Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 43
Found at i:237637 original size:12 final size:12
Alignment explanation
Indices: 237620--237645 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
237610 TGTTGTTTCG
237620 TTTTCTATTTTT
1 TTTTCTATTTTT
237632 TTTTCTATTTTT
1 TTTTCTATTTTT
237644 TT
1 TT
237646 CTATTCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTATTTTT
Found at i:240675 original size:5 final size:6
Alignment explanation
Indices: 240659--240684 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
240649 ATGTAAAATG
240659 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
240685 TAGCGGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:244021 original size:21 final size:21
Alignment explanation
Indices: 243995--244041 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
243985 CCTCTATCAT
*
243995 GGGTTGTAAGTATTGTCGTAG
1 GGGTTGTAAGTATTGCCGTAG
*
244016 GGGTTGTAAGTCTTGCCGTAG
1 GGGTTGTAAGTATTGCCGTAG
244037 GGGTT
1 GGGTT
244042 ATCAGATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.09, G:0.40, T:0.36
Consensus pattern (21 bp):
GGGTTGTAAGTATTGCCGTAG
Found at i:251486 original size:18 final size:18
Alignment explanation
Indices: 251463--251498 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
251453 TCTTGTAGGA
*
251463 CTTCAACGCCTCCAATAG
1 CTTCAACCCCTCCAATAG
*
251481 CTTCAACCCCTCCGATAG
1 CTTCAACCCCTCCAATAG
251499 GACTAGCTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.42, G:0.11, T:0.22
Consensus pattern (18 bp):
CTTCAACCCCTCCAATAG
Found at i:254029 original size:33 final size:31
Alignment explanation
Indices: 253990--254066 Score: 111
Period size: 33 Copynumber: 2.5 Consensus size: 31
253980 TTAATAAATT
*
253990 ATATACATACATATCATACATTCGATTGAAC
1 ATATACATACATATCATACATTCGATCGAAC
*
254021 ATGAATACATACATATCATACATTCGGTCGAAC
1 AT--ATACATACATATCATACATTCGATCGAAC
254054 ATAT-CATACATAT
1 ATATACATACATAT
254067 ATGATGCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 9 0.21
31 4 0.10
33 29 0.69
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (31 bp):
ATATACATACATATCATACATTCGATCGAAC
Found at i:254103 original size:19 final size:19
Alignment explanation
Indices: 254052--254103 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
254042 ATTCGGTCGA
*
254052 ACATATCATACATATATGAT
1 ACATA-CATACATAAATGAT
* * * *
254072 GCATGCATTCATAAATTAT
1 ACATACATACATAAATGAT
254091 ACATACATACATA
1 ACATACATACATA
254104 CATACGTATC
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (19 bp):
ACATACATACATAAATGAT
Found at i:256661 original size:19 final size:19
Alignment explanation
Indices: 256637--256687 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 19
256627 TTCCCAATTT
*
256637 TATTCCCCCATTTGCTGTG
1 TATTCCCCCATTTACTGTG
256656 TATTCCCCCCATTTACTGTG
1 TATT-CCCCCATTTACTGTG
256676 TATTCCCCCATT
1 TATTCCCCCATT
256688 CTTCTCACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.14, C:0.35, G:0.10, T:0.41
Consensus pattern (19 bp):
TATTCCCCCATTTACTGTG
Found at i:256759 original size:7 final size:7
Alignment explanation
Indices: 256747--256771 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
256737 TGGTTGAAGG
256747 TATTTTC
1 TATTTTC
256754 TATTTTC
1 TATTTTC
256761 TATTTTC
1 TATTTTC
256768 TATT
1 TATT
256772 ATCTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTTC
Found at i:260025 original size:65 final size:64
Alignment explanation
Indices: 259953--260098 Score: 186
Period size: 65 Copynumber: 2.3 Consensus size: 64
259943 TACACTTGGG
* * * * * *
259953 GTGCATCGGTACACTAATTACATTCGATGTTTCAA-AAGAGGCAAGAGTGCATCGATTCATGGTC
1 GTGCATCGGTACACAAAGTACATTCAATGTTTCAATAA-AAGCAAGACTGCATCGATGCATGGT-
260017 T
64 T
* * *
260018 GTGCATCGATACACAAAGTGCATTCAATGTTTCAATAAAATCAAGACTGCATCGATGCATGGTT
1 GTGCATCGGTACACAAAGTACATTCAATGTTTCAATAAAAGCAAGACTGCATCGATGCATGGTT
260082 GTGCATCGGTACACAAA
1 GTGCATCGGTACACAAA
260099 ATGCAATCGA
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
64 17 0.24
65 51 0.73
66 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (64 bp):
GTGCATCGGTACACAAAGTACATTCAATGTTTCAATAAAAGCAAGACTGCATCGATGCATGGTT
Found at i:260640 original size:30 final size:30
Alignment explanation
Indices: 260605--260664 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
260595 ATTTGTGATG
260605 GAATATGTGGACCCATCACAAATTTATGAC
1 GAATATGTGGACCCATCACAAATTTATGAC
* * *
260635 GAATATGTGGATCCGTCACAAATTTCTGAC
1 GAATATGTGGACCCATCACAAATTTATGAC
260665 AGATTCATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (30 bp):
GAATATGTGGACCCATCACAAATTTATGAC
Found at i:261331 original size:17 final size:17
Alignment explanation
Indices: 261276--261333 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
261266 GACTTGTTAG
*
261276 TATTATTATT-ATTATCT
1 TATTATT-TTAATTATAT
*
261293 AATT-TTTTAATTA-AT
1 TATTATTTTAATTATAT
261308 GTAATTATTTTAATTATAT
1 -T-ATTATTTTAATTATAT
261327 TATTATT
1 TATTATT
261334 ATTTTTTGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
15 3 0.09
16 6 0.18
17 12 0.36
18 10 0.30
19 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TATTATTTTAATTATAT
Found at i:262683 original size:36 final size:36
Alignment explanation
Indices: 262620--262722 Score: 145
Period size: 35 Copynumber: 2.8 Consensus size: 36
262610 CAAACGTTAT
* *
262620 AGTTTTAGTATGATTCAAACTCTTAAAAATAGGATAG
1 AGTTTTACTATGATT-AAACTCCTAAAAATAGGATAG
* *
262657 AGTTTTACTAAGATTAAACTCCT-AAAATATGATAG
1 AGTTTTACTATGATTAAACTCCTAAAAATAGGATAG
262692 AGTTTTACTATGATTTAAACTCCTAAAAATA
1 AGTTTTACTATGA-TTAAACTCCTAAAAATA
262723 AGTTCCACAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
35 23 0.39
36 17 0.29
37 19 0.32
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (36 bp):
AGTTTTACTATGATTAAACTCCTAAAAATAGGATAG
Found at i:263255 original size:8 final size:9
Alignment explanation
Indices: 263242--263429 Score: 54
Period size: 9 Copynumber: 20.9 Consensus size: 9
263232 TTTACTTTAG
263242 TATATTTTT
1 TATATTTTT
263251 T-TATTTTT
1 TATATTTTT
***
263259 TATATTACA
1 TATATTTTT
* *
263268 TATATATATA
1 TATAT-TTTT
*
263278 TATTATTTCT
1 TA-TATTTTT
263288 TATTATTTTT
1 TA-TATTTTT
*
263298 T-TATTAATT
1 TATATT-TTT
*
263307 TATA-TATT
1 TATATTTTT
263315 TACTA-TTTT
1 TA-TATTTTT
*
263324 T-TATGTTT
1 TATATTTTT
*
263332 T-TATTTAT
1 TATATTTTT
* *
263340 TATATATATA
1 TATAT-TTTT
263350 TATATATTTT
1 TATAT-TTTT
*
263360 TA-CTTTTT
1 TATATTTTT
*
263368 TAT-TATTAT
1 TATAT-TTTT
*
263377 TAT-TTATT
1 TATATTTTT
263385 TATATTTTT
1 TATATTTTT
*
263394 TCT-TCTTTT
1 TATAT-TTTT
* *
263403 TCTTTTTTT
1 TATATTTTT
263412 TATATTTTT
1 TATATTTTT
263421 ATATATTTT
1 -TATATTTT
263430 ATTTTACTTA
Statistics
Matches: 138, Mismatches: 26, Indels: 29
0.72 0.13 0.15
Matches are distributed among these distances:
7 2 0.01
8 40 0.29
9 55 0.40
10 38 0.28
11 3 0.02
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.70
Consensus pattern (9 bp):
TATATTTTT
Found at i:263311 original size:37 final size:36
Alignment explanation
Indices: 263244--263434 Score: 147
Period size: 39 Copynumber: 5.2 Consensus size: 36
263234 TACTTTAGTA
* *
263244 TATTTTTTTATTTTTTATATTACATATATATATATAT
1 TATTTTTTTATTTTTT-TATTATATTTATATATATAT
* *
263281 TATTTCTTATTATTTTTTTATTA-ATTTATATATTTAC
1 TATTT-TT-TTATTTTTTTATTATATTTATATATATAT
*
263318 TA-TTTTTTATGTTTTTATT-TA-TTATATATATAT
1 TATTTTTTTATTTTTTTATTATATTTATATATATAT
* * * *
263351 ATATATTTTTACTTTTTTATTATTATTATTTATTTATAT
1 -TATTTTTTTATTTTTTTATTA-TATT-TATATATATAT
* * * * *
263390 TTTTTCTTCTTTTTCTTTTTTTTATATTTTTATATATTT
1 TATTT-TT-TTATT-TTTTTATTATATTTATATATATAT
263429 TATTTT
1 TATTTT
263435 ACTTACTATT
Statistics
Matches: 123, Mismatches: 19, Indels: 23
0.75 0.12 0.14
Matches are distributed among these distances:
33 10 0.08
34 15 0.12
35 16 0.13
36 2 0.02
37 20 0.16
38 12 0.10
39 33 0.27
40 7 0.06
41 8 0.07
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.71
Consensus pattern (36 bp):
TATTTTTTTATTTTTTTATTATATTTATATATATAT
Found at i:263333 original size:35 final size:33
Alignment explanation
Indices: 263242--263403 Score: 137
Period size: 35 Copynumber: 4.6 Consensus size: 33
263232 TTTACTTTAG
*
263242 TATAT-TTTTTTATTTTTTATATTACATATATATA
1 TATATATTTTTTATTTTTT-TATTA-ATTTATATA
263276 TATATTATTTCTTATTATTTTTTTATTAATTTATATA
1 TATA-TA-TT-TT-TTATTTTTTTATTAATTTATATA
* * *
263313 TTTACTATTTTTTATGTTTTTATTTATTATATATA
1 TATA-TATTTTTTATTTTTTTATTAATT-TATATA
* * *
263348 TATATATATTTTTACTTTTTTATTATTATTATTTA
1 TATATAT-TTTTTATTTTTTTATTAAT-TTATATA
* *
263383 TTTATATTTTTTCTTCTTTTT
1 TATATATTTTTTATT-TTTTT
263404 CTTTTTTTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 17
0.77 0.10 0.12
Matches are distributed among these distances:
34 28 0.27
35 43 0.41
36 3 0.03
37 15 0.14
38 7 0.07
39 9 0.09
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.69
Consensus pattern (33 bp):
TATATATTTTTTATTTTTTTATTAATTTATATA
Found at i:263391 original size:76 final size:73
Alignment explanation
Indices: 263247--263394 Score: 193
Period size: 72 Copynumber: 2.1 Consensus size: 73
263237 TTTAGTATAT
*
263247 TTTTTTATTTTTTATATTACATATATATATATATTATTTCTTATTATTTTTTTATTAATTTATAT
1 TTTTTTATTTTTTATATTACATATATATATATATTATTTCTTATTATTTTATTATTAATTTATAT
263312 ATTTACTA
66 ATTTACTA
*
263320 TTTTTTATGTTTTTAT-TTA-TTATATATATATATATATTT-TTACTT-TTTTATTATT-A-TTA
1 TTTTTTAT-TTTTTATATTACATATATATATATAT-TATTTCTTA-TTATTTTATTATTAATTTA
*
263379 TTTATTTA-TA
63 TATATTTACTA
263389 TTTTTT
1 TTTTTT
263395 CTTCTTTTTC
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
69 8 0.12
70 10 0.14
71 1 0.01
72 25 0.36
73 18 0.26
74 7 0.10
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.69
Consensus pattern (73 bp):
TTTTTTATTTTTTATATTACATATATATATATATTATTTCTTATTATTTTATTATTAATTTATAT
ATTTACTA
Found at i:263418 original size:33 final size:34
Alignment explanation
Indices: 263297--263418 Score: 85
Period size: 33 Copynumber: 3.6 Consensus size: 34
263287 TTATTATTTT
* *
263297 TTTATTAAT-TTA-TATATTTACTATTTTTTA-TGTT
1 TTTATTATTATTATTATATTTA-TA-TTTTTACT-TC
* *
263331 TTTATTTATTA-TATATATATATATATTTTTACTTT
1 TTTA-TTATTATTAT-TATATTTATATTTTTACTTC
*
263366 TTTATTATTATTATT-TATTTATATTTTTTCTTC
1 TTTATTATTATTATTATATTTATATTTTTACTTC
* * *
263399 TTT-TTCTTTTTTTTATATTT
1 TTTATTATTATTATTATATTT
263419 TTATATATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
32 8 0.11
33 23 0.32
34 11 0.15
35 21 0.29
36 3 0.04
37 7 0.10
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (34 bp):
TTTATTATTATTATTATATTTATATTTTTACTTC
Found at i:266264 original size:10 final size:10
Alignment explanation
Indices: 266240--266272 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
