Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000031.1 Hibiscus syriacus cultivar Beakdansim tig00000052_pilon, 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: 150627
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:2199 original size:35 final size:35
Alignment explanation
Indices: 2153--2228 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
2143 AAAACAGTCC
* *
2153 TCAATTTCATTCTAAACACC-AATTTCCAAAGTAAT
1 TCAATTTCATTCTAAAC-CCTAAATTCCAAAATAAT
2188 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
2223 TCAATT
1 TCAATT
2229 AAATTCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 2 0.05
35 36 0.95
ACGTcount: A:0.41, C:0.22, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:2767 original size:129 final size:129
Alignment explanation
Indices: 2615--2859 Score: 409
Period size: 129 Copynumber: 1.9 Consensus size: 129
2605 TATTTATATA
* **
2615 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
2680 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATATTTATATATGCT
*
2744 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCATGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
2809 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAAT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAAT
2860 TAGAAGAAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 107 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (129 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATATTTATATATGCT
Found at i:3215 original size:28 final size:27
Alignment explanation
Indices: 3184--3246 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
3174 AGTTAATACA
*
3184 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
3212 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
3240 ATATTTT
1 ATATTTT
3247 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:3347 original size:16 final size:18
Alignment explanation
Indices: 3326--3359 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
3316 ATTTCTTATT
3326 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
3342 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
3360 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:3898 original size:20 final size:20
Alignment explanation
Indices: 3873--3911 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3863 TAGTAATTTT
3873 TAATAATAATTTAATAATTC
1 TAATAATAATTTAATAATTC
* *
3893 TAATAATTATTTTATAATT
1 TAATAATAATTTAATAATT
3912 TTTAAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATAATAATTTAATAATTC
Found at i:23998 original size:19 final size:20
Alignment explanation
Indices: 23974--24018 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
23964 TATTTACATA
*
23974 AATTTAATAATCATTT-TAT
1 AATTTAATAAACATTTATAT
23993 AATTTAATAAACATTTATAT
1 AATTTAATAAACATTTATAT
24013 ATATTT
1 A-ATTT
24019 TAAATGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.65
20 4 0.17
21 4 0.17
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTAATAAACATTTATAT
Found at i:30983 original size:18 final size:17
Alignment explanation
Indices: 30941--30980 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
30931 TATTGAATAA
*
30941 AATTTTTAATGAATTAT
1 AATTTTTAACGAATTAT
*
30958 AA-TTTTAACGAATTGT
1 AATTTTTAACGAATTAT
30974 AATTTTT
1 AATTTTT
30981 TAAAATTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (17 bp):
AATTTTTAACGAATTAT
Found at i:32113 original size:32 final size:31
Alignment explanation
Indices: 32035--32121 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 31
32025 TTAGTATTTT
* *
32035 TTTAAATAGTTATTATTTTTTATATTAATATA
1 TTTATATA-TTATTATTTTTTATATAAATATA
* *
32067 TTTATGTAAATATTATTTTTTAT-TAAAATAATA
1 TTTATAT-ATTATTATTTTTTATAT-AAAT-ATA
32100 TTTATATATTATTATTTATTTA
1 TTTATATATTATTATTT-TTTA
32122 GAATTATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
31 1 0.02
32 30 0.67
33 14 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (31 bp):
TTTATATATTATTATTTTTTATATAAATATA
Found at i:32119 original size:18 final size:18
Alignment explanation
Indices: 32012--32130 Score: 51
Period size: 18 Copynumber: 7.1 Consensus size: 18
32002 GTGGTAAGAA
* * *
32012 ATTTATTTTTATGTTAGT
1 ATTTATTTATATATTATT
* *
32030 ATTTTTTTAAATAGTTATT
1 ATTTATTTATATA-TTATT
*
32049 ATTT-TTTATAT-TAATAT
1 ATTTATTTATATATTAT-T
*
32066 ATTTATGTA-A-A-TATT
1 ATTTATTTATATATTATT
* *
32081 ATTT-TTTAT-TA-AAAT
1 ATTTATTTATATATTATT
*
32096 A-ATATTTATATATTATT
1 ATTTATTTATATATTATT
*
32113 ATTTATTTAGA-ATTATT
1 ATTTATTTATATATTATT
32130 A
1 A
32131 ATTTTTTTTG
Statistics
Matches: 74, Mismatches: 17, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
14 4 0.05
15 14 0.19
16 7 0.09
17 16 0.22
18 25 0.34
19 8 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (18 bp):
ATTTATTTATATATTATT
Found at i:32283 original size:17 final size:17
Alignment explanation
Indices: 32261--32314 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
32251 AATGTTAATA
32261 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
32278 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
32295 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
32312 TTT
1 TTT
32315 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:37327 original size:75 final size:75
Alignment explanation
Indices: 37168--37327 Score: 194
Period size: 75 Copynumber: 2.1 Consensus size: 75
37158 TCAACTATAA
* * * ** * *
37168 TAACATAATAGGTAACGCCTATTTTATTTTGCCGTTTACATTATTATTAATCTTTAAACAAACCA
1 TAACATAATACGTAACGCCTATTTTATTTTACCATTTACATTATTAACAACCTTCAAACAAACCA
* *
37233 GTAGTTATTT
66 GTAGATAATT
** * * *
37243 TAATGTAATACGTAGCGTCTATTTTATTTTACCATTTACATTATTAACAACCTTCAAACAAACCG
1 TAACATAATACGTAACGCCTATTTTATTTTACCATTTACATTATTAACAACCTTCAAACAAACCA
37308 GTAGATAATT
66 GTAGATAATT
37318 TAACATAATA
1 TAACATAATA
37328 TGTACACTTA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (75 bp):
TAACATAATACGTAACGCCTATTTTATTTTACCATTTACATTATTAACAACCTTCAAACAAACCA
GTAGATAATT
Found at i:37554 original size:74 final size:75
Alignment explanation
Indices: 37361--37557 Score: 245
Period size: 73 Copynumber: 2.7 Consensus size: 75
37351 ATAACGTCTA
* * * * *
37361 TTTAACAAAATATGTGGCGCATATTTTATTTTACCGTTTATATTATTAGTAACTTTTAATCAAAC
1 TTTAACATAATAGGTAGCGCATATTTTATTTTACCGTTTACATTATTAGTAACTTTTAATAAAAC
37426 CGGTACATAT
66 CGGTACATAT
* * * * * *
37436 TTTAACGTAATATGTAGCGCCTATTTTATTTTACC-ATTACATTATTAGTAATTTTTAA-AAAAT
1 TTTAACATAATAGGTAGCGCATATTTTATTTTACCGTTTACATTATTAGTAACTTTTAATAAAAC
**
37499 CGGTAGGTAT
66 CGGTACATAT
* *
37509 TTTAATATAATAGGTAGCGTATATTTTATTTTACCGTTTACATTATTAG
1 TTTAACATAATAGGTAGCGCATATTTTATTTTACCGTTTACATTATTAG
37558 CAACATTCAA
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
73 41 0.39
74 32 0.31
75 31 0.30
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (75 bp):
TTTAACATAATAGGTAGCGCATATTTTATTTTACCGTTTACATTATTAGTAACTTTTAATAAAAC
CGGTACATAT
Found at i:38617 original size:23 final size:23
Alignment explanation
