (55 bp):
AGAAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCAACAAAAAA
Found at i:875613 original size:14 final size:13
Alignment explanation
Indices: 875570--875616 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
875560 TATTTAACAG
875570 TAAAAAT-TTTAT
1 TAAAAATATTTAT
* *
875582 T-AATATTTTTAT
1 TAAAAATATTTAT
875594 TAAAAATATTTAT
1 TAAAAATATTTAT
875607 CTAAAAATAT
1 -TAAAAATAT
875617 ATATAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 4 0.14
12 7 0.24
13 9 0.31
14 9 0.31
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAAAATATTTAT
Found at i:875749 original size:14 final size:14
Alignment explanation
Indices: 875732--875759 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
875722 GAACGTAACT
875732 TAAGAAACTTCATC
1 TAAGAAACTTCATC
875746 TAAGAAACTTCATC
1 TAAGAAACTTCATC
875760 CAAGTCTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
TAAGAAACTTCATC
Found at i:877119 original size:5 final size:5
Alignment explanation
Indices: 877109--877146 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
877099 AGCTAAGGAA
877109 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAA
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAA
877147 ACCAAAGCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:882930 original size:14 final size:15
Alignment explanation
Indices: 882906--882936 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
882896 TCGGATTAAT
882906 TAAAGAAAATCAAAA
1 TAAAGAAAATCAAAA
882921 TAAA-AAAATCAAAA
1 TAAAGAAAATCAAAA
882935 TA
1 TA
882937 GAAAGAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.16
Consensus pattern (15 bp):
TAAAGAAAATCAAAA
Found at i:883035 original size:58 final size:60
Alignment explanation
Indices: 882973--883311 Score: 340
Period size: 58 Copynumber: 5.7 Consensus size: 60
882963 TTGTGTAGGA
* * *
882973 AAAATTGATACTTTCAAC-TTTCTC-CAAAATATTTTTTGAAAATTTCGATTTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTGAAAATTTTGATTTTTCAAGG
*
883031 AAAATTGATACTTTCAACTTTTTCTC-AAAAATCTTTTTTTGAAAATTTTGATTTTT-AAGG
1 AAAATTGATACTTTCAAC-TTTTCTCAAAAAAT-ATTTTTTGAAAATTTTGATTTTTCAAGG
* **
883091 AAAATTGATACTTTCAACTTTTCCTCAAAAAACCCATTTTTTTTAAA---T-ATTTTTC-AGG
1 AAAATTGATACTTTCAACTTTT-CTCAAAAAA--TATTTTTTGAAAATTTTGATTTTTCAAGG
* * *
883149 AAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTCGAAAATTTTGA-TTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTGAAAATTTTGATTTTTCAAGG
* * * ** *
883208 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTTAATTTATTTTTTTTATTTTAAG
1 AAAATTGATACTTTCAACTTTT-CTCAAAAA--ATATTTTTTGAA--AATTTTGATT-TTTCAAG
883272 G
60 G
* *
883273 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTT
883312 TTTTGGAAAA
Statistics
Matches: 234, Mismatches: 26, Indels: 37
0.79 0.09 0.12
Matches are distributed among these distances:
55 9 0.04
57 7 0.03
58 55 0.24
59 31 0.13
60 41 0.18
61 33 0.14
62 11 0.05
63 11 0.05
64 7 0.03
65 29 0.12
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTGAAAATTTTGATTTTTCAAGG
Found at i:883229 original size:117 final size:117
Alignment explanation
Indices: 883020--883310 Score: 381
Period size: 117 Copynumber: 2.4 Consensus size: 117
883010 GAAAATTTCG
* * *
883020 ATTTTTCAAAGAAAATTGATACTTTCAAC-TTTTTCTCAAAAATCTTTTTTTGAAAATTTTGATT
1 ATTTTTC-AGGAAAATTGATACTTTCAACTTTTTTCT-AAAAAT-ATTTTTCGAAAATTTTGATT
*
883084 TTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAACCCATTTTTTTTAA-A-T
63 TTCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAACCC-TTTTTTTTAATATT
883139 ATTTTTCAGGAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTCGAAAATTTTGATTTTC
1 ATTTTTCAGGAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTCGAAAATTTTGATTTTC
883204 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTAATTTATTTTTT
66 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTAA--TA----TT
* * **
883262 TTATTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTT
1 AT-TTTTCAGGAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTT
883311 TTTTTGGAAA
Statistics
Matches: 154, Mismatches: 8, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
115 10 0.06
116 8 0.05
117 50 0.32
118 27 0.18
119 14 0.09
123 2 0.01
124 43 0.28
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (117 bp):
ATTTTTCAGGAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTCGAAAATTTTGATTTTC
AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTAATATT
Found at i:883428 original size:20 final size:20
Alignment explanation
Indices: 883350--883496 Score: 74
Period size: 22 Copynumber: 7.1 Consensus size: 20
883340 AAAATAGAAT
883350 AATAAAAT-AA-AAAAATGAA
1 AATAAAATAAATAAAAAT-AA
*
883369 AGTGAAAATAAATAAAAATAA
1 AAT-AAAATAAATAAAAATAA
*
883390 AA-AAAACAAAATAAAAATAA
1 AATAAAA-TAAATAAAAATAA
*
883410 AATAAAGATAAA-AAGAATATTA
1 AATAAA-ATAAATAA-AA-ATAA
* *
883432 AATAAACTTAATCTAATAAAT-A
1 AATAAA-ATAA-ATAA-AAATAA
*
883454 AATAAAATAAA-AAAAACAA
1 AATAAAATAAATAAAAATAA
*
883473 ATAAACAAATAAATGAAAAA-AA
1 A-ATA-AAATAAAT-AAAAATAA
883495 AA
1 AA
883497 AAACCTGGAG
Statistics
Matches: 100, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
18 3 0.03
19 10 0.10
20 23 0.23
21 24 0.24
22 29 0.29
23 7 0.07
24 4 0.04
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (20 bp):
AATAAAATAAATAAAAATAA
Found at i:883475 original size:26 final size:26
Alignment explanation
Indices: 883446--883495 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
883436 AACTTAATCT
*
883446 AATAAATAAATAAAAT-AAAAAAAACA
1 AATAAACAAAT-AAATGAAAAAAAACA
883472 AATAAACAAATAAATGAAAAAAAA
1 AATAAACAAATAAATGAAAAAAAA
883496 AAAACCTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (26 bp):
AATAAACAAATAAATGAAAAAAAACA
Found at i:884553 original size:37 final size:39
Alignment explanation
Indices: 884477--884558 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
884467 AAAAAAAAAA
* *
884477 TAATAATAATATATAACTATATACATATAAATCTAAATC
1 TAATAAAAAAATATAACTATATACATATAAATCTAAATC
884516 TAATAAAAAAATATAACTATATACATA-AAATCT-AATC
1 TAATAAAAAAATATAACTATATACATATAAATCTAAATC
884553 TAATAA
1 TAATAA
884559 TAATAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 10 0.24
38 6 0.15
39 25 0.61
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (39 bp):
TAATAAAAAAATATAACTATATACATATAAATCTAAATC
Found at i:884561 original size:3 final size:3
Alignment explanation
Indices: 884553--884624 Score: 58
Period size: 3 Copynumber: 23.0 Consensus size: 3
884543 AAATCTAATC
*
884553 TAA TAA TAA TAA TAA TAAA TAA -ATA TATA TAT TAA TACA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TA-A TA-A TAA TAA TA-A TAA TAA TAA
* *
884601 TAA TAA -AT TAA TAA CAA TACA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA
884625 AATCAAAAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
2 2 0.04
3 41 0.72
4 14 0.25
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:884589 original size:16 final size:16
Alignment explanation
Indices: 884554--884625 Score: 72
Period size: 17 Copynumber: 4.1 Consensus size: 16
884544 AATCTAATCT
884554 AATAATAATAATAATA
1 AATAATAATAATAATA
884570 AATAAATATATATATTAATA
1 AAT-AATA-ATA-A-TAATA
*
884590 CATAATAATAATAATA
1 AATAATAATAATAATA
*
884606 AATTAATAACAATACATA
1 AA-TAATAATAATA-ATA
884624 AA
1 AA
884626 ATCAAAAGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 9 0.19