266230 CTCTTATGAG
266240 GGAGAGGGA-
1 GGAGAGGGAC
266249 -GAGAGGGAC
1 GGAGAGGGAC
266258 GGAGAGGGAC
1 GGAGAGGGAC
266268 GGAGA
1 GGAGA
266273 AATTAACCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
10 14 0.64
ACGTcount: A:0.33, C:0.06, G:0.61, T:0.00
Consensus pattern (10 bp):
GGAGAGGGAC
Found at i:268737 original size:165 final size:165
Alignment explanation
Indices: 268477--269177 Score: 815
Period size: 165 Copynumber: 4.2 Consensus size: 165
268467 ACTTAAGTCG
*
268477 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGTTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
268542 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCT
66 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCT
* *
268607 TCAAGGGCACATCATTTACAACATAACTTAAGGCT
131 TCAAGGGCACATCATTTACAGCATAACTCAAGGCT
* ** *
268642 ATAAGGGTTATCTTTC-ACCAAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
1 AGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* *
268706 TTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAAATACCCTCGAGTTCGATTACACTCAGC
65 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGC
* *
268771 TTCGAGGGCACATCATTTATAGCATAACTCAAGGCT
130 TTCAAGGGCACATCATTTACAGCATAACTCAAGGCT
* * * * * *
268807 AGAAGGGTTATCTGTC-ACCAAAGACCTTTGAGTTTGACTACGCTCAGCTCTAAGACACATGATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * *
268871 TGCAGCATAGCTTAAAGTTGATAAGGGCTATCTTCCAAAGACCTTCGAGTTCGATTACACTCAGC
66 TGCAGCATAGCTT-AAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGC
* * *
268936 -TCAAAGGCACCAACATTTTTC-GCATAACTCAAGGCT
130 TTCAAGGGCA-CATCA-TTTACAGCATAACTCAAGGCT
* * * * *
268972 AAAAGGGTTATCTACCAACCAAAGACATTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCAT
* * * * * * * * * * * * *
269037 TTACAGCATAACTCAAGGCTAGAATGGTTATCCATCACCAAAAGACCTTCAAATTCGACTACGCT
65 TTGCAGCATAGCTTAAGTCGAGAAGGGCTAT-C-T-GCC-AAAGACCCTCGAGTTCGATTACACT
* * * * *
269102 CAGCTCCAA-GGCACATCA-TTAGTAGTATAACAT-AAGTCG
126 CAGCTTCAAGGGCACATCATTTA-CAGCATAAC-TCAAGGCT
*
269141 AGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGA
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGA
269178 TTACACACAA
Statistics
Matches: 457, Mismatches: 65, Indels: 25
0.84 0.12 0.05
Matches are distributed among these distances:
164 62 0.14
165 244 0.53
166 43 0.09
167 25 0.05
168 21 0.05
169 29 0.06
170 30 0.07
171 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (165 bp):
AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCT
TCAAGGGCACATCATTTACAGCATAACTCAAGGCT
Found at i:268795 original size:81 final size:81
Alignment explanation
Indices: 268454--269183 Score: 556
Period size: 84 Copynumber: 8.8 Consensus size: 81
268444 TTAAAGACAA
* * *
268454 CATTTGTAGAATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTCGAGTTCGACTAC
*
268519 GCTCAG-TTCCAAGGCACAT
62 ACTCAGCTTCCAAGGCACAT
* * *
268538 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTC
268603 AGCTT-CAAGGGCACAT
66 AGCTTCCAA-GGCACAT
* * * * * * * *
268619 CATTTACAACATAACTTAAGGCTATAAGGGTTATCTTTCACCAAAAGACCTTCAAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC--T-GCC-AAAGACCTTCGAGTTCGACTAC
*
268684 GCTCAGC-TCCAAGGCACAT
62 ACTCAGCTTCCAAGGCACAT
* * * * *
268703 CATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAAATACCCTCGAGTTCGATTACACTC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTC
* *
268768 AGCTTCGAGGGCACAT
66 AGCTTCCAAGGCACAT
** * * * * * * *
268784 CATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTTGACTACG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCTTCGAGTTCGACTACA
* *
268849 CTCAGC-TCTAAGACACAT
63 CTCAGCTTCCAAGGCACAT
* * * * * *
268867 GATTTGCAGCATAGCTTAAAGTTGATAAGGGCTATCTTCCAAAGACCTTCGAGTTCGATTACACT
1 CATTTGCAGCATAACTT-AAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACT
* *
268932 CAGC-TCAAAGGCACCAA
65 CAGCTTCCAAGGCA-CAT
* * * * * * * *
268949 CATTTTTC-GCATAACTCAAGGCTAAAAGGGTTATCTACCAACCAAAGACATTCGAGTTCGACTA
1 CA-TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCT----GCCAAAGACCTTCGAGTTCGACTA
* * *
269013 CGCTCAGCTTCGAGGGCACAT
61 CACTCAGCTTCCAAGGCACAT
* * * * * * * * *
269034 CATTTACAGCATAACTCAAGGCTAGAATGGTTATCCATCACCAAAAGACCTTCAAATTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTAT-C-T-GCC-AAAGACCTTCGAGTTCGACTAC
*
269099 GCTCAGC-TCCAAGGCACAT
62 ACTCAGCTTCCAAGGCACAT
* * * * * *
269118 CATTAGTAGTATAACATAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCTTCGAGTTCGACTACA
269183 C
63 C
269184 ACAACTCACA
Statistics
Matches: 511, Mismatches: 109, Indels: 53
0.76 0.16 0.08
Matches are distributed among these distances:
80 54 0.11
81 126 0.25
82 12 0.02
83 47 0.09
84 153 0.30
85 110 0.22
86 8 0.02
87 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (81 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTC
AGCTTCCAAGGCACAT
Found at i:269871 original size:37 final size:37
Alignment explanation
Indices: 269830--269902 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
269820 AAACAAACGT
*
269830 TAGAGTTTTAGTAGAATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGAATTCAAACTCCTAAAAATAGGA
*
269867 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGG
1 TAGAGTTTTACTAGAATTCAAACTCCTAAAAATAGG
269903 TTCCACAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (37 bp):
TAGAGTTTTACTAGAATTCAAACTCCTAAAAATAGGA
Found at i:270441 original size:28 final size:27
Alignment explanation
Indices: 270424--270478 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
270414 TCTTTTTTAC
270424 TTTAG-TATATATATATTTTTTATTTT
1 TTTAGATATATATATATTTTTTATTTT
* *
270450 TTTAGATTATATATATATATATTATTTT
1 TTTAGA-TATATATATATTTTTTATTTT
270478 T
1 T
270479 ATTATCTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
28 20 0.80
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (27 bp):
TTTAGATATATATATATTTTTTATTTT
Found at i:270530 original size:21 final size:20
Alignment explanation
Indices: 270508--270590 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 20
270498 TATATATATA
*
270508 TTACTATTTTTTATGTTTTT
1 TTACTATTTTTTATATTTTT
*
270528 ATT--TATTTTATATATTATTT
1 -TTACTATTTTTTATATT-TTT
*
270548 TTACTTTTTTATTAT-TATTTT
1 TTACTATTTT-TTATAT-TTTT
*
270569 TTAATATTTTTCTATATTTTT
1 TTACTATTTTT-TATATTTTT
270590 T
1 T
270591 AATTTACTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
19 13 0.27
20 4 0.08
21 27 0.55
22 5 0.10
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (20 bp):
TTACTATTTTTTATATTTTT
Found at i:270536 original size:19 final size:18
Alignment explanation
Indices: 270512--270569 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
270502 TATATATTAC
* *
270512 TATTTTTTATGTTTTTATT
1 TATTTTTTATATTATT-TT
*
270531 TATTTTATATATTATTTT
1 TATTTTTTATATTATTTT
270549 TACTTTTTTATTATTATTTT
1 TA-TTTTTTA-TATTATTTT
270569 T
1 T
270570 TAATATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 4 0.12
19 19 0.58
20 10 0.30
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (18 bp):
TATTTTTTATATTATTTT
Found at i:270556 original size:37 final size:34
Alignment explanation
Indices: 270465--270556 Score: 87
Period size: 37 Copynumber: 2.6 Consensus size: 34
270455 ATTATATATA
* *
270465 TATATATTATTTTTA-TTATCTGTTTTATTAATT
1 TATATATTATTTTTATTTTTATGTTTTATTAATT
** *
270498 TATATATATATTACTATTTTTTATGTTTTTATTTATTT
1 TATATAT-TATTTTTA-TTTTTATG-TTTTA-TTAATT
270536 TATATATTATTTTTACTTTTT
1 TATATATTATTTTTA-TTTTT
270557 TATTATTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
33 7 0.15
34 6 0.13
36 5 0.11
37 16 0.35
38 12 0.26
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.68
Consensus pattern (34 bp):
TATATATTATTTTTATTTTTATGTTTTATTAATT
Found at i:270559 original size:38 final size:37
Alignment explanation
Indices: 270429--270542 Score: 114
Period size: 37 Copynumber: 3.1 Consensus size: 37
270419 TTTACTTTAG
* *
270429 TATATA-TA-TATTTTTTATTTTTTTAGATT-ATATATA
1 TATATATTACTATTTTTTATGTTTTT--ATTAATTTATA
*
270465 TATATATTA-T-TTTTATTATCTGTTTTATTAATTTATA
1 TATATATTACTATTTT-TTATGT-TTTTATTAATTTATA
*
270502 TATATATTACTATTTTTTATGTTTTTATTTATTT-TA
1 TATATATTACTATTTTTTATGTTTTTATTAATTTATA
270538 TATAT
1 TATAT
270543 TATTTTTACT
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
36 20 0.29
37 34 0.50
38 10 0.15
39 4 0.06
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (37 bp):
TATATATTACTATTTTTTATGTTTTTATTAATTTATA
Found at i:270563 original size:20 final size:22
Alignment explanation
Indices: 270523--270569 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
270513 ATTTTTTATG
*
270523 TTTTTATTTATTTTATATATTA
1 TTTTTACTTATTTTATATATTA
270545 TTTTTACTT-TTTTAT-TATTA
1 TTTTTACTTATTTTATATATTA
270565 TTTTT
1 TTTTT
270570 TAATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 6 0.25
22 8 0.33
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTACTTATTTTATATATTA
Found at i:270595 original size:8 final size:9
Alignment explanation
Indices: 270435--270595 Score: 58
Period size: 10 Copynumber: 16.8 Consensus size: 9
270425 TTAGTATATA
270435 TATATTTTT
1 TATATTTTT
270444 TAT-TTTTT
1 TATATTTTT
* *
270452 TAGATTATATA
1 TATATT-T-TT
* *
270463 TATATATAT
1 TATATTTTT
270472 TAT-TTTTAT
1 TATATTTT-T
* *
270481 TATCTGTTT
1 TATATTTTT
* *
270490 TATTAATTTA
1 TA-TATTTTT
* *
270500 TATATATAT
1 TATATTTTT
270509 TACTATTTTT
1 TA-TATTTTT
*
270519 TATGTTTTT
1 TATATTTTT
* *
270528 ATTTATTTTA
1 -TATATTTTT
270538 TATATTATTTT
1 TATA-T-TTTT
*
270549 TACTTTTTTAT
1 TA-TATTTT-T
270560 TATTATTTTT
1 TA-TATTTTT
270570 TAATATTTTT
1 T-ATATTTTT
270580 CTATATTTTT
1 -TATATTTTT
270590 TA-ATTT
1 TATATTT
270596 ACTTACTATT
Statistics
Matches: 110, Mismatches: 28, Indels: 29
0.66 0.17 0.17
Matches are distributed among these distances:
8 13 0.12
9 31 0.28
10 44 0.40
11 21 0.19
12 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TATATTTTT
Found at i:270652 original size:25 final size:24
Alignment explanation
Indices: 270615--270689 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 24
270605 TTTATCTTTG
*
270615 TTTTCTTTATCTTATTTTTTATTTAA
1 TTTT-TTTTTCTTA-TTTTTATTTAA
*
270641 TTTTTTTTTCTTCATTTTAATTTAA
1 TTTTTTTTTCTT-ATTTTTATTTAA
270666 TTTATTTATTTCTTACCTTTTTAT
1 TTT-TTT-TTTCTTA--TTTTTAT
270690 CTAACATGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 20 0.49
26 9 0.22
27 6 0.15
28 6 0.15
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTTTTTCTTATTTTTATTTAA
Found at i:272341 original size:18 final size:19
Alignment explanation
Indices: 272308--272343 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
272298 AAATAATAAT
*
272308 TATTTATAATTATTTTAAG
1 TATTTATAACTATTTTAAG
