Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 74 of 89
Found at i:17670332 original size:11 final size:11
Alignment explanation
Indices: 17670316--17670340 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17670306 TTTCATGCTA
17670316 AATTTACCTTT
1 AATTTACCTTT
17670327 AATTTACCTTT
1 AATTTACCTTT
17670338 AAT
1 AAT
17670341 GAATATTAAA
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTACCTTT
Found at i:17671204 original size:24 final size:24
Alignment explanation
Indices: 17671172--17671217 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
17671162 AGTCTTCCAG
*
17671172 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATATATGTAC
*
17671196 ATGATGTATAAAAGATATATGT
1 ATGATGTATAAAACATATATGT
17671218 TCAATGTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (24 bp):
ATGATGTATAAAACATATATGTAC
Found at i:17673213 original size:24 final size:24
Alignment explanation
Indices: 17673181--17673229 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
17673171 AGTCTCCCTG
17673181 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
* * *
17673205 ATGATGTATATAAGATTTATGTAC
1 ATGATGTATAAAACATCTATGTAC
17673229 A
1 A
17673230 ATGCCATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:17674317 original size:11 final size:11
Alignment explanation
Indices: 17674301--17674325 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17674291 TTTCATCCTA
17674301 AATTTACCTTT
1 AATTTACCTTT
17674312 AATTTACCTTT
1 AATTTACCTTT
17674323 AAT
1 AAT
17674326 GAATATTAAA
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTACCTTT
Found at i:17677568 original size:11 final size:11
Alignment explanation
Indices: 17677552--17677578 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17677542 AATAAATGAC
17677552 AAATTAACTAG
1 AAATTAACTAG
17677563 AAATTAACTAG
1 AAATTAACTAG
17677574 AAATT
1 AAATT
17677579 TCATGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
AAATTAACTAG
Found at i:17678293 original size:19 final size:20
Alignment explanation
Indices: 17678250--17678293 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17678240 TACCCTGGTA
17678250 GAAATTAATGTTAGAATGAT
1 GAAATTAATGTTAGAATGAT
* *
17678270 GAAATTGATGTTAGGATG-T
1 GAAATTAATGTTAGAATGAT
17678289 GAAAT
1 GAAAT
17678294 CAGGCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (20 bp):
GAAATTAATGTTAGAATGAT
Found at i:17679523 original size:21 final size:22
Alignment explanation
Indices: 17679497--17679540 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17679487 CACTAGTTAT
*
17679497 TATATATG-ATTTTATCATGAA
1 TATATATGAAGTTTATCATGAA
*
17679518 TATATATGAAGTTTATCGTGAA
1 TATATATGAAGTTTATCATGAA
17679540 T
1 T
17679541 GTTATTTCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
TATATATGAAGTTTATCATGAA
Found at i:17680278 original size:21 final size:20
Alignment explanation
Indices: 17680254--17680295 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
17680244 TGCAAACTAT
17680254 TAATATAGTCA-GTATCAAATA
1 TAATATAGT-ATGTA-CAAATA
*
17680275 TAATTTAGTATGTACAAATA
1 TAATATAGTATGTACAAATA
17680295 T
1 T
17680296 TATGATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
TAATATAGTATGTACAAATA
Found at i:17681343 original size:21 final size:21
Alignment explanation
Indices: 17681281--17681344 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
17681271 TATTGATAGT
* *
17681281 CATACTCAGGGTATCGATACA
1 CATACTTAGGGTATCGATACC
*
17681302 CATACTTAGTGTATCGATACC
1 CATACTTAGGGTATCGATACC
17681323 CATACTTAGGGTATCGATACC
1 CATACTTAGGGTATCGATACC
17681344 C
1 C
17681345 TTTTATCTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (21 bp):
CATACTTAGGGTATCGATACC
Found at i:17698903 original size:30 final size:30
Alignment explanation
Indices: 17698849--17698905 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
17698839 AACAAAATGT
* ***
17698849 AATTTTTAAAAGTTTAGTGGCCAAAGTATA
1 AATTTTAAAAAGTTTAGAAACCAAAGTATA
17698879 AATTTTAAAAAGTTTAGAAACCAAAGT
1 AATTTTAAAAAGTTTAGAAACCAAAGT
17698906 GGTAATTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (30 bp):
AATTTTAAAAAGTTTAGAAACCAAAGTATA
Found at i:17698913 original size:30 final size:29
Alignment explanation
Indices: 17698841--17698914 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
17698831 GGTTATTGAA
* * ***
17698841 CAAAATGTAATTTTTAAAAGTTTAGTGGC
1 CAAAGTGTAATTTTAAAAAGTTTAGAAAC
*
17698870 CAAAGTATAAATTTTAAAAAGTTTAGAAAC
1 CAAAGTGT-AATTTTAAAAAGTTTAGAAAC
17698900 CAAAGTGGTAATTTT
1 CAAAGT-GTAATTTT
17698915 CTAGAAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 6 0.17
30 29 0.81
31 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (29 bp):
CAAAGTGTAATTTTAAAAAGTTTAGAAAC
Found at i:17699373 original size:22 final size:22
Alignment explanation
Indices: 17699348--17699414 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
17699338 TTAATTAGTA
17699348 TAAAATGAAATTTTAATTTATT
1 TAAAATGAAATTTTAATTTATT
* * ** * *
17699370 T-AAATTAGTATTTTAACATGTG
1 TAAAATGA-AATTTTAATTTATT
17699392 TAAAATGAAATTTTAATTTATT
1 TAAAATGAAATTTTAATTTATT
17699414 T
1 T
17699415 TAATTAGTAT
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
21 5 0.16
22 21 0.68
23 5 0.16
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.49
Consensus pattern (22 bp):
TAAAATGAAATTTTAATTTATT
Found at i:17699377 original size:44 final size:44
Alignment explanation
Indices: 17699328--17699450 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
17699318 TAATAATGAG
* *
17699328 AATTAGTAATTTAA-TTAGTATAAAATGAAATTTTAATTTATTTA
1 AATTAGTATTTTAACAT-GTATAAAATGAAATTTTAATTTATTTA
* *
17699372 AATTAGTATTTTAACATGTGTAAAATGAAATTTTAATTTATTTT
1 AATTAGTATTTTAACATGTATAAAATGAAATTTTAATTTATTTA
* * *
17699416 AATTAGTATTTTAACATGTGTAAAGTGATATTTTA
1 AATTAGTATTTTAACATGTATAAAATGAAATTTTA
17699451 TGAAGAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 71 0.99
45 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.48
Consensus pattern (44 bp):
AATTAGTATTTTAACATGTATAAAATGAAATTTTAATTTATTTA
Found at i:17699426 original size:22 final size:22
Alignment explanation
Indices: 17699357--17699429 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
17699347 ATAAAATGAA
17699357 ATTTTAATTTATTTAAATTAGT
1 ATTTTAATTTATTTAAATTAGT
** * * * *
17699379 ATTTTAACATGTGTAAAAT-GAA
1 ATTTTAATTTATTTAAATTAG-T
*
17699401 ATTTTAATTTATTTTAATTAGT
1 ATTTTAATTTATTTAAATTAGT
17699423 ATTTTAA
1 ATTTTAA
17699430 CATGTGTAAA
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.53
Consensus pattern (22 bp):
ATTTTAATTTATTTAAATTAGT
Found at i:17699447 original size:22 final size:21
Alignment explanation
Indices: 17699378--17699450 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
17699368 TTTAAATTAG
17699378 TATTTTAACATGTGTAAAATGA
1 TATTTTAACATGTGT-AAATGA
* ** * * * *
17699400 AATTTTAATTTATTTTAATTA
1 TATTTTAACATGTGTAAATGA
17699421 GTATTTTAACATGTGTAAAGTGA
1 -TATTTTAACATGTGTAAA-TGA
17699444 TATTTTA
1 TATTTTA
17699451 TGAAGAAAAA
Statistics
Matches: 35, Mismatches: 14, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
21 4 0.11
22 29 0.83
23 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (21 bp):
TATTTTAACATGTGTAAATGA
Found at i:17708263 original size:2 final size:2
Alignment explanation
Indices: 17708256--17708289 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
17708246 ACATACTATC
* *
17708256 AT AT AT AT AT AT GT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17708290 GATTCATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17710220 original size:21 final size:21
Alignment explanation
Indices: 17710183--17710231 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
17710173 TGTTCCCAAA
17710183 TCAACA-TTCAAACTTAAAGT
1 TCAACATTTCAAACTTAAAGT
*
17710203 TCAACATTTCATAA-TTAAATT
1 TCAACATTTCA-AACTTAAAGT
*
17710224 TCATCATT
1 TCAACATT
17710232 GAATACCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 17 0.68
22 2 0.08
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (21 bp):
TCAACATTTCAAACTTAAAGT
Found at i:17721357 original size:13 final size:13
Alignment explanation
Indices: 17721339--17721363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17721329 GTAAAAAAAT
17721339 TTTAATAATATAG
1 TTTAATAATATAG
17721352 TTTAATAATATA
1 TTTAATAATATA
17721364 ATATATATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTAATAATATAG
Found at i:17726071 original size:19 final size:20
Alignment explanation
Indices: 17726054--17726092 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17726044 ACCCAATTTT
17726054 ACACTCTAACATCAATTTCA
1 ACACTCTAACATCAATTTCA
* *
17726074 ACATTCTAACATTAATTTC
1 ACACTCTAACATCAATTTC
17726093 CAGCATAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (20 bp):
ACACTCTAACATCAATTTCA
Found at i:17730845 original size:41 final size:41
Alignment explanation
Indices: 17730799--17730879 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
17730789 TTATGAAAAT
17730799 GCCTCAAGGTC-ATCACTGGAGACC-CCATTCTATGAGACAAC
1 GCCTCAAGGTCTATCA-TGGAG-CCTCCATTCTATGAGACAAC
*
17730840 GCCTCAAGGTCTATGATGGAGCCTCCATTCTATGAGACAA
1 GCCTCAAGGTCTATCATGGAGCCTCCATTCTATGAGACAA
17730880 GTCGGCCCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 2 0.05
41 32 0.86
42 3 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
GCCTCAAGGTCTATCATGGAGCCTCCATTCTATGAGACAAC
Found at i:17736012 original size:22 final size:21
Alignment explanation
Indices: 17735968--17736012 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17735958 CACTGTTCAT
*
17735968 TACACATGATGTAATCATTAA
1 TACACATGATGTAATCATAAA
* *
17735989 TACATATGATGTTTATCATAAA
1 TACACATGATG-TAATCATAAA
17736011 TA
1 TA
17736013 TTATTTCGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (21 bp):
TACACATGATGTAATCATAAA
Found at i:17751430 original size:25 final size:25
Alignment explanation
Indices: 17751398--17751452 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
17751388 TAAACCCAAA
17751398 TTAATAACTTTAGCCTTTAAAAAAT
1 TTAATAACTTTAGCCTTTAAAAAAT
17751423 TTAATAACTTTAGCCTTTAAAAAAT
1 TTAATAACTTTAGCCTTTAAAAAAT
17751448 TTAAT
1 TTAAT
17751453 GTATAAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (25 bp):
TTAATAACTTTAGCCTTTAAAAAAT
Found at i:17751890 original size:28 final size:28
Alignment explanation
Indices: 17751858--17751944 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
17751848 TTATACTAAA
17751858 AAATTATTACGATCATTTATTTAAGGTT
1 AAATTATTACGATCATTTATTTAAGGTT
* * * * *
17751886 AAATT-TTTCAAT-AATTATACTAA---A
1 AAATTATTACGATCATTTAT-TTAAGGTT
17751910 AAATTATTACGATCATTTATTTAAGGTT
1 AAATTATTACGATCATTTATTTAAGGTT
17751938 AAATTAT
1 AAATTAT
17751945 AAGATTGATC
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
24 5 0.12
25 8 0.19
26 10 0.23
27 8 0.19
28 12 0.28
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (28 bp):
AAATTATTACGATCATTTATTTAAGGTT
Found at i:17751915 original size:52 final size:52
Alignment explanation
Indices: 17751837--17751942 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