17 15 0.32
18 11 0.23
19 5 0.11
20 7 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:885363 original size:15 final size:16
Alignment explanation
Indices: 885351--885383 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
885341 ATGTTATTTT
885351 ATTAAAAAATATTATA
1 ATTAAAAAATATTATA
885367 ATTAAAAAA-ATTATA
1 ATTAAAAAATATTATA
885382 AT
1 AT
885384 AAATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAAAAAATATTATA
Found at i:885524 original size:11 final size:11
Alignment explanation
Indices: 885508--885532 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
885498 TTCCTTTTCC
885508 TTTCTTTTCTT
1 TTTCTTTTCTT
885519 TTTCTTTTCTT
1 TTTCTTTTCTT
885530 TTT
1 TTT
885533 TTTAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:885527 original size:16 final size:15
Alignment explanation
Indices: 885502--885535 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
885492 ATTTTATTCC
885502 TTTTCCTTTCTTTTCT
1 TTTTCCTTTCTTTT-T
*
885518 TTTTCTTTTCTTTTT
1 TTTTCCTTTCTTTTT
885533 TTT
1 TTT
885536 AATATTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCCTTTCTTTTT
Found at i:896838 original size:7 final size:6
Alignment explanation
Indices: 896737--896835 Score: 55
Period size: 7 Copynumber: 16.5 Consensus size: 6
896727 GATCGTAGAT
* * * * *
896737 TTTTTA -TTTTA -TTTTA TTTTTGG TTTTTG TTTTGA -TTTGA -TTTGA
1 TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA
* *
896782 TTTTTAA TTTTTA -TTTTA TTTTAGA TTTTTA TTTTTTA TTTTTAA TTATTA
1 TTTTT-A TTTTTA TTTTTA TTTT-TA TTTTTA -TTTTTA TTTTT-A TTTTTA
896833 TTT
1 TTT
896836 ATTCATCTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
5 25 0.32
6 25 0.32
7 27 0.35
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:898033 original size:13 final size:13
Alignment explanation
Indices: 898009--898088 Score: 51
Period size: 13 Copynumber: 5.9 Consensus size: 13
897999 TATAATATTT
*
898009 TTATTAAGTAAATA
1 TTATTAAATAAA-A
898023 TT-TTAAATAAAA
1 TTATTAAATAAAA
898035 TTATTAAATAATAA
1 TTATTAAATAA-AA
*
898049 TT-TTATCAATATAA
1 TTATTA--AATAAAA
898063 TATATATAAATATAAA
1 T-TAT-TAAATA-AAA
898079 --ATTAAATAAA
1 TTATTAAATAAA
898089 TAATAAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
11 2 0.04
12 9 0.16
13 21 0.38
14 9 0.16
15 9 0.16
16 3 0.05
17 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (13 bp):
TTATTAAATAAAA
Found at i:898051 original size:26 final size:26
Alignment explanation
Indices: 898009--898088 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
897999 TATAATATTT
*
898009 TTATTAAGTAA-ATATTTTAAATAAAA
1 TTATTAAATAATA-ATTTTAAATAAAA
*
898035 TTATTAAATAATAATTTTATCAATATAA
1 TTATTAAATAATAATTTTA--AATAAAA
**
898063 TATATATAAAT-ATAAAATTAAATAAA
1 T-TAT-TAAATAATAATTTTAAATAAA
898089 TAATAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
26 16 0.36
27 6 0.14
28 7 0.16
29 10 0.23
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (26 bp):
TTATTAAATAATAATTTTAAATAAAA
Found at i:902027 original size:13 final size:13
Alignment explanation
Indices: 902011--902057 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
902001 AATATTTTGA
902011 TATTTAAATATTT
1 TATTTAAATATTT
902024 TA-TTAAATAATTT
1 TATTTAAAT-ATTT
902037 TATTT-AAT-TTT
1 TATTTAAATATTT
902048 T-TTTAAATAT
1 TATTTAAATAT
902058 AAAAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
12 7 0.23
13 11 0.37
14 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTAAATATTT
Found at i:902082 original size:15 final size:15
Alignment explanation
Indices: 902049--902082 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
902039 TTTAATTTTT
*
902049 TTTAAATATAAAAAA
1 TTTAAAAATAAAAAA
902064 -TTAAAAATAAAAAA
1 TTTAAAAATAAAAAA
902078 TTTAA
1 TTTAA
902083 TTTAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TTTAAAAATAAAAAA
Found at i:902237 original size:15 final size:15
Alignment explanation
Indices: 902203--902242 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
902193 ACTAAAATAG
902203 AATAATTTAA-TTTA
1 AATAATTTAATTTTA
*
902217 ATTAATTTAATTTTA
1 AATAATTTAATTTTA
902232 AATAATTTAAT
1 AATAATTTAAT
902243 ACAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATAATTTAATTTTA
Found at i:906119 original size:2 final size:2
Alignment explanation
Indices: 906112--906144 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
906102 AGAAGTACCA
*
906112 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
906145 GTAGCAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:924219 original size:11 final size:11
Alignment explanation
Indices: 924203--924232 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
924193 ATTTCATAAA
924203 AGATTTGTTTG
1 AGATTTGTTTG
924214 AGATTTGTTTG
1 AGATTTGTTTG
924225 AGATTTGT
1 AGATTTGT
924233 CAGATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:933899 original size:6 final size:6
Alignment explanation
Indices: 933880--933912 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
933870 AATATAAATT
*
933880 TTTAAA TTTTAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
933913 TTTTTAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:934629 original size:21 final size:21
Alignment explanation
Indices: 934579--934621 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
934569 AAAAAATATC
*
934579 TAATTCGATTCAATTTTATTT
1 TAATTCAATTCAATTTTATTT
934600 TAATTCAATTCAATTTTATTT
1 TAATTCAATTCAATTTTATTT
934621 T
1 T
934622 TTTTCAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (21 bp):
TAATTCAATTCAATTTTATTT
Found at i:939199 original size:21 final size:21
Alignment explanation
Indices: 939173--939216 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
939163 ATACTAACTA
**
939173 TTTTTTTAATTTTATTAAATT
1 TTTTTTTAATAATATTAAATT
939194 TTTTTTTAATAATATTAAATT
1 TTTTTTTAATAATATTAAATT
939215 TT
1 TT
939217 GAATATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTTAATAATATTAAATT
Found at i:939507 original size:29 final size:28
Alignment explanation
Indices: 939475--939553 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
939465 CTAAAAATTT
* *
939475 TAAATTTTTTATTAATTTAATATGATAAA
1 TAAATTTTTTA-TAATTAAATATAATAAA
939504 TAAATTTTATTATAA-TAAAT-TAATAAA
1 TAAATTTT-TTATAATTAAATATAATAAA
939531 TAAACATTTTTTATAATTAAATA
1 T-AA-ATTTTTTATAATTAAATA
939554 ATTAATCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
27 7 0.16
28 12 0.28
29 21 0.49
30 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TAAATTTTTTATAATTAAATATAATAAA
Found at i:939652 original size:25 final size:25
Alignment explanation
Indices: 939601--939652 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
939591 AATAAACATT
* * *
939601 AATAGATTTTAATTTAATAAGAGTA
1 AATAGATTTCAATTTAATAACACTA
939626 AATA-ATTTCAATTTAATAATCACTA
1 AATAGATTTCAATTTAATAA-CACTA
939651 AA
1 AA
939653 AACATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (25 bp):
AATAGATTTCAATTTAATAACACTA
Found at i:939698 original size:26 final size:26
Alignment explanation
Indices: 939663--939714 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
939653 AACATTAAAT
939663 ATAAAATTATTATATCTAAATTTTAA
1 ATAAAATTATTATATCTAAATTTTAA
* * *
939689 ATAAATTTATTATCTTTAAATTTTAA
1 ATAAAATTATTATATCTAAATTTTAA
939715 TCTAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
