Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold198
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1589021
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.28
Warning! 220217 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:422998 original size:22 final size:22
Alignment explanation
Indices: 422968--423033 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
422958 AAGAGTGCAA
* *
422968 GTGAACGCACTGTGAGTGCACG
1 GTGAGCGCACTGTGAATGCACG
*
422990 GTGAGCGCACGGTGAATGCACG
1 GTGAGCGCACTGTGAATGCACG
423012 GTGAGCGCA-TGGTGAATGCACG
1 GTGAGCGCACT-GTGAATGCACG
423034 AAAAAATGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.39, T:0.17
Consensus pattern (22 bp):
GTGAGCGCACTGTGAATGCACG
Found at i:423033 original size:33 final size:33
Alignment explanation
Indices: 422968--423033 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
422958 AAGAGTGCAA
* * *
422968 GTGAACGCACTGTGAGTGCACGGTGAGCGCACG
1 GTGAACGCACGGTGAGCGCACGGTGAACGCACG
* * *
423001 GTGAATGCACGGTGAGCGCATGGTGAATGCACG
1 GTGAACGCACGGTGAGCGCACGGTGAACGCACG
423034 AAAAAATGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.39, T:0.17
Consensus pattern (33 bp):
GTGAACGCACGGTGAGCGCACGGTGAACGCACG
Found at i:423274 original size:20 final size:20
Alignment explanation
Indices: 423249--423334 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
423239 TTAACATATA
*
423249 TTCAAATATTTGTACCTATC
1 TTCAAATAATTGTACCTATC
423269 TTCAAATAATTGTACCTATC
1 TTCAAATAATTGTACCTATC
*
423289 TTCAATTAATTGTACCTATC
1 TTCAAATAATTGTACCTATC
423309 TTCAAATAATT-TACCTATC
1 TTCAAATAATTGTACCTATC
423328 TTCAAAT
1 TTCAAAT
423335 CATTTGAAGA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
19 15 0.24
20 48 0.76
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (20 bp):
TTCAAATAATTGTACCTATC
Found at i:423367 original size:21 final size:21
Alignment explanation
Indices: 423341--423391 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
423331 AAATCATTTG
423341 AAGATAGGTACAATTGAATTA
1 AAGATAGGTACAATTGAATTA
*
423362 AAGATAGGTACAATTGAATTG
1 AAGATAGGTACAATTGAATTA
423383 AAGATAGGT
1 AAGATAGGT
423392 GTAAATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.27
Consensus pattern (21 bp):
AAGATAGGTACAATTGAATTA
Found at i:423398 original size:82 final size:82
Alignment explanation
Indices: 423311--423527 Score: 226
Period size: 82 Copynumber: 2.6 Consensus size: 82
423301 TACCTATCTT
* *
423311 CAAATAATT-TACCTATCTTCAAATCATTTGAAGATAGGTACAATTGAATTAAAGATAGGTACAA
1 CAAATAATTATACCTATCTTCAAATCAATT-AAGATAGGTACAATTGAATTAAACATAGGTACAA
* * *
423375 TTGAATTGA-AGATAGGTG
65 ATGAATT-ATACATAGGTA
* ** * * *
423393 TAAATAATTATACCTATC-TCTAAAT-AATTATACCTAGGTACAAATGAATTATACCTAGGTACA
1 CAAATAATTATACCTATCTTC-AAATCAATTA-AGATAGGTACAATTGAATTAAACATAGGTACA
*
423456 AATGAATTATACCTAGGTA
64 AATGAATTATACATAGGTA
* *
423475 CAAATAAATTATACCTATCTTCAATTCAATTAAAGATAGGTTCAATTGAATTA
1 CAAAT-AATTATACCTATCTTCAAATCAATT-AAGATAGGTACAATTGAATTA
423528 TACCTATCTC
Statistics
Matches: 109, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
81 2 0.02
82 56 0.51
83 28 0.26
84 22 0.20
85 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (82 bp):
CAAATAATTATACCTATCTTCAAATCAATTAAGATAGGTACAATTGAATTAAACATAGGTACAAA
TGAATTATACATAGGTA
Found at i:423444 original size:21 final size:21
Alignment explanation
Indices: 423414--423491 Score: 140
Period size: 21 Copynumber: 3.8 Consensus size: 21
423404 ACCTATCTCT
423414 AAAT-AATTATACCTAGGTAC
1 AAATGAATTATACCTAGGTAC
423434 AAATGAATTATACCTAGGTAC
1 AAATGAATTATACCTAGGTAC
423455 AAATGAATTATACCTAGGTAC
1 AAATGAATTATACCTAGGTAC
*
423476 AAATAAATTATACCTA
1 AAATGAATTATACCTA
423492 TCTTCAATTC
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
20 4 0.07
21 52 0.93
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATGAATTATACCTAGGTAC
Found at i:423505 original size:21 final size:21
Alignment explanation
Indices: 423481--423536 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
423471 GGTACAAATA
423481 AATTATACCTATCTTCAATTC
1 AATTATACCTATCTTCAATTC
* ** ** *
423502 AATTAAAGATAGGTTCAATTG
1 AATTATACCTATCTTCAATTC
423523 AATTATACCTATCT
1 AATTATACCTATCT
423537 CTATTTCATT
Statistics
Matches: 24, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (21 bp):
AATTATACCTATCTTCAATTC
Found at i:423506 original size:42 final size:41
Alignment explanation
Indices: 423394--423536 Score: 155
Period size: 42 Copynumber: 3.5 Consensus size: 41
423384 AGATAGGTGT
423394 AAAT-AATTATACCTATC-TCTAAATAATTATACCTAGGTAC
1 AAATGAATTATACCTATCTTC-AAATAATTATACCTAGGTAC
** *
423434 AAATGAATTATACCTAGGTACAAATGAATTATACCTAGGTAC
1 AAATGAATTATACCTATCTTCAAAT-AATTATACCTAGGTAC
* * * ** *
423476 AAATAAATTATACCTATCTTCAATTCAATTAAAGATAGGTTC
1 AAATGAATTATACCTATCTTCAAAT-AATTATACCTAGGTAC
*
423518 AATTGAATTATACCTATCT
1 AAATGAATTATACCTATCT
423537 CTATTTCATT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 4 0.05
41 15 0.18
42 66 0.78
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (41 bp):
AAATGAATTATACCTATCTTCAAATAATTATACCTAGGTAC
Found at i:423604 original size:21 final size:21
Alignment explanation
Indices: 423541--423607 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
423531 CTATCTCTAT
*
423541 TTCATTTGAAGATAGGTAAAA
1 TTCATTTGAAGATAGGTACAA
*
423562 TTCATTTAAAGATAGGTACAA
1 TTCATTTGAAGATAGGTACAA
* *
423583 TTGATTTGAAGATAGGTTCAA
1 TTCATTTGAAGATAGGTACAA
423604 TTCA
1 TTCA
423608 GACATATCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (21 bp):
TTCATTTGAAGATAGGTACAA
Found at i:423867 original size:17 final size:17
Alignment explanation
Indices: 423845--423878 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
423835 ATACCCCAAA
423845 AGTGACGGAGTTAGGGT
1 AGTGACGGAGTTAGGGT
*
423862 AGTGACGTAGTTAGGGT
1 AGTGACGGAGTTAGGGT
423879 CACTAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.44, T:0.26
Consensus pattern (17 bp):
AGTGACGGAGTTAGGGT
Found at i:424248 original size:21 final size:21
Alignment explanation
Indices: 424154--424254 Score: 94
Period size: 21 Copynumber: 4.6 Consensus size: 21
424144 TTAAAATAGG
* *
424154 TTCAATTCAATTGTACCGATC
1 TTCAAATCAATTGTACCTATC
* *
424175 TTTAATTCAATTGTACCTATC
1 TTCAAATCAATTGTACCTATC
* *
424196 TTCAATTCATTGCATTTGTATCTATC
1 TTCAA---A-T-CAATTGTACCTATC
424222 TTCAAATCAATTGTACCTATC
1 TTCAAATCAATTGTACCTATC
*
424243 TTCAAATGAATT
1 TTCAAATCAATT
424255 AAAGATAGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
21 46 0.70
22 1 0.02
23 1 0.02
25 1 0.02
26 17 0.26
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.44
Consensus pattern (21 bp):
TTCAAATCAATTGTACCTATC
Found at i:424314 original size:43 final size:42
Alignment explanation
Indices: 424230--424319 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
424220 TCTTCAAATC
* *
424230 AATTGTACCTATCTTCAAATGAATTAAAGATAGGTATAATTG
1 AATTGTACCTATCTTCAAATCAATTAAAGATAGGTACAATTG
* *
424272 AATTGTACCTATC-TCTAATTCAATTTGAAGATAGGTACAATTG
1 AATTGTACCTATCTTC-AAATCAA-TTAAAGATAGGTACAATTG
424315 AATTG
1 AATTG
424320 AAGATAGGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.05
42 18 0.43
43 22 0.52
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (42 bp):
AATTGTACCTATCTTCAAATCAATTAAAGATAGGTACAATTG
Found at i:424335 original size:64 final size:63
Alignment explanation
Indices: 424249--424394 Score: 170
Period size: 64 Copynumber: 2.3 Consensus size: 63
424239 TATCTTCAAA
* * * * *
424249 TGAATTAAAGATAGGTATAATTGAATTGTACCTATCT-CTAATTCAATTTGAAGATAGGTACAAT
1 TGAATTGAAGATAGGTACAATTGAATTGAACATAGCTAC-AATT-AATTTGAAGATAGGTACAAT
* * * *
424313 TGAATTGAAGATAGGTACAATTGAATTGAAGATAGGTACAATTGATTTGAAGATAGGTTCAAT
1 TGAATTGAAGATAGGTACAATTGAATTGAACATAGCTACAATTAATTTGAAGATAGGTACAAT
*
424376 T-ATTTGAAGATAGGTACAA
1 TGAATTGAAGATAGGTACAA
424395 ATATTTGAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
62 17 0.24
63 19 0.27
64 34 0.48
65 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.34
