Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012531.1 Kokia drynarioides strain JFW-HI SEQ_127538, 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: 164516
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 186 characters in sequence are not A, C, G, or T
Found at i:600 original size:17 final size:17
Alignment explanation
Indices: 578--611 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
568 AGCAACTCAA
578 AGACTATGTGGCAGAGG
1 AGACTATGTGGCAGAGG
595 AGACTATGTGGCAGAGG
1 AGACTATGTGGCAGAGG
612 CTCTTAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.41, T:0.18
Consensus pattern (17 bp):
AGACTATGTGGCAGAGG
Found at i:21429 original size:6 final size:6
Alignment explanation
Indices: 21418--21454 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
21408 CATAATGGAA
21418 TCCCAT TCCCAT TCCCAT TCCCAT TCCCAT TCCCAT T
1 TCCCAT TCCCAT TCCCAT TCCCAT TCCCAT TCCCAT T
21455 ATGAAAGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.49, G:0.00, T:0.35
Consensus pattern (6 bp):
TCCCAT
Found at i:44321 original size:5 final size:5
Alignment explanation
Indices: 44313--44338 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44303 GAGATAGAAT
44313 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
44339 ATATTTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:44688 original size:18 final size:18
Alignment explanation
Indices: 44665--44702 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
44655 TAATATAGTT
44665 TTATTCG-GTTTATTCGAA
1 TTATTCGAG-TTATTCGAA
44683 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
44701 TT
1 TT
44703 TGAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCGAA
Found at i:66369 original size:14 final size:16
Alignment explanation
Indices: 66346--66382 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
66336 TATTCAAGAG
*
66346 TTAAATGATTTA-A-T
1 TTAAAAGATTTATATT
66360 TTAAAAGATTTATATT
1 TTAAAAGATTTATATT
66376 TTAAAAG
1 TTAAAAG
66383 GGAAAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.55
15 1 0.05
16 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TTAAAAGATTTATATT
Found at i:68128 original size:4 final size:4
Alignment explanation
Indices: 68121--68156 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
68111 ACAAAGTCCG
68121 TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA
1 TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA
68157 AGGAGTAAAT
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:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
TCCA
Found at i:69105 original size:15 final size:15
Alignment explanation
Indices: 69078--69117 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
69068 ATCATAAAAA
69078 TATTTTTT-T-ATTT
1 TATTTTTTATAATTT
69091 TATTTTTTATAATTT
1 TATTTTTTATAATTT
*
69106 TATTATTTATAA
1 TATTTTTTATAA
69118 ATAGTAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.33
14 1 0.04
15 15 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTTTATAATTT
Found at i:81964 original size:22 final size:22
Alignment explanation
Indices: 81921--81964 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
81911 ATTTGCAATT
* *
81921 AATTTTTTTTTGTTTAATTTTA
1 AATTTTATTTTGTTAAATTTTA
81943 AATTTTATTTT-TTAAATATTTA
1 AATTTTATTTTGTTAAAT-TTTA
81965 TACTTATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
AATTTTATTTTGTTAAATTTTA
Found at i:82502 original size:17 final size:17
Alignment explanation
Indices: 82480--82513 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
82470 ACTTAATATT
82480 ATCTAAACACAAAATAA
1 ATCTAAACACAAAATAA
*
82497 ATCTAAACTCAAAATAA
1 ATCTAAACACAAAATAA
82514 TCCAAATATT