Indices: 38581--38624 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38571 CAAAACAATG
** *
38581 TATTTAACGTAATAGGTAGCGTC
1 TATTTAACAAAATACGTAGCGTC
38604 TATTTAACAAAATACGTAGCG
1 TATTTAACAAAATACGTAGCG
38625 CCTGTTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (23 bp):
TATTTAACAAAATACGTAGCGTC
Found at i:38711 original size:75 final size:74
Alignment explanation
Indices: 38614--38847 Score: 299
Period size: 75 Copynumber: 3.1 Consensus size: 74
38604 TATTTAACAA
* * * * * *
38614 AATACGTAGCGCCTGTTTTATTTTACTGTTTACATTATTAATAATATTTAAAAAAACCAGTAGAT
1 AATAGGTAGTGCCTATTTTATTTTACCGTTTACATTATTAGTAAT-TTTAAACAAACCAGTAGAT
38679 ATTTTAACGT
65 ATTTTAACGT
* * *
38689 AATAGGTAGTGCCTATTTTATTTTACCGTTTACATTATCAGTAATCTTTAAACAAACCGGTACAT
1 AATAGGTAGTGCCTATTTTATTTTACCGTTTACATTATTAGTAAT-TTTAAACAAACCAGTAGAT
38754 ATTTTAACGT
65 ATTTTAACGT
* * *
38764 AATAGGTAATGCCTATTTTATTTTACCGTTTACATTATTAGTAACTTTCAAACAAA-CTGATAGA
1 AATAGGTAGTGCCTATTTTATTTTACCGTTTACATTATTAGTAA-TTTTAAACAAACCAG-TAGA
* *
38828 TAATTTAACAT
64 TATTTTAACGT
38839 AATAGGTAG
1 AATAGGTAG
38848 CACTTATTTA
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
74 2 0.01
75 136 0.98
76 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (74 bp):
AATAGGTAGTGCCTATTTTATTTTACCGTTTACATTATTAGTAATTTTAAACAAACCAGTAGATA
TTTTAACGT
Found at i:38895 original size:173 final size:174
Alignment explanation
Indices: 38681--39015 Score: 480
Period size: 173 Copynumber: 1.9 Consensus size: 174
38671 CAGTAGATAT
*
38681 TTTAACGTAATAGGTAGTGCCTATTTTATTTTACCGTTTACATTATCAGTAATC-TTTAAACAAA
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATCAGTAA-CATTTAAACAAA
* * * *
38745 CCGGTACA-TATTTTAACGTAATAGGTAATGCCTA-TTTTATTTTACCGTTTACATTATTAGTAA
65 CCGGTA-AGTATTTTAACGTAATAGGTAATACATATTTTTATTTTACCATTTACATTATTAATAA
* *
38808 CTTTCAAACAAA-CTGATAGATAATTTAACATAATAGGTAGCACTTA
129 CATTCAAACAAATCAG-TAGATAATTTAACATAATAGGTAGCACTTA
* * * *
38854 TTTAATGTAATATGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAAT
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATCAGTAACATTTAAACAAAC
* *
38919 CGGTAAGTATTTTAACGTAATAGGTAGTACATATTTTTATTTTACTATTTACATTATTAATAACA
66 CGGTAAGTATTTTAACGTAATAGGTAATACATATTTTTATTTTACCATTTACATTATTAATAACA
* *
38984 TTCAAACAAATCAGTAGGTAGTTTAACATAAT
131 TTCAAACAAATCAGTAGATAATTTAACATAAT
39016 TGATAGCGCC
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
172 2 0.01
173 86 0.60
174 53 0.37
175 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (174 bp):
TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATCAGTAACATTTAAACAAAC
CGGTAAGTATTTTAACGTAATAGGTAATACATATTTTTATTTTACCATTTACATTATTAATAACA
TTCAAACAAATCAGTAGATAATTTAACATAATAGGTAGCACTTA
Found at i:38933 original size:98 final size:98
Alignment explanation
Indices: 38750--38954 Score: 272
Period size: 98 Copynumber: 2.1 Consensus size: 98
38740 ACAAACCGGT
*
38750 ACATATTTTAACGTAATAGGTAATGCCTATTTTATTTTACCGTTTACATTATTAGTAACTTTCAA
1 ACATA-TTTAACGTAATAGGTAACGCCTATTTTATTTTACCGTTTACATTATTAGTAACTTTCAA
*
38815 ACAAACTGATAGATAATTTAACATAATAGGTAGC
65 ACAAACGGATAGATAATTTAACATAATAGGTAGC
* * * *
38849 ACTTATTTAATGTAATATGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACATTT-AA
1 ACATATTTAACGTAATAGGTAACGCCTATTTTATTTTACCGTTTACATTATTAGTAAC-TTTCAA
* * *
38913 ACAAATCGG-TA-AGTATTTTAACGTAATAGGTAGT
65 ACAAA-CGGATAGA-TAATTTAACATAATAGGTAGC
38947 ACATATTT
1 ACATATTT
38955 TTATTTTACT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
97 1 0.01
98 83 0.89
99 9 0.10
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (98 bp):
ACATATTTAACGTAATAGGTAACGCCTATTTTATTTTACCGTTTACATTATTAGTAACTTTCAAA
CAAACGGATAGATAATTTAACATAATAGGTAGC
Found at i:39030 original size:76 final size:75
Alignment explanation
Indices: 38868--39037 Score: 214
Period size: 76 Copynumber: 2.3 Consensus size: 75
38858 ATGTAATATG
* * * * *
38868 TAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAATCGGTAAGTATTTTA
1 TAGCGCCTATTTTATTTTACCATTTACATTATTAATAACATTCAAACAAATCAGTAAGTAGTTTA
* *
38933 ACGTAATAGG
66 ACATAATAGA
** * * *
38943 TAGTACATATTTTTATTTTACTATTTACATTATTAATAACATTCAAACAAATCAGTAGGTAGTTT
1 TAGCGCCTA-TTTTATTTTACCATTTACATTATTAATAACATTCAAACAAATCAGTAAGTAGTTT
*
39008 AACATAATTGA
65 AACATAATAGA
39019 TAGCGCCTATTTTATTTTA
1 TAGCGCCTATTTTATTTTA
39038 ACCTGTTAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
75 16 0.21
76 62 0.79
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (75 bp):
TAGCGCCTATTTTATTTTACCATTTACATTATTAATAACATTCAAACAAATCAGTAAGTAGTTTA
ACATAATAGA
Found at i:39461 original size:37 final size:37
Alignment explanation
Indices: 39350--39453 Score: 163
Period size: 37 Copynumber: 2.8 Consensus size: 37
39340 AAGATAGCGT
* *
39350 TAGAGTTTTACTAGGATTTAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
*
39387 TAGAATTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* *
39424 TAGAGTTCTACTATGATTCAAACTCCTAAA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAA
39454 TGTAGGATCC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:39917 original size:14 final size:14
Alignment explanation
Indices: 39890--39940 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
39880 ATTTCAACAG
39890 TATATTTATTATTATA
1 TATATTTA--ATTATA
39906 TATATTTAATTATA
1 TATATTTAATTATA
* * *
39920 TATTTTTATTTTTA
1 TATATTTAATTATA
39934 T-TATTTA
1 TATATTTA
39941 TTCTTTCGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 5 0.16
14 18 0.58
16 8 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATTTAATTATA
Found at i:40024 original size:17 final size:18
Alignment explanation
Indices: 39966--40027 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 18
39956 AATCTATATA
39966 TATATATTTTTATCACTAT
1 TATATA-TTTTATCACTAT
39985 TATATATTTTAT-A-TAT
1 TATATATTTTATCACTAT
40001 TACTATATTTTATCACTAT
1 TA-TATATTTTATCACTAT
40020 GTATATAT
1 -TATATAT
40028 ATTTTTGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.13
17 11 0.28
18 7 0.18
19 14 0.36
20 2 0.05
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (18 bp):
TATATATTTTATCACTAT
Found at i:40025 original size:36 final size:34
Alignment explanation
Indices: 39960--40027 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 34
39950 CATTTTAATC
39960 TATATATATATATTTTTATCACTATTATATATTT
1 TATATATATATATTTTTATCACTATTATATATTT
39994 TATATAT-TACTATATTTTATCACTATGTATATAT
1 TATATATATA-TAT-TTTTATCACTAT-TATATAT
40028 ATTTTTGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 2 0.06
34 10 0.32
35 12 0.39
36 7 0.23
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.56
Consensus pattern (34 bp):
TATATATATATATTTTTATCACTATTATATATTT
Found at i:40133 original size:16 final size:16
Alignment explanation
Indices: 40093--40157 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
40083 CATATATGTA
*
40093 TATTTTTTTTC-TTTT
1 TATTTATTTTCATTTT
40108 CTACTTTATTTTCATTTT
1 -TA-TTTATTTTCATTTT
40126 TATTTATTTT-ATATTT
1 TATTTATTTTCAT-TTT
* * *
40142 TCTTGATGTTCATTTT
1 TATTTATTTTCATTTT
40158 ATTACTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 2 0.05