272327 TATTTA-AACTATTTTAA
1 TATTTATAACTATTTTAA
272344 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TATTTATAACTATTTTAAG
Found at i:272344 original size:27 final size:28
Alignment explanation
Indices: 272308--272365 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
272298 AAATAATAAT
*** *
272308 TATTTATAATTATTTTAAGTATTTAAAC
1 TATTTATAATTAAACTAAATATTTAAAC
272336 TATTT-TAATTAAACTAAATATTTAAAC
1 TATTTATAATTAAACTAAATATTTAAAC
272363 TAT
1 TAT
272366 ATTTTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (28 bp):
TATTTATAATTAAACTAAATATTTAAAC
Found at i:272390 original size:20 final size:22
Alignment explanation
Indices: 272350--272393 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
272340 TTAATTAAAC
*
272350 TAAATATTTAAACTATATTTTT
1 TAAATATATAAACTATATTTTT
272372 TAAATATATAAA-T-TATTTTT
1 TAAATATATAAACTATATTTTT
272392 TA
1 TA
272394 TGAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 11 0.52
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAATATATAAACTATATTTTT
Found at i:278408 original size:78 final size:75
Alignment explanation
Indices: 278263--278514 Score: 245
Period size: 78 Copynumber: 3.3 Consensus size: 75
278253 ATATCCAACG
* * ** *
278263 ATTTATTTCCTTTTACAAAATAAGAAAATAAATCAAACGCTTTATTTAATTTAACACAACAA-CA
1 ATTTATTTCCTTTTACAAAATAAG-AAATAAATCAAATGATTTATTTCCTTTAA-A-AA-AAGAA
* *
278327 AAATGAATTCTACG
62 AAATAAATTCTACA
** * *
278341 ATTTATTTCCTTTTACAAAATTCGAGAATAAATCTAATGATTTATTTCCTCCTAAAAAATAGAAA
1 ATTTATTTCCTTTTACAAAATAAGA-AATAAATCAAATGATTTATTTCCT-TTAAAAAA-AGAAA
* * *
278406 AATAAATCCAATTA
63 AATAAATTCTA-CA
* * * * *
278420 ATTTATTTCCTTTTACACAATAGGAAAAAAATCAAATGATTTATTTCCGTTTACAAAAAGGAAAA
1 ATTTATTTCCTTTTACAAAATAAGAAATAAATCAAATGATTTATTTCC-TTTAAAAAAAGAAAAA
278485 TAAATTCTACA
65 TAAATTCTACA
278496 ATTTATTTCCTTTTACAAA
1 ATTTATTTCCTTTTACAAA
278515 CCAAAATCAT
Statistics
Matches: 142, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
76 20 0.14
77 17 0.12
78 79 0.56
79 26 0.18
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (75 bp):
ATTTATTTCCTTTTACAAAATAAGAAATAAATCAAATGATTTATTTCCTTTAAAAAAAGAAAAAT
AAATTCTACA
Found at i:278500 original size:38 final size:39
Alignment explanation
Indices: 278223--278514 Score: 186
Period size: 39 Copynumber: 7.5 Consensus size: 39
278213 TCAATCCAAT
* * * *
278223 AATTTATTTTCTTTTA-AAAATTAGGAAAATATATCCAAC
1 AATTTATTTCCTTTTACAAAA-TAGGAAAATAAATTCTAC
* * *
278262 GATTTATTTCCTTTTACAAAATAAGAAAATAAA-TCAAAC
1 AATTTATTTCCTTTTACAAAATAGGAAAATAAATTC-TAC
** ** * * * ** *
278301 GCTTTATTTAATTTAACACAACAACAAAATGAATTCTAC
1 AATTTATTTCCTTTTACAAAATAGGAAAATAAATTCTAC
* ** *
278340 GATTTATTTCCTTTTACAAAATTCGAGAATAAA-TCTA-
1 AATTTATTTCCTTTTACAAAATAGGAAAATAAATTCTAC
** * * * * *
278377 ATGATTTATTTCCTCCTAAAAAATAGAAAAATAAATCCAATT
1 A--ATTTATTTCCTTTTACAAAATAGGAAAATAAATTCTA-C
* *
278419 AATTTATTTCCTTTTACACAATAGGAAAA-AAA-TC-AA
1 AATTTATTTCCTTTTACAAAATAGGAAAATAAATTCTAC
*
278455 ATGATTTATTTCCGTTTACAAAA-AGGAAAATAAATTCTAC
1 A--ATTTATTTCCTTTTACAAAATAGGAAAATAAATTCTAC
278495 AATTTATTTCCTTTTACAAA
1 AATTTATTTCCTTTTACAAA
278515 CCAAAATCAT
Statistics
Matches: 194, Mismatches: 46, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
36 1 0.01
37 8 0.04
38 45 0.23
39 106 0.55
40 33 0.17
42 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.37
Consensus pattern (39 bp):
AATTTATTTCCTTTTACAAAATAGGAAAATAAATTCTAC
Found at i:278595 original size:39 final size:39
Alignment explanation
Indices: 278539--278822 Score: 201
Period size: 39 Copynumber: 6.9 Consensus size: 39
278529 GATTCTCGGG
* *
278539 AAATAAATTCAATGATTTATTTCTTTTTACAAAATAGGA
1 AAATAAATTCAACGATTTATTTCCTTTTACAAAATAGGA
* *
278578 AAATAAATTCAACGATTTATTTCTTTTTACGAAATA-GA
1 AAATAAATTCAACGATTTATTTCCTTTTACAAAATAGGA
* * * *
278616 AAATTAAATCCAACAATTTATTTCCTTTTACGAAACAGGA
1 AAA-TAAATTCAACGATTTATTTCCTTTTACAAAATAGGA
* * * *
278656 AAATAAAAAAATTTACCGATTTATTTCCTTTTATAAATTAGGA
1 AAAT----AAATTCAACGATTTATTTCCTTTTACAAAATAGGA
* * * *
278699 AAATAAATCCAACTATTTGTTTCTATTTATTTCTTTTTATAAAATAAGA
1 AAATAAATTCAAC-----G-----ATTTATTTCCTTTTACAAAATAGGA
* * * * *
278748 AACTAAATCCAACGATGTATTCCCTTTTACAAAATAAGA
1 AAATAAATTCAACGATTTATTTCCTTTTACAAAATAGGA
** * *
278787 AAATAAATTCTCCGATTTATTTCCTCTTACATAATA
1 AAATAAATTCAACGATTTATTTCCTTTTACAAAATA
278823 ATATCCTTCA
Statistics
Matches: 196, Mismatches: 33, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
38 5 0.03
39 119 0.61
40 5 0.03
43 31 0.16
44 2 0.01
49 34 0.17
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (39 bp):
AAATAAATTCAACGATTTATTTCCTTTTACAAAATAGGA
Found at i:278892 original size:59 final size:56
Alignment explanation
Indices: 278782--279032 Score: 199
Period size: 58 Copynumber: 4.3 Consensus size: 56
278772 TTTTACAAAA
** * * *
278782 TAAGAAAATAAATTCTCCGATTTATTTCCTCTTACATAATA-ATATCCTTCAAGATTCC
1 TAAGAAAATAAATTAACCAATTTATTT-CTCTTACAAAATAGA-ATCATTCAAGATT-C
*
278840 TAAGAAAATAAATTAACCAAATTTATTTACTTTTACAAAATAGAATCATTCAAGATTC
1 TAAGAAAATAAATTAACC-AATTTATTT-CTCTTACAAAATAGAATCATTCAAGATTC
* * *
278898 TCAATG-AAATAAATTCAA-CTATTTATTT-TCCTTACAAAATTAGAATCATTAAAAAATT-
1 T-AA-GAAAATAAATT-AACCAATTTATTTCT-CTTACAAAA-TAGAATCATT-CAAGATTC
* * * *
278956 TCAAGGAAATAAATTTAA-CAATTTATTTTTCTTACAAAGTTAGAATCATGCAAGATTC
1 T-AAGAAAATAAA-TTAACCAATTTATTTCTCTTACAAA-ATAGAATCATTCAAGATTC
279014 TCAAGAAAATAAATCTAAC
1 T-AAGAAAATAAAT-TAAC
279033 TTTTTATTTT
Statistics
Matches: 161, Mismatches: 17, Indels: 29
0.78 0.08 0.14
Matches are distributed among these distances:
56 1 0.01
57 15 0.09
58 90 0.56
59 51 0.32
60 4 0.02
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.35
Consensus pattern (56 bp):
TAAGAAAATAAATTAACCAATTTATTTCTCTTACAAAATAGAATCATTCAAGATTC
Found at i:278965 original size:58 final size:58
Alignment explanation
Indices: 278829--279061 Score: 224
Period size: 58 Copynumber: 4.0 Consensus size: 58
278819 AATAATATCC
* * * *
278829 TTCAAGATTC-CTAAGAAAATAAATT-AACCAAATTTATTTACTTTTACAAAA-TAGAATCA
1 TTCAAGATTCTC-AAGGAAATAAATTCAA-C-TATTTATTTTC-CTTACAAAATTAGAATCA
*
278888 TTCAAGATTCTCAATGAAATAAATTCAACTATTTATTTTCCTTACAAAATTAGAATCA
1 TTCAAGATTCTCAAGGAAATAAATTCAACTATTTATTTTCCTTACAAAATTAGAATCA
* * * * * *
278946 TTAAAAAATT-TCAAGGAAATAAATTTAACAATTTATTTTTCTTACAAAGTTAGAATCA
1 TT-CAAGATTCTCAAGGAAATAAATTCAACTATTTATTTTCCTTACAAAATTAGAATCA
* * * ** *
279004 TGCAAGATTCTCAAGAAAATAAA-TCTAACTTTTTATTTTCCTTATGAAACTAGAATCA
1 TTCAAGATTCTCAAGGAAATAAATTC-AACTATTTATTTTCCTTACAAAATTAGAATCA
279062 ACGCAAGATT
Statistics
Matches: 144, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
57 14 0.10
58 100 0.69
59 27 0.19
60 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.36
Consensus pattern (58 bp):
TTCAAGATTCTCAAGGAAATAAATTCAACTATTTATTTTCCTTACAAAATTAGAATCA
Found at i:279010 original size:116 final size:116
Alignment explanation
Indices: 278845--279061 Score: 291
Period size: 116 Copynumber: 1.9 Consensus size: 116
278835 ATTCCTAAGA
*
278845 AAATAAATTAACCAAATTTATTTACTTTTACAAAATAGAATCATTCAAGATTCTCAATG-AAATA
1 AAATAAATTAACCAAATTTATTTA-TTTTACAAAATAGAATCATGCAAGATTCTCAA-GAAAATA
*
278909 AAT-TCAACTATTTATTTTCCTTACAAAATTAGAATCATTAAAAAATTTCAAGG
64 AATCT-AACTATTTATTTTCCTTACAAAACTAGAATCATTAAAAAATTTCAAGG
*
278962 AAATAAATTTAA-C-AATTTATTT-TTCTTACAAAGTTAGAATCATGCAAGATTCTCAAGAAAAT
1 AAATAAA-TTAACCAAATTTATTTATT-TTACAAA-ATAGAATCATGCAAGATTCTCAAGAAAAT
* **
279024 AAATCTAACTTTTTATTTTCCTTATGAAACTAGAATCA
63 AAATCTAACTATTTATTTTCCTTACAAAACTAGAATCA
279062 ACGCAAGATT
Statistics
Matches: 89, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
114 2 0.02
115 8 0.09
116 66 0.74
117 9 0.10
118 4 0.04
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (116 bp):
AAATAAATTAACCAAATTTATTTATTTTACAAAATAGAATCATGCAAGATTCTCAAGAAAATAAA
TCTAACTATTTATTTTCCTTACAAAACTAGAATCATTAAAAAATTTCAAGG
Found at i:279268 original size:45 final size:45
Alignment explanation
Indices: 279204--279316 Score: 158
Period size: 45 Copynumber: 2.5 Consensus size: 45
279194 GAATTGAACC
279204 TTTAATTTTAC-CAACCCAATAATC-ACAAGGAACTAATCATTTGAT
1 TTTAATTTT-CGCAACCCAATAATCGA-AAGGAACTAATCATTTGAT
* *
279249 TTTAATTTTCGCAATCCAATAATCGAAAGGAACTAATCCTTTGAT
1 TTTAATTTTCGCAACCCAATAATCGAAAGGAACTAATCATTTGAT
* *
279294 TTTACTTTTGGCAACCCAATAAT
1 TTTAATTTTCGCAACCCAATAAT
279317 TAGAAGTCTT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 1 0.02
45 59 0.97
46 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (45 bp):
TTTAATTTTCGCAACCCAATAATCGAAAGGAACTAATCATTTGAT
Found at i:289511 original size:23 final size:23
Alignment explanation
Indices: 289485--289550 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
289475 TATAAATACT
289485 AAAATAGAAAAAATAAAAATAAA
1 AAAATAGAAAAAATAAAAATAAA
* ** **
289508 AAAAAAGAAAAAGGAAAAAGGAA
1 AAAATAGAAAAAATAAAAATAAA
* *
289531 AAAAT-GCAACAATAAAAATA
1 AAAATAGAAAAAATAAAAATA
289551 CTGAATGAGA
Statistics
Matches: 31, Mismatches: 12, Indels: 1
0.70 0.27 0.02
Matches are distributed among these distances:
22 9 0.29
23 22 0.71
ACGTcount: A:0.77, C:0.03, G:0.11, T:0.09
Consensus pattern (23 bp):
AAAATAGAAAAAATAAAAATAAA
Found at i:295330 original size:188 final size:183
Alignment explanation
Indices: 295015--295373 Score: 477
Period size: 188 Copynumber: 1.9 Consensus size: 183
295005 ATTTAACTTA
* * * * *
295015 ATTTCTTATAGATATTCATAACGTTTTTAGCTTTTAACTTATTTTGTTACCGTTAAAATGTCTAA
1 ATTTCTTATAGATATTCATAACATTTTTAACTTTTAACTTATTTTGTTAACGTGAAAATGTATAA
* * * * *
295080 GGCAACAACTAAACTCCGGTAACATTTTAAGAGCAACCAAATTTATTATAGAGAAGTTTAACATT
66 GCCAACAACTAAACTCCGATAACATTTTAAGAGCAACCAAATTTATTACACAGAAATTTAACATT
* * * * *
295145 CTATATCGCAACATACTTTCTTAGCGACTGATAATATTCTTGGGCGCTACAGG
131 CTAGACCGCAACATAATTTCTTAGCCACCGATAATATTCTTGGGCGCTACAGG
*
295198 ATTTCTTATAGATATTCATAACATTTTTAACTTTTAACTTATTTTGTTAACGTGAGAATGTATAT
1 ATTTCTTATAGATATTCATAACATTTTTAACTTTTAACTTATTTTGTTAACGTGAAAATGTATA-
* *
295263 ATGACCCTATCAACTAAACTCCGATAACATTTT-AGACGCAACCAAATTTATTACACATAAATTT
65 A-G--CC-AACAACTAAACTCCGATAACATTTTAAGA-GCAACCAAATTTATTACACAGAAATTT
* *
295327 AACATTCTAGACCGTAACCTAATTTCTTAGCCACCGATAATATTCTT
125 AACATTCTAGACCGCAACATAATTTCTTAGCCACCGATAATATTCTT
295374 AGGTGCAACC
Statistics
Matches: 150, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
183 58 0.39
184 1 0.01
185 1 0.01
187 4 0.03
188 86 0.57
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (183 bp):
ATTTCTTATAGATATTCATAACATTTTTAACTTTTAACTTATTTTGTTAACGTGAAAATGTATAA
GCCAACAACTAAACTCCGATAACATTTTAAGAGCAACCAAATTTATTACACAGAAATTTAACATT
CTAGACCGCAACATAATTTCTTAGCCACCGATAATATTCTTGGGCGCTACAGG
Found at i:295398 original size:78 final size:78
Alignment explanation