Consensus pattern (63 bp):
TGAATTGAAGATAGGTACAATTGAATTGAACATAGCTACAATTAATTTGAAGATAGGTACAAT
Found at i:424382 original size:20 final size:21
Alignment explanation
Indices: 424294--424403 Score: 170
Period size: 21 Copynumber: 5.3 Consensus size: 21
424284 CTCTAATTCA
424294 ATTTGAAGATAGGTACAATTG
1 ATTTGAAGATAGGTACAATTG
*
424315 AATTGAAGATAGGTACAATTG
1 ATTTGAAGATAGGTACAATTG
*
424336 AATTGAAGATAGGTACAATTG
1 ATTTGAAGATAGGTACAATTG
*
424357 ATTTGAAGATAGGTTCAATT-
1 ATTTGAAGATAGGTACAATTG
*
424377 ATTTGAAGATAGGTACAAAT-
1 ATTTGAAGATAGGTACAATTG
424397 ATTTGAA
1 ATTTGAA
424404 TATATGTTAA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
20 25 0.30
21 59 0.70
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.33
Consensus pattern (21 bp):
ATTTGAAGATAGGTACAATTG
Found at i:425020 original size:45 final size:45
Alignment explanation
Indices: 424965--425130 Score: 218
Period size: 45 Copynumber: 3.8 Consensus size: 45
424955 ATGTGTGTGG
*
424965 AAATGTATATGGACAAGGAAACTCACTACATGTGTGTGGTAATTT
1 AAATGAATATGGACAAGGAAACTCACTACATGTGTGTGGTAATTT
* * **
425010 AAATGAATATGGACAAGGAGACTCACTACATGTGTGTGGAAAGGT
1 AAATGAATATGGACAAGGAAACTCACTACATGTGTGTGGTAATTT
* *
425055 --AT--AT-TTG-CAATGAAACTCACTACATGTGTGTGGTAATTT
1 AAATGAATATGGACAAGGAAACTCACTACATGTGTGTGGTAATTT
*
425094 AAATGAATATGGACAAGGAGACTCACTACATGTGTGT
1 AAATGAATATGGACAAGGAAACTCACTACATGTGTGT
425131 AGGATTGTAC
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
39 27 0.27
40 2 0.02
41 4 0.04
43 4 0.04
44 2 0.02
45 62 0.61
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (45 bp):
AAATGAATATGGACAAGGAAACTCACTACATGTGTGTGGTAATTT
Found at i:425096 original size:84 final size:84
Alignment explanation
Indices: 424955--425130 Score: 309
Period size: 84 Copynumber: 2.1 Consensus size: 84
424945 CATGTACATG
*
424955 ATGTGTGTGGAAATGTATATGGACAAGGAAACTCACTACATGTGTGTGGTAATTTAAATGAATAT
1 ATGTGTGTGGAAAGGTATATGGACAAGGAAACTCACTACATGTGTGTGGTAATTTAAATGAATAT
425020 GGACAAGGAGACTCACTAC
66 GGACAAGGAGACTCACTAC
* *
425039 ATGTGTGTGGAAAGGTATATTTG-CAATGAAACTCACTACATGTGTGTGGTAATTTAAATGAATA
1 ATGTGTGTGGAAAGGTATA-TGGACAAGGAAACTCACTACATGTGTGTGGTAATTTAAATGAATA
425103 TGGACAAGGAGACTCACTAC
65 TGGACAAGGAGACTCACTAC
425123 ATGTGTGT
1 ATGTGTGT
425131 AGGATTGTAC
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
84 86 0.98
85 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (84 bp):
ATGTGTGTGGAAAGGTATATGGACAAGGAAACTCACTACATGTGTGTGGTAATTTAAATGAATAT
GGACAAGGAGACTCACTAC
Found at i:426125 original size:45 final size:45
Alignment explanation
Indices: 426061--426312 Score: 377
Period size: 45 Copynumber: 5.6 Consensus size: 45
426051 TATTGGCAAT
426061 GAAACTCACTACATGTGTGTGGTAATTTAAATGAATATGGACAAG
1 GAAACTCACTACATGTGTGTGGTAATTTAAATGAATATGGACAAG
*
426106 GAAACTCACTACATGTGTGTGGTAATTTAAATGAATATAGACAAG
1 GAAACTCACTACATGTGTGTGGTAATTTAAATGAATATGGACAAG
426151 GAAACTCACTACATGTGTGTGGTAATTTAAATGAATATGGACAAG
1 GAAACTCACTACATGTGTGTGGTAATTTAAATGAATATGGACAAG
* *
426196 AAAACTCACTACATGTGTGTGGTAATTTAAATGAATATGGATAA-
1 GAAACTCACTACATGTGTGTGGTAATTTAAATGAATATGGACAAG
* * * *
426240 GAAACTCACTACATGTGTGTAGG-AATGTACATTAAT-TGG-CAAT
1 GAAACTCACTACATGTGTGT-GGTAATTTAAATGAATATGGACAAG
* *
426283 GAAACTCACTACATCTGTGAGGTGAATTTA
1 GAAACTCACTACATGTGTGTGGT-AATTTA
426313 TACTGGTGTA
Statistics
Matches: 191, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
42 4 0.02
43 21 0.11
44 34 0.18
45 132 0.69
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (45 bp):
GAAACTCACTACATGTGTGTGGTAATTTAAATGAATATGGACAAG
Found at i:439453 original size:2 final size:2
Alignment explanation
Indices: 439448--439481 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
439438 ATGTGGTAGN
439448 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
439482 AATATAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:440268 original size:17 final size:17
Alignment explanation
Indices: 440246--440280 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
440236 ATTGAAATAA
*
440246 TTTATTTCAGTAGTGGT
1 TTTATTTCAATAGTGGT
*
440263 TTTATTTTAATAGTGGT
1 TTTATTTCAATAGTGGT
440280 T
1 T
440281 GCAAAGTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (17 bp):
TTTATTTCAATAGTGGT
Found at i:440289 original size:84 final size:85
Alignment explanation
Indices: 440196--440369 Score: 244
Period size: 84 Copynumber: 2.1 Consensus size: 85
440186 TTCTAATAAG
*
440196 TGCAAAGTGATTCTTCAAATGAAATACA-TCCTCAACCACTATTGAAATA-ATTTATTTCAGTAG
1 TGCAAAGTGATTCTTCAAATGAAATACATTCC-CAACCACTATTGAAATAGATTTATTTAAGTAG
*
440259 TGGTTTTATTTTAATAGTGGT
65 TGGTTTTATTTCAATAGTGGT
* ** * * * *
440280 TGCAAAGTGATTTTTCTTATGAAATGCATTCCCAACCACTATTGAAATAGTTTTTTTTAATTAGT
1 TGCAAAGTGATTCTTCAAATGAAATACATTCCCAACCACTATTGAAATAGATTTATTTAAGTAGT
440345 GGTTTTATTTCAATAGTGGT
66 GGTTTTATTTCAATAGTGGT
440365 TGCAA
1 TGCAA
440370 CATGCGTCTA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
84 41 0.52
85 38 0.48
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (85 bp):
TGCAAAGTGATTCTTCAAATGAAATACATTCCCAACCACTATTGAAATAGATTTATTTAAGTAGT
GGTTTTATTTCAATAGTGGT
Found at i:444380 original size:23 final size:23
Alignment explanation
Indices: 444339--444383 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
444329 TGCCGGAAAA
*
444339 AAAATAATAAAAGGGGAAAAGGC
1 AAAATAATAAAAGGAGAAAAGGC
444362 AAAATAAT-AAAGAGAGAAAAGG
1 AAAATAATAAAAG-GAGAAAAGG
444384 TCTTTAGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.64, C:0.02, G:0.24, T:0.09
Consensus pattern (23 bp):
AAAATAATAAAAGGAGAAAAGGC
Found at i:455134 original size:2 final size:2
Alignment explanation
Indices: 455129--455177 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
455119 TTTTAAATAT
455129 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
455171 TC TC TC T
1 TC TC TC T
455178 ATATATATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:457666 original size:2 final size:2
Alignment explanation
Indices: 457659--457702 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
457649 TATATGATAT
*
457659 TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
457701 TC
1 TC
457703 AGTTTATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:458700 original size:20 final size:21
Alignment explanation
Indices: 458654--458707 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
458644 ATATATAATT
458654 ATCTCGTTATTACGAGAAAAG
1 ATCTCGTTATTACGAGAAAAG
* *
458675 ATCTCGTAATTACGATAAAA-
1 ATCTCGTTATTACGAGAAAAG
458695 ATCTCGTTATTAC
1 ATCTCGTTATTAC
458708 CAGTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (21 bp):
ATCTCGTTATTACGAGAAAAG
Found at i:458793 original size:22 final size:22
Alignment explanation
Indices: 458739--458793 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
458729 CGAGTTAACA
* *
458739 ATCTCATTATT-TGAGTTAATT
1 ATCTCGTTATTATGAGTGAATT
* *
458760 TTCTCGTCATTATGAGTGAATT
1 ATCTCGTTATTATGAGTGAATT
*
458782 ATCTTGTTATTA
1 ATCTCGTTATTA
458794 CGAGATAAGA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (22 bp):
ATCTCGTTATTATGAGTGAATT
Found at i:469689 original size:166 final size:166
Alignment explanation
Indices: 469267--470723 Score: 2066
Period size: 166 Copynumber: 8.8 Consensus size: 166
469257 GTGAATATGC
* * * * * *
469267 AAAATAAGCAAAGTC-TACATTTAACAGAAAGCTGGCATCCGATTGATACAGAAAT-TCATCCCA
1 AAAATAAACAAAGTCAT-CATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATAT-ATCCCA
* *
469330 CGATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATATATAGTTGCTGA
64 CAATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGA
469395 GAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-
129 GAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
*
469432 AAAATAAACAAAGT-ACTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
1 AAAATAAACAAAGTCA-TCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCAC
* * * * *
469496 TATATGGCATGCCAAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAG
65 AATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
*
469561 AAATCTTTGATGAAAATTTGTTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* *
469598 AAAATAAACAAAGTCATTATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCTCACA
1 AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
* * * * * *
469663 ATATGACATGCCAAAACAAATAGTGTGTTAAAATTTCAAGCATATGCGATAAATAGCTGCT-AGG
66 ATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGA-G
469727 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* *
469764 AAAATAAACAAAGTCATTATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCATA
1 AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
* * * *
469829 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATATGCGATAAACATTTGCTGAGA
66 ATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
* * * *
469894 ATTCTTTGACAAAAATTTGTTTAAAAATTTTTGCTA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* * * * * * *
469930 TAAATAAACAAAGTCGTCATTAAACAGGAAGTTGACATCTGATTGGTACAGAAAT-TCATCCCAC
1 AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATAT-ATCCCAC
* * *
469994 AATATGGCATGTCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
65 AATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
** * *
470059 ATTTCTTTGAGGAAAATTTGTTTGAAAATTTTTGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* * * * *
470096 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGATGTCAGATTGGTACAAAAATACATCCCACA
1 AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
* * * *
470161 ATATGACATGCCAAAACAAATAGTGTGTAAAAAATTCAAGCATCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
470226 AATCTTTGACGAAAATTTGTTTGAAAATTTTTGCTA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* *
470262 AAAATAAACAAAGTCATTATTTAACAGGAAGTTGACATCCGATTGATACAAAAATATATCCCACA
1 AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
* * * * *
470327 ATATGACATGCCAAAACAAATAGTGTGTTAAAATTTCAAGCATCTACGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
470392 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* * *
470428 AAAATAAACAAAGT-ACTCATTAAACAGGAAGTTGACGTCCGATTGGTACAAAAATACATCCCAC
1 AAAATAAACAAAGTCA-TCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCAC
* * * * *
470492 CATATAGCATGCCTATACAAATACTGTGTAAAAAATTCAAGCATCTGCGATAAACAGTTGCTGAG
65 AATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
* * *
470557 AATTCTTTGACAAAAATTTGTTTGAAAATTTTTGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* *
470594 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGCCCGATTTG-TACAAAAATATATCCCAC
1 AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGA-TTGATACAAAAATATATCCCAC
* * *
470658 GATATGGCATGCCTATACAAATATTGTGTAAAAATTTCAAGCATATGCGATAAATAGTTGCTGAG
65 AATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
470723 A
130 A
470724 TAAATGCGAC
Statistics
Matches: 1171, Mismatches: 109, Indels: 23
0.90 0.08 0.02
Matches are distributed among these distances:
165 149 0.13
166 1017 0.87
167 5 0.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (166 bp):
AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
ATATGGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
Found at i:470768 original size:16 final size:16
Alignment explanation
Indices: 470747--470784 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
470737 AATTTTTGTT
470747 ACGGACCGACAGACAG
1 ACGGACCGACAGACAG
* *
470763 ACGGACGGACGGACAG
1 ACGGACCGACAGACAG
470779 ACGGAC
1 ACGGAC
470785 ACAAGGGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.29, G:0.37, T:0.00
Consensus pattern (16 bp):
ACGGACCGACAGACAG
Found at i:470775 original size:8 final size:8
Alignment explanation
Indices: 470747--470785 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
470737 AATTTTTGTT
*
470747 ACGGACCG
1 ACGGACAG
*
470755 ACAGACAG
1 ACGGACAG
*
470763 ACGGACGG
1 ACGGACAG
470771 ACGGACAG
1 ACGGACAG
470779 ACGGACA
1 ACGGACA
470786 CAAGGGTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.36, C:0.28, G:0.36, T:0.00
Consensus pattern (8 bp):
ACGGACAG
Found at i:478389 original size:2 final size:2
Alignment explanation
Indices: 478382--478432 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
478372 TATTTAAAAC
478382 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
478424 GA GA GA GA G
1 GA GA GA GA G
478433 NNNNNNNNNN
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:479022 original size:10 final size:10
Alignment explanation
Indices: 479007--479040 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
478997 NNNGAGAGAA
479007 AGAGGGGAGG
1 AGAGGGGAGG
479017 AGAGGGGAGG
1 AGAGGGGAGG
* *
479027 GGAGGGGAAG
1 AGAGGGGAGG
479037 AGAG
1 AGAG
479041 AGAGAGAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (10 bp):
AGAGGGGAGG
Found at i:479042 original size:2 final size:2
Alignment explanation
Indices: 479035--479060 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
479025 GGGGAGGGGA
479035 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
479061 GCAGAGGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:483599 original size:2 final size:2
Alignment explanation
Indices: 483594--483634 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
483584 AAAAAAGGTA
483594 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
483635 TGCACCTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:492845 original size:2 final size:2
Alignment explanation
Indices: 492838--492899 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
492828 TAATAGCTCT
492838 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
492880 GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA
492900 TATTTTGTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:493713 original size:2 final size:2
Alignment explanation
Indices: 493706--493789 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
493696 GGTTTACATA
493706 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
493748 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
493790 GGGTAATCCG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:494941 original size:2 final size:2
Alignment explanation
Indices: 494934--494985 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
494924 TATGTATTAT
494934 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
494976 GA GA GA GA GA
1 GA GA GA GA GA
494986 ATTTGCACGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:508633 original size:2 final size:2
Alignment explanation
Indices: 508628--508702 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
508618 ATATATATAT
*
508628 AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
508670 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
508703 AATACCTAAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.01, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:513041 original size:10 final size:10
Alignment explanation
Indices: 513026--513057 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
513016 TAACTTATAT
513026 ACGACATTAC
1 ACGACATTAC
*
513036 ACGACATTAT
1 ACGACATTAC
513046 ACGACATTAC
1 ACGACATTAC
513056 AC
1 AC
513058 ATTGGGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.41, C:0.28, G:0.09, T:0.22
Consensus pattern (10 bp):
ACGACATTAC
Found at i:514614 original size:17 final size:17
Alignment explanation
Indices: 514592--514625 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
514582 AATATGACCT
*
514592 TTTATCATCCCATAAAA
1 TTTATCATCCAATAAAA
514609 TTTATCATCCAATAAAA
1 TTTATCATCCAATAAAA
514626 CCGCGGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTATCATCCAATAAAA
Found at i:528288 original size:2 final size:2
Alignment explanation
Indices: 528281--528336 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
528271 GATCATTGCG
528281 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
528323 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