17751827 TTATCCTCGC
17751837 TTTTTCAATAATTATACTAAAAAATTATTACGATCATTTATTTAAGGTTAAA
1 TTTTTCAATAATTATACTAAAAAATTATTACGATCATTTATTTAAGGTTAAA
17751889 TTTTTCAATAATTATACTAAAAAATTATTACGATCATTTATTTAAGGTTAAA
1 TTTTTCAATAATTATACTAAAAAATTATTACGATCATTTATTTAAGGTTAAA
17751941 TT
1 TT
17751943 ATAAGATTGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (52 bp):
TTTTTCAATAATTATACTAAAAAATTATTACGATCATTTATTTAAGGTTAAA
Found at i:17757121 original size:89 final size:89
Alignment explanation
Indices: 17756958--17757133 Score: 282
Period size: 89 Copynumber: 2.0 Consensus size: 89
17756948 TAATCCCGAA
* * *
17756958 TATTTAATTTTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCCTAATATGAT
17757023 TAGGGAACTTGGATATAAAAGGAT
66 TAGGGAACTTGGATATAAAAGGAT
* *
17757047 TATTAAATTTCAATTAATTAAATATAGATTTCATTAATTTCAAATAATAAAA-CCTTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCCTAATATGAT
*
17757111 TAGGGTAACTTGGCTATAAAAGG
66 TAGGG-AACTTGGATATAAAAGG
17757134 GTGTGTTAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 16 0.20
89 64 0.80
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (89 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCCTAATATGAT
TAGGGAACTTGGATATAAAAGGAT
Found at i:17773437 original size:26 final size:26
Alignment explanation
Indices: 17773407--17773456 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
17773397 GTCCGCCGTG
* *
17773407 GCAGTTTCTATAAGGTCCAGTCAGCA
1 GCAGTTTCTAGAAGATCCAGTCAGCA
*
17773433 GCAGTTTCTAGAAGATCTAGTCAG
1 GCAGTTTCTAGAAGATCCAGTCAG
17773457 TGTGCCTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (26 bp):
GCAGTTTCTAGAAGATCCAGTCAGCA
Found at i:17775293 original size:24 final size:24
Alignment explanation
Indices: 17775265--17775338 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
17775255 TTACCATTGG
17775265 TACCATAAGATCGTAAGCTTATTT
1 TACCATAAGATCGTAAGCTTATTT
* * *
17775289 TACC--AATATAC-TTA-C-CATTT
1 TACCATAAGAT-CGTAAGCTTATTT
*
17775309 GTACCATAAGCTCGTAAGCTTATTT
1 -TACCATAAGATCGTAAGCTTATTT
17775334 TACCA
1 TACCA
17775339 ATACACTTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
20 4 0.11
21 5 0.14
22 7 0.19
23 6 0.17
24 10 0.28
25 4 0.11
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (24 bp):
TACCATAAGATCGTAAGCTTATTT
Found at i:17775300 original size:45 final size:45
Alignment explanation
Indices: 17775245--17775352 Score: 171
Period size: 45 Copynumber: 2.4 Consensus size: 45
17775235 TATTTACATA
*
17775245 ACCAAAATACTTACCATTGGTACCATAAGATCGTAAGCTTATTTT
1 ACCAATATACTTACCATTGGTACCATAAGATCGTAAGCTTATTTT
* *
17775290 ACCAATATACTTACCATTTGTACCATAAGCTCGTAAGCTTATTTT
1 ACCAATATACTTACCATTGGTACCATAAGATCGTAAGCTTATTTT
* *
17775335 ACCAATACACTTGCCATT
1 ACCAATATACTTACCATT
17775353 ATTCCATAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.34
Consensus pattern (45 bp):
ACCAATATACTTACCATTGGTACCATAAGATCGTAAGCTTATTTT
Found at i:17775565 original size:59 final size:59
Alignment explanation
Indices: 17775442--17775570 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 59
17775432 CGTAGTTCTA
* ** * **
17775442 TCCCGAGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTACCCACCATATACACTAGGTATCCTTAAGTACAG
* * * ** *
17775501 CCCCGAATATGACACATAAGTTCGTACCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTACCCACCATATACACTAGGTATCCTTAAGTACAG
17775560 TCCCGAATATG
1 TCCCGAATATG
17775571 CAGCCTGCTG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTACCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:17780935 original size:18 final size:20
Alignment explanation
Indices: 17780912--17780958 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
17780902 CCAAATTTTG
*
17780912 TATCGATACTCAT-G-AGAA
1 TATCGATACACATGGTAGAA
*
17780930 TATCGATACACATGGTAGAG
1 TATCGATACACATGGTAGAA
17780950 TATCGATAC
1 TATCGATAC
17780959 CAAGGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
19 1 0.04
20 12 0.48
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (20 bp):
TATCGATACACATGGTAGAA
Found at i:17786971 original size:22 final size:23
Alignment explanation
Indices: 17786946--17786989 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
17786936 CTCTCCAACA
17786946 ACTCACC-TTTCAACTCCGATCT
1 ACTCACCGTTTCAACTCCGATCT
* * *
17786968 ACTCGCCGTTTGACCTCCGATC
1 ACTCACCGTTTCAACTCCGATC
17786990 GACGAACCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.18, C:0.41, G:0.11, T:0.30
Consensus pattern (23 bp):
ACTCACCGTTTCAACTCCGATCT
Found at i:17790019 original size:24 final size:24
Alignment explanation
Indices: 17790001--17790089 Score: 117
Period size: 24 Copynumber: 3.7 Consensus size: 24
17789991 TTTCTATTAT
*
17790001 AATACTTGACCTGGATTCTGATCG
1 AATACTTGACCTGGATTCTGATAG
* * *
17790025 GATACTTGACCTGGATTCTAATCG
1 AATACTTGACCTGGATTCTGATAG
*
17790049 AATACTTGACCTGGATTTTGATATG
1 AATACTTGACCTGGATTCTGATA-G
17790074 -ATACTTGACCTGGATT
1 AATACTTGACCTGGATT
17790090 ATGTTTTGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 57 0.98
25 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (24 bp):
AATACTTGACCTGGATTCTGATAG
Found at i:17793585 original size:32 final size:31
Alignment explanation
Indices: 17793542--17793634 Score: 123
Period size: 32 Copynumber: 3.0 Consensus size: 31
17793532 ACCTAAACCG
* *
17793542 AAAATCAACTGATCTGATATTGACCCGACCT
1 AAAATCAACTGATCCGGTATTGACCCGACCT
* *
17793573 AAAATCTAACTGATCCGGTATTAATCCGACCT
1 AAAATC-AACTGATCCGGTATTGACCCGACCT
* *
17793605 AAAATCAACCGATCCGGTATTGACCTGACC
1 AAAATCAACTGATCCGGTATTGACCCGACC
17793635 CGATATTAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 26 0.49
32 27 0.51
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (31 bp):
AAAATCAACTGATCCGGTATTGACCCGACCT
Found at i:17794565 original size:32 final size:31
Alignment explanation
Indices: 17794533--17794615 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 31
17794523 TTAATAAAAT
17794533 TTATTTTTTATTTAATTATTTAACTTTCAAA
1 TTATTTTTTATTTAATTATTTAACTTTCAAA
** * * *
17794564 TTATTCGTAATTTAATCACTTTAACTTTTAAA
1 TTATTTTTTATTTAATTA-TTTAACTTTCAAA
17794596 TTATTTTTTATTCTAATTAT
1 TTATTTTTTATT-TAATTAT
17794616 ATATTAATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
31 14 0.34
32 22 0.54
33 5 0.12
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.59
Consensus pattern (31 bp):
TTATTTTTTATTTAATTATTTAACTTTCAAA
Found at i:17795313 original size:16 final size:16
Alignment explanation
Indices: 17795292--17795345 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
17795282 GTATTACCCG
17795292 ACTTGTTTTCAACCTA
1 ACTTGTTTTCAACCTA
* * *
17795308 ACTTGTTATGAACCTG
1 ACTTGTTTTCAACCTA
*
17795324 ACATGTTTTCAACCTA
1 ACTTGTTTTCAACCTA
17795340 ACTTGT
1 ACTTGT
17795346 AAATGATCCG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (16 bp):
ACTTGTTTTCAACCTA
Found at i:17795370 original size:32 final size:31
Alignment explanation
Indices: 17795289--17795370 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 31
17795279 CTGGTATTAC
*
17795289 CCGACTTGTTTTCAACCTAACTTGTTATGAA
1 CCGACTTGTTTTCAACCTAACTTGTAATGAA
* *
17795320 CCTGACATGTTTTCAACCTAACTTGTAAATGAT
1 CC-GACTTGTTTTCAACCTAACTTGT-AATGAA
17795353 CCGACTTGTTATT-AACCT
1 CCGACTTGTT-TTCAACCT
17795371 GATTTGATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
31 2 0.05
32 34 0.77
33 8 0.18
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (31 bp):
CCGACTTGTTTTCAACCTAACTTGTAATGAA
Found at i:17795386 original size:16 final size:16
Alignment explanation
Indices: 17795362--17795414 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
17795352 TCCGACTTGT
* * *
17795362 TATTAACCTGATTTGA
1 TATTTACCTGACTTAA
17795378 TATTTACCTGACTTAA
1 TATTTACCTGACTTAA
* *
17795394 CATTTACCTTACTTATA
1 TATTTACCTGACTTA-A
17795411 TATT
1 TATT
17795415 ACCATTGATG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (16 bp):
TATTTACCTGACTTAA
Found at i:17795537 original size:18 final size:18
Alignment explanation
Indices: 17795514--17795572 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
17795504 TTATAATAAA
17795514 AAATTAATTATGATAATT
1 AAATTAATTATGATAATT
* *
17795532 AAATTAATAAAT-ATACTT
1 AAATTAAT-TATGATAATT
17795550 AATATATTAATTATGATAATT
1 -A-A-ATTAATTATGATAATT
17795571 AA
1 AA
17795573 TATTCTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
18 13 0.41
19 4 0.12
20 4 0.12
21 11 0.34
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (18 bp):
AAATTAATTATGATAATT
Found at i:17795572 original size:21 final size:21
Alignment explanation
Indices: 17795516--17795575 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
17795506 ATAATAAAAA
17795516 ATTAATTATGATAATT-A-A-
1 ATTAATTATGATAATTAATAT
* *
17795534 ATTAATAAAT-ATACTTAATAT
1 ATTAAT-TATGATAATTAATAT
17795555 ATTAATTATGATAATTAATAT
1 ATTAATTATGATAATTAATAT
17795576 TCTTTATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 11 0.33
19 3 0.09
20 3 0.09
21 16 0.48
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (21 bp):
ATTAATTATGATAATTAATAT
Found at i:17795597 original size:22 final size:21
Alignment explanation
Indices: 17795572--17795728 Score: 81
Period size: 22 Copynumber: 7.2 Consensus size: 21
17795562 ATGATAATTA
17795572 ATATTCTTTATATTTAATACTT
1 ATATT-TTTATATTTAATACTT
* * *
17795594 ATATTTATACATTTTACTACTT
1 ATATTTTTATA-TTTAATACTT
* *
17795616 -TATATTTAATACTT-ATA-TT
1 ATAT-TTTTATATTTAATACTT
*
17795635 ATATAGTTTAATACTTT-ATA-TT
1 ATAT--TTTTATA-TTTAATACTT
* * *
17795657 ATATACTTTAATACTTATGTACTT
1 ATAT--TTTTATATTTA-ATACTT
*
17795681 ATATACTTTATATTTAATACTT
1 ATAT-TTTTATATTTAATACTT
*
17795703 ATATTTATATACTTTAATACTT
1 ATATTTTTATA-TTTAATACTT
17795725 ATAT
1 ATAT
17795729 CCATACACTT
Statistics
Matches: 106, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
19 2 0.02
20 5 0.05
21 23 0.22
22 60 0.57
23 10 0.09
24 6 0.06
ACGTcount: A:0.35, C:0.09, G:0.01, T:0.55
Consensus pattern (21 bp):
ATATTTTTATATTTAATACTT
Found at i:17795618 original size:36 final size:36
Alignment explanation
Indices: 17795577--17795728 Score: 161
Period size: 35 Copynumber: 4.2 Consensus size: 36
17795567 AATTAATATT
*
17795577 CTTTATATTTAATACTTATATTTATACATTTTACTA
1 CTTTATATTTAATACTTATATTTATACATTTTAATA
* *
17795613 CTTTATATTTAATACTTATA-TTATATAGTTTAATA
1 CTTTATATTTAATACTTATATTTATACATTTTAATA
* *
17795648 CTTTATA-TTATATACTTTAATACTTATGTAC-TTAT-ATA
1 CTTTATATTTA-ATAC-TT-ATA-TT-TATACATTTTAATA
* *
17795686 CTTTATATTTAATACTTATATTTATATACTTTAATA
1 CTTTATATTTAATACTTATATTTATACATTTTAATA
17795722 C-TTATAT
1 CTTTATAT
17795729 CCATACACTT
Statistics
Matches: 96, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
34 6 0.06
35 33 0.34
36 29 0.30
37 5 0.05
38 14 0.15
39 6 0.06
40 3 0.03
ACGTcount: A:0.35, C:0.09, G:0.01, T:0.55
Consensus pattern (36 bp):
CTTTATATTTAATACTTATATTTATACATTTTAATA
Found at i:17795738 original size:22 final size:22
Alignment explanation
Indices: 17795693--17795751 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