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:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (17 bp):
ATCTAAACACAAAATAA
Found at i:83126 original size:6 final size:6
Alignment explanation
Indices: 83115--83193 Score: 76
Period size: 6 Copynumber: 13.7 Consensus size: 6
83105 GGCCCAACAG
* * * *
83115 AATTTA AATTT- ATTTTA AGTTTA AATTT- ACTTAA AATTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
83160 -ATTATA AATTTA AGTTTA AATTTA AATTTA AATT
1 AATT-TA AATTTA AATTTA AATTTA AATTTA AATT
83194 AATGTCCAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
4 3 0.05
5 8 0.14
6 45 0.76
7 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:83139 original size:17 final size:17
Alignment explanation
Indices: 83115--83193 Score: 95
Period size: 17 Copynumber: 4.6 Consensus size: 17
83105 GGCCCAACAG
83115 AATTTAAATTTATTTTA
1 AATTTAAATTTATTTTA
* * *
83132 AGTTTAAATTTACTTAA
1 AATTTAAATTTATTTTA
*
83149 AATTTAAATTTATTATA
1 AATTTAAATTTATTTTA
* *
83166 AATTTAAGTTTAAATTTA
1 AATTTAAATTT-ATTTTA
83184 AATTTAAATT
1 AATTTAAATT
83194 AATGTCCAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
17 37 0.74
18 13 0.26
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (17 bp):
AATTTAAATTTATTTTA
Found at i:83154 original size:34 final size:35
Alignment explanation
Indices: 83115--83193 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
83105 GGCCCAACAG
* * *
83115 AATTTAAATTTATTTTAAGTTTAAATTT-ACTTAA
1 AATTTAAATTTATTATAAATTTAAATTTAAATTAA
* *
83149 AATTTAAATTTATTATAAATTTAAGTTTAAATTTA
1 AATTTAAATTTATTATAAATTTAAATTTAAATTAA
83184 AATTTAAATT
1 AATTTAAATT
83194 AATGTCCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 25 0.64
35 14 0.36
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (35 bp):
AATTTAAATTTATTATAAATTTAAATTTAAATTAA
Found at i:83181 original size:12 final size:11
Alignment explanation
Indices: 83115--83193 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
83105 GGCCCAACAG
83115 AATTTAAATTT
1 AATTTAAATTT
* *
83126 ATTTTAAGTTT
1 AATTTAAATTT
* *
83137 AAATTT-ACTTAA
1 -AATTTAAATT-T
83149 AATTTAAATTT
1 AATTTAAATTT
83160 -ATTATAAATTT
1 AATT-TAAATTT
83171 AAGTTTAAATTT
1 AA-TTTAAATTT
83183 AAATTTAAATT
1 -AATTTAAATT
83194 AATGTCCAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
10 3 0.06
11 24 0.44
12 23 0.43
13 4 0.07
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:83852 original size:3 final size:3
Alignment explanation
Indices: 83839--83916 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
83829 TAAATAGCCT
* * * ** *
83839 TAA TGA TAA TAA TAA TAT TAA TAA TAA GT-A TAA TAC TAA TGG TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
* * *
83884 TAA TTAA TAA TAA TGA TAT TAA TAA TAT TAA TA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
83917 TTAAATATTG
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
2 1 0.02
3 50 0.91
4 4 0.07
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:83860 original size:9 final size:9
Alignment explanation
Indices: 83838--83916 Score: 61
Period size: 9 Copynumber: 8.7 Consensus size: 9
83828 ATAAATAGCC
*
83838 TTAATGATA
1 TTAATAATA
*
83847 ATAATAATA
1 TTAATAATA
83856 TTAATAATAA
1 TTAATAAT-A
*
83866 GT-ATAATA
1 TTAATAATA
* **
83874 CTAATGGTA
1 TTAATAATA
83883 TTAATTAATA
1 TTAA-TAATA
* *
83893 ATAATGATA
1 TTAATAATA
83902 TTAATAATA
1 TTAATAATA
83911 TTAATA
1 TTAATA
83917 TTAAATATTG
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
8 2 0.04
9 43 0.81
10 8 0.15
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (9 bp):
TTAATAATA
Found at i:86432 original size:201 final size:200
Alignment explanation
Indices: 86048--86680 Score: 867
Period size: 201 Copynumber: 3.2 Consensus size: 200
86038 AAATGGATAG
* * * * *
