Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014177.1 Kokia drynarioides strain JFW-HI SEQ_129210, 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: 757717
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 61 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:4797 original size:74 final size:74
Alignment explanation
Indices: 4709--4853 Score: 272
Period size: 74 Copynumber: 2.0 Consensus size: 74
4699 ATCTTTCATT
*
4709 CCACAATCAAAAGATTACAATCATAAAGTCAAATGGTTGATTCAAGTGAGAGTGTTGCTAACCCT
1 CCACAATCAAAAGATTACAATCATAAAGTCAAATGGCTGATTCAAGTGAGAGTGTTGCTAACCCT
4774 ATTCTTAAA
66 ATTCTTAAA
*
4783 CCACAATCAAAAGATTACAATCATAAAGTCAAATGGCTGATTCAAGTGAGAGTGTTGCTAACCTT
1 CCACAATCAAAAGATTACAATCATAAAGTCAAATGGCTGATTCAAGTGAGAGTGTTGCTAACCCT
4848 ATTCTT
66 ATTCTT
4854 GAATTCCCAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (74 bp):
CCACAATCAAAAGATTACAATCATAAAGTCAAATGGCTGATTCAAGTGAGAGTGTTGCTAACCCT
ATTCTTAAA
Found at i:10873 original size:30 final size:31
Alignment explanation
Indices: 10813--10873 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
10803 ATCTTTATGC
*
10813 CTTAAATTGAAAATGATTTTTATATAAGGGG
1 CTTAAATTCAAAATGATTTTTATATAAGGGG
10844 CTTAAATTCAAAATG-TCTTTTAT-TAAGGGG
1 CTTAAATTCAAAATGAT-TTTTATATAAGGGG
10874 GAGCAATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 8 0.29
31 20 0.71
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (31 bp):
CTTAAATTCAAAATGATTTTTATATAAGGGG
Found at i:11242 original size:21 final size:21
Alignment explanation
Indices: 11216--11257 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11206 TAAATAATGA
*
11216 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCAATACCTTTT
*
11237 CAAAAAGTATCAATTCCTTTT
1 CAAAAAGTATCAATACCTTTT
11258 ATTAGGTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (21 bp):
CAAAAAGTATCAATACCTTTT
Found at i:19813 original size:26 final size:26
Alignment explanation
Indices: 19774--19824 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
19764 GGGTTTTATT
**
19774 CTTGTAGACTAAGAAACTAAAATTAA
1 CTTGTAGAAAAAGAAACTAAAATTAA
* *
19800 CTTGTAGAAAAAGAACCTATAATTA
1 CTTGTAGAAAAAGAAACTAAAATTA
19825 GGGTAACTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (26 bp):
CTTGTAGAAAAAGAAACTAAAATTAA
Found at i:25466 original size:2 final size:2
Alignment explanation
Indices: 25455--25484 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
25445 TTTAGGTTTT
25455 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25485 TAAGAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26871 original size:58 final size:58
Alignment explanation
Indices: 26781--26899 Score: 193
Period size: 58 Copynumber: 2.1 Consensus size: 58
26771 TTGGGAAGAG
* *
26781 AAAAACTTGGAAAAATGAGAGTTTTGAAGGGTTAGACAATAACCCAATTCAGATTGCT
1 AAAAACTTGGAAAAATGAGAGTTTTGAAGGGTTAAACAAGAACCCAATTCAGATTGCT
* * *
26839 AAAAACTTGGAAAAATGTGAGTTTTGAAGGGTTAAATAGGAACCCAATTCAGATTGCT
1 AAAAACTTGGAAAAATGAGAGTTTTGAAGGGTTAAACAAGAACCCAATTCAGATTGCT
26897 AAA
1 AAA
26900 GGCAAAGTCG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (58 bp):
AAAAACTTGGAAAAATGAGAGTTTTGAAGGGTTAAACAAGAACCCAATTCAGATTGCT
Found at i:30627 original size:25 final size:25
Alignment explanation
Indices: 30593--30640 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30583 CAATTTCTTT
30593 CATAAATAATAAATA-CTCATTAACA
1 CATAAATAATAAATAGC-CATTAACA
*
30618 CATAATTAATAAATAGCCATTAA
1 CATAAATAATAAATAGCCATTAA
30641 TATGTTAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (25 bp):
CATAAATAATAAATAGCCATTAACA
Found at i:30700 original size:84 final size:84
Alignment explanation
Indices: 30559--30728 Score: 297
Period size: 84 Copynumber: 2.0 Consensus size: 84
30549 TCCTTTCCCT
* *
30559 TGTTAGCATTTTGCTTTCGTTCTTCAATTTCTTTCATAAATAATAAATACTCATTAACACATAAT
1 TGTTAGCATTTTGCTTTCCTTCTTCAATTTCTTTCATAAACAATAAATACTCATTAACACATAAT
*
30624 TAATAAATAGCCATTAATA
66 CAATAAATAGCCATTAATA
30643 TGTTAGCATTTCT-CTTTCCTTCTTCAATTTCTTTCATAAACAATAAATACTCATTAACACATAA
1 TGTTAGCATTT-TGCTTTCCTTCTTCAATTTCTTTCATAAACAATAAATACTCATTAACACATAA
30707 TCAATAAATAGCCATTAATA
65 TCAATAAATAGCCATTAATA
30727 TG
1 TG
30729 GCTCAACAAC
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
84 81 0.99
85 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (84 bp):
TGTTAGCATTTTGCTTTCCTTCTTCAATTTCTTTCATAAACAATAAATACTCATTAACACATAAT
CAATAAATAGCCATTAATA
Found at i:30711 original size:25 final size:25
Alignment explanation
Indices: 30677--30724 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30667 CAATTTCTTT
30677 CATAAACAATAAATA-CTCATTAACA
1 CATAAACAATAAATAGC-CATTAACA
*
30702 CATAATCAATAAATAGCCATTAA
1 CATAAACAATAAATAGCCATTAA
30725 TATGGCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.25
Consensus pattern (25 bp):
CATAAACAATAAATAGCCATTAACA
Found at i:44862 original size:24 final size:24
Alignment explanation
Indices: 44797--44873 Score: 61
Period size: 26 Copynumber: 3.1 Consensus size: 24
44787 GTAAAATGAA
44797 AATTTTTGGGTGTTAAAATATT-ATT
1 AATTTTT-GGT-TTAAAATATTAATT
**
44822 -A-TTTTAATTATATAAATATTAATT
1 AATTTTTGGTT-TA-AAATATTAATT
44846 AATTTTTGGTTTAAAATAATTTAATT
1 AATTTTTGGTTTAAAAT-A-TTAATT
44872 AA
1 AA
44874 GTTTATCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
21 1 0.02
22 3 0.07
23 11 0.27
24 8 0.20
25 4 0.10
26 14 0.34
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (24 bp):
AATTTTTGGTTTAAAATATTAATT
Found at i:45059 original size:24 final size:22
Alignment explanation
Indices: 45032--45115 Score: 75
Period size: 24 Copynumber: 3.8 Consensus size: 22
45022 TTTGTGATAA
45032 AAATATTATATTTAATTTTTTATT
1 AAATATT-TATTTAATTTTTTA-T
* *
45056 AAATATTGTAATTAACTTTTTA-
1 AAATATT-TATTTAATTTTTTAT
*
45078 AAATATTT-TTATAATGTTTTAT
1 AAATATTTATT-TAATTTTTTAT
*
45100 AATTATTTA-TTAATTT
1 AAATATTTATTTAATTT
45116 GTGTAAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 14 0.29
22 15 0.31
24 19 0.39
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (22 bp):
AAATATTTATTTAATTTTTTAT
Found at i:47216 original size:18 final size:19
Alignment explanation
Indices: 47193--47234 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
47183 TACATAGATA
47193 TTTTTCTCTTCTTT-TTCC
1 TTTTTCTCTTCTTTCTTCC
*
47211 TTTTTCTCTTTTTTCTTCC
1 TTTTTCTCTTCTTTCTTCC
47230 TTTTT
1 TTTTT
47235 TTTATACCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTCTCTTCTTTCTTCC
Found at i:48301 original size:12 final size:11
Alignment explanation
Indices: 48284--48323 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
48274 ATTAGGTCCT
48284 TCTTTTCTTTCC
1 TCTTTT-TTTCC
48296 TCTTTTTCTTCC
1 TCTTTTT-TTCC
48308 TCTTATTTTTCC
1 TCTT-TTTTTCC
48320 TCTT
1 TCTT
48324 ATATCTCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.04
12 22 0.85
13 3 0.12
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (11 bp):
TCTTTTTTTCC
Found at i:48324 original size:12 final size:12
Alignment explanation
Indices: 48291--48325 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
48281 CCTTCTTTTC
48291 TTTCCTCTT-TT
1 TTTCCTCTTATT
48302 TCTTCCTCTTATT
1 T-TTCCTCTTATT
48315 TTTCCTCTTAT
1 TTTCCTCTTAT
48326 ATCTCCATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 18 0.82
13 3 0.14
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTCCTCTTATT
Found at i:63504 original size:40 final size:40
Alignment explanation
Indices: 63459--63540 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
63449 TCTCTTTAAG
63459 ATAGAAAATATTAGTAATAAAAGATTGTAAATGAAAGTTA
1 ATAGAAAATATTAGTAATAAAAGATTGTAAATGAAAGTTA
63499 ATAGAAAATATTAGTAATAAAAGATTGTAAATGAAAGTTA
1 ATAGAAAATATTAGTAATAAAAGATTGTAAATGAAAGTTA
63539 AT
1 AT
63541 GAGTACCTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (40 bp):
ATAGAAAATATTAGTAATAAAAGATTGTAAATGAAAGTTA
Found at i:68402 original size:24 final size:25
Alignment explanation
Indices: 68375--68421 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
68365 TTTCCTGTAA
68375 TTTAGG-TTTAATTATTTTCATTTC
1 TTTAGGTTTTAATTATTTTCATTTC
*
68399 TTTAGGTTTTAGTTATTTTCATT
1 TTTAGGTTTTAATTATTTTCATT
68422 CTTGTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (25 bp):
TTTAGGTTTTAATTATTTTCATTTC
Found at i:71906 original size:16 final size:16
Alignment explanation
Indices: 71885--71915 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71875 TAATAATTAG
*
71885 ATAAGGTTGAGGTGTT
1 ATAAGGTCGAGGTGTT
71901 ATAAGGTCGAGGTGT
1 ATAAGGTCGAGGTGT
71916 GTCTTGAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (16 bp):