17795683 ATACTTTATA
** *
17795693 TTTAATACTTATATTTATATAC
1 TTTAATACTTATATCCATACAC
17795715 TTTAATACTTATATCCATACAC
1 TTTAATACTTATATCCATACAC
*
17795737 TTTATTACTTTATAT
1 TTTAATAC-TTATAT
17795752 ATATACTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAATACTTATATCCATACAC
Found at i:17797020 original size:134 final size:135
Alignment explanation
Indices: 17796782--17797040 Score: 362
Period size: 134 Copynumber: 1.9 Consensus size: 135
17796772 CTGTTGACCA
* **
17796782 TTGACTTTGATCAAAAAGTCAAATTTTTGGAAAAGTCATATTTTATGTTTTTGACATCCTGAGTT
1 TTGACTTTGACCAAAAAGTCAAATTTTTGGAAAAGTCATATTTTATGTTTTTGACATCCTGAAAT
* * ** * *
17796847 CGATTCCGCAGTCTGTTTTGCCAAATTCGAACCCGAAAGCCTCCAAATTGTCAGTCAAACCCGTT
66 CGAATCCGAAGTCCATTTTGCCAAATTCGAACCCGAAAGCCTACAAATTATCAGTCAAACCCGTT
17796912 GACTT
131 GACTT
*
17796917 TTGACTTTGACCAAAAAGTC-AATTTTT-GAAAAGTCATATTTTATGTTTTTCGACGTCCT-AAA
1 TTGACTTTGACCAAAAAGTCAAATTTTTGGAAAAGTCATATTTTATGTTTTT-GACATCCTGAAA
* * *
17796979 TCAGAATCCGAAGTCCATTTTGCCAAATTTGAACTCGAAAGCCTATAAATTATCAGTCAAAC
65 TC-GAATCCGAAGTCCATTTTGCCAAATTCGAACCCGAAAGCCTACAAATTATCAGTCAAAC
17797041 TCGAACATGC
Statistics
Matches: 109, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
133 26 0.24
134 64 0.59
135 19 0.17
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (135 bp):
TTGACTTTGACCAAAAAGTCAAATTTTTGGAAAAGTCATATTTTATGTTTTTGACATCCTGAAAT
CGAATCCGAAGTCCATTTTGCCAAATTCGAACCCGAAAGCCTACAAATTATCAGTCAAACCCGTT
GACTT
Found at i:17798231 original size:24 final size:25
Alignment explanation
Indices: 17798195--17798241 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17798185 AATTCCATTT
*
17798195 ATAATG-TGATTTTAAAATTATCGA
1 ATAATGTTGATTTTAAAAATATCGA
**
17798219 ATAATGTTTTTTTTAAAAATATC
1 ATAATGTTGATTTTAAAAATATC
17798242 TTTAAGAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (25 bp):
ATAATGTTGATTTTAAAAATATCGA
Found at i:17803822 original size:13 final size:13
Alignment explanation
Indices: 17803800--17803829 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17803790 TGACCGACCG
17803800 TTGACAGTTGACT
1 TTGACAGTTGACT
*
17803813 TTGACCGTTGACT
1 TTGACAGTTGACT
17803826 TTGA
1 TTGA
17803830 TCAAAAAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (13 bp):
TTGACAGTTGACT
Found at i:17804590 original size:303 final size:304
Alignment explanation
Indices: 17804036--17804592 Score: 954
Period size: 304 Copynumber: 1.8 Consensus size: 304
17804026 TCCGAAGTCC
* * *
17804036 GTTTTAACTTTAAATAATTAAATTAAGACTTAAGACTGATTAATTATTGTTATATGAAGGTACAA
1 GTTTTAAATTTAAATAATTAAATTAAGACCTAAGACTGATTAATTATTATTATATGAAGGTACAA
* **
17804101 GAGACTATCCTGATCGCTCGACAGCTCGACCCAGCTCCTCTAAATCCGTTAGACCGCTTGTGTTA
66 GAGACTATCCTGATCGCTCGACAGCTCGACCCAGCTCCTCTAAATCCGTTAGACCGCGTGTGCCA
*
17804166 GTATTCACTCGTATGACCCGTAAATCTTACTATTTTATAAATTAATTATGTTACCCACTAGTAAT
131 GTATTCACTCGTATGACCCGTAAATCTTACTATTTCATAAATTAATTATGTTACCCACTAGTAAT
* * *
17804231 GTAGTGTTATTATGAATTAGGTTTGAAAACTGTAGCAGAGCGTGGCGAGCCCAGTACTCGAAAGC
196 GTAGTGTTATTATGAATTAGGTTTAAAAACTATAACAGAGCGTGGCGAGCCCAGTACTCGAAAGC
17804296 CTCCAAATTATCAGTCAAACTCGAACATGCATATATATTTAAGA
261 CTCCAAATTATCAGTCAAACTCGAACATGCATATATATTTAAGA
* * *
17804340 GTTTTAAATTTGAATGATTAAATTAAGACCTGAGACTGATTAATTATTATTATATGAAGGTACAA
1 GTTTTAAATTTAAATAATTAAATTAAGACCTAAGACTGATTAATTATTATTATATGAAGGTACAA
* * *
17804405 GAGACTCTCCTGATCGCTCGACAGCTCGTCCCAGCTCCTCTAAATCCGTTAGACTGCGTGTGCCA
66 GAGACTATCCTGATCGCTCGACAGCTCGACCCAGCTCCTCTAAATCCGTTAGACCGCGTGTGCCA
17804470 GT-TTCACTCGTATGACCCGTAAATCTTACTATTTCATAAATTAATTATGTTACCCACTAGTAAT
131 GTATTCACTCGTATGACCCGTAAATCTTACTATTTCATAAATTAATTATGTTACCCACTAGTAAT
*
17804534 GTAGTGTTATTATGAATTAGGTTTAAAAACTATAACAGAGCGTGGCGAGGCCAGTACTC
196 GTAGTGTTATTATGAATTAGGTTTAAAAACTATAACAGAGCGTGGCGAGCCCAGTACTC
17804593 AATAGATCTA
Statistics
Matches: 236, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
303 116 0.49
304 120 0.51
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (304 bp):
GTTTTAAATTTAAATAATTAAATTAAGACCTAAGACTGATTAATTATTATTATATGAAGGTACAA
GAGACTATCCTGATCGCTCGACAGCTCGACCCAGCTCCTCTAAATCCGTTAGACCGCGTGTGCCA
GTATTCACTCGTATGACCCGTAAATCTTACTATTTCATAAATTAATTATGTTACCCACTAGTAAT
GTAGTGTTATTATGAATTAGGTTTAAAAACTATAACAGAGCGTGGCGAGCCCAGTACTCGAAAGC
CTCCAAATTATCAGTCAAACTCGAACATGCATATATATTTAAGA
Found at i:17805231 original size:24 final size:24
Alignment explanation
Indices: 17805182--17805231 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
17805172 TTTAGTTAGG
* ** *
17805182 ACTCTTAGATCAACTAGATCTGTA
1 ACTCATAGATCAACTAGAAATCTA
17805206 ACTCATAGATCAACTAGAAATCTA
1 ACTCATAGATCAACTAGAAATCTA
17805230 AC
1 AC
17805232 ACCTTTTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (24 bp):
ACTCATAGATCAACTAGAAATCTA
Found at i:17809505 original size:14 final size:14
Alignment explanation
Indices: 17809486--17809554 Score: 102
Period size: 14 Copynumber: 4.9 Consensus size: 14
17809476 GGTCAAAGTC
17809486 AACGAGTTGACTCA
1 AACGAGTTGACTCA
*
17809500 AACGAGTTAACTCA
1 AACGAGTTGACTCA
*
17809514 GACGAGTTGACTCA
1 AACGAGTTGACTCA
*
17809528 AACGAGTTAACTCA
1 AACGAGTTGACTCA
*
17809542 GACGAGTTGACTC
1 AACGAGTTGACTC
17809555 GGTGACTGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 48 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (14 bp):
AACGAGTTGACTCA
Found at i:17809520 original size:28 final size:28
Alignment explanation
Indices: 17809487--17809554 Score: 136
Period size: 28 Copynumber: 2.4 Consensus size: 28
17809477 GTCAAAGTCA
17809487 ACGAGTTGACTCAAACGAGTTAACTCAG
1 ACGAGTTGACTCAAACGAGTTAACTCAG
17809515 ACGAGTTGACTCAAACGAGTTAACTCAG
1 ACGAGTTGACTCAAACGAGTTAACTCAG
17809543 ACGAGTTGACTC
1 ACGAGTTGACTC
17809555 GGTGACTGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (28 bp):
ACGAGTTGACTCAAACGAGTTAACTCAG
Found at i:17811281 original size:8 final size:8
Alignment explanation
Indices: 17811268--17811308 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
17811258 ATACGTATAC
17811268 ATATATGT
1 ATATATGT
17811276 ATATATG-
1 ATATATGT
17811283 -TATATGT
1 ATATATGT
*
17811290 ATATATAT
1 ATATATGT
*
17811298 ATGTATGT
1 ATATATGT
17811306 ATA
1 ATA
17811309 ATGAATGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
6 6 0.22
8 21 0.78
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (8 bp):
ATATATGT
Found at i:17811286 original size:6 final size:6
Alignment explanation
Indices: 17810767--17811266 Score: 955
Period size: 6 Copynumber: 82.8 Consensus size: 6
17810757 ACTATAATAT
17810767 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
17810815 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
17810863 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
17810911 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
17810959 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
17811007 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
17811055 GTATAG GTATAG GTATAG GTAGGTAG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTA--TAG GTATAG GTATAG GTATAG GTATAG
17811105 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
17811153 GTATAG GTATAG GTATAG GTATAGG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTATA-G GTATAG GTATAG GTATAG GTATAG
17811202 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
1 GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG GTATAG
* *
17811250 GTATAC GTATAC GTATA
1 GTATAG GTATAG GTATA
17811267 CATATATGTA
Statistics
Matches: 490, Mismatches: 1, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
6 478 0.98
7 6 0.01
8 6 0.01
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (6 bp):
GTATAG
Found at i:17811291 original size:26 final size:26
Alignment explanation
Indices: 17811251--17811303 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
17811241 TAGGTATAGG
17811251 TATACGTATACGTATACATATATGTA
1 TATACGTATACGTATACATATATGTA
* * *
17811277 TATATGTATATGTATATATATATGTA
1 TATACGTATACGTATACATATATGTA
17811303 T
1 T
17811304 GTATAATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (26 bp):
TATACGTATACGTATACATATATGTA
Found at i:17811298 original size:12 final size:12
Alignment explanation
Indices: 17811257--17811308 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
17811247 TAGGTATACG
* *
17811257 TATACGTATACA
1 TATATGTATATA
17811269 TATATGTATATA
1 TATATGTATATA
17811281 TGTATATGTATATA
1 --TATATGTATATA
*
17811295 TATATGTATGTA
1 TATATGTATATA
17811307 TA
1 TA
17811309 ATGAATGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 23 0.66
14 12 0.34
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (12 bp):
TATATGTATATA
Found at i:17811383 original size:27 final size:25
Alignment explanation
Indices: 17811337--17811386 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
17811327 TGATGCATTC
*
17811337 TATATATAATGTAAATTATACTTTA
1 TATATATAATATAAATTATACTTTA
*
17811362 TATATATACATATACATATATACTT
1 TATATATA-ATATAAAT-TATACTT
17811387 ATACTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 6 0.29
27 7 0.33
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (25 bp):
TATATATAATATAAATTATACTTTA
Found at i:17811397 original size:7 final size:7
Alignment explanation
Indices: 17811352--17811410 Score: 61
Period size: 7 Copynumber: 8.7 Consensus size: 7
17811342 ATAATGTAAA
17811352 TTATACT
1 TTATACT
17811359 TTATA-T
1 TTATACT
*
17811365 ATATAC-
1 TTATACT
*
17811371 ATATACAT
1 TTATAC-T
*
17811379 ATATAC-
1 TTATACT
17811385 TTATACT
1 TTATACT
17811392 TTATACT
1 TTATACT
17811399 TTATACT
1 TTATACT
17811406 TTATA
1 TTATA
17811411 TATGTATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
6 16 0.35
7 24 0.52
8 6 0.13
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (7 bp):
TTATACT
Found at i:17811543 original size:25 final size:24
Alignment explanation
Indices: 17811495--17811540 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
17811485 TGATGAGGGA
17811495 TGAAATTGAATTAATTATAAAATG
1 TGAAATTGAATTAATTATAAAATG
*
17811519 TGAAGTTGATATTAA-TATAAAA
1 TGAAATTGA-ATTAATTATAAAA
17811541 ATGGACTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (24 bp):
TGAAATTGAATTAATTATAAAATG
Found at i:17812413 original size:2 final size:2
Alignment explanation
Indices: 17812402--17812435 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17812392 TTAAAACAAT
17812402 TA TA -A 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
17812436 CTGTGTGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17812661 original size:16 final size:16
Alignment explanation
Indices: 17812592--17812855 Score: 91
Period size: 14 Copynumber: 17.0 Consensus size: 16
17812582 TAGAGTGTAA
17812592 ACTATAAAGTATATA-
1 ACTATAAAGTATATAT
*
17812607 A-TATATA-TATATAT
1 ACTATAAAGTATATAT
*
17812621 A-TATATA-TATATAT
1 ACTATAAAGTATATAT
*
17812635 A-TATATA-TATATAT
1 ACTATAAAGTATATAT
*
17812649 ACTATAACGTATATAT
1 ACTATAAAGTATATAT
* *
17812665 ACTTTAAAGTATAAAGT
1 ACTATAAAGTATATA-T
** * *
17812682 GTGTATATA-TATATAA
1 -ACTATAAAGTATATAT