86048 CTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGGCTCGATGTAAGCAAATCTTCGAATCCT
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAGGGCTCGATGTGAGTAAATCTTCGAACCCC
* * *
86113 AGCTTTCTGATGAGATACTGAGAAGCAGGGCAAAGCAATAAAAGGTTAGCTT-TCTGATGAGATA
66 AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCT-TGATGAGATA
* * *
86177 CTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAGAGAAGCGAATTGAAACAAGTAAGGC
130 CTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGC
*
86242 GATTAT
195 GATCAT
* *
86248 CTTCCTAATGAGATACAGAGAAGAATACCAACTCAGGGCTCGATGTGAGTAAATTTTCGAACCCC
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAGGGCTCGATGTGAGTAAATCTTCGAACCCC
* * *
86313 AACTTCCTGATGAGATACTGAGAAGCATGTCGAATCAATAAAATGGTTAGCTTCTTGATGAGATA
66 AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA-GGTTAGCTTCTTGATGAGATA
86378 CTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGC
130 CTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGC
86443 -AGTCAT
195 GA-TCAT
* * * * * *
86449 CTTCCTGATGGGATACAGAGAAGTATACCAACTC-GACGCTCAATGCGAGTAAATCTTCTAACCC
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAG-GGCTCGATGTGAGTAAATCTTCGAACCC
* * *
86513 CAGCTTCCTGATGAGATACTGAGAAGAAGGTTGAAGCAATAAAACGGTTAGCTTCCTGATGAGAT
65 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA-GGTTAGCTTCTTGATGAGAT
* * * * * ** *
86578 ACAGAGAAGTTGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGTGGATTCAAACAAACGATG
129 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
86643 CGATCAT
194 CGATCAT
* * *
86650 TTTCCTGATGAGATACTGAGAAGAAAACCAA
1 CTTCCTGATGAGATACAGAGAAGAATACCAA
86681 ATCAAACCCA
Statistics
Matches: 383, Mismatches: 45, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
200 97 0.25
201 284 0.74
202 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (200 bp):
CTTCCTGATGAGATACAGAGAAGAATACCAACTCAGGGCTCGATGTGAGTAAATCTTCGAACCCC
AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCTTGATGAGATAC
TGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGCG
ATCAT
Found at i:86864 original size:158 final size:158
Alignment explanation
Indices: 86564--86902 Score: 509
Period size: 158 Copynumber: 2.1 Consensus size: 158
86554 AAACGGTTAG
* * *
86564 CTTCCTGATGAGATACAGAGAAGTTGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGTGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAACTGGAT
* * *
86629 TCAAACAAACGATGCGATCATTTTCCTGATGAGATACTGAGAAGAAAACCAAATCAAACCCATGC
66 TCAAACAAACGATGCGATCATCTACCTGATGAGATACTGAGAAGAAAACCAAATCAAACCCACGC
* * *
86694 TCGATTAAAGCAAATCTTTGAATCCCAA
131 TCGATGAAAGCAAATCTTCGAACCCCAA
* * *
86722 CTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAACT-GA
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAG-AACTGGA
* * *
86786 TTGAAACAAGCGATGCGATCATCTACCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
65 TTCAAACAAACGATGCGATCATCTACCTGATGAGATACTGAGAAGAAAACCAAATCAAACCCACG
* *
86851 CTCGATGAGAGCAAATCTTCGAACCCCAG
130 CTCGATGAAAGCAAATCTTCGAACCCCAA
86880 CTTCCTGATGAGATACTGAGAAG
1 CTTCCTGATGAGATACTGAGAAG
86903 CAAGTCGAAG
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
158 159 0.98
159 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (158 bp):
CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAACTGGAT
TCAAACAAACGATGCGATCATCTACCTGATGAGATACTGAGAAGAAAACCAAATCAAACCCACGC
TCGATGAAAGCAAATCTTCGAACCCCAA
Found at i:87317 original size:201 final size:201
Alignment explanation
Indices: 86722--87509 Score: 979
Period size: 201 Copynumber: 3.9 Consensus size: 201
86712 TGAATCCCAA
* * * *
86722 CTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAACTGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
* * * * * *