Indices: 295283--295460 Score: 227
Period size: 78 Copynumber: 2.3 Consensus size: 78
295273 CAACTAAACT
* **
295283 CCGATAACATT-TTAGACGCAACCAAATTTATTACACATAAATTTAACA-TTCTAGACCGTAACC
1 CCGATAACATTCTTAGACGCAACCAAATCTATTACACATAAATTTAACATTTC-AGACCACAACC
*
295346 TAATTTCTTAGCCA
65 TAATTTCTTAGCAA
* ** * * *
295360 CCGATAATATTCTTAGGTGCAACCGAATCTATTACACATACATTTAACATTTCAGATCACAACCT
1 CCGATAACATTCTTAGACGCAACCAAATCTATTACACATAAATTTAACATTTCAGACCACAACCT
295425 AATTTCTTAGCAA
66 AATTTCTTAGCAA
295438 CCGATAACATTCTT-GATCGCAAC
1 CCGATAACATTCTTAGA-CGCAAC
295461 TGGATTTCTT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
77 11 0.13
78 71 0.84
79 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (78 bp):
CCGATAACATTCTTAGACGCAACCAAATCTATTACACATAAATTTAACATTTCAGACCACAACCT
AATTTCTTAGCAA
Found at i:296626 original size:21 final size:20
Alignment explanation
Indices: 296540--296697 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
296530 AAATGACCAA
**
296540 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
296559 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
296579 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
296599 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
296620 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
296641 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
296661 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
296682 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
296698 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:296688 original size:20 final size:20
Alignment explanation
Indices: 296664--296857 Score: 210
Period size: 20 Copynumber: 9.7 Consensus size: 20
296654 CGATTTTCCA
** *
296664 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
296684 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
296704 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
296724 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
296744 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
296764 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
296784 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
296804 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
296824 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
296844 AAATCGCAACGCGA
1 AAATCGCAACGCGA
296858 TATTTAAAGC
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 148 0.99
21 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:297250 original size:33 final size:33
Alignment explanation
Indices: 297211--297281 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
297201 TTCACTTAGA
*
297211 TTTCATTTCGCGTTACGATTCTGTCGTTACGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
* * *
297244 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
297277 TTTCA
1 TTTCA
297282 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.24, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
Found at i:297387 original size:21 final size:20
Alignment explanation
Indices: 297361--297466 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
297351 TGCAGAAGAG
297361 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
297382 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
297402 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
297423 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
297437 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
297456 TCGCAACGAGA
1 TCGCAACGAGA
297467 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 11 0.17
20 16 0.24
21 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:297405 original size:20 final size:21
Alignment explanation
Indices: 297359--297437 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
297349 TTTGCAGAAG
*
297359 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
297381 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
297400 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
297422 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
297438 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:297418 original size:41 final size:38
Alignment explanation
Indices: 297354--297470 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
297344 TTCAATTTGC
* *
297354 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
297392 AGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
297433 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
297466 AGAAT
1 AGAAT
297471 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.10
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:297443 original size:14 final size:14
Alignment explanation
Indices: 297424--297477 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
297414 AAATGAAAAG
297424 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
297438 CGCAACGCGAAATGAAAAT
1 CGCAA--CG--A-GAGAAT
297457 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
297471 CGCAACG
1 CGCAACG
297478 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.43, C:0.24, G:0.26, T:0.07
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:297453 original size:33 final size:33
Alignment explanation
Indices: 297413--297482 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
297403 CGCAACGAGA
297413 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
*
297446 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
297479 GAAA
1 GAAA
297483 CCAAAATCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.26, T:0.07
Consensus pattern (33 bp):
GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
Found at i:297489 original size:33 final size:33
Alignment explanation
Indices: 297419--297493 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
297409 GAGAGAAATG
* **
297419 AAAAGCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
297452 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
297485 AAAATCGCA
1 AAAATCGCA
297494 TTTTTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.23, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:297633 original size:33 final size:33
Alignment explanation
Indices: 297594--297664 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
297584 TTCACTTAGA
*
297594 TTTCATTTCGCGTTACGATTCTGTCGTTACGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
* * *
297627 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
297660 TTTCA
1 TTTCA
297665 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.24, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
Found at i:297770 original size:21 final size:20
Alignment explanation
Indices: 297744--297849 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
297734 TGCAGAAGAG
297744 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
297765 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
297785 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
297806 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
297820 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
297839 TCGCAACGAGA
1 TCGCAACGAGA
297850 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 11 0.17
20 16 0.24
21 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:297788 original size:20 final size:21
Alignment explanation
Indices: 297742--297820 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
297732 TTTGCAGAAG
*
297742 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
297764 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
297783 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
297805 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
297821 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:297801 original size:41 final size:38
Alignment explanation
Indices: 297737--297853 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
297727 TTCAATTTGC
* *
297737 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
297775 AGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
297816 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
297849 AGAAT
1 AGAAT
297854 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.10
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:297817 original size:383 final size:383
Alignment explanation
Indices: 297110--297878 Score: 1538
Period size: 383 Copynumber: 2.0 Consensus size: 383
297100 TTTTTTAATT
297110 ATTTTTATTTTGAAATGTTTGCATTATTGTAGGTTTTTCATATTGAAACTGATGATAAGTTTACT
1 ATTTTTATTTTGAAATGTTTGCATTATTGTAGGTTTTTCATATTGAAACTGATGATAAGTTTACT
297175 GGTCATTTCAATAATAGATTAACCATTTCACTTAGATTTCATTTCGCGTTACGATTCTGTCGTTA
66 GGTCATTTCAATAATAGATTAACCATTTCACTTAGATTTCATTTCGCGTTACGATTCTGTCGTTA
297240 CGATTTTCATTTCGCGTTGCTATTCTCTCGTTCCGATTTTCAAGTTAGTATTTGTCTTTGTCTTT
131 CGATTTTCATTTCGCGTTGCTATTCTCTCGTTCCGATTTTCAAGTTAGTATTTGTCTTTGTCTTT
297305 GTTCTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTGCAGAAGAGTCGCAACGA
196 GTTCTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTGCAGAAGAGTCGCAACGA
297370 GATAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAGAG
261 GATAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAGAG
297435 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAACCAAAATCGC
326 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAACCAAAATCGC
297493 ATTTTTATTTTGAAATGTTTGCATTATTGTAGGTTTTTCATATTGAAACTGATGATAAGTTTACT
1 ATTTTTATTTTGAAATGTTTGCATTATTGTAGGTTTTTCATATTGAAACTGATGATAAGTTTACT
297558 GGTCATTTCAATAATAGATTAACCATTTCACTTAGATTTCATTTCGCGTTACGATTCTGTCGTTA
66 GGTCATTTCAATAATAGATTAACCATTTCACTTAGATTTCATTTCGCGTTACGATTCTGTCGTTA
297623 CGATTTTCATTTCGCGTTGCTATTCTCTCGTTCCGATTTTCAAGTTAGTATTTGTCTTTGTCTTT
131 CGATTTTCATTTCGCGTTGCTATTCTCTCGTTCCGATTTTCAAGTTAGTATTTGTCTTTGTCTTT
297688 GTTCTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTGCAGAAGAGTCGCAACGA
196 GTTCTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTGCAGAAGAGTCGCAACGA
297753 GATAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAGAG
261 GATAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAGAG
297818 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAACCAAAATCGC
326 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAACCAAAATCGC
297876 ATT
1 ATT
297879 GCGATTTTCA
Statistics
Matches: 386, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
383 386 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (383 bp):
ATTTTTATTTTGAAATGTTTGCATTATTGTAGGTTTTTCATATTGAAACTGATGATAAGTTTACT
GGTCATTTCAATAATAGATTAACCATTTCACTTAGATTTCATTTCGCGTTACGATTCTGTCGTTA
CGATTTTCATTTCGCGTTGCTATTCTCTCGTTCCGATTTTCAAGTTAGTATTTGTCTTTGTCTTT
GTTCTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTGCAGAAGAGTCGCAACGA
GATAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAGAG
AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAACCAAAATCGC
Found at i:297826 original size:14 final size:14
Alignment explanation
Indices: 297807--297860 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
297797 AAATGAAAAG
297807 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
297821 CGCAACGCGAAATGAAAAT
1 CGCAA--CG--A-GAGAAT
297840 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
297854 CGCAACG
1 CGCAACG
297861 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.43, C:0.24, G:0.26, T:0.07
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:297836 original size:33 final size:33
Alignment explanation
Indices: 297796--297865 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
297786 CGCAACGAGA
297796 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
*
297829 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
297862 GAAA
1 GAAA
297866 CCAAAATCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.26, T:0.07
Consensus pattern (33 bp):
GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
Found at i:297872 original size:33 final size:33
Alignment explanation
Indices: 297802--297876 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
297792 GAGAGAAATG
* **
297802 AAAAGCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
297835 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
297868 AAAATCGCA
1 AAAATCGCA
297877 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.23, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:297894 original size:19 final size:19
Alignment explanation
Indices: 297872--297969 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
297862 GAAACCAAAA
*
297872 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
297891 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
297905 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
297924 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
297938 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
297957 TCGCGTTGCGATT
1 TCGCGTTGCGATT
297970 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 20 0.33
16 4 0.07
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:297913 original size:14 final size:14
Alignment explanation
Indices: 297894--297983 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
297884 TTTCATTTCG
297894 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
297908 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
297927 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
297941 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
297958 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
297974 CGTTGCGATT
1 CGTTGCGATT
297984 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 2 0.03
16 7 0.11
17 7 0.11
18 2 0.03
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:297923 original size:33 final size:33
Alignment explanation
Indices: 297877--297991 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
297867 CAAAATCGCA
*
297877 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
297910 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
297943 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
297976 TTGCGATTTTCATTTC
1 TTGCGATTGTCATTTC
297992 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
Found at i:300027 original size:185 final size:186
Alignment explanation
Indices: 299688--300159 Score: 903
Period size: 185 Copynumber: 2.5 Consensus size: 186
299678 TAGATTGCTT
*
299688 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
299753 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGTTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
299818 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
299874 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
299939 TTTGTCTTTG-TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
300003 GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
300059 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
300124 TTTGTCTTTGTTTTGTC-TTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
300160 ATCCATTCAA
Statistics
Matches: 282, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
185 202 0.72
186 80 0.28
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:300178 original size:93 final size:93
Alignment explanation
Indices: 299688--300159 Score: 903
Period size: 93 Copynumber: 5.1 Consensus size: 93
299678 TAGATTGCTT
*
299688 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
299753 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
299781 AGTAAATTTGTTCGGTTGTTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
299846 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
299874 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
299939 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
299966 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
300031 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
300059 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
300124 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
300151 AGTAAATTT
1 AGTAAATTT
300160 ATCCATTCAA
Statistics
Matches: 373, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 110 0.29
93 263 0.71
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:300243 original size:19 final size:19
Alignment explanation
Indices: 300203--300330 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
300193 TAGTTTACTT
* *
300203 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
300223 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
300242 TCGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACCAAAA
*
300260 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
300274 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
300293 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
300307 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
300326 TCGCA
1 TCGCA
300331 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 36 0.41
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:300299 original size:33 final size:32
Alignment explanation
Indices: 300239--300330 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
300229 CGCGAAACCA
**
300239 AAATCGCAACGCGAAA-TGAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
300270 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
300303 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
300331 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.02
32 16 0.29
33 39 0.70
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:300348 original size:19 final size:19
Alignment explanation
Indices: 300326--300460 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
300316 GAAACCAAAA
*
300326 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
300345 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
300361 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
300378 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
300394 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
300411 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
300430 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
300450 TCGTGTTGCGA
1 TCGCGTTGCGA
300461 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:300367 original size:14 final size:14
Alignment explanation
Indices: 300348--300404 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
300338 TTTCATTTCG
300348 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
300362 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
300379 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
300395 CGTTGCGATT
1 CGTTGCGATT
300405 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:300373 original size:33 final size:33
Alignment explanation
Indices: 300331--300423 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
300321 CAAAATCGCA
*
300331 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
300364 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
300397 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
300424 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:302402 original size:14 final size:14
Alignment explanation
Indices: 302383--302418 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
302373 ATTGTTTAAT
302383 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
302397 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
302411 TGATTTGT
1 TGATTTGT
302419 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:302552 original size:19 final size:19
Alignment explanation
Indices: 302528--302623 Score: 139
Period size: 19 Copynumber: 5.3 Consensus size: 19
302518 TTGACTATCA
302528 CAATGCGAAATGAAAATCG
1 CAATGCGAAATGAAAATCG
302547 CAATGCGAAATGAAAATCG
1 CAATGCGAAATGAAAATCG
*
302566 CAA--CG--A-GAGAATCG
1 CAATGCGAAATGAAAATCG
302580 CAATGCGAAATGAAAATCG
1 CAATGCGAAATGAAAATCG
302599 CAATGCGGAAATGAAAATCG
1 CAATGC-GAAATGAAAATCG
302619 CAATG
1 CAATG
302624 GGAGAATCGC
Statistics
Matches: 69, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 35 0.51
20 18 0.26
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
CAATGCGAAATGAAAATCG
Found at i:302653 original size:53 final size:53
Alignment explanation
Indices: 302528--302640 Score: 201
Period size: 53 Copynumber: 2.2 Consensus size: 53
302518 TTGACTATCA
302528 CAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCG
1 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG
* *
302580 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGAATCG
1 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG
302633 CAATGCGA
1 CAATGCGA
302641 TTTTAATTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 25 0.43
53 33 0.57
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (53 bp):
CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG
Found at i:302658 original size:19 final size:19
Alignment explanation
Indices: 302630--302775 Score: 121
Period size: 19 Copynumber: 8.6 Consensus size: 19
302620 AATGGGAGAA
* *
302630 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
302649 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
302665 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
302681 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
302700 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
302714 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
302731 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
302747 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
302764 TCCGCATTGCGA