ATAAAATTATTATATCTAAATTTTAA
Found at i:939883 original size:41 final size:40
Alignment explanation
Indices: 939796--939884 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 40
939786 AAATTAATAT
*
939796 TTTA-TTATTATTTTAATAATATCATTATAATATTTAATCA
1 TTTATTTATTATTTT-ATAATATCATTAAAATATTTAATCA
** * *
939836 AATATTTATTATTTT-TAATTTCATTAAAATTAATTTTATCA
1 TTTATTTATTATTTTATAATATCATTAAAA-T-ATTTAATCA
939877 TTTATTTA
1 TTTATTTA
939885 AATAAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
39 12 0.31
40 3 0.08
41 24 0.62
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (40 bp):
TTTATTTATTATTTTATAATATCATTAAAATATTTAATCA
Found at i:946464 original size:98 final size:97
Alignment explanation
Indices: 946231--946613 Score: 476
Period size: 98 Copynumber: 4.0 Consensus size: 97
946221 AGACAGTGGC
* * **
946231 CCTT-ATTGGAGTA-AAGGGGGATGTCACGAACCTAAGGAGGACTCATAAATTTCACATCGACTG
1 CCTTCATTGGAGTAGAA-GGGGATGTCACGAACCTAAAGAGGAGTCATAAATCCCACATCGACTG
* *
946294 TGTACTAGAATTAGCCATAGGATATAA--G--C
65 TGTACTAGAGTTAGCCATAGGATATAAGGGTTG
* * *
946323 CCTT-ATTGGAGTAGAGGGGGATGTCACGAACCTAAGGAGGAGTCATAAATCTCACATCGACTGT
1 CCTTCATTGGAGTAGAAGGGGATGTCACGAACCTAAAGAGGAGTCATAAATCCCACATCGACTGT
*
946387 GTACTAGAGTTAGTCATAGGATATAAGGGTTAG
66 GTACTAGAGTTAGCCATAGGATATAAGGGTT-G
* * * * *
946420 TCTTCATTGGAGTAGAAGGGGATGTCACGGACCTAAAGAGGAGTCTTGAATCCCACATCAACTGT
1 CCTTCATTGGAGTAGAAGGGGATGTCACGAACCTAAAGAGGAGTCATAAATCCCACATCGACTGT
* * *
946485 GTACTGGAGTTAGCCATAAGATATAAAGGTTGG
66 GTACTAGAGTTAGCCATAGGATATAAGGGTT-G
* * * *
946518 CCCTCATTGGAGTAGAGGGGGATGTCAC-AGACCTAAAGAGAAGTCATGAATCCCACATCGACTG
1 CCTTCATTGGAGTAGAAGGGGATGTCACGA-ACCTAAAGAGGAGTCATAAATCCCACATCGACTG
946582 TGTACTAGAGTTAGCCATAGGATATAAGGGTT
65 TGTACTAGAGTTAGCCATAGGATATAAGGGTT
946614 CACACTACCT
Statistics
Matches: 254, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
92 83 0.33
93 1 0.00
94 1 0.00
97 3 0.01
98 166 0.65
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (97 bp):
CCTTCATTGGAGTAGAAGGGGATGTCACGAACCTAAAGAGGAGTCATAAATCCCACATCGACTGT
GTACTAGAGTTAGCCATAGGATATAAGGGTTG
Found at i:958586 original size:21 final size:20
Alignment explanation
Indices: 958538--958594 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
958528 TTTATATGTA
958538 TTTAATAA-ATAAATT-TTT
1 TTTAATAATATAAATTATTT
*
958556 ATTAAATAATATAAATTATTT
1 -TTTAATAATATAAATTATTT
*
958577 TTTAATTAATTTAAATTA
1 TTTAA-TAATATAAATTA
958595 ATATATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 7 0.22
20 11 0.34
21 14 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAATAATATAAATTATTT
Found at i:959460 original size:18 final size:19
Alignment explanation
Indices: 959418--959465 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
959408 ATTGATTTTG
959418 ATAAT-ATTAAAAATAATA
1 ATAATAATTAAAAATAATA
* *
959436 ATTATAATTAAAAA-AATT
1 ATAATAATTAAAAATAATA
*
959454 ATAATAAATAAA
1 ATAATAATTAAA
959466 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATAATTAAAAATAATA
Found at i:959466 original size:14 final size:15
Alignment explanation
Indices: 959435--959476 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
959425 TAAAAATAAT
959435 AATTATAATTAAAAA
1 AATTATAATTAAAAA
*
959450 AATTATAA-TAAATA
1 AATTATAATTAAAAA
*
959464 AATT-TTATTAAAA
1 AATTATAATTAAAA
959477 TTTATATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATAATTAAAAA
Found at i:960755 original size:55 final size:55
Alignment explanation
Indices: 960684--960795 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
960674 ATAAAAAAAA
960684 TAGTGTTTCTCTACATTGATATGACTAAAATTTATTAAATTAAAAAATTTATTTT
1 TAGTGTTTCTCTACATTGATATGACTAAAATTTATTAAATTAAAAAATTTATTTT
* *
960739 TAGTGTTTCTCTACATTGATATGATTAAAATTTATTAAATTAAAAATTTTATTTT
1 TAGTGTTTCTCTACATTGATATGACTAAAATTTATTAAATTAAAAAATTTATTTT
960794 TA
1 TA
960796 CTTTTATATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (55 bp):
TAGTGTTTCTCTACATTGATATGACTAAAATTTATTAAATTAAAAAATTTATTTT
Found at i:961637 original size:15 final size:16
Alignment explanation
Indices: 961610--961639 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
961600 TTTCGTCTTT
961610 TTCTTTCTATTTTTTG
1 TTCTTTCTATTTTTTG
961626 TTCTTT-TATTTTTT
1 TTCTTTCTATTTTTT
961640 ATTTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (16 bp):
TTCTTTCTATTTTTTG
Found at i:963346 original size:58 final size:57
Alignment explanation
Indices: 963238--963345 Score: 132
Period size: 57 Copynumber: 1.9 Consensus size: 57
963228 TGAGTATAAA
*
963238 TAATTTTTATATTTGTAACTTTTTTAAAAAATAAAAATTAAATTTATTTTTAATTTT
1 TAATTTTTATATTTGTAACTTTTTTAAAAAATAAAAATTAAATATATTTTTAATTTT
* * *
963295 TAATTTTATATATTTATGTAA-TTTTTT-ATAAATATATA-TAAATATATTTTT
1 TAATTTT-TATA-TT-TGTAACTTTTTTAAAAAATAAAAATTAAATATATTTTT
963346 TGAAAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
57 19 0.43
58 12 0.27
59 8 0.18
60 5 0.11
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (57 bp):
TAATTTTTATATTTGTAACTTTTTTAAAAAATAAAAATTAAATATATTTTTAATTTT
Found at i:964500 original size:26 final size:27
Alignment explanation
Indices: 964460--964519 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 27
964450 AAATAATAAT
* *
964460 AAATATTATTGTAATTGTGATTGAAA-A
1 AAAT-TTATTATAATTGTAATTGAAAGA
964487 AAATTTATTATAATTGTAATTGAAAGA
1 AAATTTATTATAATTGTAATTGAAAGA
964514 AAATTT
1 AAATTT
964520 CATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (27 bp):
AAATTTATTATAATTGTAATTGAAAGA
Found at i:968011 original size:7 final size:7
Alignment explanation
Indices: 967999--968028 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
967989 AATTCAATCG
967999 CTTTAGC
1 CTTTAGC
968006 CTTTAGC
1 CTTTAGC
968013 CTTTAGC
1 CTTTAGC
*
968020 CTCTAGC
1 CTTTAGC
968027 CT
1 CT
968029 CTGCCACCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.33, G:0.13, T:0.40
Consensus pattern (7 bp):
CTTTAGC
Found at i:969600 original size:8 final size:8
Alignment explanation
Indices: 969580--969631 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
969570 ATATTATTTT
969580 TAAA-ATA
1 TAAATATA
*
969587 TAAATATT
1 TAAATATA
969595 TAAATATA
1 TAAATATA
*
969603 TAATTATA
1 TAAATATA
969611 TAAATATATA
1 T-AA-ATATA
969621 TAAATATA
1 TAAATATA
969629 TAA
1 TAA
969632 TTAAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
7 4 0.11
8 25 0.66
9 4 0.11
10 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:969626 original size:26 final size:24
Alignment explanation
Indices: 969584--969634 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 24
969574 TATTTTTAAA
969584 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATATATAATT
969608 ATATAAATATATATAAATATATAATT
1 ATATAAATAT-T-TAAATATATAATT
969634 A
1 A
969635 AAAATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 10 0.40
25 1 0.04
26 14 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATAAATATTTAAATATATAATT
Found at i:976917 original size:17 final size:17
Alignment explanation
Indices: 976895--976928 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
976885 CTTTTTATTT
976895 AAAAAAAAAAACAGAAA
1 AAAAAAAAAAACAGAAA
*
976912 AAAAAAAAAAAGAGAAA
1 AAAAAAAAAAACAGAAA
976929 GGTGCTGCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAACAGAAA
Found at i:979122 original size:30 final size:30
Alignment explanation