528337 AAAATATACT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:535411 original size:2 final size:2
Alignment explanation
Indices: 535404--535429 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
535394 NNNNNNNNNN
535404 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
535430 GGAGAGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:537075 original size:2 final size:2
Alignment explanation
Indices: 537068--537109 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
537058 AGGATGCGTC
* *
537068 AG AG AG AG AG AG AG AG AG AG AA AG AA AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
537110 TTTTCTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:558029 original size:3 final size:3
Alignment explanation
Indices: 558021--558049 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
558011 TCAGTATTCT
558021 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
558050 TACATTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:567468 original size:2 final size:2
Alignment explanation
Indices: 567461--567508 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
567451 GATGAAGATT
* *
567461 CA CA CA CA CA CA CA CA CG CA CA CG CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
567503 CA CA CA
1 CA CA CA
567509 ACTACTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.50, G:0.04, T:0.00
Consensus pattern (2 bp):
CA
Found at i:568390 original size:17 final size:17
Alignment explanation
Indices: 568365--568401 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
568355 TGATACGATA
*
568365 AAATGTCGAAGAAATGT
1 AAATATCGAAGAAATGT
568382 AAATATCGAAGAAATGT
1 AAATATCGAAGAAATGT
568399 AAA
1 AAA
568402 GTTATACCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.19, T:0.22
Consensus pattern (17 bp):
AAATATCGAAGAAATGT
Found at i:576386 original size:2 final size:2
Alignment explanation
Indices: 576379--576440 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
576369 NNNNNNNNNN
*
576379 TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
576421 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
576441 CTTTTTGTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:584511 original size:4 final size:4
Alignment explanation
Indices: 584502--584529 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
584492 TCCAAGGAGG
584502 TGAT TGAT TGAT TGAT TGAT TGAT TGAT
1 TGAT TGAT TGAT TGAT TGAT TGAT TGAT
584530 CTATCGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGAT
Found at i:586722 original size:43 final size:43
Alignment explanation
Indices: 586661--586883 Score: 261
Period size: 43 Copynumber: 5.2 Consensus size: 43
586651 AAAAATAGTT
*
586661 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAA
1 TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGTTAA
*
586704 TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGTTAG
1 TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGTTAA
* *
586747 TTATCTCGTTATTACGAGAAAAGATCTCGTAATTACGAG-AAA
1 TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGTTAA
** * *** *
586789 AGATCTCGTTCTTACGAGATAATTTTCTCGTTATTACGAG-AAA
1 TTATCTCGTTATTACGAGA-AAAGATCTCGTTATTACGAGTTAA
** ***
586832 AGATCTCGTTATTACGAGATAATTTTCTCGTTATTACGAGTTAA
1 TTATCTCGTTATTACGAGA-AAAGATCTCGTTATTACGAGTTAA
*
586876 TTTTCTCG
1 TTATCTCG
586884 AGTTAATTTT
Statistics
Matches: 161, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 17 0.11
43 137 0.85
44 7 0.04
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (43 bp):
TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGTTAA
Found at i:586849 original size:107 final size:107
Alignment explanation
Indices: 586663--586871 Score: 364
Period size: 107 Copynumber: 2.0 Consensus size: 107
586653 AAATAGTTTT
*
586663 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAGAAAAGA
1 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGATAATTATCTCGTTATTACGAGAAAAGA
* *
586728 TCTCGTTATTACGAGTTAGTTATCTCGTTATTACGAGAAAAG
66 TCTCGTTATTACGAGATAATTATCTCGTTATTACGAGAAAAG
* *
586770 ATCTCGTAATTACGAGAAAAGATCTCGTTCTTACGAGATAATTTTCTCGTTATTACGAGAAAAGA
1 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGATAATTATCTCGTTATTACGAGAAAAGA
*
586835 TCTCGTTATTACGAGATAATTTTCTCGTTATTACGAG
66 TCTCGTTATTACGAGATAATTATCTCGTTATTACGAG
586872 TTAATTTTCT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 96 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (107 bp):
ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGATAATTATCTCGTTATTACGAGAAAAGA
TCTCGTTATTACGAGATAATTATCTCGTTATTACGAGAAAAG
Found at i:586887 original size:14 final size:14
Alignment explanation
Indices: 586868--586897 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
586858 CTCGTTATTA
586868 CGAGTTAATTTTCT
1 CGAGTTAATTTTCT
586882 CGAGTTAATTTTCT
1 CGAGTTAATTTTCT
586896 CG
1 CG
586898 TTATTACGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.47
Consensus pattern (14 bp):
CGAGTTAATTTTCT
Found at i:586917 original size:21 final size:21
Alignment explanation
Indices: 586893--586937 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
586883 GAGTTAATTT
586893 TCTCGTTATTACGAGAAAAGA
1 TCTCGTTATTACGAGAAAAGA
586914 TCTCGTTATTACGAGAAAAGA
1 TCTCGTTATTACGAGAAAAGA
586935 TCT
1 TCT
586938 ATATAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (21 bp):
TCTCGTTATTACGAGAAAAGA
Found at i:587661 original size:21 final size:21
Alignment explanation
Indices: 587603--587883 Score: 339
Period size: 21 Copynumber: 13.2 Consensus size: 21
587593 TTTCAAAAAT
*
587603 AGATCTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATAACG
* *
587624 AGATAATTAAT-TCGTAATAACG
1 AGAT-CTT-TTCTCGTAATAACG
587646 AGATCTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACG
*
587667 AGATCTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATAACG
*
587688 AGATCTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATAACG
* ** **
587709 AGATAATTAACTCCAAATAACG
1 AGAT-CTTTTCTCGTAATAACG
*
587731 AGATCTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATAACG
587752 AGATCTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACG
* **
587773 AGATAATTAACTCGTAATAACG
1 AGAT-CTTTTCTCGTAATAACG
*
587795 AGATCTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATAACG
587816 AGATCTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACG
* **
587837 AGATAATTAACTCGTAATAACG
1 AGAT-CTTTTCTCGTAATAACG
*
587859 AGATCTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATAACG
587880 AGAT
1 AGAT
587884 AAAAATATTT
Statistics
Matches: 220, Mismatches: 34, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
20 1 0.00
21 151 0.69
22 67 0.30
23 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (21 bp):
AGATCTTTTCTCGTAATAACG
Found at i:587668 original size:43 final size:43
Alignment explanation
Indices: 587603--587885 Score: 358
Period size: 43 Copynumber: 6.6 Consensus size: 43
587593 TTTCAAAAAT
587603 AGATCTTTTCTCGTAATTACGAGATAATTAAT-TCGTAATAACG
1 AGATCTTTTCTCGTAATTACGAGATAATT-ATCTCGTAATAACG
* * * *
587646 AGATCTTTTCTCGTAATAACGAGAT-CTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATTACGAGATAATTATCTCGTAATAACG
* **
587688 AGATCTTTTCTCGTAATTACGAGATAATTAACTCCAAATAACG
1 AGATCTTTTCTCGTAATTACGAGATAATTATCTCGTAATAACG
* *
587731 AGATCTTTTCTCGTAATTACGAGAT-CTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATTACGAGATAATTATCTCGTAATAACG
* ** * * * *
587773 AGATAATTAACTCGTAATAACGAGAT-CTTTTCTCGTAATTACG
1 AGAT-CTTTTCTCGTAATTACGAGATAATTATCTCGTAATAACG
* *
587816 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
1 AGATCTTTTCTCGTAATTACGAGATAATTATCTCGTAATAACG
587859 AGATCTTTTCTCGTAATTACGAGATAA
1 AGATCTTTTCTCGTAATTACGAGATAA
587886 AAATATTTTT
Statistics
Matches: 207, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.00
42 70 0.34
43 136 0.66
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (43 bp):
AGATCTTTTCTCGTAATTACGAGATAATTATCTCGTAATAACG
Found at i:587682 original size:64 final size:64
Alignment explanation