86787 TGAAACAAGCGATG-CGATCATCTACCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
66 TGAAACAAGTGA-GACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTC--A--C-CG
*
86851 CTCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAA
125 CTCGATGAGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAA
*
86916 TAAAACAGTTAG
190 TAAAACGGTTAG
* * * *
86928 CTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTAATGAGGTACAGAGAAGCGAAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
* * **
86993 TGAAA-AAGTAAGACGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAGGGCTCGAT
66 TGAAACAAGTGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCACCGCTCGAT
* * * * * * *
87057 GTGAGAAAATTTTCGAACCTCAACTTCCTGATGAGATACTGAGAAACATGTCGAAGCAATAAAAT
131 GAGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAAC
87122 GGTTAG
196 GGTTAG
*
87128 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGCGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
* * * * *
87193 TGAAACAAGTTAGGCAGTCATCTTCCTGATGGGATACAGAGAAGTATACCAACTCGA-CGCTCGA
66 TGAAACAAGTGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTC-ACCGCTCGA
* * * * *
87257 TGCGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAA
130 TGAGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAA
87322 CGGTTAG
195 CGGTTAG
* * * *
87329 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTTCTGATGAGAAACAGAGAAGAGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
* * * * * *
87394 TAAAACAAATGATACGGTCATCTTCCTGATGAGATACTGAGAAGAAAACCAAATCAAACCCATGC
66 TGAAACAAGTGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTC--A-CC--GC
* * * *
87459 TCGATTAGAGCAAATCTTTGAATCCCAACTTCTTGATGAGATACTGAGAAG
126 TCGATGAGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAG
87510 TGGACCAAAT
Statistics
Matches: 502, Mismatches: 72, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
200 134 0.27
201 216 0.43
202 2 0.00
203 1 0.00
204 2 0.00
205 39 0.08
206 108 0.22
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (201 bp):
CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
TGAAACAAGTGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCACCGCTCGAT
GAGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAAC
GGTTAG
Found at i:87555 original size:765 final size:766
Alignment explanation
Indices: 86085--87809 Score: 2933
Period size: 765 Copynumber: 2.3 Consensus size: 766
86075 CCAACTCAGG
* * * * * *
86085 GCTCGATGTA-AGCAAATCTTCGAATCCTAGCTTTCTGATGAGATACTGAGAAGCAGGGCAAAGC
1 GCTCGATG-AGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGC
* *
86149 AATAAAA-GGTTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGT
65 AATAAAACAGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGT
* * *
86213 ACAGAGAAGCGAATTGAAACAAGTAAGGCGATTATCTTCCTAATGAGATACAGAGAAGAATACCA
130 ACAGAGAAGCGAATTGAAACAAGTAAGACGGTTATCTTCCTGATGAGATACAGAGAAGAATACCA
* *
86278 ACTCAGGGCTCGATGTGAGTAAATTTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCATGT
195 ACTCAGGGCTCGATGTGAGAAAATTTTCGAACCCCAACTTCCTGATGAGATACTGAGAAACATGT
* *
86343 CGAATCAATAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGA
260 CGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGA
86408 TGAGATACAGAGAAGCGGATTGAAACAAGTGAGGCAGTCATCTTCCTGATGGGATACAGAGAAGT
325 TGAGATACAGAGAAGCGGATTGAAACAAGTGAGGCAGTCATCTTCCTGATGGGATACAGAGAAGT
*
86473 ATACCAACTCGACGCTCAATGCGAGTAAATCTTCTAACCCCAGCTTCCTGATGAGATACTGAGAA
390 ATACCAACTCGACGCTCAATGCGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAA
* *
86538 GAAGGTTGAAGCAATAAAACGGTTAGCTTCCTGATGAGATACAGAGAAGTTGACCAAATTCGTCT
455 GAAGGTTGAAGCAATAAAACGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCATCT
* * * *