ATAAGGTCGAGGTGTT
Found at i:77918 original size:9 final size:9
Alignment explanation
Indices: 77904--77934 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
77894 AAGCTTAGTA
77904 AGTTTGAAG
1 AGTTTGAAG
77913 AGTTTGAAG
1 AGTTTGAAG
*
77922 AGTTTAAAG
1 AGTTTGAAG
77931 AGTT
1 AGTT
77935 ATCAATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (9 bp):
AGTTTGAAG
Found at i:85555 original size:70 final size:70
Alignment explanation
Indices: 85435--85566 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
85425 CGTAGCTCCC
* * * *
85435 CCTATGTCGCGACAAACCTATCAGTCTTGACATTCCAGCAGCTTGGCCCCTTTGTCGCAACATAG
1 CCTATGTCGCAACAAACCTATCAGTCTTGAAATTCCAACAGCTTGACCCCTTTGTCGCAACATAG
85500 TGTCT
66 TGTCT
* **
85505 CCTATGTCGCAACAAACCTATCAGTTTTGAAATTTTAACAG-TCTGACCCCTTTGTCGCAACA
1 CCTATGTCGCAACAAACCTATCAGTCTTGAAATTCCAACAGCT-TGACCCCTTTGTCGCAACA
85567 CATAAGGGGC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 1 0.02
70 53 0.98
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (70 bp):
CCTATGTCGCAACAAACCTATCAGTCTTGAAATTCCAACAGCTTGACCCCTTTGTCGCAACATAG
TGTCT
Found at i:99299 original size:21 final size:21
Alignment explanation
Indices: 99265--99305 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
99255 AGTTTTTAGT
*
99265 ATCGGTAGAAGCCTGACTTGA
1 ATCGGTAGAAGCCTCACTTGA
**
99286 ATCGGTAGTTGCCTCACTTG
1 ATCGGTAGAAGCCTCACTTG
99306 TATTTGTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (21 bp):
ATCGGTAGAAGCCTCACTTGA
Found at i:99594 original size:18 final size:17
Alignment explanation
Indices: 99562--99595 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
99552 ATTACCCTAA
99562 AAACCCAAACCCAAATT
1 AAACCCAAACCCAAATT
*
99579 AAACCTAAAGCCCAAAT
1 AAACCCAAA-CCCAAAT
99596 GACCCAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.32, G:0.03, T:0.12
Consensus pattern (17 bp):
AAACCCAAACCCAAATT
Found at i:100923 original size:21 final size:20
Alignment explanation
Indices: 100882--100931 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
100872 CCTTGTTTTC
100882 ATTTA-TTTTATTTTATATT
1 ATTTACTTTTATTTTATATT
*
100901 ATTTCCTTTTATTTT-TCACTT
1 ATTTACTTTTATTTTAT-A-TT
100922 ATTTACTTTT
1 ATTTACTTTT
100932 TATGTCTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 10 0.38
21 11 0.42
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTACTTTTATTTTATATT
Found at i:102491 original size:13 final size:14
Alignment explanation
Indices: 102473--102501 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
102463 ACAACACTAG
102473 AAATAAATAAA-AT
1 AAATAAATAAACAT
102486 AAATAAATAAACAT
1 AAATAAATAAACAT
102500 AA
1 AA
102502 GGTAAAGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAATAAACAT
Found at i:102750 original size:5 final size:5
Alignment explanation
Indices: 102742--102769 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
102732 TAAATGGGTA
102742 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
102770 GGCATAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:103042 original size:20 final size:20
Alignment explanation
Indices: 103017--103064 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
103007 AATGATTTTT
103017 AAATTATTTTTTAAA-ATATA
1 AAATTATTTTTTAAATA-ATA
103037 AAATTATTTTTTAAATAATA
1 AAATTATTTTTTAAATAATA
103057 AAATTATT
1 AAATTATT
103065 AAATAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTATTTTTTAAATAATA
Found at i:103981 original size:28 final size:28
Alignment explanation
Indices: 103950--104053 Score: 117
Period size: 26 Copynumber: 3.7 Consensus size: 28
103940 ATTGAAAATT
*
103950 AAAATTATTTAATAATTTTATTATTTTA
1 AAAATAATTTAATAATTTTATTATTTTA
103978 AAAA-AA-TTAATAATTTTA-TATTTTAA
1 AAAATAATTTAATAATTTTATTATTTT-A
* *
104004 AAAATAATTTAAAAATTGTATATT-TTTAA
1 AAAATAATTTAATAATT-T-TATTATTTTA
104033 AAAATAATTTTAATAATTTTA
1 AAAATAA-TTTAATAATTTTA
104054 AAATCATTTG
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
25 6 0.09
26 17 0.26
27 3 0.05
28 14 0.22
29 10 0.15
30 14 0.22
31 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
AAAATAATTTAATAATTTTATTATTTTA
Found at i:104011 original size:23 final size:26
Alignment explanation
Indices: 103958--104007 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
103948 TTAAAATTAT
103958 TTAATAATTTTATTATTTTAAAAAAA
1 TTAATAATTTTATTATTTTAAAAAAA
103984 TTAATAATTTTA-TATTTTAAAAAA
1 TTAATAATTTTATTATTTTAAAAAA
104008 TAATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TTAATAATTTTATTATTTTAAAAAAA
Found at i:105967 original size:50 final size:50
Alignment explanation
Indices: 105913--106082 Score: 137
Period size: 50 Copynumber: 3.4 Consensus size: 50
105903 TTCACTATAA
*
105913 CTTCAGGAAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
* ** * * * * * *
105963 CTTCAAGGAGATAGGACCTGCTAATGT-AGTTTCAATC-CGATCCACTACAA
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTT--ATCTTGATCCACTGCAT
* * * * * * *
106013 CTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTGCTTCACTGTAT
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
* *
106063 CTTTAGGGAGATAAGATTTG
1 CTTCAGGGAGATAGGATTTG
106083 CTTACGTAGC
Statistics
Matches: 87, Mismatches: 29, Indels: 8
0.70 0.23 0.06
Matches are distributed among these distances:
49 7 0.08
50 74 0.85
51 6 0.07
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (50 bp):
CTTCAGGGAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
Found at i:106097 original size:100 final size:101
Alignment explanation
Indices: 105905--106351 Score: 396
Period size: 100 Copynumber: 4.3 Consensus size: 101
105895 TTACTCGCTT
* * * * * * *
105905 CACTATAACTTCAGGAAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCATCTTCAAG
1 CACTACAACTTCAGGGATATAGGATTTGATGTTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
* ** **
105970 GAGATAGGACCTGC-TAATGTAGTTTCAATCCGATC
66 GAGATAAGATTTGCTTACCGTAGTTTCAATCCGATC
* * * *
106005 CACTACAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTGCTTCACTGTATCTTTAGG
1 CACTACAACTTCAGGGATATAGGATTTGATGTTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
*
106070 GAGATAAGATTTGCTTACGTAGCTTCAATCGTAAGCTTCAATCCGATC
66 GAGATAAGATTTGC-T---TA----C---CGT-AGTTTCAATCCGATC
* * * *
106118 CACTGCAACTTCAGGGATATAGGATTTGATGTTGTATCTTCATCTTGCTCCATTGCGTCTTCAGG
1 CACTACAACTTCAGGGATATAGGATTTGATGTTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
* *
106183 GAGATAAGATTTG-TTACCGTTGTTTCAATCTGATC
66 GAGATAAGATTTGCTTACCGTAGTTTCAATCCGATC
* * * * * * *
106218 CACTACATCTTCAGGGATATAAGATTTGTTGTTTTAGCTTCATCTTGCTCCATTGCATCTTTAGG
1 CACTACAACTTCAGGGATATAGGATTTGATGTTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
* * * ** *
106283 GAGATAAGATTTAC-TACTGTGGTTTCAATTTGATT
66 GAGATAAGATTTGCTTACCGTAGTTTCAATCCGATC
* * * * *
106318 CACTGCATCTTTAAGGATATAGGATTTTATGTTG
1 CACTACAACTTCAGGGATATAGGATTTGATGTTG
106352 CGCTGATCCA
Statistics
Matches: 285, Mismatches: 48, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
100 190 0.67
101 3 0.01
104 1 0.00
105 2 0.01
108 2 0.01
111 1 0.00
112 2 0.01
113 84 0.29
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (101 bp):
CACTACAACTTCAGGGATATAGGATTTGATGTTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
GAGATAAGATTTGCTTACCGTAGTTTCAATCCGATC
Found at i:106194 original size:50 final size:50
Alignment explanation
Indices: 106116--106294 Score: 168
Period size: 50 Copynumber: 3.6 Consensus size: 50
106106 TTCAATCCGA
* * * *
106116 TCCACTGCAACTTCAGGGATATAGGATTTGATGTTGTATCTTCATCTTGC
1 TCCATTGCATCTTCAGGGAGATAAGATTTGATGTTGTATCTTCATCTTGC
* * *
106166 TCCATTGCGTCTTCAGGGAGATAAGATTTGTTACCGTTG--T-TTCAATC-TGA
1 TCCATTGCATCTTCAGGGAGATAAGATTTG--A-TGTTGTATCTTC-ATCTTGC
* * * * * *
106216 TCCACTACATCTTCAGGGATATAAGATTTGTTGTTTTAGCTTCATCTTGC
1 TCCATTGCATCTTCAGGGAGATAAGATTTGATGTTGTATCTTCATCTTGC
*
106266 TCCATTGCATCTTTAGGGAGATAAGATTT
1 TCCATTGCATCTTCAGGGAGATAAGATTT
106295 ACTACTGTGG
Statistics
Matches: 101, Mismatches: 20, Indels: 16
0.74 0.15 0.12
Matches are distributed among these distances:
47 3 0.03
49 3 0.03
50 86 0.85
51 4 0.04
52 1 0.01
53 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (50 bp):
TCCATTGCATCTTCAGGGAGATAAGATTTGATGTTGTATCTTCATCTTGC
Found at i:106280 original size:213 final size:213
Alignment explanation
Indices: 105911--106294 Score: 534
Period size: 213 Copynumber: 1.8 Consensus size: 213
105901 GCTTCACTAT
*
105911 AACTTCAGGAAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCATCTTCAAGGAGATA
1 AACTTCAGGAAGATAGGATTTGATATTGTAACTTCATCTTGATCCACTGCATCTTCAAGGAGATA
* * *
105976 GGACCTGCTAATGTAGTTTCAATCCGATCCACTACAACTTCAGGGATATAGGATTTGATGTCGTA
66 AGACCTGCTAACGTAGTTTCAATCCGATCCACTACAACTTCAGGGATATAAGATTTGATGTCGTA
* *
106041 ACTTCATCTTGCTTCACTGTATCTTTAGGGAGATAAGATTTGCTTACGTAGCTTCAATCGTAAGC
131 ACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTTACGTAGCTTCAATCGTAAGC
106106 TTCAATCCGATCCACTGC
196 TTCAATCCGATCCACTGC
* * * * * * * *
106124 AACTTCAGGGATATAGGATTTGATGTTGTATCTTCATCTTGCTCCATTGCGTCTTCAGGGAGATA
1 AACTTCAGGAAGATAGGATTTGATATTGTAACTTCATCTTGATCCACTGCATCTTCAAGGAGATA
** * * * * * * **
106189 AGATTTGTTACCGTTGTTTCAATCTGATCCACTACATCTTCAGGGATATAAGATTTGTTGTTTTA
66 AGACCTGCTAACGTAGTTTCAATCCGATCCACTACAACTTCAGGGATATAAGATTTGATGTCGTA
* *
106254 GCTTCATCTTGCTCCATTGCATCTTTAGGGAGATAAGATTT
131 ACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTT
106295 ACTACTGTGG
Statistics
Matches: 145, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
213 145 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (213 bp):
AACTTCAGGAAGATAGGATTTGATATTGTAACTTCATCTTGATCCACTGCATCTTCAAGGAGATA
AGACCTGCTAACGTAGTTTCAATCCGATCCACTACAACTTCAGGGATATAAGATTTGATGTCGTA
ACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTTACGTAGCTTCAATCGTAAGC
TTCAATCCGATCCACTGC
Found at i:107286 original size:127 final size:127
Alignment explanation
Indices: 107079--107317 Score: 304
Period size: 127 Copynumber: 1.9 Consensus size: 127
107069 AAAGGCCACC
* * *
107079 ACATGCCCATTCTTTGATCCAAATTTGAATCGCCCTTTCGGGTTTTTGACTCAAAACTCTATAAG
1 ACATGCCCATTCTTTGATCCAAATTTGAACCGCCCTTTCAGGTTTTTAACTCAAAACTCTATAAG
* * * *
107144 TTTTGAGACGCCCTTTACAGG-TTTTTATCTTGACCTTTCTTTTTTTTAGGGAAATGACCATT
66 TTTCGAGACGCCCTTTAC-GGCTTTTCATCTCGACCTCTCTTTTTTTTAGGGAAATGACCATT
* ** *
107206 ACATGCCCATTCTTT-AGTCCAAATTTGAGCCGTTCTTTTAGGTTTTTAACTCAAAACTCCT-TA
1 ACATGCCCATTCTTTGA-TCCAAATTTGAACCGCCCTTTCAGGTTTTTAACTCAAAACT-CTATA
* * *
107269 GGTTTCGAGATGTCCTTTACGGCTTTTCATCTCGACCTCTCTTTTTTTT
64 AGTTTCGAGACGCCCTTTACGGCTTTTCATCTCGACCTCTCTTTTTTTT
107318 TTAGGTGAAG
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
126 3 0.03
127 90 0.95
128 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (127 bp):
ACATGCCCATTCTTTGATCCAAATTTGAACCGCCCTTTCAGGTTTTTAACTCAAAACTCTATAAG
TTTCGAGACGCCCTTTACGGCTTTTCATCTCGACCTCTCTTTTTTTTAGGGAAATGACCATT
Found at i:115195 original size:17 final size:16
Alignment explanation
Indices: 115151--115197 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
115141 TATCATGTAG
* *
115151 TTGTCATCACTTTTTA
1 TTGTCAACACATTTTA
115167 TTGTC-ACTACATTTTA
1 TTGTCAAC-ACATTTTA
115183 TTTGTCAACACATTT
1 -TTGTCAACACATTT
115198 GCATTGTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 11 0.42
18 2 0.08
ACGTcount: A:0.23, C:0.19, G:0.06, T:0.51
Consensus pattern (16 bp):
TTGTCAACACATTTTA
Found at i:122719 original size:69 final size:69
Alignment explanation
Indices: 122608--122739 Score: 264
Period size: 69 Copynumber: 1.9 Consensus size: 69
122598 ATGTCTCGAC
122608 AATGCCTGTAGGATGACACTTCACCAAGAGATTGATGTCCTTGTCGTGACACTGGTCCTGGTGCA
1 AATGCCTGTAGGATGACACTTCACCAAGAGATTGATGTCCTTGTCGTGACACTGGTCCTGGTGCA
122673 CGAT
66 CGAT
122677 AATGCCTGTAGGATGACACTTCACCAAGAGATTGATGTCCTTGTCGTGACACTGGTCCTGGTG
1 AATGCCTGTAGGATGACACTTCACCAAGAGATTGATGTCCTTGTCGTGACACTGGTCCTGGTG
122740 TGTCGCGACA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (69 bp):
AATGCCTGTAGGATGACACTTCACCAAGAGATTGATGTCCTTGTCGTGACACTGGTCCTGGTGCA
CGAT
Found at i:122729 original size:33 final size:33
Alignment explanation
Indices: 122621--122729 Score: 82
Period size: 33 Copynumber: 3.2 Consensus size: 33
122611 GCCTGTAGGA
122621 TGACACTTCACCAAGAGATTGATGTCCTTGTCG
1 TGACACTTCACCAAGAGATTGATGTCCTTGTCG
*** * *
122654 TGACACTGGTC-CTGGTGCACGA-TAATG-CC-TGTAGG
1 TGACACT--TCAC-CAAG-A-GATTGATGTCCTTGT-CG
122689 ATGACACTTCACCAAGAGATTGATGTCCTTGTCG
1 -TGACACTTCACCAAGAGATTGATGTCCTTGTCG
122723 TGACACT
1 TGACACT
122730 GGTCCTGGTG
Statistics
Matches: 55, Mismatches: 10, Indels: 22
0.63 0.11 0.25
Matches are distributed among these distances:
32 2 0.04
33 19 0.35
34 10 0.18
35 10 0.18
36 12 0.22
37 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (33 bp):
TGACACTTCACCAAGAGATTGATGTCCTTGTCG
Found at i:137890 original size:15 final size:16
Alignment explanation
Indices: 137870--137902 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
137860 TTATTACAAA
137870 TTTTTTTTCTT-CTTT
1 TTTTTTTTCTTCCTTT
137885 TTTTTTTTCTTCCTTT
1 TTTTTTTTCTTCCTTT
137901 TT
1 TT
137903 CTCATTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTCTTCCTTT
Found at i:138985 original size:21 final size:21
Alignment explanation
Indices: 138943--138987 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
138933 GTCCATTTCA
* *
138943 TTCTCTTCTTCTTTTTCTTCC
1 TTCTCTTCCTCTTATTCTTCC
138964 TTCTCTTCCTCTTCATTC-TCC
1 TTCTCTTCCTCTT-ATTCTTCC
138985 TTC
1 TTC
138988 ATCTGGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (21 bp):
TTCTCTTCCTCTTATTCTTCC
Found at i:151800 original size:12 final size:12
Alignment explanation
Indices: 151758--151801 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
151748 CACTTTTACT
*
151758 AACTGATCTTGC
1 AACTGTTCTTGC
*
151770 AACTGTGCTTG-
1 AACTGTTCTTGC
151781 AAGCTGTTCTTGC
1 AA-CTGTTCTTGC
151794 AACTGTTC
1 AACTGTTC
151802 CGACATATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 2 0.07
12 23 0.85
13 2 0.07
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (12 bp):
AACTGTTCTTGC
Found at i:155816 original size:29 final size:29
Alignment explanation
Indices: 155783--155839 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
155773 GGATTGAATT
* *
155783 AAAAAATAAAAAATTGAAAGCCTAAATTGC
1 AAAATATAAAAAA-TAAAAGCCTAAATTGC
* *
155813 AAAATATAGAAAATAAAAGGCTAAATT
1 AAAATATAAAAAATAAAAGCCTAAATT
155840 AAATAAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (29 bp):
AAAATATAAAAAATAAAAGCCTAAATTGC
Found at i:159730 original size:41 final size:41
Alignment explanation
Indices: 159668--159761 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 41
159658 GAATTTTATT
* *
159668 TTAATAAGAATTCTAGTCACCCAAATCTAACAATCTCCACC
1 TTAACAAGAATTATAGTCACCCAAATCTAACAATCTCCACC
*
159709 TTAACAAGAATTATAGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTATAGTCACCCAAATCTAACAATCTCCACC
* *
159750 TTGACAATAATT
1 TTAACAAGAATT
159762 CTCTACGAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (41 bp):
TTAACAAGAATTATAGTCACCCAAATCTAACAATCTCCACC
Found at i:166552 original size:6 final size:6
Alignment explanation
Indices: 166541--166592 Score: 90
Period size: 6 Copynumber: 9.0 Consensus size: 6
166531 TACATACATA
166541 TATATT TATATT TATATT TATATT TATATT TATATT TAT-TT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
166588 T-TATT
1 TATATT
166593 ATTTCATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 9 0.20
6 36 0.80
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TATATT
Found at i:166604 original size:15 final size:15
Alignment explanation
Indices: 166540--166603 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 15
166530 ATACATACAT
166540 ATATATTTA-TATTT-
1 ATAT-TTTATTATTTC
166554 ATA-TTTA-TATTT-
1 ATATTTTATTATTTC
*
166566 ATATTTATATTTATTTT
1 ATATTT-TA-TTATTTC
166583 ATATTTTATTATTTC
1 ATATTTTATTATTTC
166598 AT-TTTT
1 ATATTTT
166604 TCCTTAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
12 12 0.27
13 2 0.05
14 9 0.20
15 8 0.18
16 7 0.16
17 6 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
ATATTTTATTATTTC
Found at i:167778 original size:2 final size:2
Alignment explanation
Indices: 167773--167801 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
167763 AATATATATA
167773 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
167802 TTTGATCAAA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:176077 original size:19 final size:16
Alignment explanation
Indices: 176041--176076 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
176031 GAAAATTCGG
176041 AATAATAAAACAATAA
1 AATAATAAAACAATAA
176057 AATAATAAAGACTAATAA
1 AATAATAAA-AC-AATAA
176075 AA
1 AA
176077 ACAATATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (16 bp):
AATAATAAAACAATAA
Found at i:178202 original size:37 final size:38
Alignment explanation
Indices: 178147--178248 Score: 118
Period size: 37 Copynumber: 2.7 Consensus size: 38
178137 CTAGACACAA
* * * *
178147 TCATGCAGCAACATTCTTGGGTGCAATT-GAAGAATAT
1 TCATGCAGCGACAATCTTGGGTGCAATTCCAAAAATAT
* *