Indices: 587603--587883 Score: 458
Period size: 64 Copynumber: 4.4 Consensus size: 64
587593 TTTCAAAAAT
* * * **
587603 AGATCTTTTCTCGTAATTACGAGATAATTAAT-TCGTAATAACGAGAT-CTTTTCTCGTAATAAC
1 AGATCTTTTCTCGTAATTACGAGAT-CTT-TTCTCGTAATAACGAGATAATTAACTCGTAATAAC
587666 G
64 G
* **
587667 AGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATTACGAGATAATTAACTCCAAATAACG
1 AGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
587731 AGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
1 AGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
587795 AGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
1 AGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
587859 AGATCTTTTCTCGTAATTACGAGAT
1 AGATCTTTTCTCGTAATTACGAGAT
587884 AAAAATATTT
Statistics
Matches: 204, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
62 1 0.00
63 16 0.08
64 187 0.92
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (64 bp):
AGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
Found at i:591372 original size:21 final size:21
Alignment explanation
Indices: 591330--591373 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
591320 TAATGTCGAA
* *
591330 TTGTCAGATAATTATATCAAC
1 TTGTCAGATAATTAGATAAAC
591351 TTGTCAGATAATTACGA-AAAC
1 TTGTCAGATAATTA-GATAAAC
591372 TT
1 TT
591374 ACTTGAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (21 bp):
TTGTCAGATAATTAGATAAAC
Found at i:594180 original size:61 final size:61
Alignment explanation
Indices: 594108--594231 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
594098 GGATAATTAA
594108 CTTTGAAATTTAGAAAATGTATCTTATATGAAGATATGTATTTTTACTTACTTTTATTTAC
1 CTTTGAAATTTAGAAAATGTATCTTATATGAAGATATGTATTTTTACTTACTTTTATTTAC
594169 CTTTGAAATTTAGAAAATGTATCTTATATGAAGATATGTATTTTTACTTACTTTTATTTAC
1 CTTTGAAATTTAGAAAATGTATCTTATATGAAGATATGTATTTTTACTTACTTTTATTTAC
594230 CT
1 CT
594232 ACAAAGTGTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (61 bp):
CTTTGAAATTTAGAAAATGTATCTTATATGAAGATATGTATTTTTACTTACTTTTATTTAC
Found at i:608650 original size:2 final size:2
Alignment explanation
Indices: 608643--608667 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
608633 NNNNNNNNNN
608643 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 T
608668 TTCACTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:610958 original size:20 final size:20
Alignment explanation
Indices: 610933--610973 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
610923 AATAACGTAG
610933 TGTGATATGATAAAGAATCA
1 TGTGATATGATAAAGAATCA
*
610953 TGTGATATGATAAGGAATCA
1 TGTGATATGATAAAGAATCA
610973 T
1 T
610974 TCTCTGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (20 bp):
TGTGATATGATAAAGAATCA
Found at i:613721 original size:95 final size:95
Alignment explanation
Indices: 613609--613814 Score: 342
Period size: 95 Copynumber: 2.2 Consensus size: 95
613599 AAAACGTTGT
* *
613609 AGAAATG-TTACCAAAACATTTTTAAAAACGTTGTTACAACGTGAATCTGTGTGGTTTTTCTTAC
1 AGAAATGTTTA-CAAAACATTTTTAAAAACGTTATTACAACGTAAATCTGTGTGGTTTTTCTTAC
**
613673 GTTATAATAACATTTTCTGAAAACATTTCTA
65 GTTATAATAACATTTTCCAAAAACATTTCTA
*
613704 AGAAATGTTTACAAAACATTTTTAAAAACGTTATTACAACGTAAATCTGTGTGGTTTTTGTTACG
1 AGAAATGTTTACAAAACATTTTTAAAAACGTTATTACAACGTAAATCTGTGTGGTTTTTCTTACG
613769 TTATAATAACATTTTCCAAAAACATTTCTA
66 TTATAATAACATTTTCCAAAAACATTTCTA
*
613799 AGAAAAGTTTACAAAA
1 AGAAATGTTTACAAAA
613815 TGTTTGAAAG
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 101 0.97
96 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (95 bp):
AGAAATGTTTACAAAACATTTTTAAAAACGTTATTACAACGTAAATCTGTGTGGTTTTTCTTACG
TTATAATAACATTTTCCAAAAACATTTCTA
Found at i:616563 original size:1 final size:1
Alignment explanation
Indices: 616559--616600 Score: 84
Period size: 1 Copynumber: 42.0 Consensus size: 1
616549 TTTTTAGTAA
616559 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
616601 ACCATTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:619326 original size:33 final size:33
Alignment explanation
Indices: 619284--619352 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
619274 AAGCCAATGA
*
619284 AACACCTATTTAATTTGTAAAACATCTGTGTGT
1 AACACCTATTTAATTTGTAAAACATCTGTGTAT
*
619317 AACACCTATTTAATTTGTAAATCATCTGTGTAT
1 AACACCTATTTAATTTGTAAAACATCTGTGTAT
619350 AAC
1 AAC
619353 CCGTCCCGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (33 bp):
AACACCTATTTAATTTGTAAAACATCTGTGTAT
Found at i:623484 original size:2 final size:2
Alignment explanation
Indices: 623479--623504 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
623469 TGTGTGTGTG
623479 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
623505 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:624925 original size:2 final size:2
Alignment explanation
Indices: 624918--624958 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
624908 CTAAAATCAA
624918 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
624959 AAAAGATCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:625430 original size:2 final size:2
Alignment explanation
Indices: 625423--625480 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
625413 TTCTGATTAA
625423 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
625465 TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC
625481 ATCATACATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:627917 original size:2 final size:2
Alignment explanation
Indices: 627912--627939 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
627902 AACTAGAAAA
627912 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
627940 AAGTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:630134 original size:18 final size:18
Alignment explanation
Indices: 630111--630151 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
630101 ATGATGCAAG
630111 AAAAATGAACATGTGA-AT
1 AAAAATGAACATGT-ATAT
*
630129 AAAAATGCACATGTATAT
1 AAAAATGAACATGTATAT
630147 AAAAA
1 AAAAA
630152 ACAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.22
Consensus pattern (18 bp):
AAAAATGAACATGTATAT
Found at i:630180 original size:4 final size:4
Alignment explanation
Indices: 630171--630219 Score: 80
Period size: 4 Copynumber: 12.2 Consensus size: 4
630161 TAAAATGATT
* *
630171 TGGA TGGA TGGA TGGA TGGA TGGA TGGA TGGA TGGA TAGA TAGA TGGA
1 TGGA TGGA TGGA TGGA TGGA TGGA TGGA TGGA TGGA TGGA TGGA TGGA
630219 T
1 T
630220 AGATAGATAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.27
Consensus pattern (4 bp):
TGGA
Found at i:630224 original size:4 final size:4
Alignment explanation
Indices: 630205--630288 Score: 159
Period size: 4 Copynumber: 21.0 Consensus size: 4
630195 TGGATGGATG
*
630205 GATA GATA GATG GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
630253 GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA
630289 ACATTTTAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
4 78 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (4 bp):
GATA
Found at i:635723 original size:2 final size:2
Alignment explanation
Indices: 635716--635741 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
635706 TTTCTATTTT
635716 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
635742 GGAGGGTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:635762 original size:22 final size:22
Alignment explanation
Indices: 635730--635788 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
635720 AGAGAGAGAG
635730 AGAGAGAGAGAGGGAGGGTGGAA
1 AGAGAG-GAGAGGGAGGGTGGAA
* * *
635753 GGAGTGGAGAGAGAGGGTGGAA
1 AGAGAGGAGAGGGAGGGTGGAA
635775 AGAGAGG-GAGGGAG
1 AGAGAGGAGAGGGAG
635789 AGAGAAAGAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.59, T:0.05
Consensus pattern (22 bp):
AGAGAGGAGAGGGAGGGTGGAA
Found at i:635809 original size:20 final size:20
Alignment explanation
Indices: 635716--635811 Score: 63
Period size: 20 Copynumber: 4.8 Consensus size: 20
635706 TTTCTATTTT
* *
635716 AGAGAGAGAGAGAGAGAGAG
1 AGAGAGGGAGAGAGAGAGAA