17812698 ACTATAAAGTATATAT
1 ACTATAAAGTATATAT
* * *
17812714 ACTTTATACTA-A-A-
1 ACTATAAAGTATATAT
* *
17812727 ACTTTATA-TATATTAT
1 ACTATAAAGTATA-TAT
*
17812743 ACT-TATA-TATATAT
1 ACTATAAAGTATATAT
17812757 A-TATAAAGT-T-T-T
1 ACTATAAAGTATATAT
*
17812769 AGTATAAAGTATATAT
1 ACTATAAAGTATATAT
*
17812785 ACATATATAA-TAATATAA
1 AC-TATA-AAGT-ATATAT
*
17812803 AGTAT-AAGTATAATAT
1 ACTATAAAGTAT-ATAT
*
17812819 ATATATAAAGTATAATTAT
1 A-CTATAAAGTAT-A-TAT
*
17812838 AAATAATAAAGTATATAT
1 -ACT-ATAAAGTATATAT
17812856 GTAACCCCCC
Statistics
Matches: 198, Mismatches: 25, Indels: 49
0.73 0.09 0.18
Matches are distributed among these distances:
12 4 0.02
13 25 0.13
14 44 0.22
15 26 0.13
16 43 0.22
17 17 0.09
18 23 0.12
19 6 0.03
20 10 0.05
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (16 bp):
ACTATAAAGTATATAT
Found at i:17812665 original size:2 final size:2
Alignment explanation
Indices: 17812601--17812654 Score: 92
Period size: 2 Copynumber: 27.0 Consensus size: 2
17812591 AACTATAAAG
17812601 TA TA TA -A 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
17812642 TA TA TA TA CTA TA
1 TA TA TA TA -TA TA
17812655 ACGTATATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 47 0.94
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:17812801 original size:40 final size:42
Alignment explanation
Indices: 17812603--17812852 Score: 130
Period size: 40 Copynumber: 6.0 Consensus size: 42
17812593 CTATAAAGTA
* *
17812603 TATAATATATATATATATATATATATATATATATA-TAT-A-
1 TATAATATATATATACATATATATATATATATAAAGTATAAG
* *
17812642 TAT-ATATACTATA-ACGTATATATA-CT-T-TAAAGTATAAAGTG
1 TATAATATA-TATATACATATATATATATATATAAAGTAT-AA--G
* * * * * * * *
17812683 TGTATATATATATAAACTATAAAGTATATATACTTTATACTAAAAC
1 TATA-ATATATATATAC-ATATA-TATATATA-TATAAAGTATAAG
* * * *
17812729 T-TTATATATATTATACTTATATATATATATATAAAGTTTTAG
1 TATAATATATA-TATACATATATATATATATATAAAGTATAAG
17812771 TATAA-AGTATATATACATATATA-ATA-ATATAAAGTATAAG
1 TATAATA-TATATATACATATATATATATATATAAAGTATAAG
* *
17812811 TATAATATATATATAAAGTATA-ATTATAAATAATAAAGTATA
1 TATAATATATATATACA-TATATA-TATATAT-ATAAAGTATA
17812853 TATGTAACCC
Statistics
Matches: 158, Mismatches: 28, Indels: 45
0.68 0.12 0.19
Matches are distributed among these distances:
35 3 0.02
36 4 0.03
37 1 0.01
38 15 0.09
39 7 0.04
40 27 0.17
41 10 0.06
42 26 0.16
43 23 0.15
44 23 0.15
45 9 0.06
46 2 0.01
48 3 0.02
49 5 0.03
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (42 bp):
TATAATATATATATACATATATATATATATATAAAGTATAAG
Found at i:17812829 original size:24 final size:25
Alignment explanation
Indices: 17812771--17812846 Score: 86
Period size: 24 Copynumber: 3.0 Consensus size: 25
17812761 AAAGTTTTAG
*
17812771 TATAAAGTATATATACATATATAATAA
1 TATAAAGTATA-ATATA-ATATAATAA
17812798 TATAAAGTATAAGTATAATAT-AT-A
1 TATAAAGTATAA-TATAATATAATAA
17812822 TATAAAGTATAATTATAA-ATAATAA
1 TATAAAGTATAA-TATAATATAATAA
17812847 AGTATATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 2 0.05
24 20 0.45
25 3 0.07
26 5 0.11
27 14 0.32
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (25 bp):
TATAAAGTATAATATAATATAATAA
Found at i:17812848 original size:20 final size:18
Alignment explanation
Indices: 17812771--17812852 Score: 82
Period size: 18 Copynumber: 4.6 Consensus size: 18
17812761 AAAGTTTTAG
*
17812771 TATAAAGTAT-ATATACA
1 TATAAAGTATAATATAAA
*
17812788 TATATA--ATAATATAAA
1 TATAAAGTATAATATAAA
*
17812804 GTAT-AAGTATAATATATA
1 -TATAAAGTATAATATAAA
17812822 TATAAAGTATAATTATAAA
1 TATAAAGTATAA-TATAAA
17812841 TAATAAAGTATA
1 T-ATAAAGTATA
17812853 TATGTAACCC
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
15 2 0.04
16 7 0.13
17 11 0.21
18 17 0.32
19 6 0.11
20 10 0.19
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (18 bp):
TATAAAGTATAATATAAA
Found at i:17818582 original size:13 final size:13
Alignment explanation
Indices: 17818564--17818603 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
17818554 GACCGGTTCC
17818564 GACCCGACCCGTT
1 GACCCGACCCGTT
17818577 GACCCGACCC---
1 GACCCGACCCGTT
*
17818587 GACCTGACCCGTT
1 GACCCGACCCGTT
17818600 GACC
1 GACC
17818604 AGGTGATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.39
13 14 0.61
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.12
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:17818639 original size:29 final size:30
Alignment explanation
Indices: 17818605--17818670 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
17818595 CCGTTGACCA
*
17818605 GGTGATATTTTAGTAATTA-TTTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTTGAAAAG
* *
17818634 GGTGATATTTTGGTAATTATTTTTTAAAAG
1 GGTGATATTTTAGTAATTATTTTTGAAAAG
17818664 GGTGATA
1 GGTGATA
17818671 ATTGTGTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (30 bp):
GGTGATATTTTAGTAATTATTTTTGAAAAG
Found at i:17819550 original size:42 final size:42
Alignment explanation
Indices: 17819491--17819656 Score: 287
Period size: 42 Copynumber: 4.0 Consensus size: 42
17819481 GAAGTATTAT
*
17819491 CAGGTCCCTTTGCTGTGTGCAAAGGTAACCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
* *
17819533 CAGGTCCCTTTGATGTGTGCAAAGGTAAGCCTTATAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
*
17819575 TAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
*
17819617 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTT
17819657 TCCTAGGCTC
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 116 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (42 bp):
CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
Found at i:17819634 original size:84 final size:85
Alignment explanation
Indices: 17819492--17819694 Score: 302
Period size: 84 Copynumber: 2.4 Consensus size: 85
17819482 AAGTATTATC
*
17819492 AGGTCCCTTTGCTGTGTGCAAAGGTAACCCTTACAGTTTCCCAGGTCCCTTTGATGTGTGCAAAG
1 AGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGATGTGTGCAAAG
*
17819557 GTAAGCCTTATAG-TTTCCT
66 GTAAGCCTTACAGTTTTCCT
* *
17819576 AGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCAAGG
1 AGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGATGTGTGCAAAG
17819641 GTAAGCCTTACAGTTTTCCT
66 GTAAGCCTTACAGTTTTCCT
* * * *
17819661 AGG-CTCCTCTGCTTTGTGCACATGTTAAGCCTTA
1 AGGTC-CCTTTGCTGTGTGCA-AAGGTAAGCCTTA
17819695 GTGGTGTACA
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
84 75 0.69
85 22 0.20
86 11 0.10
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (85 bp):
AGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGATGTGTGCAAAG
GTAAGCCTTACAGTTTTCCT
Found at i:17820267 original size:29 final size:29
Alignment explanation
Indices: 17820202--17820450 Score: 174
Period size: 29 Copynumber: 8.7 Consensus size: 29
17820192 CGTTTACCGG
* *
17820202 GTGATATTTTAGTAATTATTTTGAAATTT
1 GTGATATTTTAGTAATTATTTTGAAAATA
*
17820231 GTGGTATTTTAGTAATTATTTTGAAAATA
1 GTGATATTTTAGTAATTATTTTGAAAATA
* * *
17820260 GTGCTATTTTCA-TAATTTTTTTTAAAA-A
1 GTGATATTTT-AGTAATTATTTTGAAAATA
* *
17820288 GTGATAATTTCA-TAATT-TTATT-AAAAAA
1 GTGAT-ATTTTAGTAATTATT-TTGAAAATA
* *
17820316 GTGATATTTTAGTAATTATTTTGGAAATG
1 GTGATATTTTAGTAATTATTTTGAAAATA
* * * *
17820345 GTGCTATTTTTCGTAA-T-TTTTAAAAAAA
1 GTGATA-TTTTAGTAATTATTTTGAAAATA
* * * * *
17820373 CTGATAATTTCGTACTT-TTTCTTAAAA-A
1 GTGATATTTTAGTAATTATTT-TGAAAATA
* *
17820401 GTGATATTTTAGTAATTATTTTAAAAATG
1 GTGATATTTTAGTAATTATTTTGAAAATA
* * *
17820430 GTGATATGTTGGTAAATATTT
1 GTGATATTTTAGTAATTATTT
17820451 CTTAAAAAGA
Statistics
Matches: 176, Mismatches: 32, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
27 18 0.10
28 60 0.34
29 89 0.51
30 9 0.05
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (29 bp):
GTGATATTTTAGTAATTATTTTGAAAATA
Found at i:17820298 original size:28 final size:28
Alignment explanation
Indices: 17820243--17820427 Score: 99
Period size: 28 Copynumber: 6.6 Consensus size: 28
17820233 GGTATTTTAG
* * * *
17820243 TAATTATTTTGAAAATAGTGCTATTTTCA
1 TAATTTTTTTTAAAA-AGTGATAATTTCA
17820272 TAATTTTTTTTAAAAAGTGATAATTTCA
1 TAATTTTTTTTAAAAAGTGATAATTTCA
* * *
17820300 TAATTTTATTAAAAAAGTGAT-ATTTTA
1 TAATTTTTTTTAAAAAGTGATAATTTCA
** ** * * *
17820327 GTAATTATTTTGGAAATGGTGCTATTTTTCG
1 -TAATT-TTTTTTAAAAAGTGATA-ATTTCA
** * *
17820358 TAA-TTTTTAAAAAAACTGATAATTTCG
1 TAATTTTTTTTAAAAAGTGATAATTTCA
* * *
17820385 TACTTTTTCTTAAAAAGTGAT-ATTTTA
1 TAATTTTTTTTAAAAAGTGATAATTTCA
*
17820412 GTAA-TTATTTTAAAAA
1 -TAATTTTTTTTAAAAA
17820428 TGGTGATATG
Statistics
Matches: 117, Mismatches: 33, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
27 26 0.22
28 61 0.52
29 24 0.21
30 3 0.03
31 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (28 bp):
TAATTTTTTTTAAAAAGTGATAATTTCA
Found at i:17820349 original size:85 final size:85
Alignment explanation
Indices: 17820235--17820432 Score: 274
Period size: 85 Copynumber: 2.3 Consensus size: 85
17820225 AAATTTGTGG
* ** *
17820235 TATTTTAGTAATTATTTTGAAAATAGTGCTA-TTTTCATAATTTTTTTTAAAAAGTGATAATTTC
1 TATTTTAGTAATTATTTTGAAAATGGTGCTATTTTTCATAA-TTTTTAAAAAAACTGATAATTTC
17820299 ATAATTTTAT-TAAAAAAGTGA
65 ATAATTTT-TCTAAAAAAGTGA
* * *
17820320 TATTTTAGTAATTATTTTGGAAATGGTGCTATTTTTCGTAATTTTTAAAAAAACTGATAATTTCG
1 TATTTTAGTAATTATTTTGAAAATGGTGCTATTTTTCATAATTTTTAAAAAAACTGATAATTTCA
* *
17820385 TACTTTTTCTTAAAAAGTGA
66 TAATTTTTCTAAAAAAGTGA
*
17820405 TATTTTAGTAATTATTTTAAAAATGGTG
1 TATTTTAGTAATTATTTTGAAAATGGTG
17820433 ATATGTTGGT
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
84 1 0.01
85 91 0.91
86 8 0.08
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (85 bp):
TATTTTAGTAATTATTTTGAAAATGGTGCTATTTTTCATAATTTTTAAAAAAACTGATAATTTCA
TAATTTTTCTAAAAAAGTGA
Found at i:17820423 original size:57 final size:55
Alignment explanation
Indices: 17820202--17820459 Score: 162
Period size: 57 Copynumber: 4.5 Consensus size: 55
17820192 CGTTTACCGG
* * ** * * *
17820202 GTGATATTTTAGTAATTATTTTGAAATTTGTGGTATTTTAGTAATTATTTTGAAAATA
1 GTGATATTTTCGTAATT-TTTTTAAA-AAGTGATATTTTAGTAATT-TTTTAAAAAAA
* * *
17820260 GTGCTATTTTCATAATTTTTTTTAAAAAGTGATAATTTCA-TAATTTTATT-AAAAAA
1 GTGATATTTTCGTAA-TTTTTTTAAAAAGTGAT-ATTTTAGTAATTTT-TTAAAAAAA
* * ** * *
17820316 GTGATATTTTAGTAATTATTTTGGAAATGGTGCTATTTTTCGTAA-TTTTTAAAAAAA
1 GTGATATTTTCGTAATT-TTTT-TAAAAAGTGATA-TTTTAGTAATTTTTTAAAAAAA
* * * **
17820373 CTGATAATTTCGTACTTTTTCTTAAAAAGTGATATTTTAGTAATTATTTTAAAAATG
1 GTGATATTTTCGTAATTTTT-TTAAAAAGTGATATTTTAGTAATT-TTTTAAAAAAA
* * *
17820430 GTGATATGTTGGTAAATATTTCTTAAAAAG
1 GTGATATTTTCGT-AAT-TTTTTTAAAAAG
17820460 AGTGATAATT
Statistics
Matches: 152, Mismatches: 35, Indels: 26
0.71 0.16 0.12
Matches are distributed among these distances:
55 10 0.07
56 38 0.25
57 62 0.41
58 37 0.24
59 5 0.03
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (55 bp):
GTGATATTTTCGTAATTTTTTTAAAAAGTGATATTTTAGTAATTTTTTAAAAAAA
Found at i:17820465 original size:31 final size:31
Alignment explanation
Indices: 17820390--17820466 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 31
17820380 TTTCGTACTT
* *