16 23 0.56
17 12 0.29
18 4 0.10
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.72
Consensus pattern (16 bp):
TATTTATTTTCATTTT
Found at i:40228 original size:24 final size:24
Alignment explanation
Indices: 40201--40251 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
40191 TATATAGATT
40201 TTTACTATTCTATCT-ATTTTTTTA
1 TTTACTATT-TATCTCATTTTTTTA
* * *
40225 TTTATTATTTTTTTCATTTTTTTA
1 TTTACTATTTATCTCATTTTTTTA
40249 TTT
1 TTT
40252 TCATGTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTACTATTTATCTCATTTTTTTA
Found at i:40252 original size:7 final size:8
Alignment explanation
Indices: 40215--40252 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
40205 CTATTCTATC
40215 TATTTTTT
1 TATTTTTT
*
40223 TA-TTTAT
1 TATTTTTT
40230 TATTTTTT
1 TATTTTTT
40238 TCATTTTTT
1 T-ATTTTTT
40247 TATTTT
1 TATTTT
40253 CATGTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 12 0.46
9 8 0.31
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
TATTTTTT
Found at i:40321 original size:28 final size:30
Alignment explanation
Indices: 40267--40322 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
40257 TTGAATCTTA
* **
40267 TTTCCTTTTTTCTCTCTCAATTGTATTTGT
1 TTTCATTTTTTCTCTCTCAATCATATTTGT
40297 TTTCATTTTTTCTCTCT-AA-CATATTT
1 TTTCATTTTTTCTCTCTCAATCATATTT
40323 CTTGACTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 2 0.09
30 16 0.70
ACGTcount: A:0.14, C:0.20, G:0.04, T:0.62
Consensus pattern (30 bp):
TTTCATTTTTTCTCTCTCAATCATATTTGT
Found at i:43692 original size:15 final size:15
Alignment explanation
Indices: 43672--43705 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
43662 CATTGTTTCT
43672 GAACCAAACATTTGA
1 GAACCAAACATTTGA
43687 GAACCAAACATTTGA
1 GAACCAAACATTTGA
43702 GAAC
1 GAAC
43706 ATGGAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.18
Consensus pattern (15 bp):
GAACCAAACATTTGA
Found at i:44302 original size:54 final size:55
Alignment explanation
Indices: 44214--44337 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 55
44204 CCCCATAGGA
** *
44214 GGAACCGATT-CCCCCTAAATGGTTTTGGCCCCGAGATTTCCAGAATGCTCGGAG
1 GGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGAGAATTCCAGAATGCTCGGAG
* *
44268 GGAACCGATTCCCCCCTAAACAGTTTT-GCTCCGAGAATTCCAGTATGCTCGGAG
1 GGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGAGAATTCCAGAATGCTCGGAG
*
44322 GGAACCGATCCCCCCC
1 GGAACCGATTCCCCCC
44338 AAGGGGGTAC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 49 0.78
55 14 0.22
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (55 bp):
GGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGAGAATTCCAGAATGCTCGGAG
Found at i:50152 original size:19 final size:19
Alignment explanation
Indices: 50128--50188 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 19
50118 TTTTGGTGCA
*
50128 GAGGGAATCGATCCCCCCT
1 GAGGGAACCGATCCCCCCT
*
50147 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGA-TCCCCC-CT
50168 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGA-TCCCCCC
50189 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 10 0.29
20 6 0.17
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.16
Consensus pattern (19 bp):
GAGGGAACCGATCCCCCCT
Found at i:52470 original size:18 final size:18
Alignment explanation
Indices: 52447--52482 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52437 TAATAAATTG
52447 AAGGTGTTAAATGTTTTA
1 AAGGTGTTAAATGTTTTA
52465 AAGGTGTTAAATGTTTTA
1 AAGGTGTTAAATGTTTTA
52483 CATAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (18 bp):
AAGGTGTTAAATGTTTTA
Found at i:53023 original size:75 final size:76
Alignment explanation
Indices: 52816--53021 Score: 272
Period size: 76 Copynumber: 2.7 Consensus size: 76
52806 CAAAGCCAAA
* * * * **
52816 AATTACAGATTGCTCAGAGGGAACCGATTCGCCCCATAGGAGGAACCGATTCCCCCTAAATGGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
52881 TTGGCCCCGAG
66 TTGGCCCCGAG
*
52892 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
* *
52957 TT-GCTCTGAG
66 TTGGCCCCGAG
* * * * *
52967 AATTCCAGTATGCTCGGAGGGAACCAATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
53022 CTTGTACAAC
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 17 0.15
75 38 0.33
76 60 0.52
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TTGGCCCCGAG
Found at i:53915 original size:17 final size:18
Alignment explanation
Indices: 53876--53922 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
53866 TGTTTCTGAC
**
53876 GGAATTGGAATCTGTGTA
1 GGAATTGGAATCTGTCCA
53894 GGAATTGGAATCTG-CCA
1 GGAATTGGAATCTGTCCA
53911 GGAATTGGAATC
1 GGAATTGGAATC
53923 CAATTCCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTCCA
Found at i:54254 original size:19 final size:19
Alignment explanation
Indices: 54211--54254 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
54201 AAATGACCAA
* *
54211 CAAATTCGCAACGCGATCT
1 CAAATTCGCAACACGAACT
54230 CAAATTCGCAACACGAACT
1 CAAATTCGCAACACGAACT
*
54249 CCAATT
1 CAAATT
54255 TTGTAACCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.11, T:0.20
Consensus pattern (19 bp):
CAAATTCGCAACACGAACT
Found at i:54318 original size:40 final size:40
Alignment explanation
Indices: 54274--54406 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 40
54264 AGTTTCCAAT
* *
54274 TTCGCAACGCGAATATGTAAAGCGCAACACAGAAGTCAAA
1 TTCGCAACGCGAATATGTAAATCGCAACACAAAAGTCAAA
* * *
54314 TTCGCAACGCGAATTTGTAAATCACAACACATAAGTCAAA
1 TTCGCAACGCGAATATGTAAATCGCAACACAAAAGTCAAA
* * *
54354 TTCACAACGTG-ATA-GCAAAATTCGCAACACAAAAGTCAAA
1 TTCGCAACGCGAATATG-TAAA-TCGCAACACAAAAGTCAAA
54394 TTCGCAACGCGAA
1 TTCGCAACGCGAA
54407 AGTCAAATTC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 71 0.91
41 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (40 bp):
TTCGCAACGCGAATATGTAAATCGCAACACAAAAGTCAAA
Found at i:54415 original size:40 final size:39
Alignment explanation
Indices: 54274--54421 Score: 156
Period size: 40 Copynumber: 3.7 Consensus size: 39
54264 AGTTTCCAAT
* *
54274 TTCGCAACGCGAATATGTAAAGCGCAACACAGAAGTCAAA
1 TTCGCAACGCGAATA-GTAAATCGCAACACAAAAGTCAAA
* * *
54314 TTCGCAACGCGAATTTGTAAATCACAACACATAAGTCAAA
1 TTCGCAACGCGAA-TAGTAAATCGCAACACAAAAGTCAAA
* * *
54354 TTCACAACGTG-ATAGCAAAATTCGCAACACAAAAGTCAAA
1 TTCGCAACGCGAATAG-TAAA-TCGCAACACAAAAGTCAAA
54394 TTCGCAACGCGAA-AGTCAAATTCGCAAC
1 TTCGCAACGCGAATAGT-AAA-TCGCAAC
54422 GCGAAACACA
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
38 2 0.02
39 4 0.04
40 82 0.91
41 2 0.02
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.18
Consensus pattern (39 bp):
TTCGCAACGCGAATAGTAAATCGCAACACAAAAGTCAAA
Found at i:54422 original size:20 final size:20
Alignment explanation
Indices: 54306--54427 Score: 108
Period size: 20 Copynumber: 6.1 Consensus size: 20
54296 CGCAACACAG
54306 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
* * *
54326 ATTTGT-AAA-TCACAACAC-A
1 A--AGTCAAATTCGCAACGCGA
* *
54345 TAAGTCAAATTCACAACGTGA
1 -AAGTCAAATTCGCAACGCGA
* * *
54366 TAG-CAAAATTCGCAACACAA