*
635736 AGAGAGGGAG-G-GTG-GAA
1 AGAGAGGGAGAGAGAGAGAA
* * * *
635753 GGAGTGGAGAGAGAGGGTGGAA
1 AGAGAGG-GAGAGAGAG-AGAA
*
635775 AGAGAGGGAGGGAGAGAGAA
1 AGAGAGGGAGAGAGAGAGAA
* *
635795 AGAGAGTGATAGAGAGA
1 AGAGAGGGAGAGAGAGA
635812 ACAACATAAT
Statistics
Matches: 57, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
17 7 0.12
18 5 0.09
19 2 0.04
20 28 0.49
21 7 0.12
22 8 0.14
ACGTcount: A:0.42, C:0.00, G:0.53, T:0.05
Consensus pattern (20 bp):
AGAGAGGGAGAGAGAGAGAA
Found at i:639347 original size:437 final size:438
Alignment explanation
Indices: 638507--639599 Score: 1674
Period size: 437 Copynumber: 2.5 Consensus size: 438
638497 AAAAGGGCTA
*
638507 CAGAAGTCTAAAACTTTGACCACCTATATCTCAAAACGGAAAAATATTTTGAAATGCAGTATAAA
1 CAGAAGTCCAAAACTTTGACCACCTATATCTCAAAACGGAAAAATATTTTGAAATGCAGTATAAA
* * *
638572 AGAAAAGATGCTCAAAATGATGTACTTAACACCATGCAACCTAAAAAATTTGGTTCAGCGGCCCC
66 AGAAAAGATGCTCAAAATGATGTCCTTAACAACATGCAACCTATAAAATTTGGTTCAGCGGCCCC
* * *
638637 AATAAGGAGATAAGGGACCGGCCCCTAAAACATTCTTTCTCAGATATTTCAAGAATGGTAACGAA
131 AATAAGGAGATAAGGGACCGGCCCCTAAAAAATTCTTTCTGAGATATCTCAAGAATGGTAACGAA
*
638702 TTTCTGAACACTTGTTGAACAAAATGTCTTTATAATTAAATGACCTTTCATTTGATACCAAGAAA
196 TTTCTGAACACTTGTTGAACAAAATGTCTTTATAATCAAATGACCTTTCATTTGATACCAAGAAA
638767 AAGGGGCTGGCCCCTAATATTAGGGACCTAGAGGGCTCTAAACTCTTTTTCCTATAGTTCTTTAC
261 AAGGGGCTGGCCCCTAATATTAGGGACCTAGAGGGCTCTAAACTCTTTTTCCTATAGTTCTTTAC
* * *
638832 TGAGGGATATTTTGTAATAAATTATAGAAGCAAATATGTTTATCTTACAAATATGAAGCCAAGCA
326 CGAGGGATATTTCGTAATAAATTATAGAAGCAAATATGTTTATCTAACAAATATGAAGCCAAGCA
*
638897 GTATAACGATTTTT-TCATATGTTACGTAATTAGGGATTTTTAGGGGT
391 GTATAACGATTTTTCTCATATGTTACGTAATTAAGGATTTTTAGGGGT
* * * *
638944 CAGAAGTCCAAAACTTTGACCACCTTTATCTCAAAACGGAAAAATATTTTGAAACGCTGTATCAA
1 CAGAAGTCCAAAACTTTGACCACCTATATCTCAAAACGGAAAAATATTTTGAAATGCAGTATAAA
*
639009 AGAAAAGATGCTCAAAATGATGTCCTTAACAACATGCAGCCTATAAAATTTGGTTCAGCGGCCCC
66 AGAAAAGATGCTCAAAATGATGTCCTTAACAACATGCAACCTATAAAATTTGGTTCAGCGGCCCC
* *
639074 AATAAGGAGATAAGGGACTGGCCCCTAAAAAATTCTTTCTGAGATATCTCAAGAATGGTAACGGA
131 AATAAGGAGATAAGGGACCGGCCCCTAAAAAATTCTTTCTGAGATATCTCAAGAATGGTAACGAA
*
639139 TTTCTGAACACTTGTTGAACAAAATGTCTTTATAATCAAATGACCTTTCATTTGATACCATGAAA
196 TTTCTGAACACTTGTTGAACAAAATGTCTTTATAATCAAATGACCTTTCATTTGATACCAAGAAA
* *
639204 AAGGGGCTGGCCCCTAATATTAGGGATCTAGAGGGCTCTAAAGTCTTTTTCCTATAGTTCTTTAC
261 AAGGGGCTGGCCCCTAATATTAGGGACCTAGAGGGCTCTAAACTCTTTTTCCTATAGTTCTTTAC
* * ** * *
639269 CGAGGGGTATTTCGTAATAGATTATAGAAGCAAATATGTTTATCTAACAGTTGTGTAGCCTAA-C
326 CGAGGGATATTTCGTAATAAATTATAGAAGCAAATATGTTTATCTAACAAATATGAAGCC-AAGC
* * *
639333 ATTATAATGATTTTTCTCATGTGTTACGTAATTAAGGATTTTTAGGGGT
390 AGTATAACGATTTTTCTCATATGTTACGTAATTAAGGATTTTTAGGGGT
* * * ** * *
639382 CAAAAGTCCAAAAATGTGATAACCTATATCTCAAAAAGAAAAAATATTTTGAAATGCAGTATAAA
1 CAGAAGTCCAAAACTTTGACCACCTATATCTCAAAACGGAAAAATATTTTGAAATGCAGTATAAA
* * * * *
639447 AGAAAATATGCTCAAAATAATGTACC-TAATAACATGCAACCT-TACAATTTTTGTTCAGCGGCC
66 AGAAAAGATGCTCAAAATGATGT-CCTTAACAACATGCAACCTATA-AAATTTGGTTCAGCGGCC
* * * * * *
639510 CCAATAAGGATA-AAAGGTCCGGCCCCTAAAATATTCTTTCTGAGATATCTCAAGAACGGTGACG
129 CCAATAAGGAGATAAGGGACCGGCCCCTAAAAAATTCTTTCTGAGATATCTCAAGAATGGTAACG
*
639574 AATTTCTAAACACTTGTTGAACAAAA
194 AATTTCTGAACACTTGTTGAACAAAA
639600 CTCTTCCACC
Statistics
Matches: 595, Mismatches: 57, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
437 444 0.75
438 149 0.25
439 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (438 bp):
CAGAAGTCCAAAACTTTGACCACCTATATCTCAAAACGGAAAAATATTTTGAAATGCAGTATAAA
AGAAAAGATGCTCAAAATGATGTCCTTAACAACATGCAACCTATAAAATTTGGTTCAGCGGCCCC
AATAAGGAGATAAGGGACCGGCCCCTAAAAAATTCTTTCTGAGATATCTCAAGAATGGTAACGAA
TTTCTGAACACTTGTTGAACAAAATGTCTTTATAATCAAATGACCTTTCATTTGATACCAAGAAA
AAGGGGCTGGCCCCTAATATTAGGGACCTAGAGGGCTCTAAACTCTTTTTCCTATAGTTCTTTAC
CGAGGGATATTTCGTAATAAATTATAGAAGCAAATATGTTTATCTAACAAATATGAAGCCAAGCA
GTATAACGATTTTTCTCATATGTTACGTAATTAAGGATTTTTAGGGGT
Found at i:641746 original size:4 final size:4
Alignment explanation
Indices: 641737--641774 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
641727 AAAGCAAACC
641737 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
641775 ATTATTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:645179 original size:41 final size:41
Alignment explanation
Indices: 645132--645280 Score: 178
Period size: 41 Copynumber: 3.6 Consensus size: 41
645122 AGGGGGGGGG
* * **
645132 TGTCAGATAGAGCACCAGACGATGACTGGT-AAGAAGAGATT
1 TGTCAGATAAAGCACCAGACGATGA-TGGTGAAGAGGAGGGT
*
645173 TGTCAGATATAGCACCAGACGATGATTGGTGAA-AGGGAGGGT
1 TGTCAGATAAAGCACCAGACGATGA-TGGTGAAGA-GGAGGGT
*
645215 TGTCAGATAAAGCACCAGAGGATGATGGTGAAG-GGTAGGGT
1 TGTCAGATAAAGCACCAGACGATGATGGTGAAGAGG-AGGGT
*
645256 TGTCAGATAAAGCACCATACGATGA
1 TGTCAGATAAAGCACCAGACGATGA
645281 AGAATTTAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 2 0.02
41 64 0.67
42 29 0.31
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.20
Consensus pattern (41 bp):
TGTCAGATAAAGCACCAGACGATGATGGTGAAGAGGAGGGT
Found at i:645239 original size:83 final size:84
Alignment explanation
Indices: 645087--645281 Score: 225
Period size: 83 Copynumber: 2.3 Consensus size: 84
645077 ATGGGTAGGG
* * * * * *
645087 TTTGTCAAATCTAGCCCCATACGATTAATGGTGAAAGGGGGGGGGTGTCAGATAGAGCACCAGAC
1 TTTGTCAGATATAGCACCATACGATGAATGGTGAAAGGGGAGGGGTGTCAGATAAAGCACCAGAC
645152 GATGACTGGT-AAGAAG-AGA
66 GATGA-TGGTGAAG-AGTAGA
* * * *
645171 TTTGTCAGATATAGCACCAGACGATGATTGGTGAAA-GGGAGGGTTGTCAGATAAAGCACCAGAG
1 TTTGTCAGATATAGCACCATACGATGAATGGTGAAAGGGGAGGGGTGTCAGATAAAGCACCAGAC
* *
645235 GATGATGGTGAAGGGTAGG
66 GATGATGGTGAAGAGTAGA
* *
645254 GTTGTCAGATAAAGCACCATACGATGAA
1 TTTGTCAGATATAGCACCATACGATGAA
645282 GAATTTAATG
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
82 5 0.05
83 58 0.62
84 30 0.32
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (84 bp):
TTTGTCAGATATAGCACCATACGATGAATGGTGAAAGGGGAGGGGTGTCAGATAAAGCACCAGAC
GATGATGGTGAAGAGTAGA
Found at i:646019 original size:134 final size:136
Alignment explanation
Indices: 645847--646136 Score: 383
Period size: 134 Copynumber: 2.2 Consensus size: 136
645837 TATAATCATG
* * * *
645847 ACCCCTAAACCATATATATTCATGTTTCTGATGTCAAGGGGCATCATATGTTATGTAGGTCATGG
1 ACCCTTAAACCATATATATTCATGTTTCTGATGTCAAGGGGCATCAAACGGTATGTAGGTCATGG
* * * ***
645912 GCCCTGTGGGTGGTCCTGA-CCCCCTCAAACAGCAAGTCCCTTAATATCTTC-AAAACAGTTGAG
66 GCCCCGGGGGTGGTCATGACCCCCCTCAAACAGCAAGTCCAAGAATATC-TCGAAAACAGTTGAG
645975 ATCCCC-
130 ATCCCCA
**
645981 ACCCTTAAACCATATATATTTTTGTTTCTTG-TGTCAAGGGGCATCAAACGGTATGTAGGTCATG
1 ACCCTTAAACCATATATATTCATGTTTC-TGATGTCAAGGGGCATCAAACGGTATGTAGGTCATG
* * * *
646045 GGCCCCGGGGGTGGTCATGACCCCCCTCGAACAGGAAGTTCAAGAATATCTCGAAAACGGTTGAG
65 GGCCCCGGGGGTGGTCATGACCCCCCTCAAACAGCAAGTCCAAGAATATCTCGAAAACAGTTGAG
646110 ATCCCCA
130 ATCCCCA
646117 ACCCTT-AACCATATATATTC
1 ACCCTTAAACCATATATATTC
646137 TTGATCCTTA
Statistics
Matches: 135, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
134 74 0.55
135 55 0.41
136 6 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (136 bp):
ACCCTTAAACCATATATATTCATGTTTCTGATGTCAAGGGGCATCAAACGGTATGTAGGTCATGG
GCCCCGGGGGTGGTCATGACCCCCCTCAAACAGCAAGTCCAAGAATATCTCGAAAACAGTTGAGA
TCCCCA
Found at i:646504 original size:162 final size:162
Alignment explanation
Indices: 646187--646554 Score: 510
Period size: 162 Copynumber: 2.3 Consensus size: 162
646177 CCTCAGAGTT
* *
646187 AAATTTAATTTTTCAAAA-CTGTAATGCACATCTATGGAACAGTTCCTACCTCATATCCCAAGAT
1 AAATTTAATTTTT-AAAACCT-TAATGCACATCTATAGAACAGTCCCTA-CTCATATCCCAAGAT
* *
646251 ATGATGTGTTTATCCATTAAATCATAAAAGGAGTTCTAGGATCTATGTTTTTTTGAAGTGATAAA
63 ATGATGTGTTTATCCATTAAACCATAAAAGGAGCTCTAGGATCTATGTTTTTTTGAAGTGATAAA
*
646316 CGTCAATTTTCTGCTACTTTTTGACTCCCTGGATG
128 CGTCAATTTTCTGCTACTATTTGACTCCCTGGATG
* *
646351 AAATGTTAATTTTTAAAACCTTACTGCAAATCTATAGAACAGTCCCTA-TCATATCCCAAGATAT
1 AAAT-TTAATTTTTAAAACCTTAATGCACATCTATAGAACAGTCCCTACTCATATCCCAAGATAT