178184 TTATGCAGCGACAGTCTTGGGTGC-ATTCCAAAAATAT
1 TCATGCAGCGACAATCTTGGGTGCAATTCCAAAAATAT
* *
178221 TCATGCAACGACAATTTTGGGTGCAATT
1 TCATGCAGCGACAATCTTGGGTGCAATT
178249 TGAAAGTGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
36 3 0.06
37 48 0.89
38 3 0.06
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (38 bp):
TCATGCAGCGACAATCTTGGGTGCAATTCCAAAAATAT
Found at i:182969 original size:24 final size:24
Alignment explanation
Indices: 182918--182970 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
182908 TTTTTTAGTT
* * *
182918 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCTATTTATTTATTTCAATC
* *
182942 AAACTCTATTTATTTATTTGAGTC
1 AAACTCTATTTATTTATTTCAATC
182966 AAACT
1 AAACT
182971 TTTATTGGTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (24 bp):
AAACTCTATTTATTTATTTCAATC
Found at i:184911 original size:24 final size:24
Alignment explanation
Indices: 184884--184946 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
184874 AGAAATAATC
184884 CTTCAGTTAAACTCTATTTATTTG
1 CTTCAGTTAAACTCTATTTATTTG
*
184908 CTTCAATTAAACTCTATTTATTTG
1 CTTCAGTTAAACTCTATTTATTTG
* *
184932 TTTGAGTTAAACTCT
1 CTTCAGTTAAACTCT
184947 TATTGGTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.49
Consensus pattern (24 bp):
CTTCAGTTAAACTCTATTTATTTG
Found at i:185311 original size:18 final size:17
Alignment explanation
Indices: 185284--185317 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
185274 CGGGTTGATC
185284 CCCAACAAAAACATTTA
1 CCCAACAAAAACATTTA
*
185301 CCCACACAAAAATATTT
1 CCCA-ACAAAAACATTT
185318 TTTTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (17 bp):
CCCAACAAAAACATTTA
Found at i:188585 original size:14 final size:13
Alignment explanation
Indices: 188557--188586 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
188547 TTTCTTCTTC
188557 TTTTTTCTTTTAT
1 TTTTTTCTTTTAT
188570 TTTTTTCTTTTCAT
1 TTTTTTCTTTT-AT
188584 TTT
1 TTT
188587 AAAACGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTCTTTTAT
Found at i:207442 original size:26 final size:25
Alignment explanation
Indices: 207409--207459 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
207399 AGTACTCTAG
207409 AATAATATAACTTATTTCTAAATATA
1 AATAATATAACTTATTT-TAAATATA
*
207435 AATAATATAATTTATTTTAAATATA
1 AATAATATAACTTATTTTAAATATA
207460 GGGGACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
AATAATATAACTTATTTTAAATATA
Found at i:209487 original size:23 final size:20
Alignment explanation
Indices: 209446--209489 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 20
209436 CAAATTCATG
209446 ATTATATTTTGAGCTTGAGT
1 ATTATATTTTGAGCTTGAGT
209466 ATTATGATTTTGAATGCTTGAGT
1 ATTAT-ATTTTG-A-GCTTGAGT
209489 A
1 A
209490 AGAAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 1 0.05
23 9 0.43
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.48
Consensus pattern (20 bp):
ATTATATTTTGAGCTTGAGT
Found at i:209607 original size:17 final size:17
Alignment explanation
Indices: 209563--209609 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
209553 TTGATCATGA
*
209563 AATGAAACTAAAAATTAG
1 AATGAAA-TGAAAATTAG
*
209581 AATGATATGAAAA-TAG
1 AATGAAATGAAAATTAG
209597 AATTGAAATGAAA
1 AA-TGAAATGAAA
209610 CAGATTATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 5 0.20
17 14 0.56
18 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.15, T:0.23
Consensus pattern (17 bp):
AATGAAATGAAAATTAG
Found at i:210026 original size:4 final size:4
Alignment explanation
Indices: 210004--210041 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
209994 ATTAAAAAGC
* *
210004 TTAT TTTT TTAT GTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
210042 TTATCAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:218399 original size:3 final size:3
Alignment explanation
Indices: 218391--218457 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
218381 AGGGGAAATG
218391 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
218439 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
218458 AAGGATTAAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:227781 original size:25 final size:26
Alignment explanation
Indices: 227753--227803 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
227743 CAAATGATTT
*
227753 TAAAATTATT-AATTTTTTTAAAATA
1 TAAAATTATTAAATTATTTTAAAATA
227778 TAAAATTATTAAAATTATTTTAAAAT
1 TAAAATTATT-AAATTATTTTAAAAT
227804 TATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
27 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAAAATTATTAAATTATTTTAAAATA
Found at i:227790 original size:9 final size:9
Alignment explanation
Indices: 227752--227832 Score: 54
Period size: 9 Copynumber: 9.8 Consensus size: 9
227742 GCAAATGATT
227752 TTAAAATTA
1 TTAAAATTA
** *
227761 TTAATTTTT
1 TTAAAATTA
227770 TTAAAA-TA
1 TTAAAATTA
227778 -TAAAATTA
1 TTAAAATTA
227786 TTAAAATTA
1 TTAAAATTA
227795 TTTTAAAATTA
1 --TTAAAATTA
227806 TT----TT-
1 TTAAAATTA
227810 TTAAAA-TA
1 TTAAAATTA
227818 -TAAAATTA
1 TTAAAATTA
227826 TTAAAAT
1 TTAAAAT
227833 CATCATCATC
Statistics
Matches: 55, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
7 11 0.20
8 5 0.09
9 26 0.47
11 9 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TTAAAATTA
Found at i:227816 original size:13 final size:11
Alignment explanation
Indices: 227778--227809 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
227768 TTTTAAAATA
227778 TAAAATTA--T
1 TAAAATTATTT
227787 TAAAATTATTT
1 TAAAATTATTT
227798 TAAAATTATTT
1 TAAAATTATTT
227809 T
1 T
227810 TTAAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 8 0.38
11 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:228202 original size:24 final size:24
Alignment explanation
Indices: 228170--228238 Score: 129
Period size: 24 Copynumber: 2.9 Consensus size: 24
228160 AGATGGGTTT
228170 AGTATTTTCCCGAGAAACAAATAG
1 AGTATTTTCCCGAGAAACAAATAG
*
228194 AGTATTTTCTCGAGAAACAAATAG
1 AGTATTTTCCCGAGAAACAAATAG
228218 AGTATTTTCCCGAGAAACAAA
1 AGTATTTTCCCGAGAAACAAA
228239 CATAAAACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (24 bp):
AGTATTTTCCCGAGAAACAAATAG
Found at i:229457 original size:10 final size:10
Alignment explanation
Indices: 229444--229575 Score: 55
Period size: 10 Copynumber: 13.8 Consensus size: 10
229434 TTTTTATGCA
229444 TTTTATAATT
1 TTTTATAATT
*
229454 TTTTATGA-T
1 TTTTATAATT
* * **
229463 TTCTAAAAAA
1 TTTTATAATT
229473 TTTTATAATT
1 TTTTATAATT
*
229483 TTTTAT--TC
1 TTTTATAATT
*
229491 TTTTATGA-T
1 TTTTATAATT
**
229500 TTTTATAAAAA
1 TTTTAT-AATT
* *
229511 ATTTCTAATT
1 TTTTATAATT
*
229521 TTTAATAATT
1 TTTTATAATT
229531 TTTCTA-AA--
1 TTT-TATAATT
* *
229539 ATTTATTATT
1 TTTTATAATT
229549 TTTTATAATT
1 TTTTATAATT
229559 TTTT-TAATT
1 TTTTATAATT
*
229568 TTTAATAA
1 TTTTATAA
229576 GAGCAAAGAC
Statistics
Matches: 86, Mismatches: 26, Indels: 20
0.65 0.20 0.15
Matches are distributed among these distances:
7 2 0.02
8 10 0.12
9 20 0.23
10 49 0.57
11 5 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:229534 original size:19 final size:19
Alignment explanation
Indices: 229512--229570 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
229502 TTATAAAAAA
*
229512 TTTCTAATTTTTAATAATT
1 TTTCTAATTTTTATTAATT
** *
229531 TTTCTAAAATTTATTATTT
1 TTTCTAATTTTTATTAATT
*
229550 TTTATAATTTTT-TTAATT
1 TTTCTAATTTTTATTAATT
229568 TTT
1 TTT
229571 AATAAGAGCA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 8 0.25
19 24 0.75
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCTAATTTTTATTAATT
Found at i:229571 original size:28 final size:28
Alignment explanation
Indices: 229508--229561 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
229498 ATTTTTATAA
* *
229508 AAAATTTCTAATTTTTAATAATTTTTCT
1 AAAATTTATTATTTTTAATAATTTTTCT
*
229536 AAAATTTATTATTTTTTATAATTTTT
1 AAAATTTATTATTTTTAATAATTTTT
229562 TTAATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
AAAATTTATTATTTTTAATAATTTTTCT
Found at i:230864 original size:2 final size:2
Alignment explanation
Indices: 230851--230893 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
230841 CTTCGCCTAC
230851 CT CT CAT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT C-T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
230894 AACTTCTCTG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:232720 original size:27 final size:27
Alignment explanation
Indices: 232678--232809 Score: 129
Period size: 27 Copynumber: 4.9 Consensus size: 27
232668 CGTTTAAGAT
* * *
232678 CAAGCCATGGTCATCAACAACCTTTGC