Indices: 979088--979148 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
979078 GCAATAATTT
**
979088 ATATTTATGAATTCAATTTGA-TAAAAATAA
1 ATATTTAAAAATTCAA-TTGATTAAAAATAA
*
979118 ATATTTAAAAATTCAATTGATTTAAAATAA
1 ATATTTAAAAATTCAATTGATTAAAAATAA
979148 A
1 A
979149 AAATTCAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (30 bp):
ATATTTAAAAATTCAATTGATTAAAAATAA
Found at i:980316 original size:14 final size:14
Alignment explanation
Indices: 980291--980341 Score: 74
Period size: 12 Copynumber: 3.9 Consensus size: 14
980281 AAATTATTTT
980291 TTTAA-TTT-TATA
1 TTTAATTTTATATA
980303 TTTAATTTTATATA
1 TTTAATTTTATATA
980317 TTT--TTTTATATA
1 TTTAATTTTATATA
980329 TTTAATTTTATAT
1 TTTAATTTTATAT
980342 TTATATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 17 0.49
13 3 0.09
14 15 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTAATTTTATATA
Found at i:981584 original size:21 final size:23
Alignment explanation
Indices: 981560--981604 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
981550 ATTTATAAAA
981560 AAAT-AACATTT-TAATTATTTT
1 AAATCAACATTTATAATTATTTT
* *
981581 AAATCAATATTTATAATTTTTTT
1 AAATCAACATTTATAATTATTTT
981604 A
1 A
981605 GCTAAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 6 0.30
23 10 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATCAACATTTATAATTATTTT
Found at i:982244 original size:20 final size:20
Alignment explanation
Indices: 982200--982252 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
982190 TTAGTCGAAT
*
982200 TTTTA-TATTTTAATACATA
1 TTTTATTATTTTAATACAAA
982219 TATTTATTATTTTAATTA-AAA
1 T-TTTATTATTTTAA-TACAAA
*
982240 TTTTATTAGTTTA
1 TTTTATTATTTTA
982253 TCTTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 15 0.52
21 11 0.38
22 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTATTATTTTAATACAAA
Found at i:985825 original size:41 final size:42
Alignment explanation
Indices: 985738--986009 Score: 123
Period size: 44 Copynumber: 6.5 Consensus size: 42
985728 TTATGTTACT
* * *
985738 TCTGTTTAGAGGAGC--AATTTATTTTAAAAGTTGTTAAGCC
1 TCTGTTTAAAGGAGCTTTATTTATTTTAAAAGTCGTTAAGCC
* * *
985778 TCTGTTTAGAGTAGCTTTATTTATTTT-AAAGTCGTTGAGCC
1 TCTGTTTAAAGGAGCTTTATTTATTTTAAAAGTCGTTAAGCC
* * * * * *
985819 TTTGTTTAAAGGAGCTTTGTTTATTTTTCTAAAGTCATTGAGCT
1 TCTGTTTAAAGGAGCTTTATTTA-TTTT-AAAAGTCGTTAAGCC
* * * * *
985863 TCTGATTAAAAGAACTTTGA-TTATTTT----TTC--AAAGCC
1 TCTGTTTAAAGGAGCTTT-ATTTATTTTAAAAGTCGTTAAGCC
* * * * *
985899 TCTGATTAGAGGAGCTTTATTTATTTTTTCAAAGTCATTGAGCC
1 TCTGTTTAAAGGAGCTTTATTTA--TTTTAAAAGTCGTTAAGCC
* * * * *
985943 TCTGATATTATAGGAGTTTTGTTTATTTTTTCAAAGTCGTTGAGCC
1 TCTG-T-TTAAAGGAGCTTTATTTA--TTTTAAAAGTCGTTAAGCC
* * *
985989 TCTATTTAGAGGAGGTTTATT
1 TCTGTTTAAAGGAGCTTTATT
986010 CATGTTTTTC
Statistics
Matches: 181, Mismatches: 34, Indels: 30
0.74 0.14 0.12
Matches are distributed among these distances:
35 1 0.01
36 21 0.12
38 6 0.03
40 14 0.08
41 31 0.17
42 15 0.08
43 4 0.02
44 50 0.28
45 1 0.01
46 38 0.21
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.45
Consensus pattern (42 bp):
TCTGTTTAAAGGAGCTTTATTTATTTTAAAAGTCGTTAAGCC
Found at i:985872 original size:44 final size:44
Alignment explanation
Indices: 985793--986032 Score: 178
Period size: 44 Copynumber: 5.5 Consensus size: 44
985783 TTAGAGTAGC
* * *
985793 TTTATTTATTTTAAAGTCGTTGAGCCTT-TGTTTAAAGGAGCTTTG
1 TTTATTT-TTTCAAAGTCATTGAG-CTTCTGATTAAAGGAGCTTTG
* *
985838 TTTA-TTTTTCTAAAGTCATTGAGCTTCTGATTAAAAGAACTTTG
1 TTTATTTTTTC-AAAGTCATTGAGCTTCTGATTAAAGGAGCTTTG
* * *
985882 ATTATTTTTTCAAAG-C------C-TCTGATTAGAGGAGCTTTA
1 TTTATTTTTTCAAAGTCATTGAGCTTCTGATTAAAGGAGCTTTG
* * *
985918 TTTATTTTTTCAAAGTCATTGAGCCTCTGATATTATAGGAGTTTTG
1 TTTATTTTTTCAAAGTCATTGAGCTTCTG--ATTAAAGGAGCTTTG
* * * * *
985964 TTTATTTTTTCAAAGTCGTTGAGCCTCT-ATTTAGAGGAGGTTTA
1 TTTATTTTTTCAAAGTCATTGAGCTTCTGA-TTAAAGGAGCTTTG
* *
986008 TTCATGTTTTTCAAAGACATTGAGC
1 TTTAT-TTTTTCAAAGTCATTGAGC
986033 CTCTACTTAG
Statistics
Matches: 159, Mismatches: 21, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
36 29 0.18
37 2 0.01
43 9 0.06
44 53 0.33
45 27 0.17
46 39 0.25
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (44 bp):
TTTATTTTTTCAAAGTCATTGAGCTTCTGATTAAAGGAGCTTTG
Found at i:985968 original size:46 final size:44
Alignment explanation
Indices: 985895--986051 Score: 197
Period size: 46 Copynumber: 3.5 Consensus size: 44
985885 ATTTTTTCAA
* *
985895 AGCCTCTGATTAGAGGAGCTTTATTTATTTTTTCAAAGTCATTG
1 AGCCTCTAATTAGAGGAGTTTTATTTATTTTTTCAAAGTCATTG
* * *
985939 AGCCTCTGATATTATAGGAGTTTTGTTTATTTTTTCAAAGTCGTTG
1 AGCCTCT-A-ATTAGAGGAGTTTTATTTATTTTTTCAAAGTCATTG
* * * *
985985 AGCCTCTATTTAGAGGAGGTTTATTCATGTTTTTCAAAGACATTG
1 AGCCTCTAATTAGAGGAGTTTTATTTAT-TTTTTCAAAGTCATTG
*
986030 AGCCTCTACTTAGAGGAGTTTT
1 AGCCTCTAATTAGAGGAGTTTT
986052 GATCAAAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
44 22 0.23
45 35 0.36
46 39 0.41
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (44 bp):
AGCCTCTAATTAGAGGAGTTTTATTTATTTTTTCAAAGTCATTG
Found at i:986240 original size:4 final size:4
Alignment explanation
Indices: 986227--986299 Score: 62
Period size: 4 Copynumber: 18.0 Consensus size: 4
986217 TTTGTATTTG
* * *
986227 TATT TA-T TATT TA-T TA-T TATT TATT TATT AATA TATAT TATT TTTAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT-T TATT TAT-T
986274 TATT TATT TATT AATATT TATT TATT
1 TATT TATT TATT --TATT TATT TATT
986300 AATTATCTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
3 9 0.16
4 38 0.67
5 6 0.11
6 4 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:986250 original size:14 final size:14
Alignment explanation
Indices: 986233--986310 Score: 95
Period size: 14 Copynumber: 5.4 Consensus size: 14
986223 TTTGTATTTA
986233 TTATTTATTATTAT
1 TTATTTATTATTAT
986247 TTATTTATTAATATAT
1 TTATTTATT-AT-TAT
986263 ATTATTT-TTATTAT
1 -TTATTTATTATTAT
*
986277 TTATTTATTAATAT
1 TTATTTATTATTAT
986291 TTATTTATTAATTAT
1 TTATTTATT-ATTAT
*
986306 CTATT
1 TTATT
986311 AGTATATATA
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
13 6 0.11
14 27 0.48
15 12 0.21
16 5 0.09
17 6 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTTATTATTAT
Found at i:987552 original size:60 final size:60
Alignment explanation
Indices: 987466--987584 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 60
987456 TACAATTTCT
* *
987466 AAAATAAAATTTTCAAAAAAATACATTTTGAGGAAAAGTA-AGAAGTATCAATTTTTCTTA
1 AAAATAAAATTATCAAAAAAATACATTTTAAGGAAAAGTAGA-AAGTATCAATTTTTCTTA
* * *
987526 AAAATAAAAATTATCAAGAAAA-ACATTTTAAGTAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAT-AAAATTATCAAAAAAATACATTTTAAGGAAAAGTAGAAAGTATCAATTTTTCTT
987585 GTACAAAAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 37 0.71
61 15 0.29
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (60 bp):
AAAATAAAATTATCAAAAAAATACATTTTAAGGAAAAGTAGAAAGTATCAATTTTTCTTA
Found at i:998690 original size:4 final size:4
Alignment explanation
Indices: 998683--998718 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
998673 ATCTATCATG
998683 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
998719 TATATGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:999311 original size:17 final size:17
Alignment explanation
Indices: 999289--999328 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