86603 TCCTGATGAGAAACAGAGAAGTGGATTCAAACAAACGATGCGATCATTTTCCTGATGAGATACTG
520 TCCTGATGAGAAACAGAGAAGAGGATTAAAACAAACGATACGATCATCTTCCTGATGAGATACTG
86668 AGAAGAAAACCAAATCAAACCCATGCTCGATTAAAGCAAATCTTTGAATCCCAACTTCTTGATGA
585 AGAAGAAAACCAAATCAAACCCATGCTCGATTAAAGCAAATCTTTGAATCCCAACTTCTTGATGA
86733 GATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAACTGATTGAAACAAGCG
650 GATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAACTGATTGAAACAAGCG
86798 ATGCGATCATCTACCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
715 ATGCGATCATCTACCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
86850 GCTCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCA
1 GCTCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCA
* *
86915 ATAAAACAGTTAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTAATGAGGTA
66 ATAAAACAGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTA
86980 CAGAGAAGCGAATTGAAA-AAGTAAGACGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAA
131 CAGAGAAGCGAATTGAAACAAGTAAGACGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAA
*
87044 CTCAGGGCTCGATGTGAGAAAATTTTCGAACCTCAACTTCCTGATGAGATACTGAGAAACATGTC
196 CTCAGGGCTCGATGTGAGAAAATTTTCGAACCCCAACTTCCTGATGAGATACTGAGAAACATGTC
*
87109 GAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGAT
261 GAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAT
*
87174 GAGATACAGAGAAGCGGATTGAAACAAGTTAGGCAGTCATCTTCCTGATGGGATACAGAGAAGTA
326 GAGATACAGAGAAGCGGATTGAAACAAGTGAGGCAGTCATCTTCCTGATGGGATACAGAGAAGTA
*
87239 TACCAACTCGACGCTCGATGCGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG
391 TACCAACTCGACGCTCAATGCGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG
* *
87304 CAGGTTGAAGCAATAAAACGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTT
456 AAGGTTGAAGCAATAAAACGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCATCTT
* * *
87369 TCTGATGAGAAACAGAGAAGAGGATTAAAACAAATGATACGGTCATCTTCCTGATGAGATACTGA
521 CCTGATGAGAAACAGAGAAGAGGATTAAAACAAACGATACGATCATCTTCCTGATGAGATACTGA
*
87434 GAAGAAAACCAAATCAAACCCATGCTCGATTAGAGCAAATCTTTGAATCCCAACTTCTTGATGAG
586 GAAGAAAACCAAATCAAACCCATGCTCGATTAAAGCAAATCTTTGAATCCCAACTTCTTGATGAG
*
87499 ATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAG-AAGTGGATTGAAACAAGCG
651 ATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAACT-GATTGAAACAAGCG
* *
87563 ATGCGATCATCTACCTGATGAGATATTGAGAAGAATACCAAATCAAACCCAC
715 ATGCGATCATCTACCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
* *
87615 GTTCGTTGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCA
1 GCTCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCA
* * **
87680 ATACAACAGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTCTGATGAGAAA
66 ATAAAACAGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTA
* * * *
87745 CAGAGAAGC-AGATTGAAACAA--ACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGAC
131 CAGAGAAGCGA-ATTGAAACAAGTAAGA--CGGTTATCTTCCTGATGAGATACAGAGAAGAATAC
87807 CAA
193 CAA
87810 ATCAAACCCA
Statistics
Matches: 904, Mismatches: 49, Indels: 13
0.94 0.05 0.01
Matches are distributed among these distances:
764 8 0.01
765 787 0.87
766 109 0.12
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (766 bp):
GCTCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCA
ATAAAACAGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTA
CAGAGAAGCGAATTGAAACAAGTAAGACGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAA
CTCAGGGCTCGATGTGAGAAAATTTTCGAACCCCAACTTCCTGATGAGATACTGAGAAACATGTC
GAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAT
GAGATACAGAGAAGCGGATTGAAACAAGTGAGGCAGTCATCTTCCTGATGGGATACAGAGAAGTA
TACCAACTCGACGCTCAATGCGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG
AAGGTTGAAGCAATAAAACGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCATCTT
CCTGATGAGAAACAGAGAAGAGGATTAAAACAAACGATACGATCATCTTCCTGATGAGATACTGA
GAAGAAAACCAAATCAAACCCATGCTCGATTAAAGCAAATCTTTGAATCCCAACTTCTTGATGAG
ATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAACTGATTGAAACAAGCGA
TGCGATCATCTACCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
Found at i:87627 original size:158 final size:158
Alignment explanation
Indices: 87329--87667 Score: 491
Period size: 158 Copynumber: 2.1 Consensus size: 158
87319 AAACGGTTAG
*
87329 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTTCTGATGAGAAACAGAGAAGAGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGAAACAGAGAAGAGGAT
* * * *
87394 TAAAACAAATGATACGGTCATCTTCCTGATGAGATACTGAGAAGAAAACCAAATCAAACCCATGC
66 TAAAACAAACGATACGATCATCTACCTGATGAGATACTGAGAAGAAAACCAAATCAAACCCACGC
* *
87459 TCGATTAGAGCAAATCTTTGAATCCCAA
131 TCGATTAGAGCAAATCTTCGAACCCCAA
* ** * *
87487 CTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGTGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGAAACAGAGAAGAGGAT
* * * * * *
87552 TGAAACAAGCGATGCGATCATCTACCTGATGAGATATTGAGAAGAATACCAAATCAAACCCACGT
66 TAAAACAAACGATACGATCATCTACCTGATGAGATACTGAGAAGAAAACCAAATCAAACCCACGC
*
87617 TCG-TTGAGAGCAAATCTTCGAACCCCAG
131 TCGATT-AGAGCAAATCTTCGAACCCCAA
87645 CTTCCTGATGAGATACTGAGAAG
1 CTTCCTGATGAGATACTGAGAAG
87668 CAAGTCGAAG
Statistics
Matches: 160, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
157 2 0.01
158 158 0.99
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (158 bp):
CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGAAACAGAGAAGAGGAT
TAAAACAAACGATACGATCATCTACCTGATGAGATACTGAGAAGAAAACCAAATCAAACCCACGC
TCGATTAGAGCAAATCTTCGAACCCCAA
Found at i:87750 original size:206 final size:206
Alignment explanation
Indices: 87487--87873 Score: 612
Period size: 206 Copynumber: 1.9 Consensus size: 206
87477 TGAATCCCAA
* * * **
87487 CTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGTGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCAGAT
* * * *
87552 TGAAACAAGCGATGCGATCATCTACCTGATGAGATATTGAGAAGAATACCAAATCAAACCCACGT
66 TGAAACAAACGATGCGATCATCTACCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGC
* *
87617 TCGTTGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAAT
131 TCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAAGTCGAAGCAAT
87682 ACAACAGTTAG
196 ACAACAGTTAG
*
87693 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTCTGATGAGAAACAGAGAAGCAGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCAGAT
* *
87758 TGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGC
66 TGAAACAAACGATGCGATCATCTACCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGC
* * * *
87823 TCGATGAGAGCAAATCTTTGAATCTCAGCTTCTTGATGAGATACTAAGAAG
131 TCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAG
87874 TGGACCAAAT
Statistics
Matches: 163, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
206 163 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (206 bp):
CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCAGAT
TGAAACAAACGATGCGATCATCTACCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGC
TCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAAGTCGAAGCAAT
ACAACAGTTAG
Found at i:87797 original size:364 final size:359
Alignment explanation
Indices: 87128--87928 Score: 1219
Period size: 364 Copynumber: 2.2 Consensus size: 359
87118 AAATGGTTAG
*
87128 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGCGGAT
1 CTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGCGGAT
** * * * * * *
87193 TGAAACAAGTTAGGCAGTCATCTTCCTGATGGGATACAGAGAAGTATACCAACTCGACGCTCGAT
66 TGAAACAAGCGATGCAGTCATCTACCTGATGAGATACAGAGAAGAATACCAACCCCACGCTCGAT