1 CAAGCCATGGTGATCAACAACCTGTAC
* * * *
232705 CGATCCATGGTGATCAACAATCAGTAC
1 CAAGCCATGGTGATCAACAACCTGTAC
* * **
232732 CAAGCCTTGGTGATCAACAACCTATGT
1 CAAGCCATGGTGATCAACAACCTGTAC
* ** *
232759 CAAACCACAGTGATCAACAATCTGTAC
1 CAAGCCATGGTGATCAACAACCTGTAC
232786 CAAGCCATGGTGATCAACAACCTG
1 CAAGCCATGGTGATCAACAACCTG
232810 GACGACGTCA
Statistics
Matches: 78, Mismatches: 27, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (27 bp):
CAAGCCATGGTGATCAACAACCTGTAC
Found at i:232772 original size:54 final size:54
Alignment explanation
Indices: 232678--232808 Score: 181
Period size: 54 Copynumber: 2.4 Consensus size: 54
232668 CGTTTAAGAT
* * * * **
232678 CAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACAATCAGTAC
1 CAAGCCATGGTGATCAACAACCTATGCCAAACCACAGTGATCAACAATCAGTAC
* * *
232732 CAAGCCTTGGTGATCAACAACCTATGTCAAACCACAGTGATCAACAATCTGTAC
1 CAAGCCATGGTGATCAACAACCTATGCCAAACCACAGTGATCAACAATCAGTAC
232786 CAAGCCATGGTGATCAACAACCT
1 CAAGCCATGGTGATCAACAACCT
232809 GGACGACGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (54 bp):
CAAGCCATGGTGATCAACAACCTATGCCAAACCACAGTGATCAACAATCAGTAC
Found at i:233107 original size:174 final size:174
Alignment explanation
Indices: 232800--233149 Score: 603
Period size: 174 Copynumber: 2.0 Consensus size: 174
232790 CCATGGTGAT
* * * *
232800 CAACAACCTGGACGACGTCATTATGAACGTGTAAGTGCCGAGTCAATAAGCACTTTGCCTGACAT
1 CAACAAACTGGACCACATCATTATGAACGTGTAAATGCCGAGTCAATAAGCACTTTGCCTGACAT
*
232865 CAACCAAACTGATTTATCTTTTGTGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAA
66 CAACCAAACTGATTTATCTTTTATGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAA
*
232930 GCACAGGA-TTAAGACATGTGAAGGACGGTTTAGATGTTCAGCCA
131 GCACA-GATTTAAGACATGTGAAGGACGGTTTAGATGTTCAACCA
*
232974 CAACAAACTGGACCACATCATTATGAACGTGTAAATGCCGAGTCGATAAGCACTTTGCCTGACAT
1 CAACAAACTGGACCACATCATTATGAACGTGTAAATGCCGAGTCAATAAGCACTTTGCCTGACAT
233039 CAACCAAACTGATTTATCTTTTATGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAA
66 CAACCAAACTGATTTATCTTTTATGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAA
* *
233104 GCACAGATTTAAGACATGTGGAGGATGGTTTAGATGTTCAACCA
131 GCACAGATTTAAGACATGTGAAGGACGGTTTAGATGTTCAACCA
233148 CA
1 CA
233150 TCTACCTGCG
Statistics
Matches: 166, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
173 2 0.01
174 164 0.99
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (174 bp):
CAACAAACTGGACCACATCATTATGAACGTGTAAATGCCGAGTCAATAAGCACTTTGCCTGACAT
CAACCAAACTGATTTATCTTTTATGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAA
GCACAGATTTAAGACATGTGAAGGACGGTTTAGATGTTCAACCA
Found at i:236312 original size:20 final size:19
Alignment explanation
Indices: 236284--236323 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
236274 AAATTTTACA
*
236284 CCCCAAAACTTATTATTTTT
1 CCCCAAAACTT-TTACTTTT
*
236304 CCCCTAAACTTTTACTTTT
1 CCCCAAAACTTTTACTTTT
236323 C
1 C
236324 ACCTTTTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (19 bp):
CCCCAAAACTTTTACTTTT
Found at i:238889 original size:21 final size:20
Alignment explanation
Indices: 238860--238912 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
238850 TCAAAAATAA
*
238860 TTATTTAATTAAAAAGTATTT
1 TTATATAATTAAAAA-TATTT
*
238881 TTATATAATT-TAAATATTT
1 TTATATAATTAAAAATATTT
238900 TTAAATATAATTA
1 TT--ATATAATTA
238913 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.26
20 3 0.11
21 17 0.63
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTATATAATTAAAAATATTT
Found at i:244607 original size:29 final size:30
Alignment explanation
Indices: 244574--244658 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 30
244564 GAAAAAAGGT
* *
244574 ACATGGCCATGT-GCAAGGCTATGTGAGCC
1 ACATGGCCATGTGGCAAGACCATGTGAGCC
* * *
244603 ACATGGTCGTGTGGCTAGACCATGTGAGCC
1 ACATGGCCATGTGGCAAGACCATGTGAGCC
* * * * *
244633 ACACGACTATGTGGCCAGACTATGTG
1 ACATGGCCATGTGGCAAGACCATGTG
244659 GTTCATCTTA
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 10 0.23
30 33 0.77
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (30 bp):
ACATGGCCATGTGGCAAGACCATGTGAGCC
Found at i:248581 original size:21 final size:22
Alignment explanation
Indices: 248530--248573 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
248520 ATGAAAATTA
248530 TAAGT-AG-GATTAATTAAGGT
1 TAAGTAAGAGATTAATTAAGGT
248550 TAAGTAAGAGATTAATTAA-GT
1 TAAGTAAGAGATTAATTAAGGT
248571 TAA
1 TAA
248574 TTATGAGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.23
21 7 0.32
22 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.34
Consensus pattern (22 bp):
TAAGTAAGAGATTAATTAAGGT
Found at i:253281 original size:3 final size:3
Alignment explanation
Indices: 253275--253310 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
253265 TTGTAAGTTA
253275 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
253311 GCAAACTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:253754 original size:70 final size:68
Alignment explanation
Indices: 253602--253781 Score: 200
Period size: 70 Copynumber: 2.6 Consensus size: 68
253592 ATCCCTATGC
* * * *
253602 CAATCGAATTAAGACTCAATCAATAAGTTATAATTATTTTTAAATGTTTAAATGTCACAATAATA
1 CAATCGAACTAAGACTCAATCAATAAATTATAATTA--TTTAAATGTTTAAATGTCACAACAACA
253667 TCCATA
64 -CCATA
* * * *
253673 CGAATTGAACTAAGACTCAATCAGTAAATTATAATTATTTAAATGTTTAATTGTCATAACAACA-
1 C-AATCGAACTAAGACTCAATCAATAAATTATAATTATTTAAATGTTTAAATGTCACAACAACAC
253737 CATA
65 CATA
* *
253741 TTTCAATCGAACTAAAACTCAATTAATAAATTATAATTATT
1 ---CAATCGAACTAAGACTCAATCAATAAATTATAATTATT
253782 ATTTTTGCTT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
68 4 0.04
70 56 0.60
71 2 0.02
72 31 0.33
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (68 bp):
CAATCGAACTAAGACTCAATCAATAAATTATAATTATTTAAATGTTTAAATGTCACAACAACACC
ATA
Found at i:258242 original size:26 final size:27
Alignment explanation
Indices: 258211--258261 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
258201 TGATTTTCAG
258211 TATGCTCTGA-GGTAGCATTT-TCTTTA
1 TATGCTCT-ATGGTAGCATTTCTCTTTA
258237 TATGCTCTATGGTAGCATTTCTCTT
1 TATGCTCTATGGTAGCATTTCTCTT
258262 CTGTATGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 1 0.04
26 18 0.78
27 4 0.17
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (27 bp):
TATGCTCTATGGTAGCATTTCTCTTTA
Found at i:259569 original size:17 final size:17
Alignment explanation
Indices: 259549--259581 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
259539 TATTTATATA
259549 TACAACAATAATATAGG
1 TACAACAATAATATAGG
259566 TACAACAATAATATAG
1 TACAACAATAATATAG
259582 CTCAATATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
TACAACAATAATATAGG
Found at i:272689 original size:13 final size:12
Alignment explanation
Indices: 272659--272692 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
272649 GTGAATTGAG
272659 TTAGTTTTTATT
1 TTAGTTTTTATT
*
272671 TCAGTTTTTACTT
1 TTAGTTTTTA-TT
272684 TTAGTTTTT
1 TTAGTTTTT
272693 CATGCATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (12 bp):
TTAGTTTTTATT
Found at i:280509 original size:21 final size:21
Alignment explanation
Indices: 280468--280520 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
280458 TGACTTGAGT
280468 TATATCGGTAGTTGAATTACA
1 TATATCGGTAGTTGAATTACA
*
280489 -AGTATCGGTAGTTTGTA-TACA
1 TA-TATCGGTAG-TTGAATTACA
280510 TATATCGGTAG
1 TATATCGGTAG
280521 AAGTTGCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 22 0.79
22 5 0.18
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (21 bp):
TATATCGGTAGTTGAATTACA
Found at i:283845 original size:69 final size:69
Alignment explanation
Indices: 283763--283898 Score: 254
Period size: 69 Copynumber: 2.0 Consensus size: 69
283753 AAGTGTCAGC
*
283763 AAAGTTTCAACCAGTTGAAAAAGTTATTAACTGAAGTTCCAATCTTGACGCAGCCAGAGTCGGGA
1 AAAGTTTCAACCAGTTGAAAAAGTTATTAACTGAAGCTCCAATCTTGACGCAGCCAGAGTCGGGA
283828 AAGT
66 AAGT
*
283832 AAAGTTTCAACCAGTTGAAAAAGTTATTAACTGAAGCTCCAATCTTGACGTAGCCAGAGTCGGGA
1 AAAGTTTCAACCAGTTGAAAAAGTTATTAACTGAAGCTCCAATCTTGACGCAGCCAGAGTCGGGA
283897 AA
66 AA
283899 AGAATTTGTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGTTTCAACCAGTTGAAAAAGTTATTAACTGAAGCTCCAATCTTGACGCAGCCAGAGTCGGGA
AAGT
Found at i:287924 original size:21 final size:19
Alignment explanation
Indices: 287900--287952 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
287890 AGAGTTTTTG
287900 GTATCGGTAGATGCATGACTT
1 GTATCGGTAGAT-C-TGACTT
* *
287921 GTATCAGTAGAAATCTTACTT
1 GTATCGGTAG--ATCTGACTT
287942 GTATCGGTAGA
1 GTATCGGTAGA