999279 ATAAAATTTT
*
999289 TTAAAATTAATTAATTG
1 TTAAAAGTAATTAATTG
* *
999306 TTAAAAGTAATTTATTT
1 TTAAAAGTAATTAATTG
999323 TTAAAA
1 TTAAAA
999329 ATCTGACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
TTAAAAGTAATTAATTG
Found at i:1003320 original size:26 final size:26
Alignment explanation
Indices: 1003279--1003344 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
1003269 CTACTTTTAT
1003279 ATGTATATATATATATATGTATGTATGC
1 ATGTATATATATATATA--TATGTATGC
* *
1003307 ATGTATATATATATATATATGTGTGT
1 ATGTATATATATATATATATGTATGC
*
1003333 GTGTATATATAT
1 ATGTATATATAT
1003345 TGTTACGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 18 0.51
28 17 0.49
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (26 bp):
ATGTATATATATATATATATGTATGC
Found at i:1007328 original size:19 final size:19
Alignment explanation
Indices: 1007304--1007367 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
1007294 GTGTATAACT
1007304 TGAATTGAAGAGTTTGAGG
1 TGAATTGAAGAGTTTGAGG
** *
1007323 TGAATTGTTTGAGTTTGAGT
1 TGAATTG-AAGAGTTTGAGG
1007343 TGAATT-AA-AGTTTGAAGG
1 TGAATTGAAGAGTTTG-AGG
1007361 TAGAATT
1 T-GAATT
1007368 TAAAAGAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.17
18 3 0.08
19 12 0.33
20 15 0.42
ACGTcount: A:0.31, C:0.00, G:0.30, T:0.39
Consensus pattern (19 bp):
TGAATTGAAGAGTTTGAGG
Found at i:1008754 original size:45 final size:45
Alignment explanation
Indices: 1008683--1008776 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
1008673 TCTAAAGATA
1008683 AAAAAAATTTTTTAAATAGACTCAAATGGTGAAAAATTTAGAAAT
1 AAAAAAATTTTTTAAATAGACTCAAATGGTGAAAAATTTAGAAAT
* * *
1008728 AAAAAATTTTTTTAAATTG-GTCCAAATGGTGAAAAATTTAGAAAT
1 AAAAAAATTTTTTAAATAGACT-CAAATGGTGAAAAATTTAGAAAT
1008773 AAAA
1 AAAA
1008777 CTTGAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (45 bp):
AAAAAAATTTTTTAAATAGACTCAAATGGTGAAAAATTTAGAAAT
Found at i:1014507 original size:73 final size:74
Alignment explanation
Indices: 1014356--1014508 Score: 191
Period size: 74 Copynumber: 2.1 Consensus size: 74
1014346 ATCACCCCCT
* * * * * *
1014356 TGAACTAATTGATCCCCTCAATGAAGGGATTGATCGGGTTGTACATTTTCAAGCCAAGAACTGGT
1 TGAACCAATTAATCCCCTCAAGGAAGGGATCGATCGGGTAGTACATTTTCAAGCCAAGAACTGAT
*
1014421 TTTAAAACT
66 TTTAAAACA
* * * * *
1014430 TGAACCAATTAATCCCCTCAAGGAATGGATCGATCGGGTAG-GCTTTTTCAAGCCATGAATTGAT
1 TGAACCAATTAATCCCCTCAAGGAAGGGATCGATCGGGTAGTACATTTTCAAGCCAAGAACTGAT
1014494 TTTAAAACA
66 TTTAAAACA
1014503 TGAACC
1 TGAACC
1014509 GATCGATCCC
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
73 32 0.48
74 35 0.52
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (74 bp):
TGAACCAATTAATCCCCTCAAGGAAGGGATCGATCGGGTAGTACATTTTCAAGCCAAGAACTGAT
TTTAAAACA
Found at i:1014518 original size:73 final size:74
Alignment explanation
Indices: 1014356--1014522 Score: 185
Period size: 73 Copynumber: 2.3 Consensus size: 74
1014346 ATCACCCCCT
* * * * * *
1014356 TGAACTAATTGATCCCCTCAATGAAGGGATTGATCGGGTTGTACATTTTCAAGCCAAGAACTGGT
1 TGAACCAATCGATCCCCTCAAGGAAGGGATCGATCGGGTAGTACATTTTCAAGCCAAGAACTGAT
*
1014421 TTTAAAACT
66 TTTAAAACA
** * * * * *
1014430 TGAACCAATTAATCCCCTCAAGGAATGGATCGATCGGGTAG-GCTTTTTCAAGCCATGAATTGAT
1 TGAACCAATCGATCCCCTCAAGGAAGGGATCGATCGGGTAGTACATTTTCAAGCCAAGAACTGAT
1014494 TTTAAAACA
66 TTTAAAACA
*
1014503 TGAACCGATCGAT-CCCTCAA
1 TGAACCAATCGATCCCCTCAA
1014523 ATGGTTACTT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
72 7 0.09
73 36 0.46
74 35 0.45
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (74 bp):
TGAACCAATCGATCCCCTCAAGGAAGGGATCGATCGGGTAGTACATTTTCAAGCCAAGAACTGAT
TTTAAAACA
Found at i:1019027 original size:20 final size:20
Alignment explanation
Indices: 1018998--1019035 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1018988 ATAAAATTGC
1018998 CAACCCCTCCTTCACCGCTT
1 CAACCCCTCCTTCACCGCTT
* *
1019018 CAACCGCTCCTTCGCCGC
1 CAACCCCTCCTTCACCGC
1019036 CGCGTAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.55, G:0.11, T:0.21
Consensus pattern (20 bp):
CAACCCCTCCTTCACCGCTT
Found at i:1022897 original size:17 final size:18
Alignment explanation
Indices: 1022871--1022904 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1022861 TTCAAGTTTA
*
1022871 CATGTTTCCAT-CCTTGT
1 CATGTCTCCATACCTTGT
1022888 CATGTCTCCATACCTTG
1 CATGTCTCCATACCTTG
1022905 GAACAGCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.32, G:0.12, T:0.41
Consensus pattern (18 bp):
CATGTCTCCATACCTTGT
Found at i:1023511 original size:17 final size:16
Alignment explanation
Indices: 1023487--1023529 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
1023477 TATAATAGGA
1023487 TAAAATAATATAATAT
1 TAAAATAATATAATAT
* *
1023503 TATAAATAAGATTATAT
1 TA-AAATAATATAATAT
1023520 TAAAA-AATAT
1 TAAAATAATAT
1023530 CATTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 5 0.22
17 14 0.61
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATAATATAATAT
Found at i:1025966 original size:52 final size:51
Alignment explanation
Indices: 1025854--1026027 Score: 153
Period size: 52 Copynumber: 3.4 Consensus size: 51
1025844 GAAAAAGAAG
* * *
1025854 ATTTTTAATA-AGTAAGTTT-AATTTTCAAGAGAATAATTTTAAAAGGAA-ATGA
1 ATTTTTAATAGA-TAAGTTTGACTTAT-AAGAGAAAAATTTTAAAA-GAAGA-GA
*
1025906 ATTTTTAATAG-TCAAGTTTGACTTATAATAGAAAAATTTTAAAAGAAGAGA
1 ATTTTTAATAGAT-AAGTTTGACTTATAAGAGAAAAATTTTAAAAGAAGAGA
* * * *
1025957 GATTATTAATGGATAAGTTTGATTTATAAGAAAAAAATTTT--AAGAAGAGAA
1 -ATTTTTAATAGATAAGTTTGACTTATAAGAGAAAAATTTTAAAAGAAGAG-A
* *
1026008 ATTTTTAATTGGTAAGTTTG
1 ATTTTTAATAGATAAGTTTG
1026028 TATGATTATA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
50 25 0.24
51 7 0.07
52 66 0.64
53 5 0.05
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.38
Consensus pattern (51 bp):
ATTTTTAATAGATAAGTTTGACTTATAAGAGAAAAATTTTAAAAGAAGAGA
Found at i:1026610 original size:25 final size:25
Alignment explanation
Indices: 1026565--1026686 Score: 120
Period size: 25 Copynumber: 4.9 Consensus size: 25
1026555 ATGTGGTATC
* * * * *
1026565 AGAGTTGAAGGTTTAAAATGTGAGA
1 AGAGTTGAAGATTCAAGATGTAAAA
1026590 AGAGTTGAAGATTCAAGATGTAAAA
1 AGAGTTGAAGATTCAAGATGTAAAA
*
1026615 AGAGTCGAAGATTCAAGATGTAAAA
1 AGAGTTGAAGATTCAAGATGTAAAA
* * * *
1026640 AAAGTTGAAGATTCGAGAGGTAGAA
1 AGAGTTGAAGATTCAAGATGTAAAA
* *
1026665 A-AGTTGAAAGATTTAAAATGTA
1 AGAGTTG-AAGATTCAAGATGTA
1026687 GGAAGTATAT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
24 5 0.06
25 76 0.94
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.25
Consensus pattern (25 bp):
AGAGTTGAAGATTCAAGATGTAAAA
Found at i:1026949 original size:11 final size:11
Alignment explanation
Indices: 1026933--1026974 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
1026923 AATCTCATAA
1026933 GAGATTTGTTT
1 GAGATTTGTTT
* *
1026944 GAGATTTATTA
1 GAGATTTGTTT
1026955 GAGA-TTGATTT
1 GAGATTTG-TTT
1026966 GAGATTTGT
1 GAGATTTGT
1026975 CAGATATTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 2 0.08
11 20 0.80
12 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:1027079 original size:52 final size:51
Alignment explanation
Indices: 1026999--1027155 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 51
1026989 TGGACAAAAA
* * * *
1026999 AACTTGTAAAAGAAGAATTTTAAGAGAAAGATGATTTTTAATAGGTAAGTTT
1 AACTTGTAAGAGAAAAATTTTAAAAGAAA-ATGATTTTTAATAGGCAAGTTT