1 AAGTC-AAATTCGCAACGCGA
54386 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
54406 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
54426 AA
1 AA
54428 CACAATATTA
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
18 2 0.03
19 5 0.06
20 66 0.82
21 5 0.06
22 2 0.03
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Found at i:54978 original size:14 final size:14
Alignment explanation
Indices: 54946--54979 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
54936 ACACGAAAAT
54946 AAAAATCGCAACAC
1 AAAAATCGCAACAC
* *
54960 TAAAATCGCAACGC
1 AAAAATCGCAACAC
54974 AAAAAT
1 AAAAAT
54980 GAAAATCGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.24, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAAATCGCAACAC
Found at i:54979 original size:34 final size:34
Alignment explanation
Indices: 54926--54991 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
54916 TTTTGAAACT
* *
54926 TAAATTCGCAACACGAAAATAAAAATCGCAACAC
1 TAAAATCGCAACACAAAAATAAAAATCGCAACAC
* *
54960 TAAAATCGCAACGCAAAAATGAAAATCGCAAC
1 TAAAATCGCAACACAAAAATAAAAATCGCAAC
54992 GCGATTTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.14
Consensus pattern (34 bp):
TAAAATCGCAACACAAAAATAAAAATCGCAACAC
Found at i:56112 original size:17 final size:17
Alignment explanation
Indices: 56052--56113 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
56042 CTAAATGAAA
56052 ATATACAT-ACAAATAT
1 ATATACATAACAAATAT
*
56068 A-AT-CA-AACCAAAACAT
1 ATATACATAA-C-AAATAT
* *
56084 ACATACACAACAAATAT
1 ATATACATAACAAATAT
56101 ATATACATAACAA
1 ATATACATAACAA
56114 TGTTTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
14 3 0.08
15 3 0.08
16 7 0.19
17 18 0.50
18 3 0.08
19 2 0.06
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (17 bp):
ATATACATAACAAATAT
Found at i:56252 original size:25 final size:25
Alignment explanation
Indices: 56195--56244 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
56185 CATTATTTTC
*
56195 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
56220 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
56245 TAATTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:56391 original size:20 final size:20
Alignment explanation
Indices: 56366--56407 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
56356 TGCGAAAGGT
*
56366 AAGGTAAGTTCACAACGCGA
1 AAGGTAAATTCACAACGCGA
**
56386 AAGGTAAATTTGCAACGCGA
1 AAGGTAAATTCACAACGCGA
56406 AA
1 AA
56408 TAAGCGTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGGTAAATTCACAACGCGA
Found at i:56459 original size:20 final size:20
Alignment explanation
Indices: 56411--56459 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
56401 CGCGAAATAA
*
56411 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
***
56431 GCAACGCGAAAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
*
56451 GTGTTGCGA
1 GCGTTGCGA
56460 TTTTCGGTTT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAAATTC
Found at i:58877 original size:3 final size:3
Alignment explanation
Indices: 58871--58898 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
58861 TCTTCGGGGA
58871 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
58899 AGGGTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:59107 original size:24 final size:24
Alignment explanation
Indices: 59073--59126 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
59063 CCATCACATC
59073 ATCAAAATCCGAGTATTGAACAAG
1 ATCAAAATCCGAGTATTGAACAAG
* * **
59097 ATCAAAGTCCGGGTATTGGCCAAG
1 ATCAAAATCCGAGTATTGAACAAG
59121 ATCAAA
1 ATCAAA
59127 TTTTGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGAACAAG
Found at i:60169 original size:20 final size:20
Alignment explanation
Indices: 60140--60249 Score: 105
Period size: 20 Copynumber: 5.5 Consensus size: 20
60130 GAAATTCCGC
*
60140 GTTGCAAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
60160 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
* *
60180 GTTACGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
* * *
60200 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
* * *
60220 ATTGCAAATTTGACTTATGT
1 GTTGCGAATTTGACTTTTGT
60240 GTTGC-AATTT
1 GTTGCGAATTT
60250 ACAGATTCAC
Statistics
Matches: 69, Mismatches: 21, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
19 5 0.07
20 64 0.93
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:60271 original size:40 final size:40
Alignment explanation
Indices: 60137--60249 Score: 174
Period size: 40 Copynumber: 2.9 Consensus size: 40
60127 TTTGAAATTC
*
60137 CGCGTTGCAAATTTGACTTTTGTGTTGCGAATTTGACTAT
1 CGCGTTGCAAATTTGACTTATGTGTTGCGAATTTGACTAT
* * *
60177 CGCGTTACGAATTTGACTTCTGTGTTGCGAATTTGACTAT
1 CGCGTTGCAAATTTGACTTATGTGTTGCGAATTTGACTAT
*
60217 CGCATTGCAAATTTGACTTATGTGTTGC-AATTT
1 CGCGTTGCAAATTTGACTTATGTGTTGCGAATTT
60250 ACAGATTCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 5 0.08
40 61 0.92
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (40 bp):
CGCGTTGCAAATTTGACTTATGTGTTGCGAATTTGACTAT
Found at i:60893 original size:232 final size:229
Alignment explanation
Indices: 60430--60939 Score: 744
Period size: 232 Copynumber: 2.2 Consensus size: 229
60420 TTTGGTCTAC
** *
60430 TCGACCTGACCCGACCAAAATAAAGTTTCATTCGACCTGACCCGAAATAATAAAAAATTATTTTT
1 TCGACCTGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAAATAATAAAAAATTATTTTT
60495 ATTCAATAAAAACAATTACTTAATTGGAAAAAAATTATATATAAAGGGGTATTATAGTAATTATT
66 ATTCAATAAAAACAATTACTTAATTGGAAAAAAATTATATATAAAGGGGTATTATAGTAATTATT
* **
60560 CCTAAATATATAAGGTAAAATTATATATATTTTGGGTCGGGTGGGGTCGGATAATTTTCACCCTA
131 CCAAAATATATAAGGTAAAATTATATATATTTTGGGTCGGGCCGGGT--GAT-ATTTTCACCCTA
* * *
60625 AACCCGAACTCTACCTGAATTTCACACTTAAAAAAAA
193 AACCCGAACTCGACCCGAATATCACACTTAAAAAAAA
*
60662 TCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAAATAATAAAAAATTATTTTT
1 TCGACCTGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAAATAATAAAAAATTATTTTT
* * *
60727 ATTCAATAAAAACAGTGT-CTTAATT-GAAAACAAGTTATATATAGAGGGGTATTATTA-TAATT
66 ATTCAATAAAAACAAT-TACTTAATTGGAAAA-AAATTATATATAAAGGGGTATTA-TAGTAATT
60789 ATTCCAAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGCCGGGT-AT-TTTTCACCCT
128 ATTCCAAAATATATAAGGTAAAATTATATATATTTT-GGGTCGGGCCGGGTGATATTTTCACCCT
60852 AAACCCGAACTCGACCCGACCCAAATATCACACTT-AAAAAAA
192 AAACCCGAACTCGACCCG-----AATATCACACTTAAAAAAAA
*
60894 CCGACCTGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAA
1 TCGACCTGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAA
60940 TATATGAATT
Statistics
Matches: 254, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
228 26 0.10
230 2 0.01
231 5 0.02
232 195 0.77
233 26 0.10
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (229 bp):
TCGACCTGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAAATAATAAAAAATTATTTTT
ATTCAATAAAAACAATTACTTAATTGGAAAAAAATTATATATAAAGGGGTATTATAGTAATTATT
CCAAAATATATAAGGTAAAATTATATATATTTTGGGTCGGGCCGGGTGATATTTTCACCCTAAAC
CCGAACTCGACCCGAATATCACACTTAAAAAAAA