287953 GCTAGCACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.04
21 23 0.85
22 1 0.04
23 2 0.07
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (19 bp):
GTATCGGTAGATCTGACTT
Found at i:301065 original size:18 final size:17
Alignment explanation
Indices: 301033--301066 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
301023 TTTGTGATTG
*
301033 ATTTGTAAAATTTTAAC
1 ATTTGAAAAATTTTAAC
301050 ATTTGAAAATATTTTAA
1 ATTTGAAAA-ATTTTAA
301067 ATTGTTTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTGAAAAATTTTAAC
Found at i:312763 original size:21 final size:19
Alignment explanation
Indices: 312739--312786 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
312729 TTCAACAAGG
312739 ACTTCCTCCTCTACAACAGCA
1 ACTTCCT-CTCT-CAACAGCA
312760 ACTTCCT-TCTCAACAGCA
1 ACTTCCTCTCTCAACAGCA
*
312778 AGTTCCTCT
1 ACTTCCTCT
312787 TGACCAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 14 0.56
19 4 0.16
21 7 0.28
ACGTcount: A:0.25, C:0.40, G:0.06, T:0.29
Consensus pattern (19 bp):
ACTTCCTCTCTCAACAGCA
Found at i:328197 original size:24 final size:24
Alignment explanation
Indices: 328161--328348 Score: 232
Period size: 24 Copynumber: 7.8 Consensus size: 24
328151 TTTTTATCTG
*
328161 ATTAGCTAACGAGCGTAAACGTAC
1 ATTAGCTGACGAGCGTAAACGTAC
* * *
328185 ATCAGCTGGCGAGCGTAAACTTAC
1 ATTAGCTGACGAGCGTAAACGTAC
* *
328209 ATTAGTTGGCGAGCGTAAACGTAC
1 ATTAGCTGACGAGCGTAAACGTAC
* * *
328233 ATTAGCTTACGAGTGTAAACATAC
1 ATTAGCTGACGAGCGTAAACGTAC
* * * *
328257 ATTAGTTGGCGAGCGTAAACGCAT
1 ATTAGCTGACGAGCGTAAACGTAC
*
328281 ATTAGTTGACGAGCGTAAACGTAC
1 ATTAGCTGACGAGCGTAAACGTAC
*
328305 ATTAGCTGACAAGCGTAAACGTAC
1 ATTAGCTGACGAGCGTAAACGTAC
*
328329 ATTAGCTGACAAGCGTAAAC
1 ATTAGCTGACGAGCGTAAAC
328349 ATACTGAACT
Statistics
Matches: 140, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 140 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (24 bp):
ATTAGCTGACGAGCGTAAACGTAC
Found at i:328285 original size:72 final size:72
Alignment explanation
Indices: 328161--328348 Score: 259
Period size: 72 Copynumber: 2.6 Consensus size: 72
328151 TTTTTATCTG
* ** *
328161 ATTAGCTAACGAGCGTAAACGTACATCAGCTGGCGAGCGTAAACTTACATTAGTTGGCGAGCGTA
1 ATTAGCTAACGAGCGTAAACGTACATTAGCTGGCGAGCGTAAACGCACATTAGTTGACGAGCGTA
328226 AACGTAC
66 AACGTAC
* * * * *
328233 ATTAGCTTACGAGTGTAAACATACATTAGTTGGCGAGCGTAAACGCATATTAGTTGACGAGCGTA
1 ATTAGCTAACGAGCGTAAACGTACATTAGCTGGCGAGCGTAAACGCACATTAGTTGACGAGCGTA
328298 AACGTAC
66 AACGTAC
* * * *
328305 ATTAGCTGACAAGCGTAAACGTACATTAGCTGACAAGCGTAAAC
1 ATTAGCTAACGAGCGTAAACGTACATTAGCTGGCGAGCGTAAAC
328349 ATACTGAACT
Statistics
Matches: 100, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 100 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (72 bp):
ATTAGCTAACGAGCGTAAACGTACATTAGCTGGCGAGCGTAAACGCACATTAGTTGACGAGCGTA
AACGTAC
Found at i:332815 original size:20 final size:20
Alignment explanation
Indices: 332751--332842 Score: 80
Period size: 20 Copynumber: 4.6 Consensus size: 20
332741 GGCCTGGAAC
* *
332751 TATTTTGACTTGTGTGAAAAA
1 TATTTTGACTTG-GTTAAAAT
**
332772 TATTTTGAAGT-GTTAAAAT
1 TATTTTGACTTGGTTAAAAT
* *
332791 GATTTTGACTTGGTTCAAAT
1 TATTTTGACTTGGTTAAAAT
332811 TATTTTGA-TTGGTTTAAAAT
1 TATTTTGACTTGG-TTAAAAT
* *
332831 CATTTTAACTTG
1 TATTTTGACTTG
332843 ATTTTAAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
19 18 0.32
20 26 0.46
21 12 0.21
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.48
Consensus pattern (20 bp):
TATTTTGACTTGGTTAAAAT
Found at i:337394 original size:2 final size:2
Alignment explanation
Indices: 337387--337413 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
337377 ATTGTCTTGG
337387 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
337414 TTCTTTGGTC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:338433 original size:22 final size:22
Alignment explanation
Indices: 338370--338438 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 22
338360 CTATTTCCTT
*
338370 TTTTAAACAGTAATTTATCTGATC
1 TTTTAAACA-T-ATTTATTTGATC
**
338394 TTTTCTACATA---ATTTGATC
1 TTTTAAACATATTTATTTGATC
338413 TTTTAAACATATTTATTTGATC
1 TTTTAAACATATTTATTTGATC
338435 TTTT
1 TTTT
338439 CTACATACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 16 0.43
22 13 0.35
23 1 0.03
24 7 0.19
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.54
Consensus pattern (22 bp):
TTTTAAACATATTTATTTGATC
Found at i:338444 original size:22 final size:22
Alignment explanation
Indices: 338382--338445 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
338372 TTAAACAGTA
*
338382 ATTTATCTGATCTTTTCTACAT
1 ATTTATTTGATCTTTTCTACAT
**
338404 A---ATTTGATCTTTTAAACAT
1 ATTTATTTGATCTTTTCTACAT
338423 ATTTATTTGATCTTTTCTACAT
1 ATTTATTTGATCTTTTCTACAT
338445 A
1 A
338446 CTAAGTCACT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 16 0.47
22 18 0.53
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTATTTGATCTTTTCTACAT
Found at i:342872 original size:61 final size:61
Alignment explanation
Indices: 342776--342951 Score: 219
Period size: 61 Copynumber: 2.9 Consensus size: 61
342766 TTAATATAAC
* * * * *
342776 ATTTGGTACTTGAATTTGATACTTTTTTTTTAATTTGGTATTTAAACTTTTTTT-GACCTA
1 ATTTGGTACCTGAACTTGACATTTTTTTTTTAATTTGGTATCTAAACTTTTTTTGGACCTA
* * *
342836 ATTTGTTACCTGAACTTGACAATTTTTTTTTTAATTTGGTACCTAAACTTTTTTTGGACTTA
1 ATTTGGTACCTGAACTTGAC-ATTTTTTTTTTAATTTGGTATCTAAACTTTTTTTGGACCTA
* * * **
342898 ATTTGGTACTTGAACTTGGCATTTTTTTCTTAATTTGGTATCTAAGTTTTTTTT
1 ATTTGGTACCTGAACTTGACATTTTTTTTTTAATTTGGTATCTAAACTTTTTTT
342952 TTAGATTCAA
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
60 16 0.16
61 61 0.62
62 22 0.22
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.55
Consensus pattern (61 bp):
ATTTGGTACCTGAACTTGACATTTTTTTTTTAATTTGGTATCTAAACTTTTTTTGGACCTA
Found at i:343236 original size:31 final size:32
Alignment explanation
Indices: 343176--343265 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
343166 TGGATCCAAA
* * *
343176 AAGTTTAAGAACCAATTTAAATAAAAAGTGTC
1 AAGTTTAAGTATCAAATTAAATAAAAAGTGTC
343208 AAGTTTAAGTATCAAATTAAA-AAAAAGTGTC
1 AAGTTTAAGTATCAAATTAAATAAAAAGTGTC
* * *
343239 -AGATTAAGTATTAAATTAGATCAAAAA
1 AAGTTTAAGTATCAAATTAAAT-AAAAA
343266 AAGTGTAAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.34
31 10 0.20
32 23 0.46
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (32 bp):
AAGTTTAAGTATCAAATTAAATAAAAAGTGTC
Found at i:343246 original size:30 final size:32
Alignment explanation
Indices: 343192--343265 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 32
343182 AAGAACCAAT
*
343192 TTAAATAAAAAGTGTCAAGTTTAAGTATCAAA
1 TTAAATAAAAAGTGTCAAGATTAAGTATCAAA
*
343224 TTAAA-AAAAAGTGTC-AGATTAAGTATTAAA
1 TTAAATAAAAAGTGTCAAGATTAAGTATCAAA
*
343254 TTAGATCAAAAA
1 TTAAAT-AAAAA
343266 AAGTGTAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 17 0.46
31 10 0.27
32 10 0.27
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (32 bp):
TTAAATAAAAAGTGTCAAGATTAAGTATCAAA
Found at i:343617 original size:5 final size:5
Alignment explanation
Indices: 343593--343630 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
343583 CCAATCAAAT
343593 TTTTC -TTTC ATTTT- TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
343631 TGCCATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.27
5 19 0.63
6 3 0.10
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:349985 original size:2 final size:2
Alignment explanation
Indices: 349978--350003 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
349968 CTGGTCAATA
349978 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
350004 TTTAACTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:360388 original size:27 final size:27
Alignment explanation
Indices: 360350--360404 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
360340 CAATTCTTTC
360350 ATAGTGAAAACTAAATTAAGAGTATTT
1 ATAGTGAAAACTAAATTAAGAGTATTT
360377 ATAGTGAAAACTAAATTAAGAGTATTT
1 ATAGTGAAAACTAAATTAAGAGTATTT
360404 A
1 A
360405 CTCAAATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.15, T:0.33
Consensus pattern (27 bp):
ATAGTGAAAACTAAATTAAGAGTATTT
Found at i:369084 original size:247 final size:247
Alignment explanation
Indices: 368648--369393 Score: 1465
Period size: 247 Copynumber: 3.0 Consensus size: 247
368638 TGTATATTAT
*
368648 ATTATTTCAATAATAAAGATAATAAATACATCATGGTCAATGTGCAAATTGCATGCCAAGTAGGA
1 ATTATTTGAATAATAAAGATAATAAATACATCATGGTCAATGTGCAAATTGCATGCCAAGTAGGA
368713 GCTAGCATGTTGGATTCATTGATATAACTTTTTTCTTCTCAATTTTTTTTAATGTTCAATATTTT