* * * * *
1027051 GACTTGCAAGAGAATAATTCTAAAAGAAAATGGATTCTTAATAGGCAAGTTT
1 AACTTGTAAGAGAAAAATTTTAAAAGAAAAT-GATTTTTAATAGGCAAGTTT
* *
1027103 AACTTATAAGAGAAAAATTTTAAGAGGAGAAA-GATTTTTAATAGGCAAGTTT
1 AACTTGTAAGAGAAAAATTTTAA-AAGA-AAATGATTTTTAATAGGCAAGTTT
1027155 A
1 A
1027156 TATGGTTATA
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
51 2 0.02
52 79 0.91
53 3 0.03
54 3 0.03
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (51 bp):
AACTTGTAAGAGAAAAATTTTAAAAGAAAATGATTTTTAATAGGCAAGTTT
Found at i:1032703 original size:29 final size:30
Alignment explanation
Indices: 1032642--1032720 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
1032632 ACATCCAAAC
* *
1032642 AATAAAAAATAAATAATTAAATTATATTAA
1 AATAATAAATAAATAATAAAATTATATTAA
*
1032672 AATAATAAATAAA-AATAAAATTATATTCA
1 AATAATAAATAAATAATAAAATTATATTAA
1032701 AATAATGAAA-AAATAATAAA
1 AATAAT-AAATAAATAATAAA
1032721 GTAATAGTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 23 0.52
30 21 0.48
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (30 bp):
AATAATAAATAAATAATAAAATTATATTAA
Found at i:1034306 original size:16 final size:17
Alignment explanation
Indices: 1034273--1034307 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1034263 AATCGATCTT
*
1034273 AAAATCGATTACAACCG
1 AAAATCAATTACAACCG
1034290 AAAATCAATTA-AACCG
1 AAAATCAATTACAACCG
1034306 AA
1 AA
1034308 TCAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.54, C:0.20, G:0.09, T:0.17
Consensus pattern (17 bp):
AAAATCAATTACAACCG
Found at i:1034912 original size:6 final size:6
Alignment explanation
Indices: 1034885--1034913 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1034875 TAAAAATAAA
1034885 AAAATT AAAATT AAAA-T AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
1034914 TATTAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:1041270 original size:6 final size:6
Alignment explanation
Indices: 1041259--1041357 Score: 58
Period size: 6 Copynumber: 16.5 Consensus size: 6
1041249 TTAATAAAAT
* * * **
1041259 ATTTAA ATTTAA GTTAAA ATTTATT ATTTAA ATTTTG ATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA
* * * * * * *
1041307 ATTTAA TTTTAA TTTTTAA ATTCAA ATTT-G ATTTAA AATAAA AATTAA
1 ATTTAA ATTTAA -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
1041355 ATT
1 ATT
1041358 ACTTAACTCA
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
5 9 0.13
6 49 0.71
7 11 0.16
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:1041300 original size:37 final size:36
Alignment explanation
Indices: 1041259--1041328 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
1041249 TTAATAAAAT
1041259 ATTTAAATTTAAGTTAAAATTT-ATTATTTAAATTTTG
1 ATTTAAATTTAA-TTAAAATTTAATT-TTTAAATTTTG
* *
1041296 ATTTAAATTTAATTTAATTTTAATTTTTAAATT
1 ATTTAAATTTAATTAAAATTTAATTTTTAAATT
1041329 CAAATTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 15 0.50
37 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (36 bp):
ATTTAAATTTAATTAAAATTTAATTTTTAAATTTTG
Found at i:1041312 original size:11 final size:11
Alignment explanation
Indices: 1041259--1041321 Score: 63
Period size: 11 Copynumber: 5.4 Consensus size: 11
1041249 TTAATAAAAT
1041259 ATTTAAATTTA
1 ATTTAAATTTA
*
1041270 AGTTAAAATTTA
1 A-TTTAAATTTA
*
1041282 TTATTTAAATTTTG
1 --ATTTAAA-TTTA
1041296 ATTTAAATTTA
1 ATTTAAATTTA
*
1041307 ATTTAATTTTA
1 ATTTAAATTTA
1041318 ATTT
1 ATTT
1041322 TTAAATTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 18 0.42
12 16 0.37
13 5 0.12
14 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:1048563 original size:24 final size:23
Alignment explanation
Indices: 1048510--1048577 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
1048500 ATTTATATTT
1048510 ATATATTATTAATATAAAAATACG
1 ATATATTATTAATA-AAAAATACG
** *
1048534 ATATATTATTAATAAATTATATG
1 ATATATTATTAATAAAAAATACG
*
1048557 ATAATATT-TTATTAAAAAATA
1 AT-ATATTATTAATAAAAAATA
1048578 AATTAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (23 bp):
ATATATTATTAATAAAAAATACG
Found at i:1048580 original size:30 final size:30
Alignment explanation
Indices: 1048544--1048608 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
1048534 ATATATTATT
* *
1048544 AATAAATTATATGATAAT-ATTTTATTAAA-A
1 AATAAATTAAATAAT-ATCATTTTA-TAAATA
1048574 AATAAATTAAATAATATCATTTTATAAATA
1 AATAAATTAAATAATATCATTTTATAAATA
1048604 AATAA
1 AATAA
1048609 TTTTTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (30 bp):
AATAAATTAAATAATATCATTTTATAAATA
Found at i:1048603 original size:17 final size:16
Alignment explanation
Indices: 1048580--1048631 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
1048570 AAAAAATAAA
*
1048580 TTAAATAATATCATTT
1 TTAAATAATATAATTT
1048596 TATAAATAA-ATAATTT
1 T-TAAATAATATAATTT
*
1048612 TTAAAAAATATTAATTT
1 TTAAATAATA-TAATTT
1048629 TTA
1 TTA
1048632 TATATTTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 6 0.19
16 9 0.29
17 16 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAATAATATAATTT
Found at i:1049412 original size:10 final size:11
Alignment explanation
Indices: 1049392--1049416 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1049382 ACCAACTTTG
1049392 TTTCTTTTTTT
1 TTTCTTTTTTT
1049403 TTTCTTTTTTT
1 TTTCTTTTTTT
1049414 TTT
1 TTT
1049417 TAATCTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:1052075 original size:14 final size:15
Alignment explanation
Indices: 1052051--1052083 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1052041 GTATAAAAAT
1052051 AATAAATTAAATTTA
1 AATAAATTAAATTTA
*
1052066 AATAAA-TAAATTTT
1 AATAAATTAAATTTA
1052080 AATA
1 AATA
1052084 TTTTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATAAATTAAATTTA
Found at i:1059135 original size:54 final size:54
Alignment explanation
Indices: 1059055--1059158 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
1059045 ATGCCGTGTT
1059055 GTGTTTGATCCAATGCTCAAAATGGGC-AGATGGGTTAACCAATAATTATCTACC
1 GTGTTTGATCCAATGCTCAAAATGGGCAAG-TGGGTTAACCAATAATTATCTACC
* *
1059109 GTGTTTGATCCAATGCTCAAAATGGGCAAGTGTGTTAATCAATAATTATC
1 GTGTTTGATCCAATGCTCAAAATGGGCAAGTGGGTTAACCAATAATTATC
1059159 AATTGTGGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
54 45 0.96
55 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (54 bp):
GTGTTTGATCCAATGCTCAAAATGGGCAAGTGGGTTAACCAATAATTATCTACC
Found at i:1071599 original size:2 final size:2
Alignment explanation
Indices: 1071592--1071625 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1071582 GCTTCTCATC
*
1071592 TA TA TA TA TA TA TA CA 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
1071626 GATGAGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1071727 original size:2 final size:2
Alignment explanation
Indices: 1071720--1071751 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1071710 GTTCTTTAGT
1071720 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
1071752 AAGAGATAGA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1076647 original size:31 final size:31
Alignment explanation
Indices: 1076609--1076672 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
1076599 AAAAGTGTAG
1076609 CATTCTCATATGTAACTTTACATATCCAAGA
1 CATTCTCATATGTAACTTTACATATCCAAGA
1076640 CATTCTCATATGTAACTTTACATATCCAAGA
1 CATTCTCATATGTAACTTTACATATCCAAGA
1076671 CA
1 CA