1 T-CGCATTGCGA
302776 AATGTAATGG
Statistics
Matches: 104, Mismatches: 5, Indels: 35
0.72 0.03 0.24
Matches are distributed among these distances:
12 6 0.06
14 18 0.17
15 2 0.02
16 17 0.16
17 13 0.12
18 8 0.08
19 34 0.33
20 6 0.06
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:302693 original size:51 final size:50
Alignment explanation
Indices: 302630--302743 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 50
302620 AATGGGAGAA
*
302630 TCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGA-T-TCTCGTTGCGATTTTCATT
*
302681 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCGTTGCGATTTTCATT
302731 TCGCATTGCGATT
1 TCGCATTGCGATT
302744 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
49 11 0.18
50 21 0.35
51 28 0.47
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (50 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCGTTGCGATTTTCATT
Found at i:302724 original size:31 final size:33
Alignment explanation
Indices: 302686--302775 Score: 157
Period size: 31 Copynumber: 2.8 Consensus size: 33
302676 TCATTTCGCA
302686 TTGCGATTTTCATTTCGCATTGCGA-T-TCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
302717 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
302750 TTGCGATTTTCATTTCCGCATTGCGA
1 TTGCGATTTTCATTT-CGCATTGCGA
302776 AATGTAATGG
Statistics
Matches: 56, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
31 25 0.45
32 1 0.02
33 20 0.36
34 10 0.18
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:302902 original size:20 final size:19
Alignment explanation
Indices: 302834--302912 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
302824 AAAATTGACT
302834 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
302853 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
302867 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
302886 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
302906 ATCGCAA
1 ATCGCAA
302913 CGAGAGAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 20 0.38
20 16 0.31
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:305260 original size:12 final size:12
Alignment explanation
Indices: 305243--305267 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
305233 TCTTCGGGGA
305243 CTTTTTCTTCTT
1 CTTTTTCTTCTT
305255 CTTTTTCTTCTT
1 CTTTTTCTTCTT
305267 C
1 C
305268 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:305475 original size:24 final size:24
Alignment explanation
Indices: 305441--305487 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
305431 CTGAAACATC
305441 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
305465 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
305488 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:306196 original size:20 final size:20
Alignment explanation
Indices: 306168--306417 Score: 259
Period size: 20 Copynumber: 12.5 Consensus size: 20
306158 AAATTTCAGT
* * *
306168 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
306188 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
306208 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
306228 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
306248 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
306268 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
306288 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
306308 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
306328 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
306348 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
306368 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
306388 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
306408 GTTGCGATTT
1 GTTGCGATTT
306418 TGGAAAATCG
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 199 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:306434 original size:21 final size:21
Alignment explanation
Indices: 306404--306486 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
306394 ATTTTCATAT
*
306404 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
306425 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
306446 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
306467 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
306487 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:306477 original size:42 final size:43
Alignment explanation
Indices: 306384--306482 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
306374 ATTTATGTGT
* *
306384 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
306425 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
306467 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
306483 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:318327 original size:2 final size:2
Alignment explanation
Indices: 318320--318361 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
318310 GATTTAGATT
318320 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
318362 AACAGAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:322429 original size:54 final size:54
Alignment explanation
Indices: 322360--322847 Score: 762
Period size: 54 Copynumber: 9.0 Consensus size: 54
322350 ACACGTAACA
* * *
322360 CCAATACGGAAATTCATAAACTTATTATGAATTTATTAAGCTGCACACACAGTG
1 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* *
322414 CTAATACAAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
1 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
*
322468 CCAATACGAAAATTCATATACTTATTATGAATTTCTTAAGTTGCACACACAGTG
1 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* *
322522 CCAATACGAAAATTCATAAACTTATTATGAATTTGTTAAGTTGCACTCACAGTG
1 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* *
322576 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACATAGTG
1 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
*
322630 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCATACACAGTG
1 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* * *
322684 CCAATACGGAAATTCATAAACTTATTGTGAATTTCTTAAGTTGCACACACAATG
1 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* *
322738 CCAATA-TAGAAATTCATAAACTTATTGTGAATTTCTTAAGTTGCACACACAGTG
1 CCAATACGA-AAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* * ** * *
322792 CCAATACGGAAATTCATAAACTTAGTATGTTTTTTTTAAGTTGCACACATAGTG
1 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
322846 CC
1 CC
322848 CATTTGGTGA
Statistics
Matches: 399, Mismatches: 33, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
54 399 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (54 bp):
CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
Found at i:325336 original size:39 final size:39
Alignment explanation
Indices: 325281--325434 Score: 209
Period size: 39 Copynumber: 3.9 Consensus size: 39
325271 AGTCAAACAA
*
325281 AAGTGCTTACGTATAAGGTTGCGTCCACCATTTGCACCG
1 AAGTGCTTACGCATAAGGTTGCGTCCACCATTTGCACCG
* *
325320 AAGTGCTTACGCATAAGGTTGCGCCCACCATTTGCACTG
1 AAGTGCTTACGCATAAGGTTGCGTCCACCATTTGCACCG
* * *
325359 AAGTGCTTACTCATAAGGTTGCATCCACCATTTGCACCA
1 AAGTGCTTACGCATAAGGTTGCGTCCACCATTTGCACCG
* * * * *
325398 AAGTACTTATGCATAAGGTTGTGTACACCATATGCAC
1 AAGTGCTTACGCATAAGGTTGCGTCCACCATTTGCAC
325435 TAGGTATCAT
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 100 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (39 bp):
AAGTGCTTACGCATAAGGTTGCGTCCACCATTTGCACCG
Found at i:333257 original size:2 final size:2
Alignment explanation
Indices: 333250--333284 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
333240 ACCTTGACAC
333250 TA 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 TA T
333285 CCAAATATTA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:351797 original size:29 final size:29
Alignment explanation
Indices: 351755--351853 Score: 198
Period size: 29 Copynumber: 3.4 Consensus size: 29
351745 TAGCATTAGT
351755 TTTGATGTGTTATTTTGCTTTTCAATGTG
1 TTTGATGTGTTATTTTGCTTTTCAATGTG
351784 TTTGATGTGTTATTTTGCTTTTCAATGTG
1 TTTGATGTGTTATTTTGCTTTTCAATGTG
351813 TTTGATGTGTTATTTTGCTTTTCAATGTG
1 TTTGATGTGTTATTTTGCTTTTCAATGTG
351842 TTTGATGTGTTA
1 TTTGATGTGTTA
351854 GATATTCAGG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.14, C:0.06, G:0.21, T:0.59
Consensus pattern (29 bp):
TTTGATGTGTTATTTTGCTTTTCAATGTG
Found at i:359390 original size:11 final size:11
Alignment explanation
Indices: 359374--359398 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
359364 TTGTTGAGCA
359374 CTTTTCTTCCT
1 CTTTTCTTCCT
359385 CTTTTCTTCCT
1 CTTTTCTTCCT
359396 CTT
1 CTT
359399 GATTTCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
CTTTTCTTCCT
Found at i:362662 original size:16 final size:16
Alignment explanation
Indices: 362641--362693 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
362631 GATATGATCT
362641 ATGTGACCATATGAGA
1 ATGTGACCATATGAGA
*
362657 ATGTGA-C--ATGAGCT
1 ATGTGACCATATGAG-A
362671 ATGTGACCATATGAGA
1 ATGTGACCATATGAGA
362687 ATGTGAC
1 ATGTGAC
362694 ATGAGATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 5 0.16
14 6 0.19
15 2 0.06
16 13 0.42
17 5 0.16
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.26
Consensus pattern (16 bp):
ATGTGACCATATGAGA
Found at i:362675 original size:30 final size:30
Alignment explanation
Indices: 362629--362698 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
362619 TAGCAGCCAC
* *
362629 GTGATATGATCTATGTGACCATATGAGAAT
1 GTGACATGAGCTATGTGACCATATGAGAAT
362659 GTGACATGAGCTATGTGACCATATGAGAAT
1 GTGACATGAGCTATGTGACCATATGAGAAT
362689 GTGACATGAG
1 GTGACATGAG
362699 ATTATATGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (30 bp):
GTGACATGAGCTATGTGACCATATGAGAAT
Found at i:362699 original size:13 final size:13
Alignment explanation
Indices: 362651--362699 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
362641 ATGTGACCAT
362651 ATGAGAATGTGAC
1 ATGAGAATGTGAC
*
362664 ATGAGCTATGTGACC
1 ATGAG-AATGTGA-C
362679 ATATGAGAATGTGAC
1 --ATGAGAATGTGAC
362694 ATGAGA
1 ATGAGA
362700 TTATATGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 11 0.37
14 6 0.20
15 2 0.07
16 6 0.20
17 5 0.17
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (13 bp):
ATGAGAATGTGAC
Found at i:362713 original size:23 final size:21
Alignment explanation
Indices: 362679--362738 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
362669 CTATGTGACC
362679 ATATGAGA-ATGTGACATGAGATT
1 ATATGA-ATATGTGACATGA-A-T
* *
362702 ATATGCATATGTGAAATGAAT
1 ATATGAATATGTGACATGAAT
*
362723 ATGTGAATATGTGACA
1 ATATGAATATGTGACA
362739 AACAAAATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 14 0.45
22 2 0.06
23 15 0.48