Found at i:61485 original size:29 final size:30
Alignment explanation
Indices: 61415--61490 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 30
61405 AATGTTAGAG
*
61415 AAAATAAATAAA-TAAATATTAATAAATCA
1 AAAATAAATAAATTAAATATTAATAAAACA
61444 AAAGA-AAGA-AAATTAAA-ATTAA-AAAACA
1 AAA-ATAA-ATAAATTAAATATTAATAAAACA
61472 TAAAATAAATAAA-TAAATA
1 -AAAATAAATAAATTAAATA
61491 AATAAAGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
28 11 0.28
29 22 0.56
30 6 0.15
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (30 bp):
AAAATAAATAAATTAAATATTAATAAAACA
Found at i:61644 original size:2 final size:2
Alignment explanation
Indices: 61637--61661 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61627 GAAGTAAATA
61637 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
61662 ATAAAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61767 original size:18 final size:18
Alignment explanation
Indices: 61719--61768 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 18
61709 ATTTATACAA
**
61719 AATAAATCAAAGAAAAAT
1 AATAAATCAAACTAAAAT
61737 AAT-AA--AAACTAAAAT
1 AATAAATCAAACTAAAAT
*
61752 AATAAATCAAATTAAAA
1 AATAAATCAAACTAAAA
61769 AGAAAACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 11 0.42
16 2 0.08
17 2 0.08
18 11 0.42
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.20
Consensus pattern (18 bp):
AATAAATCAAACTAAAAT
Found at i:61841 original size:11 final size:11
Alignment explanation
Indices: 61816--61849 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
61806 AAATATATTA
61816 AATAAAAATAAT
1 AATAAAAA-AAT
*
61828 AATAACAAAAT
1 AATAAAAAAAT
61839 AATAAAAAAAT
1 AATAAAAAAAT
61850 GAAATAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:64025 original size:165 final size:165
Alignment explanation
Indices: 63536--64097 Score: 724
Period size: 161 Copynumber: 3.4 Consensus size: 165
63526 TGATAGATAG
* * * * *
63536 CCCTTCTTGCCTTGGGCTATGCTGTAAATGATGTGCCTTGGAA-CTGAGCGTAGTCGAACTCG-G
1 CCCTTCTAGCCTTGAGCTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAG
* * * * **
63599 AGGTCTTTGGCAGATAGTCCTTCTAGCCTTAAGCTATGTTGCAAATGATATGCCTTAGAGCTGAG
66 -GGTCTTTGGCAGCTAGCCCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTAGAGCTGAG
* *
63664 CGTAGTCGAACTCGAAGGCCTTTTGGAGACAGATAA
130 CGTAGTCGAACTCGAAGGTCTTTTGGAGACAAATAA
* * **
63700 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTAAACTCGA-
1 CCCTTCTAGCCTTGAGCTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAG
63764 GG---TTGGCAGCTAGCCCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTAGAGCTGAGC
66 GGTCTTTGGCAGCTAGCCCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTAGAGCTGAGC
63826 GTAGTCGAACTCGAAGGTCTTTTGGAGACAAATAA
131 GTAGTCGAACTCGAAGGTCTTTTGGAGACAAATAA
* * * *
63861 CCATTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAG
1 CCCTTCTAGCCTTGAGCTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAG
* * * * *
63926 GGTCTTTAGTAGCTAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTAAGC
66 GGTCTTTGGCAGCTAGCCCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTAGAGCTGAGC
* ** *
63991 GTAGTCGAACTCAAAGGTCTTTTGTTGGCAAATAA
131 GTAGTCGAACTCGAAGGTCTTTTGGAGACAAATAA
* * * * * * * *
64026 CCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTTGAACTCGAA
1 CCCTTCTAGCCTTGAGCTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAG
64090 GGTCTTTG
66 GGTCTTTG
64098 TTGGCAGATA
Statistics
Matches: 351, Mismatches: 41, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
161 147 0.42
162 2 0.01
164 70 0.20
165 132 0.38
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
CCCTTCTAGCCTTGAGCTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAG
GGTCTTTGGCAGCTAGCCCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTAGAGCTGAGC
GTAGTCGAACTCGAAGGTCTTTTGGAGACAAATAA
Found at i:68054 original size:21 final size:17
Alignment explanation
Indices: 68009--68041 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
67999 AAAATGAAAA
68009 ATCCTACCCCACATGAT
1 ATCCTACCCCACATGAT
68026 AT-CTACCCCACATGAT
1 ATCCTACCCCACATGAT
68042 TTAATTCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.30, C:0.39, G:0.06, T:0.24
Consensus pattern (17 bp):
ATCCTACCCCACATGAT
Found at i:70070 original size:16 final size:16
Alignment explanation
Indices: 70049--70091 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
70039 GTTAAATTAG
70049 TTTAGGTTTTAGCTTA
1 TTTAGGTTTTAGCTTA
70065 TTTAGGTTTTAGCTTA
1 TTTAGGTTTTAGCTTA
70081 TTTAGGTTTTA
1 TTTAGGTTTTA
70092 TATTAATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.58
Consensus pattern (16 bp):
TTTAGGTTTTAGCTTA
Found at i:80436 original size:18 final size:18
Alignment explanation
Indices: 80409--80463 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
80399 AAGAAGAAAT
80409 AAAA-GAGAAAAAATGAA
1 AAAATGAGAAAAAATGAA
80426 AAAATGAGAAAAAA-G-A
1 AAAATGAGAAAAAATGAA
80442 AAAATGATGGAAAAAATGAA
1 AAAATGA--GAAAAAATGAA
80462 AA
1 AA
80464 GAAAAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 8 0.24
17 5 0.15
18 16 0.48
19 1 0.03
20 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAATGAGAAAAAATGAA
Found at i:80478 original size:36 final size:33
Alignment explanation
Indices: 80415--80489 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 33
80405 AAATAAAAGA
*
80415 GAAAAAATGAAAAAATGAGAAAAAAGAAAAATGATG
1 GAAAAAATGAAAAAA-GAAAAAAAAGAAAAA--ATG
80451 GAAAAAATGAAAAGAA-AAAAAAGAAGAAAAAATG
1 GAAAAAATGAAAA-AAGAAAAAA-AAGAAAAAATG
80485 GAAAA
1 GAAAA
80490 GGGAAGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
34 8 0.22
35 5 0.14
36 21 0.58
37 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (33 bp):
GAAAAAATGAAAAAAGAAAAAAAAGAAAAAATG
Found at i:80537 original size:8 final size:7
Alignment explanation
Indices: 80497--80522 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
80487 AAAGGGAAGA
80497 AAAAATG
1 AAAAATG
80504 AAAAATG
1 AAAAATG
80511 AAAAATG
1 AAAAATG
80518 AAAAA
1 AAAAA
80523 AGAGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:80540 original size:43 final size:42
Alignment explanation
Indices: 80417--80544 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 42
80407 ATAAAAGAGA
**
80417 AAAAATGAAAAAATGAGAAAAAAGAAAAAT-GATGGAAAAAATG
1 AAAAATG-AAAAATGA-AAAAAAGAAAAATGGAAAGAAAAAATG
* * * *
80460 AAAAGA-AAAAAAAGAAGAAAAAATGGAAAA-GGGAAGAAAAAATG
1 AAAA-ATGAAAAATG-A-AAAAAA-GAAAAATGGAAAGAAAAAATG
80504 AAAAATGAAAAATGAAAAAAGAGAAAAATGGAAAGAAAAAA
1 AAAAATGAAAAATGAAAAAA-AGAAAAATGGAAAGAAAAAA
80545 AAGAGAAATA
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
42 16 0.24
43 26 0.38
44 26 0.38
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.08
Consensus pattern (42 bp):
AAAAATGAAAAATGAAAAAAAGAAAAATGGAAAGAAAAAATG
Found at i:80557 original size:25 final size:25
Alignment explanation
Indices: 80410--80560 Score: 113
Period size: 25 Copynumber: 6.0 Consensus size: 25
80400 AGAAGAAATA
*
80410 AAAG-AGAAAAAA-TGAAAAAATGAG
1 AAAGAAGAAAAAAGAGAAAAAATG-G
* * *