17820390 TTTCTT-AAAA-AGTGATATTTTAGTAATTA
1 TTTCTTAAAAAGAGTGATATGTTAGTAAATA
*
17820419 -TT-TTAAAAATG-GTGATATGTTGGTAAATA
1 TTTCTTAAAAA-GAGTGATATGTTAGTAAATA
17820448 TTTCTTAAAAAGAGTGATA
1 TTTCTTAAAAAGAGTGATA
17820467 ATTGTGTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 2 0.05
28 6 0.15
29 15 0.38
30 3 0.08
31 13 0.33
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.43
Consensus pattern (31 bp):
TTTCTTAAAAAGAGTGATATGTTAGTAAATA
Found at i:17828302 original size:42 final size:42
Alignment explanation
Indices: 17828243--17828488 Score: 334
Period size: 42 Copynumber: 5.8 Consensus size: 42
17828233 GAAGTATTAT
17828243 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATATTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATATTTTCC
*
17828285 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATATTTTCC
* * *
17828327 CAGGTCCCTTTGATGTGTGTAAAGGTAAGCCTTACAGTTTT-C
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATA-TTTTCC
*
17828369 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATATTTTCC
* * *
17828411 CAGGTCTCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATA-TTTTCC
* * * *
17828454 TAGG-CTCCTCTGCTTTGTGCACAGGTTAAGCCTTA
1 CAGGTC-CCTTTGCTGTGTGCAAAGG-TAAGCCTTA
17828489 CTGGTGTACA
Statistics
Matches: 180, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
41 3 0.02
42 143 0.79
43 25 0.14
44 9 0.05
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (42 bp):
CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATATTTTCC
Found at i:17828384 original size:84 final size:84
Alignment explanation
Indices: 17828243--17828488 Score: 370
Period size: 84 Copynumber: 2.9 Consensus size: 84
17828233 GAAGTATTAT
*
17828243 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTATA-TTTTCCCAGGTCCCTTTGCTGTGTGCAA
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTT-CCAGGTCCCTTTGCTGTGTGCAA
17828307 AGGTAAGCCTTATAGTTTCC
65 AGGTAAGCCTTATAGTTTCC
* *
17828327 CAGGTCCCTTTGATGTGTGTAAAGGTAAGCCTTACAGTTTTCCAGGTCCCTTTGCTGTGTGCAAA
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTTCCAGGTCCCTTTGCTGTGTGCAAA
17828392 GGTAAGCCTTATAGTTTCC
66 GGTAAGCCTTATAGTTTCC
* * * *
17828411 CAGGTCTCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCTAGG-CTCCTCTGCTTTGTGCA
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTTCC-AGGTC-CCTTTGCTGTGTGCA
*
17828475 CAGGTTAAGCCTTA
64 AAGG-TAAGCCTTA
17828489 CTGGTGTACA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
84 116 0.78
85 23 0.16
86 9 0.06
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (84 bp):
CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTTCCAGGTCCCTTTGCTGTGTGCAAA
GGTAAGCCTTATAGTTTCC
Found at i:17829140 original size:85 final size:85
Alignment explanation
Indices: 17829029--17829213 Score: 300
Period size: 85 Copynumber: 2.2 Consensus size: 85
17829019 AAATTGGTGG
* * *
17829029 TATTTTAGTAATTATTTTGAAAATGGTGCTATTTTCATAATTTTTTTTAAAAAGTGATAATTTCA
1 TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCATAATTTTTTTAAAAAAATGATAATTTCA
*
17829094 TAA-TTTTATTATAAAAGTGA
66 TAATTTTTA-TAAAAAAGTGA
* *
17829114 TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTAATTTTTTTAAAAAAATGATAATTTCG
1 TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCATAATTTTTTTAAAAAAATGATAATTTCA
17829179 TAATTTTTATAAAAAAGTGA
66 TAATTTTTATAAAAAAGTGA
17829199 TATTTTAGTAATTAT
1 TATTTTAGTAATTAT
17829214 GGTGGTATTT
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 88 0.95
86 5 0.05
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.49
Consensus pattern (85 bp):
TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCATAATTTTTTTAAAAAAATGATAATTTCA
TAATTTTTATAAAAAAGTGA
Found at i:17829209 original size:28 final size:27
Alignment explanation
Indices: 17828996--17829448 Score: 248
Period size: 28 Copynumber: 16.2 Consensus size: 27
17828986 CGTTGACCGG
***
17828996 GTGATATTTTAGTAATTATTTTGAAATTG
1 GTGATATTTTAGTAATT-TTTT-AAAAAA
* **
17829025 GTGGTATTTTAGTAATTATTTTGAAAATG
1 GTGATATTTTAGTAATT-TTTT-AAAAAA
* *
17829054 GTGCTATTTTCA-TAATTTTTTTTAAAAA
1 GTGATATTTT-AGTAA-TTTTTTAAAAAA
* *
17829082 GTGATAATTTCA-TAATTTTATTATAAAA
1 GTGAT-ATTTTAGTAATTTT-TTAAAAAA
* *
17829110 GTGATATTTTAGTAATTATTTTGAAAAT
1 GTGATATTTTAGTAATT-TTTTAAAAAA
*
17829138 G-GTACTATTTTCGTAATTTTTTTAAAAAA
1 GTG-A-TATTTTAGTAA-TTTTTTAAAAAA
* * *
17829167 ATGATAATTTCGTAATTTTTATAAAAAA
1 GTGATATTTTAGTAATTTTT-TAAAAAA
**
17829195 GTGATATTTTAGTAA----TT---ATG
1 GTGATATTTTAGTAATTTTTTAAAAAA
* * * *
17829215 GTGGTATTTTAGTAATTATTTGAAAAG
1 GTGATATTTTAGTAATTTTTTAAAAAA
* *
17829242 GTGCTATTTTCA-TAATTTTTTTTAAAAA
1 GTGATATTTT-AGTAA-TTTTTTAAAAAA
* *
17829270 GTGATAATTTCA-TAATTTTATTATAAAA
1 GTGAT-ATTTTAGTAATTTT-TTAAAAAA
* *
17829298 GTGATATTTTAGTAATTATTTTGAAAAT
1 GTGATATTTTAGTAATT-TTTTAAAAAA
*
17829326 G-GTACTATTTTCGTAATTTTTTTAAAAAA
1 GTG-A-TATTTTAGTAA-TTTTTTAAAAAA
* * *
17829355 ATGATAATTTCGTAATTTTTATAAAAAA
1 GTGATATTTTAGTAATTTTT-TAAAAAA
**
17829383 GTGATATTTTAGTAATTATTTTGAAAATG
1 GTGATATTTTAGTAATT-TTTT-AAAAAA
*
17829412 GTGATATTTTGGTAAATATTTCTTAAAAAGA
1 GTGATATTTTAGT-AAT-TTT-TTAAAAA-A
17829443 GTGATA
1 GTGATA
17829449 ATTGTGTAAA
Statistics
Matches: 338, Mismatches: 51, Indels: 68
0.74 0.11 0.15
Matches are distributed among these distances:
20 15 0.04
23 1 0.00
24 3 0.01
27 44 0.13
28 136 0.40
29 112 0.33
30 18 0.05
31 9 0.03
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (27 bp):
GTGATATTTTAGTAATTTTTTAAAAAA
Found at i:17829277 original size:103 final size:105
Alignment explanation
Indices: 17829114--17829316 Score: 322
Period size: 103 Copynumber: 2.0 Consensus size: 105
17829104 ATAAAAGTGA
* *
17829114 TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTAATTTTTTTAAAAAAATGATAATTTCG
1 TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCATAATTTTTTTAAAAAAATGATAATTTCA
17829179 TAATTTT-TATAAAAAAGTGATATTTTAGTAATTATGGTGG
66 TAATTTTAT-TAAAAAAGTGATATTTTAGTAATTATGGTGG
* * *
17829219 TATTTTAGTAATTA-TTTGAAAA-GGTGCTATTTTCATAATTTTTTTTAAAAAGTGATAATTTCA
1 TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCATAATTTTTTTAAAAAAATGATAATTTCA
*
17829282 TAATTTTATTATAAAAGTGATATTTTAGTAATTAT
66 TAATTTTATTAAAAAAGTGATATTTTAGTAATTAT
17829317 TTTGAAAATG
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
103 68 0.75
104 9 0.10
105 14 0.15
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (105 bp):
TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCATAATTTTTTTAAAAAAATGATAATTTCA
TAATTTTATTAAAAAAGTGATATTTTAGTAATTATGGTGG
Found at i:17829342 original size:188 final size:190
Alignment explanation
Indices: 17829023--17829401 Score: 744
Period size: 188 Copynumber: 2.0 Consensus size: 190
17829013 ATTTTGAAAT
17829023 TGGTGGTATTTTAGTAATTATTTTGAAAATGGTGCTATTTTCATAATTTTTTTTAAAAAGTGATA
1 TGGTGGTATTTTAGTAATTATTTTGAAAATGGTGCTATTTTCATAATTTTTTTTAAAAAGTGATA
17829088 ATTTCATAATTTTATTATAAAAGTGATATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTA
66 ATTTCATAATTTTATTATAAAAGTGATATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTA
17829153 ATTTTTTTAAAAAAATGATAATTTCGTAATTTTTATAAAAAAGTGATATTTTAGTAATTA
131 ATTTTTTTAAAAAAATGATAATTTCGTAATTTTTATAAAAAAGTGATATTTTAGTAATTA
17829213 TGGTGGTATTTTAGTAATTA-TTTGAAAA-GGTGCTATTTTCATAATTTTTTTTAAAAAGTGATA
1 TGGTGGTATTTTAGTAATTATTTTGAAAATGGTGCTATTTTCATAATTTTTTTTAAAAAGTGATA
17829276 ATTTCATAATTTTATTATAAAAGTGATATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTA
66 ATTTCATAATTTTATTATAAAAGTGATATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTA
17829341 ATTTTTTTAAAAAAATGATAATTTCGTAATTTTTATAAAAAAGTGATATTTTAGTAATTA
131 ATTTTTTTAAAAAAATGATAATTTCGTAATTTTTATAAAAAAGTGATATTTTAGTAATTA
17829401 T
1 T
17829402 TTTGAAAATG
Statistics
Matches: 189, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
188 161 0.85
189 8 0.04
190 20 0.11
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (190 bp):
TGGTGGTATTTTAGTAATTATTTTGAAAATGGTGCTATTTTCATAATTTTTTTTAAAAAGTGATA
ATTTCATAATTTTATTATAAAAGTGATATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTA
ATTTTTTTAAAAAAATGATAATTTCGTAATTTTTATAAAAAAGTGATATTTTAGTAATTA
Found at i:17829360 original size:85 final size:85
Alignment explanation
Indices: 17829219--17829451 Score: 321
Period size: 85 Copynumber: 2.7 Consensus size: 85
17829209 ATTATGGTGG
* * *
17829219 TATTTTAGTAATTA-TTTGAAAA-GGTGCTATTTTCATAATTTTTTTTAAAAAGTGATAATTTCA
1 TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTAATTTTTTTAAAAAAGTGATAATTTCA
*
17829282 TAA-TTTTATTATAAAAGTGA
66 TAATTTTTA-TAAAAAAGTGA
* *
17829302 TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTAATTTTTTTAAAAAAATGATAATTTCG
1 TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTAATTTTTTTAAAAAAGTGATAATTTCA
17829367 TAATTTTTATAAAAAAGTGA
66 TAATTTTTATAAAAAAGTGA
* *
17829387 TATTTTAGTAATTATTTTGAAAATGGTGA-TATTTTGGTAAATATTTCTTAAAAAGAGTGATAAT
1 TATTTTAGTAATTATTTTGAAAATGGT-ACTATTTTCGT-AAT-TTTTTTAAAAA-AGTGATAAT
17829451 T
62 T
17829452 GTGTAAAAAA
Statistics
Matches: 134, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
83 14 0.10
84 8 0.06
85 84 0.63
86 9 0.07
87 10 0.07
88 9 0.07
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (85 bp):
TATTTTAGTAATTATTTTGAAAATGGTACTATTTTCGTAATTTTTTTAAAAAAGTGATAATTTCA
TAATTTTTATAAAAAAGTGA
Found at i:17836487 original size:16 final size:16
Alignment explanation
Indices: 17836462--17836575 Score: 66
Period size: 16 Copynumber: 7.4 Consensus size: 16
17836452 GGAGGTTACA
17836462 ATATAAGTATATATAT
1 ATATAAGTATATATAT
* *
17836478 ATATATGTATGTATAT
1 ATATAAGTATATATAT
*
17836494 ATA-AAGGT-T-TA-GT
1 ATATAA-GTATATATAT
*
17836507 ATA-AAGTGTATATAGGT
1 ATATAAGTATATATA--T
* *
17836524 ATATAA-TAACATAAAGT
1 ATATAAGT-ATATATA-T
17836541 ATATAAGTATATA-AT
1 ATATAAGTATATATAT
17836556 ATA-AAGTATATATA-
1 ATATAAGTATATATAT
17836570 ATATAA
1 ATATAA
17836576 AGTACAAGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
12 2 0.03
13 7 0.09
14 16 0.21
15 9 0.12
16 20 0.26
17 17 0.22
18 7 0.09
ACGTcount: A:0.49, C:0.01, G:0.11, T:0.39
Consensus pattern (16 bp):
ATATAAGTATATATAT
Found at i:17836545 original size:27 final size:23
Alignment explanation
Indices: 17836506--17836622 Score: 89
Period size: 24 Copynumber: 4.9 Consensus size: 23
17836496 AAAGGTTTAG
*
17836506 TATAAAGTGTATATAGGTATATAA
1 TATAAAGTATATATA-GTATATAA
17836530 TAACATAAAGTATATA-AGTATATAA
1 T---ATAAAGTATATATAGTATATAA
*
17836555 TATAAAGTATATATAATATA-AA
1 TATAAAGTATATATAGTATATAA
* * *
17836577 GTACAAGTGTGTATATA-TATATAA
1 -TATAA-AGTATATATAGTATATAA
17836601 GCTATAAAGTATATA-AGTATAT
1 --TATAAAGTATATATAGTATAT
17836623 GTACATATAT
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
22 14 0.19
23 14 0.19
24 22 0.29
25 13 0.17
26 1 0.01
27 11 0.15
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.36
Consensus pattern (23 bp):
TATAAAGTATATATAGTATATAA
Found at i:17836576 original size:16 final size:16
Alignment explanation
Indices: 17836548--17836579 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17836538 AGTATATAAG