66 GCTAGCATGTTGGATTCATTGATATAACTTTTTTCTTCTCAATTTTTTTTAATGTTCAATATTTT
* *
368778 GCAGTCCTGATCTTTGACTTCATAGTCCTATCAATTCTTAATGCTGAATGTAGTTATTATCAAGG
131 ACAGTCCTGATCTTTGACTTCATATTCCTATCAATTCTTAATGCTGAATGTAGTTATTATCAAGG
368843 GATCCGAAGCATGCAAAAACTTTGTATCCTAATTTTAATCTTGCCCAAACTC
196 GATCCGAAGCATGCAAAAACTTTGTATCCTAATTTTAATCTTGCCCAAACTC
368895 ATTATTTGAATAATAAAGATAATAAATACATCATGGTCAATGTGCAAATTGCATGCCAAGTAGGA
1 ATTATTTGAATAATAAAGATAATAAATACATCATGGTCAATGTGCAAATTGCATGCCAAGTAGGA
368960 GCTAGCATGTTGGATTCATTGATATAACTTTTTTCTTCTCAATTTTTTTTAATGTTCAATATTTT
66 GCTAGCATGTTGGATTCATTGATATAACTTTTTTCTTCTCAATTTTTTTTAATGTTCAATATTTT
369025 ACAGTCCTGATCTTTGACTTCATATTCCTATCAATTCTTAATGCTGAATGTAGTTATTATCAAGG
131 ACAGTCCTGATCTTTGACTTCATATTCCTATCAATTCTTAATGCTGAATGTAGTTATTATCAAGG
369090 GATCCGAAGCATGCAAAAACTTTGTATCCTAATTTTAATCTTGCCCAAACTC
196 GATCCGAAGCATGCAAAAACTTTGTATCCTAATTTTAATCTTGCCCAAACTC
369142 ATTATTTGAATAATAAAGATAATAAATACATCATGGTCAATGTGCAAATTGCATGCCAAGTAGGA
1 ATTATTTGAATAATAAAGATAATAAATACATCATGGTCAATGTGCAAATTGCATGCCAAGTAGGA
369207 GCTAGCATGTTGGATTCATTGATATAACTTTTTTCTTCTCAATTTTTTTTAATGTTCAATATTTT
66 GCTAGCATGTTGGATTCATTGATATAACTTTTTTCTTCTCAATTTTTTTTAATGTTCAATATTTT
369272 ACAGTCCTGATCTTTGACTTCATATTCCTATCAATTCTTAATGCTGAATGTAGTTATTATCAAGG
131 ACAGTCCTGATCTTTGACTTCATATTCCTATCAATTCTTAATGCTGAATGTAGTTATTATCAAGG
369337 GATCCGAAGCATGCAAAAACTTTGTATCCTAATTTTAATCTTGCCCAAACTC
196 GATCCGAAGCATGCAAAAACTTTGTATCCTAATTTTAATCTTGCCCAAACTC
369389 ATTAT
1 ATTAT
369394 GCAGAACATT
Statistics
Matches: 496, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
247 496 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (247 bp):
ATTATTTGAATAATAAAGATAATAAATACATCATGGTCAATGTGCAAATTGCATGCCAAGTAGGA
GCTAGCATGTTGGATTCATTGATATAACTTTTTTCTTCTCAATTTTTTTTAATGTTCAATATTTT
ACAGTCCTGATCTTTGACTTCATATTCCTATCAATTCTTAATGCTGAATGTAGTTATTATCAAGG
GATCCGAAGCATGCAAAAACTTTGTATCCTAATTTTAATCTTGCCCAAACTC
Found at i:374209 original size:476 final size:476
Alignment explanation
Indices: 373317--374275 Score: 1839
Period size: 476 Copynumber: 2.0 Consensus size: 476
373307 GTAGATCAAC
373317 CTGTTTAGAGATGGCAACAACAAGGTTTGACATTGAGAAGCTCGATAACGTCATAAATTTCAATT
1 CTGTTTAGAGATGGCAACAACAAGGTTTGACATTGAGAAGCTCGATAACGTCATAAATTTCAATT
373382 TGTGGCAAGTTTAGATGATGGCAATTCTAGTTCAGATCAGCTTGAAAAAGGTTGTTATCGAGAAA
66 TGTGGCAAGTTTAGATGATGGCAATTCTAGTTCAGATCAGCTTGAAAAAGGTTGTTATCGAGAAA
*
373447 AAGCCCGATAATCTAGATCAGTTAGAATGAAAATAGCTTGATGAAAAAGCCTTATCTGCAATCAA
131 AAGCCCGATAATCTAGATCAGTTAGAATGAAAATAACTTGATGAAAAAGCCTTATCTGCAATCAA
*
373512 GTTGTGCCTCACGAATAGGGAATTGCAAGAGGTATTGATGGAGAAGATGTCATCCACCTTGTGGA
196 GTTGTGCCTCACGAATAGGGAATTGCAAGAGGTATTGATGGAGAAGACGTCATCCACCTTGTGGA
373577 AAAGGCTAGAAACTCTTTATGCGACTAAGTCTCTGACTAATCGTTTAGTGTTGAAACAACATCTA
261 AAAGGCTAGAAACTCTTTATGCGACTAAGTCTCTGACTAATCGTTTAGTGTTGAAACAACATCTA
373642 TTTACGTTTCGCATGAATGAAGGTGAGCTTCTTAGAGATCACATCAGTCAATTTATTACCCTTTT
326 TTTACGTTTCGCATGAATGAAGGTGAGCTTCTTAGAGATCACATCAGTCAATTTATTACCCTTTT
373707 AAATGATTTAAATAACGTTGATGTTCAGATTGACGATGAGAATCAGACTATGCTATTATTATGCT
391 AAATGATTTAAATAACGTTGATGTTCAGATTGACGATGAGAATCAGACTATGCTATTATTATGCT
*
373772 CCTTACCCCCTTCATGCAAAT
456 CCTTACCCCCTTCATACAAAT
*
373793 CTGTTTAGAGATGGCAACAACAAGGTTTGACATTGAGAAGCTCGATGACGTCATAAATTTCAATT
1 CTGTTTAGAGATGGCAACAACAAGGTTTGACATTGAGAAGCTCGATAACGTCATAAATTTCAATT
*
373858 TGTGGCAAGTTTAGATGATGGCAATTCTAGTTCAGATCAGCTTGAAAAAGGTTGTTATTGAGAAA
66 TGTGGCAAGTTTAGATGATGGCAATTCTAGTTCAGATCAGCTTGAAAAAGGTTGTTATCGAGAAA
373923 AAGCCCGATAATCTAGATCAGTTAGAATGAAAATAACTTGATGAAAAAGCCTTATCTGCAATCAA
131 AAGCCCGATAATCTAGATCAGTTAGAATGAAAATAACTTGATGAAAAAGCCTTATCTGCAATCAA
373988 GTTGTGCCTCACGAATAGGGAATTGCAAGAGGTATTGATGGAGAAGACGTCATCCACCTTGTGGA
196 GTTGTGCCTCACGAATAGGGAATTGCAAGAGGTATTGATGGAGAAGACGTCATCCACCTTGTGGA
374053 AAAGGCTAGAAACTCTTTATGCGACTAAGTCTCTGACTAATCGTTTAGTGTTGAAACAACATCTA
261 AAAGGCTAGAAACTCTTTATGCGACTAAGTCTCTGACTAATCGTTTAGTGTTGAAACAACATCTA
* *
374118 TTTACGTTTCGCATGAATGAAGGTGAGCTTCTTAGAGATCACATTAGTCAATTTCTTACCCTTTT
326 TTTACGTTTCGCATGAATGAAGGTGAGCTTCTTAGAGATCACATCAGTCAATTTATTACCCTTTT
374183 AAATGATTTAAATAACGTTGATGTTCAGATTGACGATGAGAATCAGACTATGCTATTATTATGCT
391 AAATGATTTAAATAACGTTGATGTTCAGATTGACGATGAGAATCAGACTATGCTATTATTATGCT
*
374248 CCTTACCCCCTTCATACAAGT
456 CCTTACCCCCTTCATACAAAT
374269 CT-TTTAG
1 CTGTTTAG
374276 GGAGATCTTG
Statistics
Matches: 475, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
475 5 0.01
476 470 0.99
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (476 bp):
CTGTTTAGAGATGGCAACAACAAGGTTTGACATTGAGAAGCTCGATAACGTCATAAATTTCAATT
TGTGGCAAGTTTAGATGATGGCAATTCTAGTTCAGATCAGCTTGAAAAAGGTTGTTATCGAGAAA
AAGCCCGATAATCTAGATCAGTTAGAATGAAAATAACTTGATGAAAAAGCCTTATCTGCAATCAA
GTTGTGCCTCACGAATAGGGAATTGCAAGAGGTATTGATGGAGAAGACGTCATCCACCTTGTGGA
AAAGGCTAGAAACTCTTTATGCGACTAAGTCTCTGACTAATCGTTTAGTGTTGAAACAACATCTA
TTTACGTTTCGCATGAATGAAGGTGAGCTTCTTAGAGATCACATCAGTCAATTTATTACCCTTTT
AAATGATTTAAATAACGTTGATGTTCAGATTGACGATGAGAATCAGACTATGCTATTATTATGCT
CCTTACCCCCTTCATACAAAT
Found at i:375404 original size:28 final size:24
Alignment explanation
Indices: 375329--375393 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
375319 AATCTTTTAG
* *
375329 TTAAACTTTGTTTATTTATTTCAA
1 TTAAACTCTATTTATTTATTTCAA
375353 TTAAACTCTATTTATTTATTTCAA
1 TTAAACTCTATTTATTTATTTCAA
375377 TTAAACTCTATTTATTT
1 TTAAACTCTATTTATTT
375394 GTTTGAGTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.57
Consensus pattern (24 bp):
TTAAACTCTATTTATTTATTTCAA
Found at i:375406 original size:24 final size:24
Alignment explanation
Indices: 375339--375409 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
375329 TTAAACTTTG
*
375339 TTTATTTATTTCAATTAAACTCTA
1 TTTATTTATTTCAATCAAACTCTA
*
375363 TTTATTTATTTCAATTAAACTCTA
1 TTTATTTATTTCAATCAAACTCTA
* * *
375387 TTTATTTGTTTGAGTCAAACTCT
1 TTTATTTATTTCAATCAAACTCT
375410 TATTAGTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTATTTATTTCAATCAAACTCTA
Found at i:376864 original size:16 final size:15
Alignment explanation
Indices: 376843--376872 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
376833 CTAGTTAGAC
376843 TTCTTAAATGCTAAAG
1 TTCTTAAAT-CTAAAG
376859 TTCTTAAATCTAAA
1 TTCTTAAATCTAAA
376873 ATAATTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
TTCTTAAATCTAAAG
Found at i:379895 original size:31 final size:31
Alignment explanation
Indices: 379858--379922 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
379848 TTAGAGTGAA
379858 ATATAAGACTTAGAATAGTGTTTTAATATTT
1 ATATAAGACTTAGAATAGTGTTTTAATATTT
379889 ATATAAGACTTAGAATAGTGTTTTAATATTT
1 ATATAAGACTTAGAATAGTGTTTTAATATTT
379920 ATA
1 ATA
379923 GGGGATGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (31 bp):
ATATAAGACTTAGAATAGTGTTTTAATATTT
Found at i:382856 original size:22 final size:22
Alignment explanation
Indices: 382830--382873 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
382820 AAAATTAGAC
* *
382830 AAATAAAGAAAAAGATAATAAA
1 AAATAAACAAAAAGAAAATAAA
*
382852 AAATAAACAAAAATAAAATAAA
1 AAATAAACAAAAAGAAAATAAA
382874 GATAATCGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (22 bp):
AAATAAACAAAAAGAAAATAAA
Found at i:386704 original size:26 final size:26
Alignment explanation
Indices: 386656--386705 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
386646 TTGCACCTAG
*
386656 GCTGCATGAACATGTCCAGAATTGTC
1 GCTGCATGAACATGTCCAAAATTGTC
* *
386682 GCTGCATGAACGTGTCTAAAATTG
1 GCTGCATGAACATGTCCAAAATTG
386706 CACCCAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (26 bp):
GCTGCATGAACATGTCCAAAATTGTC
Found at i:387518 original size:16 final size:16
Alignment explanation
Indices: 387497--387527 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
387487 TTGTGGATCC
387497 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
387513 CATTTTATCTTTATT
1 CATTTTACCTTTATT
387528 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:390730 original size:29 final size:31
Alignment explanation
Indices: 390687--390745 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
390677 AGTAGGCTCT
390687 TCCTTTCTTCCTTTT-TT-TTCTTCCTCCTC
1 TCCTTTCTTCCTTTTATTCTTCTTCCTCCTC
* *
390716 TCCTTTCTTCTTTTTATTCTTCTTTCTCCT
1 TCCTTTCTTCCTTTTATTCTTCTTCCTCCT
390746 TATCAATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 14 0.54
30 2 0.08
31 10 0.38
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (31 bp):
TCCTTTCTTCCTTTTATTCTTCTTCCTCCTC
Found at i:400339 original size:26 final size:26