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (21 bp):
ATATGAATATGTGACATGAAT
Found at i:362864 original size:21 final size:21
Alignment explanation
Indices: 362811--362875 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
362801 AGTCGAAGGT
* *
362811 TACATATGTTCTTCGGGACATA
1 TACATAGGTCCTTCGGGACA-A
362833 TACATAGGTCCTTCGGGAC-A
1 TACATAGGTCCTTCGGGACAA
362853 TACATGAGGTCCTTCGGGGACAA
1 TACAT-AGGTCCTTC-GGGACAA
362876 ATTTCATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 6 0.16
21 9 0.24
22 22 0.58
23 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (21 bp):
TACATAGGTCCTTCGGGACAA
Found at i:363179 original size:6 final size:6
Alignment explanation
Indices: 363168--365795 Score: 3699
Period size: 6 Copynumber: 442.3 Consensus size: 6
363158 GGTTATGAGG
363168 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363216 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363264 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363312 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363360 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363408 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363456 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363504 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363552 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363600 G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
363646 GTATAT GTATAT GTATAT ATATGTAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTA--TAT GTATAT GTATAT GTATAT GTATAT
363696 G--TAT GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363740 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363788 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363834 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363882 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363930 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
363978 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364024 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364072 GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364118 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364166 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364214 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364262 G--TAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364306 G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364352 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TATAT GTATAT
364402 GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364448 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364494 GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364540 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364588 G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364634 GTATAT GTATAT GTATATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT G--TATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364684 GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364730 GTATAT GTATAT GTATAT GTATATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT G--TATAT GTATAT GTATAT GTATAT GTATAT
364780 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * *
364828 GTATAT GTATAAAT GTATAT GTATAT GTAAAT GTAAAT GTAAAT GTAAAT
1 GTATAT GTAT--AT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
364878 GTA-AT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * *
364925 GTATAT GTATAT GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* *
364973 GTAAAT GTAAAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * *
365019 GTATAT GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT G--TAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* *
365065 GTATAT GTATAT GTATAT GTATAT GTATAT GTA-AT GTAAAT GTAAAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365112 GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365160 GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT GTAAAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365208 GTAAAT GTAAAT GTAAAT GTAAAT GTATGT GTATGT GTATGT GTATGT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365256 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365304 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365352 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365400 GTATGT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365448 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365496 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365544 GTGTAT GTGTAT G--TGT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365590 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * * *
365638 GTGTAT GTGTGT GTATGT GTATGT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365686 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * * * * * * *
365734 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* *
365782 GTGTAT GTCTAT GT
1 GTATAT GTATAT GT
365796 GTGTATTTAT
Statistics
Matches: 2558, Mismatches: 18, Indels: 92
0.96 0.01 0.03
Matches are distributed among these distances:
4 66 0.03
5 10 0.00
6 2453 0.96
8 29 0.01
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.48
Consensus pattern (6 bp):
GTATAT
Found at i:366397 original size:30 final size:29
Alignment explanation
Indices: 366356--366418 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 29
366346 TTATGTTGTG
366356 GATGATTGATTTG-TG-TTTGGAGACTTGA
1 GATGATTGATTTGTTGTTTTGGAGA-TTGA
366384 CGATGATTTGATTTGTTGTTTTGGAGATTGA
1 -GATGA-TTGATTTGTTGTTTTGGAGATTGA
366415 GATG
1 GATG
366419 CATGATCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 5 0.16
30 12 0.39
31 6 0.19
32 8 0.26
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.44
Consensus pattern (29 bp):
GATGATTGATTTGTTGTTTTGGAGATTGA
Found at i:368805 original size:23 final size:23
Alignment explanation
Indices: 368751--368805 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
368741 GGAATGTAGG
* * *
368751 ATTCTCATAGGAATGGAATATAT
1 ATTCTCATGGGAATGAAATATAC
368774 ATTCTCATGGGAATGAAATATAC
1 ATTCTCATGGGAATGAAATATAC
*
368797 ATTCCCATG
1 ATTCTCATG
368806 TTTGGTTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (23 bp):
ATTCTCATGGGAATGAAATATAC
Found at i:372438 original size:12 final size:13
Alignment explanation
Indices: 372414--372446 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
372404 ATTGAATTGT
372414 TTTTATATTTAAA
1 TTTTATATTTAAA
372427 TTTTAT-TTTAAA
1 TTTTATATTTAAA
372439 TATTTATA
1 T-TTTATA
372447 ATACTATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTATATTTAAA
Found at i:386223 original size:45 final size:46
Alignment explanation
Indices: 386174--386261 Score: 151
Period size: 45 Copynumber: 1.9 Consensus size: 46
386164 GAACATCGAA
* *
386174 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTTAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTTAG
386219 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACT
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACT
386262 CAGGCTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 21 0.52
46 19 0.47
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTTAG
Found at i:391026 original size:23 final size:23
Alignment explanation
Indices: 390995--391043 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
390985 AGTTCAGGTT
390995 CGAACTTGAGTTTGAACTTGAAC
1 CGAACTTGAGTTTGAACTTGAAC
* * *
391018 CGAATTTGAGTTTGAGCTTTAAC
1 CGAACTTGAGTTTGAACTTGAAC
391041 CGA
1 CGA
391044 GCTAAATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (23 bp):
CGAACTTGAGTTTGAACTTGAAC
Found at i:392256 original size:12 final size:12
Alignment explanation
Indices: 392239--392268 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
392229 TTGTTACCTT
392239 GTCTTTCGACTA
1 GTCTTTCGACTA
392251 GTCTTTCGACTA
1 GTCTTTCGACTA
392263 GTCTTT
1 GTCTTT
392269 ATTCTTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (12 bp):
GTCTTTCGACTA
Found at i:392451 original size:22 final size:21
Alignment explanation
Indices: 392426--392471 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
392416 TGAAAAAAGT
392426 TATACATATAT-TGCACTTGATA
1 TATACATATATGT-CACTTG-TA
*
392448 TATATATATATGTCACTTGTA
1 TATACATATATGTCACTTGTA
392469 TAT
1 TAT
392472 GTTTTCTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 16 0.73
23 1 0.05
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (21 bp):
TATACATATATGTCACTTGTA
Found at i:404519 original size:23 final size:22
Alignment explanation
Indices: 404490--404571 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 22
404480 GCATAACCCC
404490 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
404512 CGTGCATCGGTGCA-TTATC-ATG
1 -GTGCATCGATGCACAT-TCAAGG
* *
404534 ATGAATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
404557 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
404572 TGTTAAGTGT
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
21 12 0.27
22 4 0.09
23 16 0.36
24 12 0.27
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:410412 original size:18 final size:17
Alignment explanation
Indices: 410358--410406 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
410348 TTGGACCCTT
* *
410358 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
410376 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
410394 AGTGCATTCGATG
1 AGTGCA-TCGATG
410407 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:410475 original size:46 final size:45
Alignment explanation
Indices: 410375--410482 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
410365 CGGTGCACTA
*
410375 AGAGTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCC
1 AGAGTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAACAGCC
* *
410420 AGAGTGCATCGATGCATCGAA-TGCATTCGATGTTTTCATAACATCC
1 AGAGTGCATCGATGCATC-AAGTGCATTCGATG-TTTCAAAACAGCC
** *
410466 TTAGTGCATCGGTGCAT
1 AGAGTGCATCGATGCAT
410483 GGTATATGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 29 0.53
46 26 0.47
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (45 bp):
AGAGTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAACAGCC
Found at i:413525 original size:14 final size:14
Alignment explanation
Indices: 413506--413532 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
413496 TCTTTCTCCC
413506 TATTAAGTTAAGGT
1 TATTAAGTTAAGGT
413520 TATTAAGTTAAGG
1 TATTAAGTTAAGG
413533 CGATAGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (14 bp):
TATTAAGTTAAGGT
Found at i:417963 original size:22 final size:20
Alignment explanation
Indices: 417922--417975 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