80434 AAAAAAGAAAAATGATGGAAAAAATGA
1 AAAGAAGAAAAAAGA--GAAAAAATGG
80461 AAAGAA-AAAAAAGAAGAAAAAATGG
1 AAAGAAGAAAAAAG-AGAAAAAATGG
*
80486 AAAAGGGAAGAAAAAA-TG-AAAAAT-G
1 -AAA--GAAGAAAAAAGAGAAAAAATGG
80511 AAA-AATGAAAAAAGAG-AAAAATGG
1 AAAGAA-GAAAAAAGAGAAAAAATGG
80535 AAAGAA-AAAAAAGAGAAATAAATGG
1 AAAGAAGAAAAAAGAGAAA-AAATGG
80560 A
1 A
80561 GGGTTCAAGA
Statistics
Matches: 103, Mismatches: 9, Indels: 29
0.73 0.06 0.21
Matches are distributed among these distances:
21 2 0.02
22 7 0.07
23 16 0.16
24 12 0.12
25 26 0.25
26 15 0.15
27 7 0.07
28 12 0.12
29 6 0.06
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.08
Consensus pattern (25 bp):
AAAGAAGAAAAAAGAGAAAAAATGG
Found at i:82092 original size:161 final size:161
Alignment explanation
Indices: 81884--82402 Score: 597
Period size: 161 Copynumber: 3.2 Consensus size: 161
81874 GTTGAAGATT
* * *
81884 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA-TT-GAGTCCTATACT
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTTCGAGTTCTATACT
* ** *
81947 CTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGTTCAAGTTCTATACTCTCTGAAGGA
66 CTCTGAAGGAATAGAGAGCGGACCCGTT-ATTGAAGATTGTTCAAGTTCTATACTCTCTGAAGGA
* * *
82012 ATAGAGAGCGGACCCGTTTCATGAAGATTGTTC
130 ATAGAGAGCGAACACATTT-ATGAAGATTGTTC
* * *
82045 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACACGTTTGTTGAAGATTGTTCGAGTTCTATA
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGA-T-TTCGAGTTCTATA
* * * *
82110 CTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATGAAGATTGCTCGAGTTCTATACTCTCTGAAG
64 CTCTCTGAAGGAATAGAGAGCGGACCCGTTAT-TGAAGATTGTTCAAGTTCTATACTCTCTGAAG
* * * *
82175 GAATAGGGAGCGAACACATTTGTTAA-A-TATT-
128 GAATAGAGAGCGAACACATTTATGAAGATTGTTC
* *
82206 GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGAC-CTGTTTATTGAAGATTTTCCGAGTTCTAT
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAC-GTTTGTTGAAGA-TTT-CGAGTTCTAT
*
82270 ACTCTCTAAAGGAATAGAGAGCGGACCCGCTTTATTGAAGATTGTTCAAGTAT-TATACTCTCTG
63 ACTCTCTGAAGGAATAGAGAGCGGACCCG--TTATTGAAGATTGTTCAAGT-TCTATACTCTCTG
**
82334 AATAAATAGAGAGC-ATACACATTTTATGAAGATTGTTC
125 AAGGAATAGAGAGCGA-ACACA-TTTATGAAGATTGTTC
**
82372 GAGTTTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTCCTATACTCT-CTGAAGGAATAGGGAGC
82403 AGACTCGTCA
Statistics
Matches: 303, Mismatches: 39, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
160 3 0.01
161 126 0.42
162 44 0.15
163 11 0.04
164 7 0.02
165 86 0.28
166 26 0.09
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (161 bp):
GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTTCGAGTTCTATACT
CTCTGAAGGAATAGAGAGCGGACCCGTTATTGAAGATTGTTCAAGTTCTATACTCTCTGAAGGAA
TAGAGAGCGAACACATTTATGAAGATTGTTC
Found at i:82392 original size:217 final size:216
Alignment explanation
Indices: 81935--82402 Score: 622
Period size: 217 Copynumber: 2.1 Consensus size: 216
81925 GTTGAAGATT
* * * * * *
81935 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA-AGTTCGTTGAAGATTGTTCAAGTTCTAT
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACA-TTTGTT-AA-A-TATT-GAGTCCTAT
* *
81999 ACTCTCTGAAGGAATAGAGAGCGGACCCGTTTCATGAAGATTGTTCGAGTTCTATACTCTCTGAA
61 ACTCTCTGAAAGAATAGAGAGCGGACCCGTTTCATGAAGATTGTTCGAGTTCTATACTCTCTAAA
* * *
82064 GGAATAGAGAGCGAACACGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGA
126 GGAATAGAGAGCGAACACGTTTATTGAAGATTGTTCAAGTTCTATACTCTCTGAAGAAATAGAGA
* *
82129 GCAGACCCGTTTTATGAAGATTGCTC
191 GCAGACACATTTTATGAAGATTGCTC
82155 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACATTTGTTAAATATTGAGTCCTATACTCT
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACATTTGTTAAATATTGAGTCCTATACTCT
* *
82220 CTGAAAGAATAGGGAGCGGACCTGTTT-ATTGAAGATT-TTCCGAGTTCTATACTCTCTAAAGGA
66 CTGAAAGAATAGAGAGCGGACCCGTTTCA-TGAAGATTGTT-CGAGTTCTATACTCTCTAAAGGA
* * *
82283 ATAGAGAGCGGACCCGCTTTATTGAAGATTGTTCAAGTAT-TATACTCTCTGAATAAATAGAGAG
129 ATAGAGAGCGAACACG-TTTATTGAAGATTGTTCAAGT-TCTATACTCTCTGAAGAAATAGAGAG
* *
82347 CATACACATTTTATGAAGATTGTTC
192 CAGACACATTTTATGAAGATTGCTC
*
82372 GAGTTTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTTCTATACTCT-CTGAAGGAATAGGGAGC
82403 AGACTCGTCA
Statistics
Matches: 221, Mismatches: 21, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
215 3 0.01
216 81 0.37
217 93 0.42
218 2 0.01
219 2 0.01
220 39 0.18
221 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (216 bp):
GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACATTTGTTAAATATTGAGTCCTATACTCT
CTGAAAGAATAGAGAGCGGACCCGTTTCATGAAGATTGTTCGAGTTCTATACTCTCTAAAGGAAT
AGAGAGCGAACACGTTTATTGAAGATTGTTCAAGTTCTATACTCTCTGAAGAAATAGAGAGCAGA
CACATTTTATGAAGATTGCTC
Found at i:82432 original size:55 final size:54
Alignment explanation
Indices: 81884--82431 Score: 544
Period size: 55 Copynumber: 10.1 Consensus size: 54
81874 GTTGAAGATT
* * * *
81884 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTT-TTTGAAGATTGTTC
* * * *
81935 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTT-TTTGAAGATTGTTC
* * *
81990 AAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTCATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTT-TTGAAGATTGTTC
*
82045 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACACGTTTGTTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTT-TTGAAGATTGTTC
* * *
82100 GAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATGAAGATTGCTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTT-TGAAGATTGTTC
* * * *
82155 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACATTTGTT-AA-A-TATT-
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTT-TTGAAGATTGTTC
* * *
82206 GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGAC-CTGTTTATTGAAGATT-TTCC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACAC-GTTT-TTGAAGATTGTT-C
* *
82261 GAGTTCTATACTCTCTAAAGGAATAGAGAGCGGACCCGCTTTATTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACG-TTT-TTGAAGATTGTTC
* ** ** *
82317 AAGTAT-TATACTCTCTGAATAAATAGAGAGCATACACATTTTATGAAGATTGTTC
1 GAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTT-TGAAGATTGTTC
* * * * * *
82372 GAGTTTTATACT-TCCTGAAGGAATAGGGAGCAGACTCGTCATTTGAAGATTTTTC
1 GAGTTCTATACTCT-CTGAAGGAATAGAGAGCGGACACGT-TTTTGAAGATTGTTC
*
82427 AAGTT
1 GAGTT
82432 TCATTTATCC
Statistics
Matches: 426, Mismatches: 50, Indels: 38
0.83 0.10 0.07
Matches are distributed among these distances:
50 1 0.00
51 86 0.20
52 4 0.01
53 4 0.01
54 9 0.02
55 273 0.64
56 46 0.11
57 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (54 bp):
GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTTGAAGATTGTTC
Found at i:86267 original size:17 final size:15
Alignment explanation
Indices: 86243--86284 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
86233 AAAAACTAAG
*
86243 ATAAAAAAACAAATA
1 ATAAAAAAAAAAATA
86258 ATGAAAAAAATAAAATA
1 AT-AAAAAAA-AAAATA
86275 ATAAAAAAAA
1 ATAAAAAAAA
86285 TTTTAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 14 0.58
17 7 0.29
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (15 bp):
ATAAAAAAAAAAATA