17836548 TATATAATATAAAGTA
1 TATATAATATAAAGTA
17836564 TATATAATATAAAGTA
1 TATATAATATAAAGTA
17836580 CAAGTGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
TATATAATATAAAGTA
Found at i:17836901 original size:22 final size:22
Alignment explanation
Indices: 17836876--17836966 Score: 55
Period size: 22 Copynumber: 4.0 Consensus size: 22
17836866 AATATAAAAT
17836876 ATAAAATATATATACA-TATATA
1 ATAAAATATATATA-AGTATATA
*
17836898 ATAATATAAAGTATATAAGTATATA
1 ATAA-A-ATA-TATATAAGTATATA
* *
17836923 ATACAAA-GTATATAAGCAT-TAA
1 ATA-AAATATATATAAGTATAT-A
* *
17836945 ATATAA-GTATATAAGTATATA
1 ATAAAATATATATAAGTATATA
17836966 A
1 A
17836967 GTATATATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
21 16 0.28
22 19 0.33
23 1 0.02
24 4 0.07
25 16 0.28
26 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (22 bp):
ATAAAATATATATAAGTATATA
Found at i:17836936 original size:65 final size:61
Alignment explanation
Indices: 17836820--17837146 Score: 144
Period size: 65 Copynumber: 5.3 Consensus size: 61
17836810 AGTATATTAT
* *
17836820 ATATATATAATGTATAATTATAAAGACTAAAGTATATAAGTATATAAATATAAAATATAAA
1 ATATATATAATATATAATTATAAAGACTAAAGTATATAAGTACATAAATATAAAATATAAA
*
17836881 ATATATATACATATATAATAATATAAAGTA-TATAAGTATATAA-TACA-AAGTATATAAGCAT-
1 ATATATATA-ATATATAAT--TATAAAG-ACTA-AAGTATATAAGTACATAA--ATATAA-AATA
17836942 TAAA
58 TAAA
* * * * * * *
17836946 TATAAGTATATAAGTATATAAGTATATATA-TAAACTATA-AAGTGTATATATATATATATATAT
1 -AT-A-TATATAA-TATATAATTATAAAGACTAAAGTATATAA--GTACATAAATATA-AAATAT
17837009 AAA
59 AAA
* * * * * * * * *
17837012 GT-T-T-TAGTATA-AAGTAT-ATG--TATA-TATATAA-TAATATAAACTATAAGTATATTAT
1 ATATATATAATATATAATTATAAAGACTAAAGTATATAAGT-ACATAAA-TATAA-AATATAAA
* ** * *
17837067 ATATATAAAAAGTATAATTATAAAGACTAAAGTATATAAGTATATAAATATAAAATATATAT
1 ATATATATAATATATAATTATAAAGACTAAAGTATATAAGTACATAAATATAAAATATA-AA
*
17837129 ACATATATAATAATATAA
1 ATATATATAAT-ATATAA
17837147 AGTATATAAG
Statistics
Matches: 200, Mismatches: 33, Indels: 64
0.67 0.11 0.22
Matches are distributed among these distances:
53 1 0.00
54 7 0.04
55 15 0.08
56 6 0.03
57 1 0.00
58 9 0.05
59 9 0.05
60 4 0.02
61 14 0.07
62 27 0.14
63 23 0.12
64 19 0.09
65 32 0.16
66 17 0.09
67 3 0.01
68 13 0.06
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (61 bp):
ATATATATAATATATAATTATAAAGACTAAAGTATATAAGTACATAAATATAAAATATAAA
Found at i:17836973 original size:10 final size:8
Alignment explanation
Indices: 17836849--17837236 Score: 176
Period size: 8 Copynumber: 50.1 Consensus size: 8
17836839 ATAAAGACTA
17836849 AAGTATAT
1 AAGTATAT
17836857 AAGTATAT
1 AAGTATAT
*
17836865 AAATATA-
1 AAGTATAT
*
17836872 AAATATA-
1 AAGTATAT
*
17836879 AAATATAT
1 AAGTATAT
*
17836887 ATACATATAT
1 A-A-GTATAT
17836897 AA-TAATAT
1 AAGT-ATAT
17836905 AAAGTATAT
1 -AAGTATAT
17836914 AAGTATAT
1 AAGTATAT
*
17836922 AA-TACA-
1 AAGTATAT
17836928 AAGTATAT
1 AAGTATAT
*
17836936 AAGCAT-T
1 AAGTATAT
17836943 AA--ATAT
1 AAGTATAT
17836949 AAGTATAT
1 AAGTATAT
17836957 AAGTATAT
1 AAGTATAT
17836965 AAGTATAT
1 AAGTATAT
17836973 -A-TATA-
1 AAGTATAT
*
17836978 AACTATA-
1 AAGTATAT
*
17836985 AAGTGTAT
1 AAGTATAT
17836993 ATA-TATAT
1 A-AGTATAT
17837001 ATA-TATAT
1 A-AGTATAT
17837009 AAAGT-T-T
1 -AAGTATAT
*
17837016 TAGTATA-
1 AAGTATAT
17837023 AAGTATATGT
1 AAGTATA--T
17837033 ATA-TATAT
1 A-AGTATAT
17837041 AA-TAATAT
1 AAGT-ATAT
17837049 AA--ACTAT
1 AAGTA-TAT
17837056 AAGTATATT
1 AAGTATA-T
17837065 ATA-TATAT
1 A-AGTATAT
**
17837073 AAAAAGTAT
1 AAGTA-TAT
*
17837082 AATTATA-
1 AAGTATAT
17837089 AAG-ACTA-
1 AAGTA-TAT
17837096 AAGTATAT
1 AAGTATAT
17837104 AAGTATAT
1 AAGTATAT
*
17837112 AAATATA-
1 AAGTATAT
*
17837119 AAATATAT
1 AAGTATAT
*
17837127 ATACATATAT
1 A-A-GTATAT
17837137 AA-TAATAT
1 AAGT-ATAT
17837145 AAAGTATAT
1 -AAGTATAT
*
17837154 AAGTATAC
1 AAGTATAT
*
17837162 AA-TACA-
1 AAGTATAT
17837168 AAGTATAT
1 AAGTATAT
*
17837176 AAGCAT-T
1 AAGTATAT
17837183 AA--ATAT
1 AAGTATAT
17837189 AAGTATAT
1 AAGTATAT
*
17837197 AAGTATGT
1 AAGTATAT
17837205 AAGTAT-T
1 AAGTATAT
* *
17837212 AAATATAA
1 AAGTATAT
17837220 AAGTATAT
1 AAGTATAT
17837228 AAGTATAT
1 AAGTATAT
17837236 A
1 A
17837237 TATAAACTAT
Statistics
Matches: 311, Mismatches: 23, Indels: 92
0.73 0.05 0.22
Matches are distributed among these distances:
5 4 0.01
6 20 0.06
7 82 0.26
8 150 0.48
9 32 0.10
10 22 0.07
11 1 0.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (8 bp):
AAGTATAT
Found at i:17837002 original size:38 final size:36
Alignment explanation
Indices: 17836809--17837073 Score: 159
Period size: 36 Copynumber: 7.5 Consensus size: 36
17836799 TAAATTTTAT
* *
17836809 AAGTATAT-TATATATATATA-ATGTAT-AATTATA
1 AAGTATATATATATATATATATATATATAAACTATA
* * *
17836842 AAG-ACTAAAGTATATA-AGTATATAAATATAAAATATA
1 AAGTA-TATA-TATATATA-TATATATATATAAACTATA
* * *
17836879 AAATATATATACATATATA-ATA-ATATAAAGTATA
1 AAGTATATATATATATATATATATATATAAACTATA
* * *
17836913 TAAGTATATA-ATACAAAGTATATA-AGCATTAAA-TAT-
1 -AAGTATATATATATATA-TATATATA-TA-TAAACTATA
17836949 AAGTATATA-AGTATATA-AGTATATATATAAACTATA
1 AAGTATATATA-TATATATA-TATATATATAAACTATA
* * ** *
17836985 AAGTGTATATATATATATATATATAAAGTTTTAGTATA
1 AAGTATATATATATATATATATATATA--TAAACTATA
*
17837023 AAGTATATGTATATATATA-ATA-ATATAAACTAT-
1 AAGTATATATATATATATATATATATATAAACTATA
17837056 AAGTATAT-TATATATATA
1 AAGTATATATATATATATA
17837074 AAAAGTATAA
Statistics
Matches: 183, Mismatches: 27, Indels: 45
0.72 0.11 0.18
Matches are distributed among these distances:
32 11 0.06
33 13 0.07
34 26 0.14
35 41 0.22
36 43 0.23
37 21 0.11
38 28 0.15
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (36 bp):
AAGTATATATATATATATATATATATATAAACTATA
Found at i:17837061 original size:27 final size:29
Alignment explanation
Indices: 17837019--17837074 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
17837009 AAAGTTTTAG
* *
17837019 TATAAAGTATATGTATA-TATATA-ATAA
1 TATAAACTATAAGTATATTATATATATAA
17837046 TATAAACTATAAGTATATTATATATATAA
1 TATAAACTATAAGTATATTATATATATAA
17837075 AAAGTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 15 0.60
28 6 0.24
29 4 0.16
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (29 bp):
TATAAACTATAAGTATATTATATATATAA
Found at i:17837127 original size:17 final size:17
Alignment explanation
Indices: 17837107--17837152 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
17837097 AGTATATAAG
17837107 TATATAAATATAAAATA
1 TATATAAATATAAAATA
* *
17837124 TATATACATATATAATA
1 TATATAAATATAAAATA
17837141 -ATATAAAGTATA
1 TATATAAA-TATA
17837153 TAAGTATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TATATAAATATAAAATA
Found at i:17837200 original size:29 final size:30
Alignment explanation
Indices: 17837168--17837236 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
17837158 ATACAATACA
17837168 AAGTATATAAGCATTAAATAT-AAGTATAT
1 AAGTATATAAGCATTAAATATAAAGTATAT
* *
17837197 AAGTATGTAAGTATTAAATATAAAAGTATAT
1 AAGTATATAAGCATTAAATAT-AAAGTATAT
17837228 AAGTATATA
1 AAGTATATA
17837237 TATAAACTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.52, C:0.01, G:0.12, T:0.35
Consensus pattern (30 bp):
AAGTATATAAGCATTAAATATAAAGTATAT
Found at i:17837265 original size:240 final size:246
Alignment explanation
Indices: 17836806--17837400 Score: 718
Period size: 240 Copynumber: 2.4 Consensus size: 246
17836796 TTTTAAATTT
* *
17836806 TATAAGTATATTATATATATATAATGTATAATTATAAAGACTAAAGTATATAAGTATATAAATAT
1 TATAAGTATATTATATATATAAAAAGTATAATTATAAAGACTAAAGTATATAAG----T--ATAT
*
17836871 AAAATATAAAATATATATACATATATAATAATATAAAGTATATAAGTATATAATACAAAGTATAT
60 -AAATATAAAATATATATACATATATAATAATATAAAGTATATAAGTATACAATACAAAGTATAT
*
17836936 AAGCATTAAATATAAGTATATAAGTATATAAGTATATATATAAACTATAAAGTGTATATATATAT
124 AAGCATTAAATATAAGTATATAAGTATATAAGTATAAATATAAACTATAAAG-GTATATATATAT
*
17837001 ATATATATAAAGTTTTAGTATAAAG-TA-TAT-GTATATAT-ATA-ATAAT-ATA-AAC
188 ATATATATAAAGTTTTAATATAAAGTTAGTATAGTATATATAATATATAATAATAGAAC
17837053 TATAAGTATATTATATATATAAAAAGTATAATTATAAAGACTAAAGTATATAAGTATATAAATAT
1 TATAAGTATATTATATATATAAAAAGTATAATTATAAAGACTAAAGTATATAAGTATATAAATAT
17837118 AAAATATATATACATATATAATAATATAAAGTATATAAGTATACAATACAAAGTATATAAGCATT
66 AAAATATATATACATATATAATAATATAAAGTATATAAGTATACAATACAAAGTATATAAGCATT
* * *
17837183 AAATATAAGTATATAAGTATGTAAGTATTAAATATAAAAGTATATAA-GTATATATATA-A-A-C
131 AAATATAAGTATATAAGTATATAAGTA-TAAATAT-AAACTATA-AAGGTATATATATATATATA
*
17837244 TATAAA-TTGTGTATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATGAAG
193 TATAAAGTT-T-TA-ATATAAAG--TTAGTAT--AGTATATATA-ATATATAATAATA-GAAC
* * * * *
17837306 TATAAGTATATATATATATATATACAGACGTAT-ATAAT-AATA-TAAAGTATATTATTAT-TAA
1 TATAAGTATAT-TATATATATA-A-A-AAGTATAATTATAAAGACTAAAGTATATAAGTATATAA
* *
17837367 ATATAAATTATATATACATATATAGTAATATAAA
62 ATATAAAATATATATACATATATAATAATATAAA
17837401 CTACAAGTAT
Statistics
Matches: 309, Mismatches: 16, Indels: 40
0.85 0.04 0.11
Matches are distributed among these distances:
237 2 0.01
238 7 0.02
239 3 0.01
240 104 0.34
241 21 0.07
242 7 0.02
243 5 0.02
244 3 0.01
247 60 0.19
249 3 0.01
250 5 0.02
251 3 0.01
253 48 0.16
254 24 0.08
255 4 0.01
256 5 0.02
257 5 0.02
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (246 bp):
TATAAGTATATTATATATATAAAAAGTATAATTATAAAGACTAAAGTATATAAGTATATAAATAT
AAAATATATATACATATATAATAATATAAAGTATATAAGTATACAATACAAAGTATATAAGCATT
AAATATAAGTATATAAGTATATAAGTATAAATATAAACTATAAAGGTATATATATATATATATAT
AAAGTTTTAATATAAAGTTAGTATAGTATATATAATATATAATAATAGAAC
Found at i:17837286 original size:2 final size:2
Alignment explanation
Indices: 17837279--17837430 Score: 51
Period size: 2 Copynumber: 79.0 Consensus size: 2
17837269 TAGTATAAAG
*
17837279 TA TA TA TA CA TA TA TA -A TA -A TA TGA -A GTA TA -A GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA -TA TA TA
* * ** *
17837318 TA TA TA TA TA TA CA GA CG TA TA TA -A TA -A TA TA AA GTA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
17837358 TA T- TA T- TA AA TA TA AA T- TA TA TA TA CA TA TA TA GTA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
17837397 TA AA CTA CA -A GTA TA T- 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
17837431 GAGAGAGAGA
Statistics
Matches: 111, Mismatches: 19, Indels: 40
0.65 0.11 0.24
Matches are distributed among these distances:
1 13 0.12
2 90 0.81
3 8 0.07
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (2 bp):
TA
Found at i:17837310 original size:47 final size:45
Alignment explanation
Indices: 17837259--17837428 Score: 123
Period size: 47 Copynumber: 3.6 Consensus size: 45
17837249 ATTGTGTATA
*
17837259 TATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATGAAG
1 TATAAAGTTTTA-TATAAA-TATATATACATATATAATAATATAAAG
* *
17837306 TAT-AAG-TATATATATATATATATACAGACGTATATAATAATATAAAG
1 TATAAAGTTTTATATAAATATATATAC--A--TATATAATAATATAAAG
* * *
17837353 TATATTA-TTATTAAATATAAATTATATATACATATATAGTAATATAAAC
1 TATA-AAGTT-TT--ATATAAA-TATATATACATATATAATAATATAAAG
* *
17837402 TA-CAAGTATATTATATATATATATATA