* * *
646415 GATGTGTCTT-TCCATTAAACCATAAGAGGAGCTCTTGGATCTATGTTTTGTTT-TAGTGATAAA
65 GATGTGT-TTATCCATTAAACCATAAAAGGAGCTCTAGGATCTATGTTTT-TTTGAAGTGATAAA
646478 CGTCAATTTTCTGCTACTATTTGACTCCCTGGATG
128 CGTCAATTTTCTGCTACTATTTGACTCCCTGGATG
* * * * *
646513 ATATTTAACATCTTAAAACCTTATTGCACATCTATAGGACAG
1 AAATTTAA-TTTTTAAAACCTTAATGCACATCTATAGAACAG
646555 CCCACATTAT
Statistics
Matches: 183, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
161 4 0.02
162 132 0.72
163 5 0.03
164 31 0.17
165 11 0.06
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (162 bp):
AAATTTAATTTTTAAAACCTTAATGCACATCTATAGAACAGTCCCTACTCATATCCCAAGATATG
ATGTGTTTATCCATTAAACCATAAAAGGAGCTCTAGGATCTATGTTTTTTTGAAGTGATAAACGT
CAATTTTCTGCTACTATTTGACTCCCTGGATG
Found at i:647268 original size:12 final size:12
Alignment explanation
Indices: 647251--647277 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
647241 TTTCTTTTGA
647251 ATGACAACTCAT
1 ATGACAACTCAT
647263 ATGACAACTCAT
1 ATGACAACTCAT
647275 ATG
1 ATG
647278 TAGTATCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (12 bp):
ATGACAACTCAT
Found at i:653696 original size:70 final size:70
Alignment explanation
Indices: 653583--653719 Score: 247
Period size: 70 Copynumber: 2.0 Consensus size: 70
653573 AAACGATCAT
*
653583 AGGTTCGATGCAAAAAACAAGCTTTGTCGTAAGCGCACTTATAAGAGCAAATGCACATATCATTC
1 AGGTTCGATACAAAAAACAAGCTTTGTCGTAAGCGCACTTATAAGAGCAAATGCACATATCATTC
653648 AGCAG
66 AGCAG
* *
653653 AGGTTCGATACAAAAAACAATCTTTGTCGTAAGCGTACTTATAAGAGCAAATGCACATATCATTC
1 AGGTTCGATACAAAAAACAAGCTTTGTCGTAAGCGCACTTATAAGAGCAAATGCACATATCATTC
653718 AG
66 AG
653720 GAAAATGCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (70 bp):
AGGTTCGATACAAAAAACAAGCTTTGTCGTAAGCGCACTTATAAGAGCAAATGCACATATCATTC
AGCAG
Found at i:654169 original size:16 final size:16
Alignment explanation
Indices: 654148--654194 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
654138 GAAATATTTA
654148 TCGAAAATTGTATGGC
1 TCGAAAATTGTATGGC
654164 TCGAAAATTGTATGGC
1 TCGAAAATTGTATGGC
654180 TCGAAAATTGTATGG
1 TCGAAAATTGTATGG
654195 ATCCAAGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (16 bp):
TCGAAAATTGTATGGC
Found at i:656630 original size:84 final size:84
Alignment explanation
Indices: 656537--656695 Score: 194
Period size: 84 Copynumber: 1.9 Consensus size: 84
656527 GTCCTTCCCT
* * * * **
656537 CTACTTTATAACCCTACCATTTCCCTTCAAAAGCCCCTTCATCTACCTTATACCCCTATC-ACTC
1 CTACCTTATAACCCTACAATTCCCCTTCAAAAGCCCCTCCATCTAAATTATACCCCTA-CAACTC
656601 CCCTTCATGAGATCCTGACC
65 CCCTTCATGAGATCCTGACC
* ** * * *
656621 CTACCTTATACCCCTACAATTCCCCTTCATGAGCCTCTCCCTCTAAATTATACCCTTACAACTCC
1 CTACCTTATAACCCTACAATTCCCCTTCAAAAGCCCCTCCATCTAAATTATACCCCTACAACTCC
656686 CCTTCATGAG
66 CCTTCATGAG
656696 CCCCTCCCTC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
83 1 0.02
84 61 0.98
ACGTcount: A:0.24, C:0.40, G:0.05, T:0.31
Consensus pattern (84 bp):
CTACCTTATAACCCTACAATTCCCCTTCAAAAGCCCCTCCATCTAAATTATACCCCTACAACTCC
CCTTCATGAGATCCTGACC
Found at i:656672 original size:42 final size:42
Alignment explanation
Indices: 656626--656749 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
656616 TGACCCTACC
*
656626 TTATACCCCTACAATTCCCCTTCATGAGCCTCTCCCTCTAAA
1 TTATACCCCTACAATTCCCCTTCATGAGCCACTCCCTCTAAA
* * * *
656668 TTATACCCTTACAACTCCCCTTCATGAGCCCCTCCCTCTAAC
1 TTATACCCCTACAATTCCCCTTCATGAGCCACTCCCTCTAAA
* *
656710 TTATA-CCCTAACCACTT-CCTTTCATGAGCCACTCCCTCTA
1 TTATACCCCT-A-CAATTCCCCTTCATGAGCCACTCCCTCTA
656750 CCGTTTACCT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
41 3 0.04
42 65 0.92
43 3 0.04
ACGTcount: A:0.23, C:0.42, G:0.05, T:0.31
Consensus pattern (42 bp):
TTATACCCCTACAATTCCCCTTCATGAGCCACTCCCTCTAAA
Found at i:656713 original size:84 final size:84
Alignment explanation
Indices: 656584--656749 Score: 196
Period size: 84 Copynumber: 2.0 Consensus size: 84
656574 TTCATCTACC
* *
656584 TTATACCCCTATCACTCCCCTTCATGAGATCCTGACCCTACCTTATACCCCT-A-CAATTCCCCT
1 TTATACCCCTATCACTCCCCTTCATGAGACCCTGACCCTAACTTATA-CCCTAACCAATT-CCCT
*
656647 TCATGAGCCTCTCCCTCTAAA
64 TCATGAGCCACTCCCTCTAAA
* * * * *
656668 TTATACCCTTA-CAACTCCCCTTCATGAGCCCCT-CCCTCTAACTTATACCCTAACCACTTCCTT
1 TTATACCCCTATC-ACTCCCCTTCATGAGACCCTGACC-CTAACTTATACCCTAACCAATTCCCT
656731 TCATGAGCCACTCCCTCTA
64 TCATGAGCCACTCCCTCTA
656750 CCGTTTACCT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
83 7 0.10
84 59 0.84
85 4 0.06
ACGTcount: A:0.22, C:0.42, G:0.05, T:0.30
Consensus pattern (84 bp):
TTATACCCCTATCACTCCCCTTCATGAGACCCTGACCCTAACTTATACCCTAACCAATTCCCTTC
ATGAGCCACTCCCTCTAAA
Found at i:656865 original size:19 final size:19
Alignment explanation
Indices: 656843--656906 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
656833 CTCTACCCCT
656843 CCCTTTTATGAGCCCCTCC
1 CCCTTTTATGAGCCCCTCC
*
656862 CCCTACCTTAT-A-CCCCTACCCC
1 CCCT--TTTATGAGCCCCT---CC
656884 TCCCTTTTATGAGCCCCTCC
1 -CCCTTTTATGAGCCCCTCC
656904 CCC
1 CCC
656907 ACCTTATACC
Statistics
Matches: 35, Mismatches: 2, Indels: 16
0.66 0.04 0.30
Matches are distributed among these distances:
19 12 0.34
20 3 0.09
21 8 0.23
22 3 0.09
23 9 0.26
ACGTcount: A:0.12, C:0.53, G:0.06, T:0.28
Consensus pattern (19 bp):
CCCTTTTATGAGCCCCTCC
Found at i:656923 original size:41 final size:42
Alignment explanation
Indices: 656805--656953 Score: 237
Period size: 42 Copynumber: 3.6 Consensus size: 42
656795 ACCACACCCC
* * *
656805 TTTAAGAGCCCCTCCCTCTACCTTATACCTCTACCCCTCCCT
1 TTTATGAGCCCCTCCCCCTACCTTATACCACTACCCCTCCCT
*
656847 TTTATGAGCCCCTCCCCCTACCTTATACCCCTACCCCTCCCT
1 TTTATGAGCCCCTCCCCCTACCTTATACCACTACCCCTCCCT
*
656889 TTTATGAGCCCCTCCCCC-ACCTTATACCAATACCCCTCCCT
1 TTTATGAGCCCCTCCCCCTACCTTATACCACTACCCCTCCCT
*
656930 TTCATGAGCCCCTCCCCCTACCTT
1 TTTATGAGCCCCTCCCCCTACCTT
656954 TATGGTCTCA
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
41 38 0.38
42 62 0.62
ACGTcount: A:0.16, C:0.50, G:0.05, T:0.29
Consensus pattern (42 bp):
TTTATGAGCCCCTCCCCCTACCTTATACCACTACCCCTCCCT
Found at i:689783 original size:2 final size:2
Alignment explanation
Indices: 689778--689810 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
689768 TGAGAGATCC
689778 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
689811 CTTTGTCCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:706400 original size:20 final size:19
Alignment explanation
Indices: 706351--706402 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
706341 CATGCATATC
*
706351 ATGATACAAAATTGTCTGT
1 ATGATACAATATTGTCTGT
* * *
706370 TTGATATAATATTGTGTGGT
1 ATGATACAATATTGTCT-GT
706390 ATGATACAATATT
1 ATGATACAATATT
706403 ATATCATATG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (19 bp):
ATGATACAATATTGTCTGT
Found at i:709441 original size:165 final size:166
Alignment explanation
Indices: 709185--709577 Score: 646
Period size: 165 Copynumber: 2.4 Consensus size: 166
709175 CAACCAGGGA
* * * *
709185 TCATTATTTTCAAAACTTTGAATCTACACTTCCTGAGGATACTTCCACACTAGTTTCAGCTTTCC
1 TCATGATTTTCAAAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCC
709250 TGGCTGATAAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCC-AAGTAAAACTT
66 TGGCTGATAAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTAAGTAAAACTT
* *
709314 CGACCCCCCGTTGTGGCCCCACCCTACCCCCGGGGG
131 CGACCCCCCATAGTGGCCCCACCCTACCCCCGGGGG
709350 TCATGATTTTCAAAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCC
1 TCATGATTTTCAAAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCC
* *
709415 TGGCTGATCAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTT
66 TGGCTGATAAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTAAGTAAAACTT
709480 CGACCCCCCATAGTGGCCCCACCCTACCCCCGGGGG
131 CGACCCCCCATAGTGGCCCCACCCTACCCCCGGGGG
* * * *
709516 TCATGATTTTCATAACTTTGAAT-TAACATTACCTGAGGATGCTTCCACGCAAGCTTTTAGCT
1 TCATGATTTTCAAAACTTTGAATCT-ACACTACCTGAGGATGCTTCCACACAAG-TTTCAGCT
709578 CAGGTGAGCT
Statistics
Matches: 213, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