Found at i:86285 original size:17 final size:17
Alignment explanation
Indices: 86253--86285 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
86243 ATAAAAAAAC
*
86253 AAATAATGAAAAAAATA
1 AAATAATAAAAAAAATA
86270 AAATAATAAAAAAAAT
1 AAATAATAAAAAAAAT
86286 TTTAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATAATAAAAAAAATA
Found at i:87545 original size:189 final size:190
Alignment explanation
Indices: 87161--87545 Score: 691
Period size: 189 Copynumber: 2.0 Consensus size: 190
87151 TACCTTTGGT
*
87161 TTTGGTTGAAACAATTTCAGTTCCTTCTTGTTTTTATTGTTGATAAATGTGTTTCGATTGAAAGA
1 TTTGGTTGAAACAATTTCAGTTCCTTCTTGTTTTTATCGTTGATAAATGTGTTTCGATTGAAAGA
87226 AATTTCTCTCTATTTTTCGCTTCCCCCTTCTTTACATATTGATTTTACACTTATTTATAGCAAAA
66 AATTTCTCTCTATTTTTCGCTTCCCCCTTCTTTACATATTGATTTTACACTTATTTATAGCAAAA
* * * *
87291 TTGAAAGCCTATTCCGTGCGGTTTTAAATTTCTAATGAGATTAAAACTCTTTTCTTTGTC
131 ATGAAAGCATATTCCGTGCGGTTTTAAAGTTCTAATGAGATTAAAACTCTTTGCTTTGTC
87351 TTTGGTTGAAACAATTTCAGTTCCTTCTTGTTTTTATCGTTGATAAATGTGTTTCGATTGAAAGA
1 TTTGGTTGAAACAATTTCAGTTCCTTCTTGTTTTTATCGTTGATAAATGTGTTTCGATTGAAAGA
87416 AATTTCTCTCTATTTTTCGCTT-CCCCTTCTTTACATATTGATTTTACACTTATTTATAGCAAAA
66 AATTTCTCTCTATTTTTCGCTTCCCCCTTCTTTACATATTGATTTTACACTTATTTATAGCAAAA
* * *
87480 ATGAAAGTATATTTCGTGCGGTTTTAGAGTTCTAATGAGATTAAAACTCTTTGCTTTGTC
131 ATGAAAGCATATTCCGTGCGGTTTTAAAGTTCTAATGAGATTAAAACTCTTTGCTTTGTC
87540 TTTGGT
1 TTTGGT
87546 CTTCATGTGG
Statistics
Matches: 187, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
189 101 0.54
190 86 0.46
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (190 bp):
TTTGGTTGAAACAATTTCAGTTCCTTCTTGTTTTTATCGTTGATAAATGTGTTTCGATTGAAAGA
AATTTCTCTCTATTTTTCGCTTCCCCCTTCTTTACATATTGATTTTACACTTATTTATAGCAAAA
ATGAAAGCATATTCCGTGCGGTTTTAAAGTTCTAATGAGATTAAAACTCTTTGCTTTGTC
Found at i:88539 original size:23 final size:23
Alignment explanation
Indices: 88511--88568 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
88501 AAATTAATAA
88511 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
88534 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
88557 TATA--ATGTAAAA
1 TATATTATGTAAAA
88569 ATTATAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (23 bp):
TATATTATGTAAAATGTTTCGAT
Found at i:88611 original size:13 final size:13
Alignment explanation
Indices: 88582--88616 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
88572 ATAACTAATA
*
88582 ATATTAAAT-ATT
1 ATATTAAATAAAT
88594 ATATTAAATAAAT
1 ATATTAAATAAAT
88607 ATATTAAATA
1 ATATTAAATA
88617 TATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:91782 original size:34 final size:32
Alignment explanation
Indices: 91739--91827 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
91729 TTAATAATTC
91739 TAAATAAATAATAATTATATAAATATTATTTTAATA
1 TAAA-AAATAATAATTATATAAATA-TA--TTAATA
* * *
91775 -ATAAAATAATATTTACATAAATATATTAATA
1 TAAAAAATAATAATTATATAAATATATTAATA
* *
91806 TAAAAAATAATAACTATTTAAA
1 TAAAAAATAATAATTATATAAA
91828 AAAATACTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
31 6 0.14
32 16 0.36
33 2 0.05
34 18 0.41
35 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAAAAATAATAATTATATAAATATATTAATA
Found at i:91808 original size:14 final size:15
Alignment explanation
Indices: 91742--91814 Score: 51
Period size: 15 Copynumber: 4.7 Consensus size: 15
91732 ATAATTCTAA
91742 ATAAATAATAATT-AT
1 ATAAATAAT-ATTAAT
*
91757 ATAAATATTATTTTAAT
1 ATAAATA--ATATTAAT
* *
91774 AATAAAATAATATTTAC
1 -AT-AAATAATATTAAT
91791 ATAAAT-ATATTAAT
1 ATAAATAATATTAAT
*
91805 ATAAAAAATA
1 ATAAATAATA
91815 ATAACTATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
14 11 0.24
15 14 0.31
16 4 0.09
17 9 0.20
18 2 0.04
19 5 0.11
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATAATATTAAT
Found at i:95062 original size:2 final size:2
Alignment explanation
Indices: 95055--95080 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95045 CATATTTATT
95055 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
95081 AACTGAAAAT
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):
TA
Found at i:104204 original size:2 final size:2
Alignment explanation
Indices: 104199--104270 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
104189 TTTTATATGC
104199 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
104241 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104271 AGAAAATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:105290 original size:20 final size:19
Alignment explanation
Indices: 105248--105290 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
105238 TTTTTAGATT
**
105248 TTTTTTTAGAATTTAAGGT
1 TTTTTTTAGAATTTAAGAA
*
105267 TTTTTTTAGAATTTTAATAA
1 TTTTTTTAGAA-TTTAAGAA
105287 TTTT
1 TTTT
105291 ATGGGTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (19 bp):
TTTTTTTAGAATTTAAGAA
Found at i:106794 original size:22 final size:22
Alignment explanation
Indices: 106768--106819 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
106758 AAATATGAAA
106768 TATAAAAA-ATAATATTATTTAT
1 TATAAAAACATAATATTA-TTAT
*
106790 TATAAAAACTTAATATTATTAT
1 TATAAAAACATAATATTATTAT
*
106812 TTTAAAAA
1 TATAAAAA
106820 TATTAGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAAAAACATAATATTATTAT
Found at i:107534 original size:14 final size:14
Alignment explanation
Indices: 107500--107527 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
107490 AAGAAAATGA
107500 GGAAAACGTTTTAC
1 GGAAAACGTTTTAC
107514 GGAAAACGTTTTAC
1 GGAAAACGTTTTAC
107528 ATGAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
GGAAAACGTTTTAC
Found at i:113157 original size:3 final size:3
Alignment explanation
Indices: 113149--113178 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
113139 TAATTATCTC
113149 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
113179 CATATCTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:115013 original size:17 final size:16
Alignment explanation
Indices: 114989--115023 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
114979 TTAATTATAT
*
114989 TTTTAAAAGTATTTAA
1 TTTTAAAAATATTTAA
*
115005 TTTTAAAAATATTTTA
1 TTTTAAAAATATTTAA
115021 TTT
1 TTT
115024 AATTATCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTAAAAATATTTAA
Found at i:117918 original size:48 final size:48
Alignment explanation
Indices: 117866--117963 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
117856 ATATGGGAGC
117866 ATGAAATGCAGTAGAAGAATGATACATCAAGCCTCTCACTCATCCAAG
1 ATGAAATGCAGTAGAAGAATGATACATCAAGCCTCTCACTCATCCAAG
117914 ATGAAATGCAGTAGAAGAATGATACATCAAGCCTCTCACTCATCCAAG
1 ATGAAATGCAGTAGAAGAATGATACATCAAGCCTCTCACTCATCCAAG
117962 AT
1 AT
117964 TGTGGAGTGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (48 bp):
ATGAAATGCAGTAGAAGAATGATACATCAAGCCTCTCACTCATCCAAG
Found at i:124971 original size:2 final size:2
Alignment explanation
Indices: 124964--124996 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
124954 CAGCTAAAGC
124964 TA TA TA TA 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 TA T