1076673 ATGTTAAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.34
Consensus pattern (31 bp):
CATTCTCATATGTAACTTTACATATCCAAGA
Found at i:1079431 original size:35 final size:34
Alignment explanation
Indices: 1079391--1079460 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
1079381 ATAAAATTTC
*
1079391 TATTATAACATTATCGTAAATATATTTTCAAGAAA
1 TATTATAA-ATTATCGAAAATATATTTTCAAGAAA
* * * *
1079426 TATTATAATTTTTTGAAAATTTATTTTCAAGAAA
1 TATTATAAATTATCGAAAATATATTTTCAAGAAA
1079460 T
1 T
1079461 TATAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (34 bp):
TATTATAAATTATCGAAAATATATTTTCAAGAAA
Found at i:1079485 original size:34 final size:34
Alignment explanation
Indices: 1079412--1079488 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
1079402 TATCGTAAAT
* * *
1079412 ATATTTTCAAGAAATATTATAATTTTTTGAAAAT
1 ATATTTTCAAGAAATATTATAAATTTATGAAAAG
*
1079446 TTATTTTCAAG-AA-ATTATAAAATTTATGAGAAAG
1 ATATTTTCAAGAAATATTAT-AAATTTATGA-AAAG
1079480 ATATTTTCA
1 ATATTTTCA
1079489 TAATTTCACT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 5 0.14
33 10 0.28
34 21 0.58
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (34 bp):
ATATTTTCAAGAAATATTATAAATTTATGAAAAG
Found at i:1089245 original size:15 final size:15
Alignment explanation
Indices: 1089201--1089248 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1089191 TTTTTTAAAA
*
1089201 TTATATTTTTAAATTT
1 TTAT-TTTTTATATTT
* *
1089217 TTAATATTTAATATTT
1 TT-ATTTTTTATATTT
1089233 TTATTTTTTATATTT
1 TTATTTTTTATATTT
1089248 T
1 T
1089249 AAAAATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 12 0.46
16 12 0.46
17 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTTTATATTT
Found at i:1100683 original size:25 final size:25
Alignment explanation
Indices: 1100649--1100697 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1100639 CCGGTGCATA
*
1100649 GAATGTCATAATTGTCATAAATCTG
1 GAATGTCATAATCGTCATAAATCTG
*
1100674 GAATGTCATAATCGTTATAAATCT
1 GAATGTCATAATCGTCATAAATCT
1100698 ATTATGCGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (25 bp):
GAATGTCATAATCGTCATAAATCTG
Found at i:1102218 original size:78 final size:78
Alignment explanation
Indices: 1102078--1102232 Score: 211
Period size: 78 Copynumber: 2.0 Consensus size: 78
1102068 AGTTTCCTTC
* * * * * * *
1102078 GTAACCCCCGGAACTTCTTCGTAGTGGCTCCGTTCCACCCTGCCTATCTCCTTTGAGGCGTTTGG
1 GTAACCCCCGAAACTTCTTCGTAGTGGCTCCGTTCCACCATGCCTACCTCCCTCGAGACGTTTAG
1102143 CGTGGATCGAACT
66 CGTGGATCGAACT
* * *
1102156 GTAACCCTCGAAACTTCTTTGTAGTGGCTCTGTTCCACCATGCCTACCTCCCTCGAGACGTTTAG
1 GTAACCCCCGAAACTTCTTCGTAGTGGCTCCGTTCCACCATGCCTACCTCCCTCGAGACGTTTAG
*
1102221 CGTGGATTGAAC
66 CGTGGATCGAAC
1102233 GATTTAGGGC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.17, C:0.31, G:0.23, T:0.30
Consensus pattern (78 bp):
GTAACCCCCGAAACTTCTTCGTAGTGGCTCCGTTCCACCATGCCTACCTCCCTCGAGACGTTTAG
CGTGGATCGAACT
Found at i:1102718 original size:140 final size:140
Alignment explanation
Indices: 1102466--1102743 Score: 484
Period size: 140 Copynumber: 2.0 Consensus size: 140
1102456 GCGTGGATGG
1102466 AACTGTTTAGGGCTGGCTTTGATACCACTTCTTATCAAGGGTCGAGACTTAACCTTCAGGCCCGT
1 AACTGTTTAGGGCTGGCTTTGATACCACTTCTTATCAAGGGTCGAGACTTAACCTTCAGGCCCGT
* * *
1102531 GCAGCTCCGGGATCCAGGCATCTACTGGTTTTGATACCACTTCTTATCACGGGTCGTGACTTAAC
66 GCAGCTCCGGGATCCAAGCATCTACTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAAC
1102596 CTCCAGGCTC
131 CTCCAGGCTC
* * *
1102606 AACTGTTTAGGGCTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAATCTTCAGGCCTGT
1 AACTGTTTAGGGCTGGCTTTGATACCACTTCTTATCAAGGGTCGAGACTTAACCTTCAGGCCCGT
* *
1102671 GCAGCTTCGGGATCTAAGCATCTACTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAAC
66 GCAGCTCCGGGATCCAAGCATCTACTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAAC
1102736 CTCCAGGC
131 CTCCAGGC
1102744 CCACGCGGTT
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 130 1.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.30
Consensus pattern (140 bp):
AACTGTTTAGGGCTGGCTTTGATACCACTTCTTATCAAGGGTCGAGACTTAACCTTCAGGCCCGT
GCAGCTCCGGGATCCAAGCATCTACTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAAC
CTCCAGGCTC
Found at i:1102757 original size:77 final size:77
Alignment explanation
Indices: 1102618--1102771 Score: 227
Period size: 77 Copynumber: 2.0 Consensus size: 77
1102608 CTGTTTAGGG
* * ***
1102618 CTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAATCTTCAGGCCTGTGCAGCTTCGGGA
1 CTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAACCTCCAGGCCCACGCAGCTTCGGGA
*
1102683 TCTAAGCATCTA
66 TCCAAGCATCTA
* *
1102695 CTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAACCTCCAGGCCCACGCGGTTTCGGGA
1 CTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAACCTCCAGGCCCACGCAGCTTCGGGA
*
1102760 TCCAGGCATCTA
66 TCCAAGCATCTA
1102772 AGCTTACCTG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.29
Consensus pattern (77 bp):
CTGGCTTTGATACCACTTCTTATCACGGGTCGAGACTTAACCTCCAGGCCCACGCAGCTTCGGGA
TCCAAGCATCTA
Found at i:1102885 original size:25 final size:25
Alignment explanation
Indices: 1102857--1102904 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
1102847 ACAGAAAGTA
1102857 CCTCACAAGATAGAAGTGATGTATG
1 CCTCACAAGATAGAAGTGATGTATG
* *
1102882 CCTCACAAGATAGAGGTGGTGTA
1 CCTCACAAGATAGAAGTGATGTA
1102905 AACCCTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (25 bp):
CCTCACAAGATAGAAGTGATGTATG
Found at i:1106837 original size:72 final size:71
Alignment explanation
Indices: 1106747--1106894 Score: 260
Period size: 72 Copynumber: 2.1 Consensus size: 71
1106737 ATTAATTTAT
*
1106747 ACATTAGTATACTTCAATGCTATAGTATCCTTTATTCCAAATCCCATGTTTGTTATCACAATGTA
1 ACATTAGTATACTTCAATGCTATAGTATCCTTTATTCC-AATCCCATGTTTGTTATCACAATCTA
1106812 TTCAATC
65 TTCAATC
* *
1106819 ACATTAGTATACTTCAATGCTCTAGTATCCTTTATTCCAATTCCATGTTTGTTATCACAATCTAT
1 ACATTAGTATACTTCAATGCTATAGTATCCTTTATTCCAATCCCATGTTTGTTATCACAATCTAT
1106884 TCAATC
66 TCAATC
1106890 ACATT
1 ACATT
1106895 CAAATGTTGA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 36 0.49
72 37 0.51
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (71 bp):
ACATTAGTATACTTCAATGCTATAGTATCCTTTATTCCAATCCCATGTTTGTTATCACAATCTAT
TCAATC
Found at i:1113541 original size:2 final size:2
Alignment explanation
Indices: 1113536--1113562 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1113526 CAAAAAAATG
1113536 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1113563 CACTAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1138118 original size:2 final size:2
Alignment explanation
Indices: 1138111--1138139 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1138101 TTGGTTAAAA
1138111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1138140 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1138144 original size:2 final size:2
Alignment explanation
Indices: 1138139--1138169 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1138129 ATATATATAT
1138139 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1138170 TGAAGCCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1138670 original size:28 final size:26
Alignment explanation
Indices: 1138622--1138674 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
1138612 TTAAATTGAT
*
1138622 AAAATTCAATTGATTTGGATCAAATA