1 TATAAAGT-T-TTATATAAATATATATA
17837429 TAGAGAGAGA
Statistics
Matches: 99, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
43 9 0.09
44 5 0.05
45 4 0.04
46 11 0.11
47 29 0.29
48 1 0.01
49 23 0.23
50 1 0.01
51 1 0.01
52 6 0.06
53 9 0.09
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (45 bp):
TATAAAGTTTTATATAAATATATATACATATATAATAATATAAAG
Found at i:17837473 original size:22 final size:22
Alignment explanation
Indices: 17837442--17837489 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17837432 AGAGAGAGAG
*
17837442 TATAATTATA-AAGAATAAAGTA
1 TATAAGTATATAA-AATAAAGTA
*
17837464 TATAAGTATATAATATAAAGTA
1 TATAAGTATATAAAATAAAGTA
17837486 TATA
1 TATA
17837490 TACTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (22 bp):
TATAAGTATATAAAATAAAGTA
Found at i:17837487 original size:253 final size:253
Alignment explanation
Indices: 17836806--17837491 Score: 681
Period size: 253 Copynumber: 2.7 Consensus size: 253
17836796 TTTTAAATTT
* * *
17836806 TATAAGTATATTATATATATATAATGTATAATTATAAAGACTAAAGTATATAAGTATATAAATAT
1 TATAAGTATATTATATATATAAAAAGTATAATAATAAAGACTAAAGTATATAAG----T--ATAT
* *
17836871 AAAATATAAAATATATATACATATATAATAATATAAAGTATATAAGTATATAATACAAAGTATAT
60 -AAATATAAAATATATATACATATATAATAATATAAAG-ATACAAGTATACAATACAAAGTATAT
* *
17836936 AAGCATTAAATATAAG--TAT----AT-AAGTATATAAGTATAT-A-TATAAACTATA-A-AGT-
123 AAGCATGAAATATAAGTATATAAGAATAAAGTATATAAGTATATAAGTATAAAGTATATATA-TA
* * *
17836989 --G-TATATATATATATATATATAAAGTTTTAGTATAAAGTATATGTATATATATAATAATATAA
187 AAGCTATAAATATATATATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAA
17837051 AC
252 AC
*
17837053 TATAAGTATATTATATATATAAAAAGTATAATTATAAAGACTAAAGTATATAAGTATATAAATAT
1 TATAAGTATATTATATATATAAAAAGTATAATAATAAAGACTAAAGTATATAAGTATATAAATAT
* *
17837118 AAAATATATATACATATATAATAATATAAAGTATATAAGTATACAATACAAAGTATATAAGCATT
66 AAAATATATATACATATATAATAATATAAAG-ATACAAGTATACAATACAAAGTATATAAGCATG
* * * *
17837183 AAATATAAGTATATAAGTATGTAAGTAT-TAAATATAAAAGTATATAAGTATATATATAAA-CTA
130 AAATATAAGTATATAAGAAT-AAAGTATATAAGTATATAAGTATA-AAGTATATATATAAAGCTA
* * * *
17837246 TAAAT-TGTGTATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATGAAG
193 TAAATATATATATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAC
* * * *
17837306 TATAAGTATATATATATATATATACAGACGTAT-ATAAT-AATA-TAAAGTATATTATTAT-TAA
1 TATAAGTATAT-TATATATATA-A-A-AAGTATAATAATAAAGACTAAAGTATATAAGTATATAA
* * * * *
17837367 ATATAAATTATATATACATATATAGTAATATAAA-CTACAAGTATATTATATATATATA-TATAT
62 ATATAAAATATATATACATATATAATAATATAAAGATACAAGTATA-CA-ATACA-A-AGTATAT
*
17837430 AGAG-A-GAGAGAGTATAATTATA-AAGAATAAAGTATATAAGTATATAA-TATAAAGTATATAT
123 A-AGCATGA-A-A-TATAAGTATATAAGAATAAAGTATATAAGTATATAAGTATAAAGTATATAT
17837491 A
184 A
17837492 CTTATATACT
Statistics
Matches: 379, Mismatches: 30, Indels: 54
0.82 0.06 0.12
Matches are distributed among these distances:
240 79 0.21
241 4 0.01
242 3 0.01
243 1 0.00
246 2 0.01
247 59 0.16
248 7 0.02
249 4 0.01
250 6 0.02
251 11 0.03
252 2 0.01
253 111 0.29
254 49 0.13
255 22 0.06
256 14 0.04
257 5 0.01
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (253 bp):
TATAAGTATATTATATATATAAAAAGTATAATAATAAAGACTAAAGTATATAAGTATATAAATAT
AAAATATATATACATATATAATAATATAAAGATACAAGTATACAATACAAAGTATATAAGCATGA
AATATAAGTATATAAGAATAAAGTATATAAGTATATAAGTATAAAGTATATATATAAAGCTATAA
ATATATATATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAC
Found at i:17837497 original size:22 final size:22
Alignment explanation
Indices: 17837456--17837499 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
17837446 ATTATAAAGA
*
17837456 ATAAAGTATATAAGTATATAAT
1 ATAAAGTATATAACTATATAAT
17837478 ATAAAGTATATATACTTATATA
1 ATAAAGTATATA-AC-TATATA
17837500 CTTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 1 0.05
24 6 0.32
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (22 bp):
ATAAAGTATATAACTATATAAT
Found at i:17837514 original size:22 final size:22
Alignment explanation
Indices: 17837488--17837613 Score: 122
Period size: 22 Copynumber: 5.9 Consensus size: 22
17837478 ATAAAGTATA
17837488 TATACTTATATACTTTATATTT
1 TATACTTATATACTTTATATTT
*
17837510 AATACTTATATACTTTAGT-TTT
1 TATACTTATATACTTTA-TATTT
*
17837532 TATAATTATAT--TTTATATACTT
1 TATACTTATATACTTTATAT--TT
*
17837554 TATATTTA-ATACTTATATATTT
1 TATACTTATATACTT-TATATTT
17837576 TATA-TTATATACTTTATA-TT
1 TATACTTATATACTTTATATTT
* *
17837596 TAAAC-TATATAATTTATA
1 TATACTTATATACTTTATA
17837614 CATAGTATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 20
0.77 0.05 0.17
Matches are distributed among these distances:
19 1 0.01
20 22 0.25
21 9 0.10
22 49 0.55
23 3 0.03
24 5 0.06
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (22 bp):
TATACTTATATACTTTATATTT
Found at i:17837569 original size:29 final size:31
Alignment explanation
Indices: 17837515--17837580 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
17837505 TATTTAATAC
*
17837515 TTATATACTTTAGTTTTTATAA-T-TATATT
1 TTATATACTTTAGTTTTAATAATTATATATT
*
17837544 TTATATACTTTA-TATTTAATACTTATATATT
1 TTATATACTTTAGT-TTTAATAATTATATATT
17837575 TTATAT
1 TTATAT
17837581 TATATACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.03
29 18 0.56
30 1 0.03
31 12 0.38
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (31 bp):
TTATATACTTTAGTTTTAATAATTATATATT
Found at i:17837633 original size:11 final size:11
Alignment explanation
Indices: 17837601--17837907 Score: 51
Period size: 11 Copynumber: 28.5 Consensus size: 11
17837591 ATATTTAAAC
17837601 TATATAATTTA
1 TATATAATTTA
* *
17837612 TACAT-A-GTA
1 TATATAATTTA
17837621 TATATAATTTA
1 TATATAATTTA
* **
17837632 TAAAT-ATACA
1 TATATAATTTA
*
17837642 TA-AT-ATATA
1 TATATAATTTA
* * *
17837651 AATATAAGTTG
1 TATATAATTTA
*
17837662 TATCTA-TTTA
1 TATATAATTTA
* *
17837672 AATATAATTCA
1 TATATAATTTA
*
17837683 TATATAACTTA
1 TATATAATTTA
17837694 TATATAA---A
1 TATATAATTTA
17837702 CTATATAATTTA
1 -TATATAATTTA
**
17837714 TAT-TAATAAA
1 TATATAATTTA
*
17837724 CTATATATTTTA
1 -TATATAATTTA
*
17837736 TATAT-AGTT-
1 TATATAATTTA
* *
17837745 CA-ATAGTTTA
1 TATATAATTTA
17837755 TATATAAACTCTATA
1 TATAT-AA-T-T-TA
* *
17837770 GTTTATACATGGTA
1 -TATATA-AT-TTA
*
17837784 TATATAGTTTA
1 TATATAATTTA
*
17837795 TACATAATATATA
1 TATATAAT-T-TA
**
17837808 TATATAAAATA
1 TATATAATTTA
*
17837819 TA-ATAATATA
1 TATATAATTTA
*
17837829 AATATAA---A
1 TATATAATTTA
*
17837837 CTATATAGTTTA
1 -TATATAATTTA
*
17837849 TATATAGTTTA
1 TATATAATTTA
**
17837860 TAT-TAATAAA
1 TATATAATTTA
*
17837870 CTATATAGTTTA
1 -TATATAATTTA
*
17837882 TACATAA--TA
1 TATATAATTTA
*
17837891 TATATAGTTTA
1 TATATAATTTA
17837902 TATATA
1 TATATA
17837908 TTATACAATA
Statistics
Matches: 206, Mismatches: 59, Indels: 62
0.63 0.18 0.19
Matches are distributed among these distances:
8 4 0.02
9 35 0.17
10 35 0.17
11 93 0.45
12 13 0.06
13 14 0.07
14 3 0.01
15 4 0.02
16 5 0.02
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (11 bp):
TATATAATTTA
Found at i:17837644 original size:17 final size:17
Alignment explanation
Indices: 17837604--17837656 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
17837594 TTTAAACTAT
*
17837604 ATAATTTATACATAGTATAT
1 ATAATTTATA-A-A-TATAC
17837624 ATAATTTATAAATATAC
1 ATAATTTATAAATATAC
*
17837641 ATAATATATAAATATA
1 ATAATTTATAAATATA
17837657 AGTTGTATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 19 0.61
18 1 0.03
19 1 0.03
20 10 0.32
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
ATAATTTATAAATATAC
Found at i:17837722 original size:22 final size:21
Alignment explanation
Indices: 17837683--17837738 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
17837673 ATATAATTCA
*
17837683 TATATAACTTATA-TATAAAC
1 TATATAATTTATATTATAAAC
17837703 TATATAATTTATATTAATAAAC
1 TATATAATTTATATT-ATAAAC
*
17837725 TATATATTTTATAT
1 TATATAATTTATAT
17837739 ATAGTTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 12 0.38
21 1 0.03
22 19 0.59
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATAATTTATATTATAAAC
Found at i:17837772 original size:20 final size:20
Alignment explanation
Indices: 17837691--17837946 Score: 129
Period size: 20 Copynumber: 13.3 Consensus size: 20
17837681 CATATATAAC
*
17837691 TTATATATAAACTATATAAT
1 TTATATATAAACTATATAGT
*
17837711 TTATATTAATAAACTATATATT
1 TTATA-T-ATAAACTATATAGT
**
17837733 TTATATAT-AGTTCA-ATAGT
1 TTATATATAAACT-ATATAGT
*
17837752 TTATATATAAACTCTATAGT
1 TTATATATAAACTATATAGT
* **
17837772 TTATACATGGTA-TATATAGT
1 TTATATAT-AAACTATATAGT
*
17837792 TTATACAT-AA-TATATA--
1 TTATATATAAACTATATAGT
*
17837808 -TATATA-AAA-TATAATAAT
1 TTATATATAAACTAT-ATAGT
* *
17837826 ATAAATATAAACTATATAGT
1 TTATATATAAACTATATAGT
*
17837846 TTATATAT--AGT-T-TA-T
1 TTATATATAAACTATATAGT
*
17837861 AT-TA-ATAAACTATATAGT
1 TTATATATAAACTATATAGT
*
17837879 TTATACATAATA-TATATAGT
1 TTATATATAA-ACTATATAGT
*
17837899 TTATATATATTATAC-A-ATAAT
1 TTATATATA--A-ACTATATAGT
* *
17837920 ATAAATATAAACTATATAGT
1 TTATATATAAACTATATAGT
17837940 TTATATA
1 TTATATA
17837947 CATAGTTTAT
Statistics
Matches: 182, Mismatches: 28, Indels: 52
0.69 0.11 0.20
Matches are distributed among these distances:
13 2 0.01
14 2 0.01
15 14 0.08
16 6 0.03
17 3 0.02
18 13 0.07
19 23 0.13
20 79 0.43
21 18 0.10
22 22 0.12
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (20 bp):
TTATATATAAACTATATAGT
Found at i:17837789 original size:2 final size:2
Alignment explanation
Indices: 17837782--17837974 Score: 66
Period size: 2 Copynumber: 97.0 Consensus size: 2
17837772 TTATACATGG
* * *
17837782 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA -A AA TA TA -A
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
17837822 TA -A TA TA AA TA TA AA CTA TA TA GTT TA TA TA TA GTT TA TA T-
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA
* * * *
17837863 TA -A TA AA CTA TA TA GTT TA TA CA TA -A TA TA TA TA GTT TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
17837904 TA TA T- TA TA CA -A TA -A TA TA AA TA TA AA CTA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* *
17837945 TA CA TA GTT TA TA TA TA TA -A TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
17837975 GTTTATATTA
Statistics
Matches: 138, Mismatches: 32, Indels: 42
0.65 0.15 0.20
Matches are distributed among these distances:
1 11 0.08
2 117 0.85
3 10 0.07
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (2 bp):
TA
Found at i:17837833 original size:21 final size:20
Alignment explanation
Indices: 17837798--17837841 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
17837788 TAGTTTATAC
*
17837798 ATAATATATATATATAAAAT
1 ATAATATATAAATATAAAAT
*
17837818 ATAATAATATAAATATAAACT
1 ATAAT-ATATAAATATAAAAT
17837839 ATA
1 ATA
17837842 TAGTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAATATATAAATATAAAAT
Found at i:17837848 original size:54 final size:54
Alignment explanation
Indices: 17837783--17838024 Score: 165
Period size: 54 Copynumber: 4.5 Consensus size: 54
17837773 TATACATGGT
*