124997 TTAATCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:125539 original size:64 final size:63
Alignment explanation
Indices: 125463--125584 Score: 149
Period size: 65 Copynumber: 1.9 Consensus size: 63
125453 ATGCACCAAT
*
125463 CCATGCATCGATGCACCATGA-ATTAAATTG-AACATCGAATGCATTTCATGCATCGATGCACTT
1 CCATGCACCGATGCA-C-TGAGATTAAA-TGAAACATCGAATGCATTTCATGCATCGATGCACTT
125526 A
63 A
** *
125527 CCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATCGAT
1 CCATGCACCGATGCACTGA-GATTAAATG-AAACATCGAATGCATTTCATGCATCGAT
125585 TCACCAGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
62 3 0.06
63 3 0.06
64 18 0.36
65 26 0.52
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (63 bp):
CCATGCACCGATGCACTGAGATTAAATGAAACATCGAATGCATTTCATGCATCGATGCACTTA
Found at i:125565 original size:65 final size:65
Alignment explanation
Indices: 125493--125654 Score: 186
Period size: 65 Copynumber: 2.5 Consensus size: 65
125483 AATTAAATTG
* * *
125493 AACATCGAATGCATTTCATGCATCGATGCACTTA-CCATGCACCGATGCACTGAGGAT-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCAATGCACTGAGGATATTT-TG
125556 AA
65 -A
* * * ** *
125558 AACATCGAATGCATTTGATGCATCGATTCAC-CAGTCATGCATCAATGCACTTTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCAATGCACTGAGGATATTTTGA
* *
125622 AATATCGAATGCACTTGATGCATCGATGCACTC
1 AACATCGAATGCATTTGATGCATCGATGCACTC
125655 TTAGTGCACC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 30 0.37
65 49 0.60
66 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCAATGCACTGAGGATATTTTGA
Found at i:125652 original size:17 final size:19
Alignment explanation
Indices: 125625--125672 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
125615 ATTTTGAAAT
125625 ATCGAATGCACT-TGA-TGC
1 ATCG-ATGCACTCTGAGTGC
*
125643 ATCGATGCACTCTTAGTGC
1 ATCGATGCACTCTGAGTGC
*
125662 ACCGATGCACT
1 ATCGATGCACT
125673 AAGGGTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 6 0.23
19 13 0.50
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (19 bp):
ATCGATGCACTCTGAGTGC
Found at i:126511 original size:35 final size:35
Alignment explanation
Indices: 126470--126563 Score: 125
Period size: 35 Copynumber: 2.7 Consensus size: 35
126460 CACAATCACC
* **
126470 AATTACATTTTAAACCCCAAATTTTAAAATACTTT
1 AATTACATTCTAAACCCCAAATTCCAAAATACTTT
*
126505 AATTACATTCTAAACCTCAAATTCCAAAATACTTT
1 AATTACATTCTAAACCCCAAATTCCAAAATACTTT
* **
126540 AATTACATGCCCAACCCCAAATTC
1 AATTACATTCTAAACCCCAAATTC
126564 ATAATCCATT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.41, C:0.24, G:0.01, T:0.33
Consensus pattern (35 bp):
AATTACATTCTAAACCCCAAATTCCAAAATACTTT
Found at i:126888 original size:143 final size:147
Alignment explanation
Indices: 126714--127006 Score: 450
Period size: 148 Copynumber: 2.0 Consensus size: 147
126704 AGCTAAATAC
126714 TCAATTCAGTTTATAAAAAAAATTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTT-A-AA
1 TCAATTCAGTTTATAAAAAAAATTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAATAA
* * * *
126777 -TCAAACTGAATTGAATTTTCGAGTTTTTGTTCAAATTTAATTATAAATATTTATCATATTATAA
66 GTCAAACTAAATTGAATTTTCGAGTTTCTGTTCAAATTTAATTATAAATATTTATAATACTATAA
126841 TATTATTTGATTCTAAT
131 TATTATTTGATTCTAAT
* *
126858 TCAATTTAGTTTAT-AAAATAATTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATT
1 TCAATTCAGTTTATAAAAAAAATTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTT-AA-T
* * * *
126922 AAGTCGAATTAAATTGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTAT
64 AAGTCAAACTAAATTGAATTTTCGAGTTTCTGTTCAAATTTAATTATAAATATTTATAATACTAT
126987 AATATTATTTGATTCTAAT
129 AATATTATTTGATTCTAAT
127006 T
1 T
127007 TAAATAGTTT
Statistics
Matches: 134, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
143 44 0.33
144 13 0.10
145 1 0.01
147 2 0.01
148 74 0.55
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (147 bp):
TCAATTCAGTTTATAAAAAAAATTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAATAA
GTCAAACTAAATTGAATTTTCGAGTTTCTGTTCAAATTTAATTATAAATATTTATAATACTATAA
TATTATTTGATTCTAAT
Found at i:128237 original size:8 final size:8
Alignment explanation
Indices: 128224--128259 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
128214 ATATATATGC
128224 GTGTTTGT
1 GTGTTTGT
128232 GTGTTTGT
1 GTGTTTGT
128240 GTGTTTGT
1 GTGTTTGT
*
128248 GTGTTTAT
1 GTGTTTGT
128256 GTGT
1 GTGT
128260 GTATATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.36, T:0.61
Consensus pattern (8 bp):
GTGTTTGT
Found at i:133756 original size:12 final size:12
Alignment explanation
Indices: 133741--133796 Score: 76
Period size: 12 Copynumber: 4.7 Consensus size: 12
133731 TGCACTGGCA
* *
133741 CCAGCGCCGGCT
1 CCAGCACCGGTT
*
133753 CCAGCGCCGGTT
1 CCAGCACCGGTT
133765 CCAGCACCGGTT
1 CCAGCACCGGTT
*
133777 CCAGCACCGGTA
1 CCAGCACCGGTT
133789 CCAGCACC
1 CCAGCACC
133797 AGCATCAGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.16, C:0.46, G:0.27, T:0.11
Consensus pattern (12 bp):
CCAGCACCGGTT
Found at i:138754 original size:43 final size:44
Alignment explanation
Indices: 138699--138787 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 44
138689 TTATTTTTTG
* *
138699 AATTAAAAATATTTCATTTATAGAGAGATGAATTTTTATTATCA
1 AATTAAAAATATTTCATTAATAGAAAGATGAATTTTTATTATCA
* * * *
138743 AATT-AAAATATTTTATTAATGGAAAGATTAATTTTTATTTTCA
1 AATTAAAAATATTTCATTAATAGAAAGATGAATTTTTATTATCA
138786 AA
1 AA
138788 AAGATTGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (44 bp):
AATTAAAAATATTTCATTAATAGAAAGATGAATTTTTATTATCA
Found at i:141239 original size:24 final size:26
Alignment explanation
Indices: 141212--141263 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
141202 ATTAAGTGAC
**
141212 AATAA-AAAA-ATATAATATTTTTTT
1 AATAATAAAAGATATAATAGATTTTT
141236 AATAATAAAAGATATAATAGATTTTT
1 AATAATAAAAGATATAATAGATTTTT
141262 AA
1 AA
141264 AATTAATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 4 0.17
26 15 0.62
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (26 bp):
AATAATAAAAGATATAATAGATTTTT
Found at i:144170 original size:2 final size:2
Alignment explanation
Indices: 144165--144201 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
144155 TCTCTCTCTC
*
144165 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
144202 TGTAATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:148118 original size:2 final size:2
Alignment explanation
Indices: 148111--148140 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
148101 CTTGTTTGTA
148111 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
148141 GTACGTGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:148687 original size:20 final size:18
Alignment explanation
Indices: 148662--148700 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
148652 AACATAATTC
*
148662 TTCATATTACGGTTTGCTTG
1 TTCATA-TACCGTTTG-TTG
148682 TTCATATACCGTTTGTTG
1 TTCATATACCGTTTGTTG
148700 T
1 T
148701 AAGATGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (18 bp):
TTCATATACCGTTTGTTG
Done.