1 AAAATTCAATTAATTTGGATCAAATA
1138648 AAAATTCAAATTTAATTTGGATCAAAT
1 AAAATTC-AA-TTAATTTGGATCAAAT
1138675 TTTAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.29
27 2 0.08
28 15 0.62
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (26 bp):
AAAATTCAATTAATTTGGATCAAATA
Found at i:1144218 original size:7 final size:7
Alignment explanation
Indices: 1144206--1144236 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
1144196 TTAAAATATA
1144206 TTTAAAT
1 TTTAAAT
1144213 TTTAAAT
1 TTTAAAT
1144220 TTTAAAT
1 TTTAAAT
1144227 TTTAACAT
1 TTTAA-AT
1144235 TT
1 TT
1144237 ACATATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTAAAT
Found at i:1144659 original size:26 final size:26
Alignment explanation
Indices: 1144630--1144697 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 26
1144620 ATATAAATAT
1144630 TATAGTTCACTCACAGCTAAAAGTGC
1 TATAGTTCACTCACAGCTAAAAGTGC
*
1144656 TATAG-T---T--CAGCTAAAAGTGT
1 TATAGTTCACTCACAGCTAAAAGTGC
*
1144676 TATAGTTCACTCATAGCTAAAA
1 TATAGTTCACTCACAGCTAAAA
1144698 ATGTAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
20 17 0.50
21 1 0.03
22 1 0.03
24 1 0.03
25 1 0.03
26 13 0.38
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (26 bp):
TATAGTTCACTCACAGCTAAAAGTGC
Found at i:1144890 original size:17 final size:17
Alignment explanation
Indices: 1144864--1144896 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1144854 TCTAATCGAA
1144864 TTTTTATA-TTTAATTT
1 TTTTTATATTTTAATTT
1144880 TTTTTATTATTTTAATT
1 TTTTTA-TATTTTAATT
1144897 AATAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATATTTTAATTT
Found at i:1150053 original size:6 final size:6
Alignment explanation
Indices: 1150042--1150068 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1150032 TTATATATGC
1150042 TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTT
1150069 CATAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:1158575 original size:14 final size:15
Alignment explanation
Indices: 1158536--1158572 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1158526 TATAAAATTT
1158536 TATCAAAATTTTTAA
1 TATCAAAATTTTTAA
*
1158551 TATCAAAATTTTTCA
1 TATCAAAATTTTTAA
1158566 TATCAAA
1 TATCAAA
1158573 TTTGATATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (15 bp):
TATCAAAATTTTTAA
Found at i:1161041 original size:30 final size:30
Alignment explanation
Indices: 1161007--1161063 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1160997 AAAATTTATA
*
1161007 TTTTTATAT-CAATATAAATTATAATATGTT
1 TTTTTATATAAAATATAAATTA-AATATGTT
*
1161037 TTTTTATATAAAATATAATTTAAATAT
1 TTTTTATATAAAATATAAATTAAATAT
1161064 ATAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
TTTTTATATAAAATATAAATTAAATATGTT
Found at i:1166174 original size:106 final size:106
Alignment explanation
Indices: 1165989--1166197 Score: 278
Period size: 106 Copynumber: 2.0 Consensus size: 106
1165979 TCTAGGCTCC
* * * * * *
1165989 TAGTGTGTTTTAGGATTATAGCTTTGATATGCTTTTATCATACTGGATATGCTGTATAGCAAGAC
1 TAGTGTGTTTTACGATTACAGCTTTGATATGCTTTTATCATACAGGAAACGCTGTACAGCAAGAC
* * * *
1166054 TTACACTGGAGTGTGTTTCCTTACAGGCAGCAACGAACTCG
66 CTACACTGGAGTGTGCTGCCTTACAGGCAACAACGAACTCG
*
1166095 TAGTGT-TTTTAACGATTACAGCTTTGATATGCCTTTT-TCATACAGGAAACGTTGTACAGCAAG
1 TAGTGTGTTTT-ACGATTACAGCTTTGATATG-CTTTTATCATACAGGAAACGCTGTACAGCAAG
*
1166158 ACCTACACTGGAGTGTGCTGCCTTACAGGCAACAATGAAC
64 ACCTACACTGGAGTGTGCTGCCTTACAGGCAACAACGAAC
1166198 ATTTGTGTGT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
105 4 0.04
106 80 0.90
107 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (106 bp):
TAGTGTGTTTTACGATTACAGCTTTGATATGCTTTTATCATACAGGAAACGCTGTACAGCAAGAC
CTACACTGGAGTGTGCTGCCTTACAGGCAACAACGAACTCG
Found at i:1167780 original size:24 final size:24
Alignment explanation
Indices: 1167732--1167780 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1167722 TAATATCTAT
* *
1167732 TTTATGCATTATTAATATATAAAA
1 TTTATACATTATTAATAAATAAAA
*
1167756 TTTATACATTATTAATAAATTAAA
1 TTTATACATTATTAATAAATAAAA
1167780 T
1 T
1167781 AATATCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTATACATTATTAATAAATAAAA
Found at i:1167789 original size:24 final size:24
Alignment explanation
Indices: 1167738--1167789 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1167728 CTATTTTATG
* *
1167738 CATTATTAATATATAAAATTTATA
1 CATTATTAATAAATAAAATATATA
*
1167762 CATTATTAATAAATTAAATA-ATA
1 CATTATTAATAAATAAAATATATA
1167785 TCATT
1 -CATT
1167790 TTGTTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (24 bp):
CATTATTAATAAATAAAATATATA
Found at i:1198908 original size:34 final size:34
Alignment explanation
Indices: 1198771--1198910 Score: 122
Period size: 34 Copynumber: 4.2 Consensus size: 34
1198761 AATCTTACAT
** *
1198771 AAACTTTT--AAATTTTTGGATATACAAATTTGT
1 AAACTTTTAAAAATTTTTGGATATACAAATCCGA
* *
1198803 AAACTTTTAAAAATTTTTGGACATATAAATCCGA
1 AAACTTTTAAAAATTTTTGGATATACAAATCCGA
* * * * *** *
1198837 AAGCTTATAAGAACTTTCAAATTTACAAATCCGA
1 AAACTTTTAAAAATTTTTGGATATACAAATCCGA
* * *
1198871 AAACTTTTAAAAATTTTTGGATTTACAAATTCAA
1 AAACTTTTAAAAATTTTTGGATATACAAATCCGA
1198905 AAACTT
1 AAACTT
1198911 AAAAGTGAAA
Statistics
Matches: 82, Mismatches: 24, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
32 8 0.10
34 74 0.90
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (34 bp):
AAACTTTTAAAAATTTTTGGATATACAAATCCGA
Found at i:1204282 original size:6 final size:6
Alignment explanation
Indices: 1204266--1204299 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1204256 CAATGGAGGT
* *
1204266 CGCAAC TGCAAC CGCAAC CGCAAC CGCACC CGCA
1 CGCAAC CGCAAC CGCAAC CGCAAC CGCAAC CGCA
1204300 TCGAGATTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.29, C:0.50, G:0.18, T:0.03
Consensus pattern (6 bp):
CGCAAC
Found at i:1221585 original size:33 final size:32
Alignment explanation
Indices: 1221487--1221585 Score: 114
Period size: 32 Copynumber: 3.1 Consensus size: 32
1221477 TTAATTTAAC
* * *
1221487 ATAA-AAATAAATTTTATTATTACACAATAAA
1 ATAATAAATAAATATTATTATTATATAATAAA
1221518 ATAATAAATAAATATTATTATTATATAATAAAA
1 ATAATAAATAAATATTATTATTATATAAT-AAA
1221551 ATAATAAATAAA-ATTTAATTAGTTAT-TAATAAA
1 ATAATAAATAAATA-TT-ATTA-TTATATAATAAA
1221584 AT
1 AT
1221586 TATTATTTGA
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
31 4 0.07
32 22 0.37
33 22 0.37
34 8 0.13
35 4 0.07
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (32 bp):
ATAATAAATAAATATTATTATTATATAATAAA
Found at i:1223326 original size:20 final size:20
Alignment explanation
Indices: 1223290--1223327 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1223280 CGGTTCGAAT
*
1223290 TTAACCATAAGATATATTTC
1 TTAACCATAAGAAATATTTC
1223310 TTAACCCATAA-AAATATT
1 TTAA-CCATAAGAAATATT
1223328 ATAGAGAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (20 bp):
TTAACCATAAGAAATATTTC
Found at i:1234899 original size:17 final size:16
Alignment explanation
Indices: 1234877--1234918 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
1234867 TTTGAATTTT
1234877 ATTAAATTTAATTTATA
1 ATTAAATTT-ATTTATA
1234894 ATTAAATAATTATTTATA
1 ATTAAAT--TTATTTATA
1234912 A-TAAATT
1 ATTAAATT
1234919 AAAAAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
17 12 0.52
18 8 0.35
19 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAAATTTATTTATA
Done.