17837783 ATATATAGTTTATACATAATATATATAT-ATAAAATATAATAATATAAATATAA
1 ATATATAGTTTATATATAATATATATATAATAAAATATAATAATATAAATATAA
* * * * * * *
17837836 ACTATATAGTTTATATATAGTTTATAT-TAATAAACTAT-ATAGTTTATACATAA
1 A-TATATAGTTTATATATAATATATATATAATAAAATATAATAATATAAATATAA
* * * * * *
17837889 TATATATAGTTTATATATATTATACA-ATAATATAAATATAA-ACTATATAGTTTAT
1 -ATATATAGTTTATATATAATATATATATAATA-AAATATAATAATATA-AATATAA
* * ** * * *
17837944 ATACATAGTTTATATATATAATATATATATAGT-TTATATTATTATATTAATA-AA
1 ATATATAG-TT-TATATATAATATATATATAATAAAATATAATAATATAAATATAA
* * *
17837998 CTATGTAGTTTATACATAATATATATA
1 ATATATAGTTTATATATAATATATATA
17838025 GTACATATAA
Statistics
Matches: 142, Mismatches: 36, Indels: 23
0.71 0.18 0.11
Matches are distributed among these distances:
52 16 0.11
53 41 0.29
54 53 0.37
55 12 0.08
56 16 0.11
57 4 0.03
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (54 bp):
ATATATAGTTTATATATAATATATATATAATAAAATATAATAATATAAATATAA
Found at i:17837850 original size:9 final size:11
Alignment explanation
Indices: 17837838--17837907 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
17837828 AAATATAAAC
17837838 TATATAGTTTA
1 TATATAGTTTA
17837849 TATATAGTTTA
1 TATATAGTTTA
* **
17837860 TAT-TAATAAA
1 TATATAGTTTA
17837870 CTATATAGTTTA
1 -TATATAGTTTA
* *
17837882 TACATA--ATA
1 TATATAGTTTA
17837891 TATATAGTTTA
1 TATATAGTTTA
17837902 TATATA
1 TATATA
17837908 TTATACAATA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
9 7 0.16
10 4 0.09
11 30 0.67
12 4 0.09
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:17837894 original size:74 final size:73
Alignment explanation
Indices: 17837703--17837894 Score: 187
Period size: 74 Copynumber: 2.6 Consensus size: 73
17837693 ATATATAAAC
* * * *
17837703 TATATAATTTATATTAATAAACTATATATTT-TATAT-ATAGT-TCAATAGTTTATATATAAACT
1 TATATAGTTTATATTAATAAACTATATATTTATATATAATA-TAT-AATAATATAAATATAAACT
*
17837765 CTATAGTTTA
64 ATATAGTTTA
* * * * * *
17837775 TACATGGTATATATAGTTTATACA-TA-ATATATATATATAAAATATAATAATATAAATATAAAC
1 TATATAGT-T-TATA-TTAATAAACTATATATTTATATATAATATATAATAATATAAATATAAAC
17837838 TATATAGTTTA
63 TATATAGTTTA
*
17837849 TATATAGTTTATATTAATAAACTATATAGTTTATACATAATATATA
1 TATATAGTTTATATTAATAAACTATATA-TTTATATATAATATATA
17837895 TAGTTTATAT
Statistics
Matches: 93, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
71 6 0.06
72 11 0.12
73 10 0.11
74 57 0.61
75 9 0.10
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (73 bp):
TATATAGTTTATATTAATAAACTATATATTTATATATAATATATAATAATATAAATATAAACTAT
ATAGTTTA
Found at i:17837922 original size:94 final size:90
Alignment explanation
Indices: 17837782--17837981 Score: 273
Period size: 94 Copynumber: 2.2 Consensus size: 90
17837772 TTATACATGG
*
17837782 TATATATAGTTTATACATAATATATATATATAAAATATAATAATATAAATATAAACTATATAGTT
1 TATATATAGTTTATACATAATATATATATATAAAATACAATAATATAAATATAAACTATATAGTT
17837847 TATAT-ATAGTTTATAT-TAATAA-A
66 TATATAATAGTTTATATAT-ATAATA
*
17837870 -CTATATAGTTTATACATAATATATATAGTTTATATATATTATACAATAATATAAATATAAACTA
1 TATATATAGTTTATACATAATATATATA---TATA-A-A--ATACAATAATATAAATATAAACTA
17837934 TATAGTTTATATACATAGTTTATATATATAATA
59 TATAGTTTATATA-ATAGTTTATATATATAATA
17837967 TATATATAGTTTATA
1 TATATATAGTTTATA
17837982 TTATTATATT
Statistics
Matches: 97, Mismatches: 3, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
87 26 0.27
90 4 0.04
91 1 0.01
92 1 0.01
94 35 0.36
96 15 0.15
97 2 0.02
98 13 0.13
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (90 bp):
TATATATAGTTTATACATAATATATATATATAAAATACAATAATATAAATATAAACTATATAGTT
TATATAATAGTTTATATATATAATA
Found at i:17837952 original size:107 final size:103
Alignment explanation
Indices: 17837719--17837961 Score: 280
Period size: 107 Copynumber: 2.3 Consensus size: 103
17837709 ATTTATATTA
* *
17837719 ATAAACTATATATTT-TATATATAG-TT-CA-ATAGTTTATATATAAACTCTATAGTTTATACAT
1 ATAAACTATATATTTATATATATAGTTTATATATAGTTTATATATAAACTATATAGTTTATACAT
** *
17837780 GGTATATATAGTTTATACATAATATATATATATAAAAT
66 AATATATATAGTTTATACATAATATAAATATATAAAAT
* * * *
17837818 ATAATAATATAAATATAAACTATATAGTTTATATATAGTTTATATTAATAAACTATATAGTTTAT
1 ATAA-ACTATATATTTATA-TATATAGTTTATATATAGTTTATA-T-ATAAACTATATAGTTTAT
* *
17837883 ACATAATATATATAGTTTATATATATTATACAATA-ATATAAAT
62 ACATAATATATATAGTTTATACATAATATA-AATATATA-AAAT
*
17837926 ATAAACTATATAGTTTATATACATAGTTTATATATA
1 ATAAACTATATA-TTTATATATATAGTTTATATATA
17837962 TAATATATAT
Statistics
Matches: 117, Mismatches: 16, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
99 4 0.03
100 8 0.07
101 1 0.01
102 7 0.06
103 2 0.02
104 1 0.01
105 10 0.09
106 1 0.01
107 68 0.58
108 15 0.13
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (103 bp):
ATAAACTATATATTTATATATATAGTTTATATATAGTTTATATATAAACTATATAGTTTATACAT
AATATATATAGTTTATACATAATATAAATATATAAAAT
Found at i:17837959 original size:24 final size:24
Alignment explanation
Indices: 17837941--17837990 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
17837931 CTATATAGTT
17837941 TATATACATAGTTTATATATATAA
1 TATATACATAGTTTATATATATAA
* *
17837965 TATATATATAGTTTATAT-TATTA
1 TATATACATAGTTTATATATATAA
17837988 TAT
1 TAT
17837991 TAATAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TATATACATAGTTTATATATATAA
Found at i:17837981 original size:13 final size:13
Alignment explanation
Indices: 17837932--17837982 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
17837922 AAATATAAAC
17837932 TATATAGTTTATA
1 TATATAGTTTATA
*
17837945 TACATAGTTTATA
1 TATATAGTTTATA
*
17837958 TATATA--ATATA
1 TATATAGTTTATA
17837969 TATATAGTTTATA
1 TATATAGTTTATA
17837982 T
1 T
17837983 TATTATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 10 0.31
13 22 0.69
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:17839939 original size:2 final size:2
Alignment explanation
Indices: 17839932--17839964 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17839922 TAAAATTTCA
17839932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17839965 AACATGACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17842747 original size:15 final size:17
Alignment explanation
Indices: 17842727--17842758 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17842717 CAATTTTGAA
17842727 AATTAC-CC-CCTTACT
1 AATTACTCCTCCTTACT
17842742 AATTACTCCTCCTTACT
1 AATTACTCCTCCTTACT
17842759 TTATTCTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTACTCCTCCTTACT
Found at i:17844539 original size:14 final size:13
Alignment explanation
Indices: 17844499--17844539 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
17844489 AATGGGCAAA
* *
17844499 TTTGAAAACTATT
1 TTTGAAAACAATG
17844512 TTTGAAAACAATG
1 TTTGAAAACAATG
17844525 TTTGAAAATCAATG
1 TTTGAAAA-CAATG
17844539 T
1 T
17844540 GTAGTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:17848395 original size:90 final size:89
Alignment explanation
Indices: 17848243--17848415 Score: 310
Period size: 90 Copynumber: 1.9 Consensus size: 89
17848233 ACACACCCTT
17848243 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
17848308 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
*
17848332 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
17848397 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
17848416 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 30 0.38
90 50 0.62
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:17855126 original size:26 final size:26
Alignment explanation
Indices: 17855097--17855153 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
17855087 AGAACCATTG
* *
17855097 GTGCAACTGATATGATTTCACTTTGA
1 GTGCAACTGATATGATTGCACTTGGA
*
17855123 GTGCAAGTGATATGATTGCACTTGGA
1 GTGCAACTGATATGATTGCACTTGGA
17855149 GTGCA
1 GTGCA
17855154 TAGTATGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (26 bp):
GTGCAACTGATATGATTGCACTTGGA
Found at i:17855297 original size:18 final size:17
Alignment explanation
Indices: 17855254--17855300 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 17
17855244 ATGAACTTGA
*
17855254 AAATAAGCTATGATATG
1 AAATAAGTTATGATATG
17855271 AAACTAAGTTATGAATATG
1 AAA-TAAGTTATG-ATATG
17855290 AAATAAGTTAT
1 AAATAAGTTAT
17855301 AAGTTTGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 3 0.11
18 16 0.59
19 8 0.30
ACGTcount: A:0.49, C:0.04, G:0.15, T:0.32
Consensus pattern (17 bp):
AAATAAGTTATGATATG
Found at i:17855394 original size:25 final size:25
Alignment explanation
Indices: 17855338--17855416 Score: 79
Period size: 25 Copynumber: 3.0 Consensus size: 25
17855328 GAATGAGTTC
* *
17855338 TGAAATGTGAAAGTACGGATTATGAAAA
1 TGAAATGTGAAAGT---GAATATGAAAG
17855366 TGAAATGTGAAAGTGAATATGAAAG
1 TGAAATGTGAAAGTGAATATGAAAG
*
17855391 TGAAA-GATGAAAATGAGATATGAAAG
1 TGAAATG-TGAAAGTGA-ATATGAAAG
17855417 CTTTGCATTG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.02
25 22 0.48
26 9 0.20
28 14 0.30
ACGTcount: A:0.49, C:0.01, G:0.27, T:0.23
Consensus pattern (25 bp):
TGAAATGTGAAAGTGAATATGAAAG
Found at i:17855468 original size:18 final size:18
Alignment explanation
Indices: 17855445--17855509 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
17855435 TGAAAAATAA
17855445 TATGATATGACTATTATG
1 TATGATATGACTATTATG
** *
17855463 TATGATATTGTTTATCATGG
1 TATGATA-TGACTATTAT-G
*
17855483 CTTTGATATGACTATTATG
1 -TATGATATGACTATTATG
17855502 TATGATAT
1 TATGATAT
17855510 TGTTTATCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 14 0.39
19 8 0.22
20 8 0.22
21 6 0.17
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (18 bp):
TATGATATGACTATTATG
Found at i:17855492 original size:39 final size:39
Alignment explanation
Indices: 17855447--17855521 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
17855437 AAAAATAATA
17855447 TGATATGACTATTATGTATGATATTGTTTATCATGGCTT
1 TGATATGACTATTATGTATGATATTGTTTATCATGGCTT
17855486 TGATATGACTATTATGTATGATATTGTTTATCATGG
1 TGATATGACTATTATGTATGATATTGTTTATCATGG
17855522 TGTATAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.48
Consensus pattern (39 bp):
TGATATGACTATTATGTATGATATTGTTTATCATGGCTT
Found at i:17859116 original size:31 final size:30
Alignment explanation
Indices: 17859079--17859136 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
17859069 AAACATTCAG
*
17859079 GGGCCAAAAGTGTATTTTTCTAAAAGTTTAA
1 GGGCCAAAAGTGTAATTTTC-AAAAGTTTAA
17859110 GGGCCAAAAGTGTAATTTTCAAAAGTT
1 GGGCCAAAAGTGTAATTTTCAAAAGTT
17859137 AGGTGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (30 bp):
GGGCCAAAAGTGTAATTTTCAAAAGTTTAA
Found at i:17859804 original size:29 final size:25
Alignment explanation
Indices: 17859743--17859802 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
17859733 ACAAGATTCC
*
17859743 ACCCTACCCGATATATAACTTAAAA
1 ACCCGACCCGATATATAACTTAAAA
*
17859768 ACCCGACCTGATATATAACTT-AAA
1 ACCCGACCCGATATATAACTTAAAA
*
17859792 ACCTGACCCGA
1 ACCCGACCCGA
17859803 CCCGAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.40, C:0.30, G:0.08, T:0.22
Consensus pattern (25 bp):
ACCCGACCCGATATATAACTTAAAA
Done.