Alignment explanation
Indices: 400298--400351 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
400288 ATTCTAGATG
* * *
400298 CAATTCTGAACGTGCTCATGCAGTGA
1 CAATTCTGAACATGCTCATACAATGA
*
400324 CAATTCTGGACATGCTCATACAATGA
1 CAATTCTGAACATGCTCATACAATGA
400350 CA
1 CA
400352 TTAGTAGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (26 bp):
CAATTCTGAACATGCTCATACAATGA
Found at i:414548 original size:37 final size:38
Alignment explanation
Indices: 414493--414578 Score: 124
Period size: 37 Copynumber: 2.3 Consensus size: 38
414483 GGACATGTTC
414493 ATGCAGCGACATTCCTGGATGCAA-TTGAAGAATACTT-
1 ATGCAGCGACATTCCTGGATGCAATTTGAAGAATA-TTA
*
414530 ATGCAGCGATAGTT-CTGGATGCAATTTGAAGAATATTA
1 ATGCAGCGACA-TTCCTGGATGCAATTTGAAGAATATTA
414568 ATGCAGCGACA
1 ATGCAGCGACA
414579 GTCTTGGGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
37 22 0.50
38 22 0.50
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (38 bp):
ATGCAGCGACATTCCTGGATGCAATTTGAAGAATATTA
Found at i:415150 original size:15 final size:16
Alignment explanation
Indices: 415127--415160 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
415117 TATAAAAATA
*
415127 TTTATTTTTCTT-TTC
1 TTTACTTTTCTTCTTC
415142 TTTACTTTTCTTCTTC
1 TTTACTTTTCTTCTTC
415158 TTT
1 TTT
415161 TTATTATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTACTTTTCTTCTTC
Found at i:418713 original size:6 final size:6
Alignment explanation
Indices: 418688--418726 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
418678 ACAATTCATA
* * *
418688 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
418727 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:421900 original size:26 final size:26
Alignment explanation
Indices: 421864--421917 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
421854 ATTCTAGGCG
421864 CAATTTTGGACACGTTCATGCAGCGA
1 CAATTTTGGACACGTTCATGCAGCGA
*
421890 CAATTTTGGACATGTTCATGCAGCGA
1 CAATTTTGGACACGTTCATGCAGCGA
421916 CA
1 CA
421918 TTCCTAGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
CAATTTTGGACACGTTCATGCAGCGA
Found at i:422103 original size:37 final size:37
Alignment explanation
Indices: 422023--422103 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
422013 ATATTCCTGC
* * *
422023 AGCGACAATTTTGGGTGCAATCTGGAAGTGCTCATGT
1 AGCGACAACTTTGGGCGCAATCTAGAAGTGCTCATGT
422060 -GACGACAACTTTGGGCGCAATCTAGAAGTGCTCATGT
1 AG-CGACAACTTTGGGCGCAATCTAGAAGTGCTCATGT
422097 AGCGACA
1 AGCGACA
422104 TTAGTAGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
36 1 0.03
37 37 0.95
38 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (37 bp):
AGCGACAACTTTGGGCGCAATCTAGAAGTGCTCATGT
Found at i:437197 original size:63 final size:63
Alignment explanation
Indices: 437112--437230 Score: 220
Period size: 63 Copynumber: 1.9 Consensus size: 63
437102 ACAAATTGCT
* *
437112 TAATACAATTTTAGTTTCTTTTTCATTTAATTATTGATTTACATGTTTTCATATATGATCGCA
1 TAATACAATTTTAGTTTATTTTTCATTCAATTATTGATTTACATGTTTTCATATATGATCGCA
437175 TAATACAATTTTAGTTTATTTTTCATTCAATTATTGATTTACATGTTTTCATATAT
1 TAATACAATTTTAGTTTATTTTTCATTCAATTATTGATTTACATGTTTTCATATAT
437231 TGTGTTATTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (63 bp):
TAATACAATTTTAGTTTATTTTTCATTCAATTATTGATTTACATGTTTTCATATATGATCGCA
Found at i:442357 original size:38 final size:38
Alignment explanation
Indices: 442276--442360 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
442266 TCCTGCAGCG
* * *
442276 ACAATTCTGGGCATGCTCATGCAGTGATAATTTTTGGC
1 ACAATTCTGGACATGCTCATGCAGTGACAATTTTGGGC
*
442314 ACAATTCTGGACAT-CATCATGCAGTGACAATTTTGGGT
1 ACAATTCTGGACATGC-TCATGCAGTGACAATTTTGGGC
*
442352 GCAATTCTG
1 ACAATTCTG
442361 AATAGACTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 1 0.02
38 40 0.98
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (38 bp):
ACAATTCTGGACATGCTCATGCAGTGACAATTTTGGGC
Found at i:444776 original size:24 final size:24
Alignment explanation
Indices: 444743--444789 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
444733 ATTCATCTTT
*
444743 TATTAATTTGCTCTGAC-ATTTTG
1 TATTAATTTGCACTGACAATTTTG
444766 TATTACATTTGCACTGACAATTTT
1 TATTA-ATTTGCACTGACAATTTT
444790 TACTCTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.49
Consensus pattern (24 bp):
TATTAATTTGCACTGACAATTTTG
Found at i:452943 original size:18 final size:19
Alignment explanation
Indices: 452909--452944 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
452899 TGATCTCAAC
452909 TTTGATGGTGTTCTGTGCT
1 TTTGATGGTGTTCTGTGCT
*
452928 TTTGATGTTGTT-TGTGC
1 TTTGATGGTGTTCTGTGC
452945 ATTCCGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.06, C:0.08, G:0.31, T:0.56
Consensus pattern (19 bp):
TTTGATGGTGTTCTGTGCT
Found at i:455018 original size:20 final size:18
Alignment explanation
Indices: 454969--455019 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
454959 AAAATTAGCC
*
454969 AAAAATTACAAGTCTAAA
1 AAAAATTAAAAGTCTAAA
*
454987 AATAAA-TCAAAGTCTTTAAA
1 AA-AAATTAAAAGTC--TAAA
455007 AAAAATTAAAAGT
1 AAAAATTAAAAGT
455020 TCAATCATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 8 0.31
19 6 0.23
20 12 0.46
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (18 bp):
AAAAATTAAAAGTCTAAA
Found at i:456828 original size:13 final size:13
Alignment explanation
Indices: 456810--456837 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
456800 GAACGGGAGT
456810 ATGTTCTAGAGCG
1 ATGTTCTAGAGCG
456823 ATGTTCTAGAGCG
1 ATGTTCTAGAGCG
456836 AT
1 AT
456838 CAATTGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (13 bp):
ATGTTCTAGAGCG
Found at i:460193 original size:12 final size:12
Alignment explanation
Indices: 460176--460202 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
460166 TAAATCCTTG
460176 TAAAACAATAAT
1 TAAAACAATAAT
460188 TAAAACAATAAT
1 TAAAACAATAAT
460200 TAA
1 TAA
460203 TTATTCATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAACAATAAT
Found at i:477188 original size:17 final size:19
Alignment explanation
Indices: 477166--477208 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
477156 TTAAAATTTT
477166 GAAAAAGAA-AACA-ATTA
1 GAAAAAGAATAACATATTA
*
477183 GAAAAATAATAACATATTA
1 GAAAAAGAATAACATATTA
477202 GTAAAAA
1 G-AAAAA
477209 TTAAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 5 0.23
20 5 0.23
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (19 bp):
GAAAAAGAATAACATATTA
Found at i:495981 original size:17 final size:17
Alignment explanation
Indices: 495961--495995 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
495951 ACTTAGCTAA
*
495961 GTGATAGTATTAGAAAT
1 GTGATAGCATTAGAAAT
*
495978 GTGATAGCATTATAAAT
1 GTGATAGCATTAGAAAT
495995 G
1 G
495996 ATATATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (17 bp):
GTGATAGCATTAGAAAT
Found at i:503468 original size:26 final size:26
Alignment explanation
Indices: 503439--503502 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
503429 TGAATTAATA
503439 TGAATGAATGATGAGTCTACTATTTT
1 TGAATGAATGATGAGTCTACTATTTT
503465 TGAATGAATGATGAGTCTACTATTTT
1 TGAATGAATGATGAGTCTACTATTTT
503491 TGAATGAATGAT
1 TGAATGAATGAT
503503 TGGAATTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (26 bp):
TGAATGAATGATGAGTCTACTATTTT
Found at i:510440 original size:18 final size:17
Alignment explanation
Indices: 510409--510442 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
510399 ACTTCTTTTT
510409 CTAACTTTTATTGATTA
1 CTAACTTTTATTGATTA
*
510426 CTAATCTTTTGTTGATT
1 CTAA-CTTTTATTGATT
510443 TTCTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTAACTTTTATTGATTA
Found at i:517762 original size:15 final size:17
Alignment explanation
Indices: 517744--517800 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
517734 TACTGAACAA
517744 AAGAAGAGAAAATAAAAG
1 AAGAAG-GAAAATAAAAG
517762 AAGAAGGAAAAT--AAG
1 AAGAAGGAAAATAAAAG
*
517777 AA-AAGGAAGAAGAAAAAG
1 AAGAAGGAA-AA-TAAAAG
517795 AAGAAG
1 AAGAAG
517801 ACATTGCCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
14 6 0.18
15 7 0.21
17 6 0.18
18 11 0.33
19 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (17 bp):
AAGAAGGAAAATAAAAG
Found at i:517787 original size:21 final size:20
Alignment explanation
Indices: 517757--517799 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
517747 AAGAGAAAAT
* *
517757 AAAAGAAGAAGGAAAATAAG
1 AAAAGAAGAAGAAAAAGAAG
517777 AAAAGGAAGAAGAAAAAGAAG
1 AAAA-GAAGAAGAAAAAGAAG
517798 AA
1 AA
517800 GACATTGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (20 bp):
AAAAGAAGAAGAAAAAGAAG
Done.