* * * *
87258 GCGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAAC
131 GAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAAC
*
87323 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTTCTGATGAGAAACAGAGAA
196 AGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTTCTGATGAGAAACAGAGAA
*
87388 GAGGATTAAAACAAATGATACGGTCATCTTCCTGATGAGATACTGAGAAGAAAACCAAATCAAAC
261 GAGGATTAAAACAAACGATACGGTCATCTTCCTGATGAGATACTGAGAAGAAAACCAAATCAAAC
* *
87453 CCATGCTCGATTAGAGCAAATCTTTGAATCCCAA
326 CCACGCTCGATGAGAGCAAATCTTTGAATCCCAA
*
87487 CTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGTGGAT
1 CTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGCGGAT
**
87552 TGAAACAAGCGATGC-GATCATCTACCTGATGAGATATTGAGAAGAATACCAAATCAAACCCACG
66 TGAAACAAGCGATGCAG-TCATCTACCTGATGAGATACAGAGAAGAATACC-AA-C---CCCACG
* *
87616 TTCGTTGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAA
125 CTCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAA
* *
87681 TACAACAGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTCTGATGAGAAAC
190 TAAAACAGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTTCTGATGAGAAAC
* * *
87746 AGAGAAGCA-GATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAA
255 AGAGAAG-AGGATTAAAACAAACGATACGGTCATCTTCCTGATGAGATACTGAGAAGAAAACCAA
* *
87810 ATCAAACCCACGCTCGATGAGAGCAAATCTTTGAATCTCAG
319 ATCAAACCCACGCTCGATGAGAGCAAATCTTTGAATCCCAA
* * * * *
87851 CTTCTTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAATAGAGAAGCAGAT
1 CTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGCGGAT
87916 TGAAACAAGCGAT
66 TGAAACAAGCGAT
87929 ACTGAGAAGT
Statistics
Matches: 400, Mismatches: 35, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
358 1 0.00
359 103 0.26
360 2 0.00
361 1 0.00
364 292 0.73
365 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (359 bp):
CTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGCGGAT
TGAAACAAGCGATGCAGTCATCTACCTGATGAGATACAGAGAAGAATACCAACCCCACGCTCGAT
GAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAAC
AGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTTCTGATGAGAAACAGAGAA
GAGGATTAAAACAAACGATACGGTCATCTTCCTGATGAGATACTGAGAAGAAAACCAAATCAAAC
CCACGCTCGATGAGAGCAAATCTTTGAATCCCAA
Found at i:88453 original size:6 final size:6
Alignment explanation
Indices: 88442--88537 Score: 85
Period size: 6 Copynumber: 16.7 Consensus size: 6
88432 AGCCTAACAG
* * * *
88442 AATTTA AATTT- ATTTTA AAATTA AATTT- ATTTTA AGTTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
88487 ACTTAA AATTTA AATTT- -ATTATA AATTTA AGTTTA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATT-TA AATTTA AATTTA AATTTA AATTTA
88534 AATT
1 AATT
88538 AATGTCCAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
4 3 0.04
5 12 0.17
6 53 0.75
7 3 0.04
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:88467 original size:17 final size:17
Alignment explanation
Indices: 88442--88537 Score: 120
Period size: 17 Copynumber: 5.6 Consensus size: 17
88432 AGCCTAACAG
88442 AATTTAAATTTATTTTA
1 AATTTAAATTTATTTTA
*
88459 AAATTAAATTTATTTTA
1 AATTTAAATTTATTTTA
* * *
88476 AGTTTAAATTTACTTAA
1 AATTTAAATTTATTTTA
*
88493 AATTTAAATTTATTATA
1 AATTTAAATTTATTTTA
* *
88510 AATTTAAGTTTAAATTTA
1 AATTTAAATTT-ATTTTA
88528 AATTTAAATT
1 AATTTAAATT
88538 AATGTCCAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
17 52 0.80
18 13 0.20
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (17 bp):
AATTTAAATTTATTTTA
Found at i:100647 original size:4 final size:4
Alignment explanation
Indices: 100633--100662 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
100623 AGAGGAAGGG
*
100633 CCTC TCTC CCTC CCTC CCTC CCTC CCTC CC