417912 TACTCAAGGG
417922 GAGTATCGATACCACAGTAT
1 GAGTATCGATACCACAGTAT
**
417942 AGAAGTATCGATACCATGGTAT
1 -G-AGTATCGATACCACAGTAT
*
417964 GGGTATCGATAC
1 GAGTATCGATAC
417976 TATTGAGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.34
21 2 0.07
22 17 0.59
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
GAGTATCGATACCACAGTAT
Found at i:417975 original size:94 final size:94
Alignment explanation
Indices: 417756--417959 Score: 234
Period size: 94 Copynumber: 2.1 Consensus size: 94
417746 ACTTAGGTGG
*
417756 GTATCGATACCATGAGGAAGGTATCGATACCATTGATTTACAGAATACAGAAATGGTATCGATAT
1 GTATCGATACCATGA-GAAGGTATCGATACCATGGATTTACAGAATACAGAAATGGTATCGATAT
* *
417821 CGTAATAGAGTATCAATACCATAGTATAGAA
65 CG-AAGAGAGTATCAATACCACAGTATAGAA
* * * ** * *
417852 GTATCGGTACTAAGAGACAAATACCGATACCATGGA-TT-CAGAATATAGAAATGGTATCGATAC
1 GTATCGATACCATGAGA-AGGTATCGATACCATGGATTTACAGAATACAGAAATGGTATCGATA-
* *
417915 TC-AAGGGGAGTATCGATACCACAGTATAGAA
64 TCGAA-GAGAGTATCAATACCACAGTATAGAA
417946 GTATCGATACCATG
1 GTATCGATACCATG
417960 GTATGGGTAT
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
93 2 0.02
94 56 0.62
95 6 0.07
96 26 0.29
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (94 bp):
GTATCGATACCATGAGAAGGTATCGATACCATGGATTTACAGAATACAGAAATGGTATCGATATC
GAAGAGAGTATCAATACCACAGTATAGAA
Found at i:418639 original size:55 final size:55
Alignment explanation
Indices: 418308--418622 Score: 558
Period size: 55 Copynumber: 5.7 Consensus size: 55
418298 ACTATACGTT
418308 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGC
*
418363 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGA
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGC
*
418418 AAAACTAATAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGC
* * *
418473 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTATGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGC
* *
418528 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTGTGTTTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGC
*
418583 AAAACTAAGAAATTCATAATAAGTTTATGAATATCCGTAT
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
418623 TGGTAGTGGG
Statistics
Matches: 246, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 246 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (55 bp):
AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGC
Found at i:418651 original size:110 final size:108
Alignment explanation
Indices: 418317--418661 Score: 505
Period size: 110 Copynumber: 3.1 Consensus size: 108
418307 TAAAACTAAG
418317 AAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAA
1 AAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAA
* * *
418382 TAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGAAAAACTAAT
66 TAAGTTTATGAATTTCCGTATTGGCACTGTGTGTG--CAACTAGT
418427 AAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAA
1 AAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAA
* *
418492 TAAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAAAACTAAG-
66 TAAGTTTATGAATTTCCGTATTGGCACTGTGTGTGC--AACT-AGT
* *
418537 AAATTCATAATAAGTTTATGAATTTCCATATGGGCACTGTGTTTGCAAAACTAAGAAATTCATAA
1 AAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAA
* * * *
418602 TAAGTTTATGAATATCCGTATTGGTAGTGGGTGTGCAACTCACGT
66 TAAGTTTATGAATTTCCGTATTGGCACTGTGTGTGCAACT-A-GT
*
418647 AAATT-ATAGTAAGTT
1 AAATTCATAATAAGTT
418662 GGGAAATTAC
Statistics
Matches: 215, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
108 5 0.02
109 10 0.05
110 199 0.93
111 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (108 bp):
AAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAA
TAAGTTTATGAATTTCCGTATTGGCACTGTGTGTGCAACTAGT
Found at i:420191 original size:116 final size:120
Alignment explanation
Indices: 420031--420250 Score: 403
Period size: 116 Copynumber: 1.9 Consensus size: 120
420021 CCCGAGTCAC
*
420031 TTTAGTATATGATACTAGTATCGATGAGTAGATTTAGTCCGGATATCCTTAGGTAGTGCACAAGG
1 TTTAGTATATGATACTAGTAGCGATGAGTAGATTTAGTCCGGATATCCTTAGGTAGTGCACAAGG
420096 TACTTAAAATTGACTAACTAGGGCCAAGGCCCGACACTCAGGATACCGAGCAGAG
66 TACTTAAAATTGACTAACTAGGGCCAAGGCCCGACACTCAGGATACCGAGCAGAG
420151 TTTAGT-TATGATA-TAGT-GCG-TGAGTAGATTTAGTCCGGATATCCTTAGGTAGTGCACAAGG
1 TTTAGTATATGATACTAGTAGCGATGAGTAGATTTAGTCCGGATATCCTTAGGTAGTGCACAAGG
420212 TACTTAAAATTGACTAACTAGGGCCAAGGCCCGACACTC
66 TACTTAAAATTGACTAACTAGGGCCAAGGCCCGACACTC
420251 GCAATGGGTG
Statistics
Matches: 99, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
116 80 0.81
117 2 0.02
118 4 0.04
119 7 0.07
120 6 0.06
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (120 bp):
TTTAGTATATGATACTAGTAGCGATGAGTAGATTTAGTCCGGATATCCTTAGGTAGTGCACAAGG
TACTTAAAATTGACTAACTAGGGCCAAGGCCCGACACTCAGGATACCGAGCAGAG
Found at i:420431 original size:107 final size:107
Alignment explanation
Indices: 420245--420458 Score: 428
Period size: 107 Copynumber: 2.0 Consensus size: 107
420235 CCAAGGCCCG
420245 ACACTCGCAATGGGTGGGTTAGTTGAGAGTGTTGACCGATGCAGAGTTTAAGGCTTTATCTTCCG
1 ACACTCGCAATGGGTGGGTTAGTTGAGAGTGTTGACCGATGCAGAGTTTAAGGCTTTATCTTCCG
420310 TAGATTATAGGGGTGCGTGAGCTATGAGATACAACACCCTTA
66 TAGATTATAGGGGTGCGTGAGCTATGAGATACAACACCCTTA
420352 ACACTCGCAATGGGTGGGTTAGTTGAGAGTGTTGACCGATGCAGAGTTTAAGGCTTTATCTTCCG
1 ACACTCGCAATGGGTGGGTTAGTTGAGAGTGTTGACCGATGCAGAGTTTAAGGCTTTATCTTCCG
420417 TAGATTATAGGGGTGCGTGAGCTATGAGATACAACACCCTTA
66 TAGATTATAGGGGTGCGTGAGCTATGAGATACAACACCCTTA
420459 GCCGCACCAT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (107 bp):
ACACTCGCAATGGGTGGGTTAGTTGAGAGTGTTGACCGATGCAGAGTTTAAGGCTTTATCTTCCG
TAGATTATAGGGGTGCGTGAGCTATGAGATACAACACCCTTA
Found at i:420931 original size:15 final size:16
Alignment explanation
Indices: 420893--420934 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
420883 ATGTTACAAA
420893 ATATTATGTATAAAAAT
1 ATATTAT-TATAAAAAT
*
420910 A-AGTATT-TAAAAAT
1 ATATTATTATAAAAAT
420924 ATATTATTATA
1 ATATTATTATA
420935 GATAGAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
14 8 0.38
15 6 0.29
16 6 0.29
17 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (16 bp):
ATATTATTATAAAAAT
Found at i:432012 original size:13 final size:15
Alignment explanation
Indices: 431982--432014 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
431972 GATTTATCAA
431982 ATCATGATAAACATT
1 ATCATGATAAACATT
431997 ATCA-GATAAA-ATT
1 ATCATGATAAACATT
432010 ATCAT
1 ATCAT
432015 TTCCTGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (15 bp):
ATCATGATAAACATT
Found at i:440918 original size:30 final size:31
Alignment explanation
Indices: 440857--440918 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
440847 GTTGAACCGA
* * *
440857 ATACAAAGCTTTATAAATAACTTTAATCATC
1 ATACAAAGCTTTAGAAATAACTCTAAACATC
440888 ATAC-AAGCTTTAGAAATAA-TCTAGAACATC
1 ATACAAAGCTTTAGAAATAACTCTA-AACATC
440918 A
1 A
440919 ATAACATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.11
30 20 0.74
31 4 0.15
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (31 bp):
ATACAAAGCTTTAGAAATAACTCTAAACATC
Found at i:442028 original size:20 final size:20
Alignment explanation
Indices: 442011--442052 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
442001 CATTTTGTGT
442011 ATATAGTATCAATATTGTTC
1 ATATAGTATCAATATTGTTC
*
442031 ATATAGTATCGATATTGTTC
1 ATATAGTATCAATATTGTTC
442051 AT
1 AT
442053 CCTATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
ATATAGTATCAATATTGTTC
Found at i:442420 original size:25 final size:25
Alignment explanation
Indices: 442369--442421 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
442359 AATATTTAAA
* *
442369 AAAAAACTAAACTTTTTTCAAATCTT
1 AAAAAACTAAAC-TTTTTAAAACCTT
442395 AAAAAACTAAAAC-TTTTAAAACCTT
1 AAAAAACT-AAACTTTTTAAAACCTT
442420 AA
1 AA
442422 TTTTAATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
26 8 0.33
27 4 0.17
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAAAACTAAACTTTTTAAAACCTT
Found at i:445023 original size:2 final size:2
Alignment explanation
Indices: 445016--445042 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
445006 TGTGTTGCAA
445016 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
445043 CTTCTTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:446918 original size:56 final size:56
Alignment explanation
Indices: 446858--446984 Score: 254
Period size: 56 Copynumber: 2.3 Consensus size: 56
446848 TCTTGTCGTG
446858 TTGGTTTTCATTAATGTGTTTGTGTGTCAATATGTTTATATATATAAACATTCATC
1 TTGGTTTTCATTAATGTGTTTGTGTGTCAATATGTTTATATATATAAACATTCATC
446914 TTGGTTTTCATTAATGTGTTTGTGTGTCAATATGTTTATATATATAAACATTCATC
1 TTGGTTTTCATTAATGTGTTTGTGTGTCAATATGTTTATATATATAAACATTCATC
446970 TTGGTTTTCATTAAT
1 TTGGTTTTCATTAAT
446985 ATATATTTGT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (56 bp):
TTGGTTTTCATTAATGTGTTTGTGTGTCAATATGTTTATATATATAAACATTCATC
Found at i:447013 original size:56 final size:56
Alignment explanation
Indices: 446858--447015 Score: 210
Period size: 56 Copynumber: 2.8 Consensus size: 56
446848 TCTTGTCGTG
* * *
446858 TTGGTTTTCATTAATGTGTTTGTGTGTCAATATGTTTATATATATAAACATTCATC
1 TTGGTTTTCATTAATATATTTGTCTGTCAATATGTTTATATATATAAACATTCATC
* * *
446914 TTGGTTTTCATTAATGTGTTTGTGTGTCAATATGTTTATATATATAAACATTCATC
1 TTGGTTTTCATTAATATATTTGTCTGTCAATATGTTTATATATATAAACATTCATC
* *
446970 TTGGTTTTCATTAATATATATTTGTCTGT-TATATTTTTCATATATA
1 TTGGTTTTCATT-A-ATATATTTGTCTGTCAATATGTTT-ATATATA
447016 CATGTTTTTA
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
56 68 0.72
57 8 0.09
58 18 0.19
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.53
Consensus pattern (56 bp):
TTGGTTTTCATTAATATATTTGTCTGTCAATATGTTTATATATATAAACATTCATC
Found at i:453066 original size:29 final size:28
Alignment explanation
Indices: 453007--453068 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
452997 TTTTTTAAAC
* *
453007 AAAAAAGAAATCAGAGTTCGATTAACTA
1 AAAAAAGAAATCACAGTTCGACTAACTA
*
453035 AAAAAAGAAAAT-ACAGTTCGACTAGCTA
1 AAAAAAG-AAATCACAGTTCGACTAACTA
453063 AAAAAA
1 AAAAAA
453069 TTATAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (28 bp):
AAAAAAGAAATCACAGTTCGACTAACTA
Found at i:454530 original size:23 final size:21
Alignment explanation
Indices: 454504--454570 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 21
454494 ATTATCGTCA
454504 AAAAAATTACAATAACATAAACT
1 AAAAAATTA-AATAA-ATAAACT
* *
454527 AAAACATTTAAATATTATAAA-T
1 AAAA-AATTAAATA-AATAAACT
454549 AAACAAATTAAAATAAATAAAC
1 AAA-AAATT-AAATAAATAAAC
454571 ATAGATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
22 12 0.34
23 19 0.54
24 4 0.11
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAAATTAAATAAATAAACT
Done.