1 CCTC CCTC CCTC CCTC CCTC CCTC CCTC CC
100663 AATATTATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (4 bp):
CCTC
Found at i:103202 original size:33 final size:33
Alignment explanation
Indices: 103146--103214 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
103136 TCTTTTGTCA
103146 AGATTTGGGTGAGAAGGACTACAGCTTTGAGACG
1 AGATTTGGGTGAGAAGGACTACAGCTTTGAGA-G
103180 AGATTTGGG-GA-AAGGGACTACAGCTTTGAGAG
1 AGATTTGGGTGAGAA-GGACTACAGCTTTGAGAG
103212 AGA
1 AGA
103215 GTGTGTTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 6 0.18
33 19 0.56
34 9 0.26
ACGTcount: A:0.32, C:0.10, G:0.36, T:0.22
Consensus pattern (33 bp):
AGATTTGGGTGAGAAGGACTACAGCTTTGAGAG
Found at i:103886 original size:58 final size:58
Alignment explanation
Indices: 103796--103913 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
103786 TCTATAAAAT
103796 AATAGCCTGATGATAATAAGTCAATGACATCACCCACAACACAAAGACTTTAAACTGC
1 AATAGCCTGATGATAATAAGTCAATGACATCACCCACAACACAAAGACTTTAAACTGC
103854 AATAGCCTGATGATAATAAGTCAATGACATCACCCACAACACAAAGACTTTAAACTGC
1 AATAGCCTGATGATAATAAGTCAATGACATCACCCACAACACAAAGACTTTAAACTGC
103912 AA
1 AA
103914 GAAGAAATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (58 bp):
AATAGCCTGATGATAATAAGTCAATGACATCACCCACAACACAAAGACTTTAAACTGC
Found at i:122498 original size:92 final size:91
Alignment explanation
Indices: 122390--122574 Score: 361
Period size: 92 Copynumber: 2.0 Consensus size: 91
122380 AAATGATCAG
122390 TTTACTTTTTAATTTAATGTAAAATGACTAATTTACTCATTTAAAAAAAAAAAAAAGAATAAAAT
1 TTTACTTTTTAATTTAATGTAAAATGACTAATTTACTCATTTAAAAAAAAAAAAAAGAATAAAAT
122455 ACAATCTATCTCCTAATATAAAAATC
66 ACAATCTATCTCCTAATATAAAAATC
122481 NTTTACTTTTTAATTTAATGTAAAATGACTAATTTACTCATTTAAAAAAAAAAAAAAGAATAAAA
1 -TTTACTTTTTAATTTAATGTAAAATGACTAATTTACTCATTTAAAAAAAAAAAAAAGAATAAAA
122546 TACAATCTATCTCCTAATATAAAAATC
65 TACAATCTATCTCCTAATATAAAAATC
122573 TT
1 TT
122575 CATGACACTC
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 2 0.02
92 91 0.98
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (91 bp):
TTTACTTTTTAATTTAATGTAAAATGACTAATTTACTCATTTAAAAAAAAAAAAAAGAATAAAAT
ACAATCTATCTCCTAATATAAAAATC
Found at i:139007 original size:2 final size:2
Alignment explanation
Indices: 139000--139034 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
138990 TAGATTTGCA
139000 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
139035 TGTATATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:146646 original size:2 final size:2
Alignment explanation
Indices: 146641--146679 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
146631 ACATGTATAT
*
146641 AG AG AG AT 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 AG AG AG AG A
146680 AAATTAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (2 bp):
AG
Found at i:158470 original size:24 final size:23
Alignment explanation
Indices: 158436--158486 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
158426 ATTTGTATAT
*
158436 TTTAAATATATTTCATA-TTAAA
1 TTTAAATATATTTAATATTTAAA
158458 TTTAAACTAATATTTAATATTTAAA
1 TTTAAA-T-ATATTTAATATTTAAA
158483 TTTA
1 TTTA
158487 CAGATAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 1 0.04
24 9 0.36
25 9 0.36
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTAAATATATTTAATATTTAAA
Found at i:159328 original size:30 final size:30
Alignment explanation
Indices: 159285--159343 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
159275 NNNNNNAGAG
* * *
159285 AAAATATTAAATAATTGGTTGATAAAAAAT
1 AAAATATTAAATAATCGGGTGACAAAAAAT
159315 AAAATTATT-AATAATCGGGTGACAAAAAA
1 AAAA-TATTAAATAATCGGGTGACAAAAAA
159344 ATATTGAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (30 bp):
AAAATATTAAATAATCGGGTGACAAAAAAT
Done.