165 114 0.54
166 92 0.43
167 7 0.03
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (166 bp):
TCATGATTTTCAAAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCC
TGGCTGATAAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTAAGTAAAACTT
CGACCCCCCATAGTGGCCCCACCCTACCCCCGGGGG
Found at i:716347 original size:36 final size:36
Alignment explanation
Indices: 716300--716449 Score: 257
Period size: 36 Copynumber: 4.2 Consensus size: 36
716290 CAGCTTGTGT
716300 TCATTTATTTACAGCTTGGATGAGTTCAGTTTAACA
1 TCATTTATTTACAGCTTGGATGAGTTCAGTTTAACA
*
716336 TCATTTATTTACAGCTTGGATGAGTTCAGTTTAACT
1 TCATTTATTTACAGCTTGGATGAGTTCAGTTTAACA
* *
716372 TCATATATTTACGGCTTGGATGAGTTCAGTTTAACA
1 TCATTTATTTACAGCTTGGATGAGTTCAGTTTAACA
*
716408 TCATTTATTTACAGCTTGGATGAGTTCAGTTCAACA
1 TCATTTATTTACAGCTTGGATGAGTTCAGTTTAACA
716444 TC-TTTA
1 TCATTTA
716450 CAGTAATTGA
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 4 0.04
36 103 0.96
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (36 bp):
TCATTTATTTACAGCTTGGATGAGTTCAGTTTAACA
Found at i:717212 original size:14 final size:14
Alignment explanation
Indices: 717187--717224 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
717177 CATTTTTTAA
*
717187 AGAGAGACAGAAAG
1 AGAGAGAGAGAAAG
*
717201 AGAGGGAGAGAAAG
1 AGAGAGAGAGAAAG
717215 AGAGAGAGAG
1 AGAGAGAGAG
717225 GTTATATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.45, T:0.00
Consensus pattern (14 bp):
AGAGAGAGAGAAAG
Found at i:717221 original size:12 final size:12
Alignment explanation
Indices: 717185--717223 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
717175 ACCATTTTTT
*
717185 AAAGAGAGACAG
1 AAAGAGAGAGAG
717197 AAAGAGAGGGAGAG
1 AAAGAGA--GAGAG
717211 AAAGAGAGAGAG
1 AAAGAGAGAGAG
717223 A
1 A
717224 GGTTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.56, C:0.03, G:0.41, T:0.00
Consensus pattern (12 bp):
AAAGAGAGAGAG
Found at i:718143 original size:33 final size:33
Alignment explanation
Indices: 718067--718148 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
718057 AGATAATGTC
*
718067 GTCTACCTGTACCCCAAAGTATATACAGGTAAA
1 GTCTACCTGTGCCCCAAAGTATATACAGGTAAA
718100 GTCTACCTGTGCCCCAAAGTATATACAGGTAAA
1 GTCTACCTGTGCCCCAAAGTATATACAGGTAAA
718133 GTCTACCTGTGTCCCC
1 GTCTACCTGTG-CCCC
718149 TTAGAGGGCC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 43 0.91
34 4 0.09
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (33 bp):
GTCTACCTGTGCCCCAAAGTATATACAGGTAAA
Found at i:739857 original size:2 final size:2
Alignment explanation
Indices: 739850--739889 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
739840 AATCTCAATA
739850 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
739890 ATGCTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:751909 original size:11 final size:10
Alignment explanation
Indices: 751884--751915 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
751874 ATGGAAACAT
751884 ACATTAGAAG
1 ACATTAGAAG
751894 ACATTAGAATG
1 ACATTAGAA-G
751905 ACATTAGAAG
1 ACATTAGAAG
751915 A
1 A
751916 TATTTTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.50, C:0.09, G:0.19, T:0.22
Consensus pattern (10 bp):
ACATTAGAAG
Found at i:758408 original size:171 final size:167
Alignment explanation
Indices: 758086--758523 Score: 707
Period size: 171 Copynumber: 2.6 Consensus size: 167
758076 CCCCCCCCCN
* * * * * *
758086 TATATTCCTATGTAAAAATTTGATCCCCCGTTGTGTACCCCACCCTACCCTCGGGGCTCATAATT
1 TATATTTCTATGTAAAACTTTGACCCCCCATTGTG-GCCCCACCCTACCCTCGGGGCTCATGATT
758151 TTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTTCTGGCTGAT
65 TTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTTCTGGCTGAT
* *
758216 TAGGATCTGAGAAGAAGATTTTTAAAGATTTACTC-TA
130 TAGAATCTGAGAAGAAGATTTTAAAAGATTTACTCATA
758253 TATATTTCTATGTAAAACTTTGACCCCCCCCCCCATTGTGGCCCCACCCTACCCTCGGGGCTCAT
1 TATATTTCTATGTAAAACTTTGA-----CCCCCCATTGTGGCCCCACCCTACCCTCGGGGCTCAT
758318 GATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTTCTGGC
61 GATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTTCTGGC
758383 TGATTAGAATCTGAGAAGAAGATTTTAAAAGATTTACTCTATA
126 TGATTAGAATCTGAGAAGAAGATTTTAAAAGATTTACTC-ATA
* *
758426 TATATTTCTATGTAAAACTTTGACCCCCCATTGTGGCCCCATCCTTCCCTCGGGGCTCATGATTT
1 TATATTTCTATGTAAAACTTTGACCCCCCATTGTGGCCCCACCCTACCCTCGGGGCTCATGATTT
*
758491 TCACAACTTCGAATCTACACTACCTGAGGATGC
66 TCACAACTTTGAATCTACACTACCTGAGGATGC
758524 ACTCTACTCA
Statistics
Matches: 253, Mismatches: 11, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
167 21 0.08
168 72 0.28
171 125 0.49
172 10 0.04
173 25 0.10
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (167 bp):
TATATTTCTATGTAAAACTTTGACCCCCCATTGTGGCCCCACCCTACCCTCGGGGCTCATGATTT
TCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTTCTGGCTGATT
AGAATCTGAGAAGAAGATTTTAAAAGATTTACTCATA
Found at i:770257 original size:64 final size:64
Alignment explanation
Indices: 770164--770326 Score: 281
Period size: 64 Copynumber: 2.5 Consensus size: 64
770154 TTCATAGAAA
*
770164 AAAATTGAATTTCGCAGATTTCCAATGGAAACATAAGGGGAAATGTAAACTGAATGTAAATATAG
1 AAAATTGAA-GTCGCAGATTTCCAATGGAAACATAAGGGGAAATGTAAACTGAATGTAAATATAG
* *
770229 AAAATTGAAGTCACAGATTTCCAGTGGAAACATAAGGGGAAATGTAAACTGAATGTAAATATAG
1 AAAATTGAAGTCGCAGATTTCCAATGGAAACATAAGGGGAAATGTAAACTGAATGTAAATATAG
*
770293 AAAATTGAAGTCGCAGATTTCCAATGCAAACATA
1 AAAATTGAAGTCGCAGATTTCCAATGGAAACATA
770327 TATCTCAGTC
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 83 0.90
65 9 0.10
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.25
Consensus pattern (64 bp):
AAAATTGAAGTCGCAGATTTCCAATGGAAACATAAGGGGAAATGTAAACTGAATGTAAATATAG
Found at i:773999 original size:21 final size:21
Alignment explanation
Indices: 773973--774029 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
773963 TTTTTCTATC
773973 AAATATGTCGACATACAAGAT
1 AAATATGTCGACATACAAGAT
* *
773994 AAATATGTTGACATGCAAGAT
1 AAATATGTCGACATACAAGAT
** *
774015 AGTTATGTCAACATA
1 AAATATGTCGACATA
774030 AGTGTGTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (21 bp):
AAATATGTCGACATACAAGAT
Found at i:775285 original size:166 final size:165
Alignment explanation
Indices: 774933--775455 Score: 655
Period size: 165 Copynumber: 3.1 Consensus size: 165
774923 AAAAAGTTAT
* * * * *
774933 GTGTTGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGGGGCCACAATGGGGTGTCA
1 GTGTAGATTCAAAGTTGTGAAAATCATGATACCTGGGGGTAGGGTGGGGTCACAATGGGGAGTCG
* * * * *
774998 AAGTTTAACATAGGAATACAT-GAGAAAATCTTTAAAAATCTTCTTCTCAGAAAATTAATCAGCC
66 AAGTTTTACATAGAAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAG-AAACTAATCAGCC
*
775062 AGGAAAA-CTGAAACT-TGTGTAAAGCATCCTCAGGTA
130 A-GAAAAGCTGAAACTGTGTGGAAA-CATCCTCAGGTA
* * * *
775098 GTGTAGATTCTAAGTTGTGAAAACCATGACT-CCTGGGGGAAGGGTGGGGTCATAATGGGGAGTC
1 GTGTAGATTCAAAGTTGTGAAAATCATGA-TACCTGGGGGTAGGGTGGGGTCACAATGGGGAGTC
*
775162 GAAGTTTTACATAGAAATATATAGAGTCAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCC
65 GAAGTTTTACATAGAAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCC
* * *
775227 AGAAAAGCTGAAACTCGTGTGGAAAAATCCCCAGGTC
130 AGAAAAGCTGAAACT-GTGTGGAAACATCCTCAGGTA
* *
775264 GTGTAGATTCAAAGTTGTGAAAATCATGATACCT-GGGGTAGGGT-GGGTCCACATTGGGGGGT-
1 GTGTAGATTCAAAGTTGTGAAAATCATGATACCTGGGGGTAGGGTGGGGT-CACAATGGGGAGTC
775326 GTTAAAGTTTTACATAGGAATATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAAT
65 G---AAGTTTTACATA-GAA-ATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAAT
* ** * *
775391 CAGCAAGGGAAGCTGAAACTTGTTTGGAAGCATCCTCAGGTA
125 CAGCCAGAAAAGCTGAAAC-TGTGTGGAAACATCCTCAGGTA
775433 GTGTAGATTCAAAGTTGTGAAAA
1 GTGTAGATTCAAAGTTGTGAAAA
775456 GAATGACACT
Statistics
Matches: 312, Mismatches: 33, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
164 10 0.03
165 114 0.37
166 67 0.21
167 19 0.06
168 3 0.01
169 98 0.31
170 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (165 bp):
GTGTAGATTCAAAGTTGTGAAAATCATGATACCTGGGGGTAGGGTGGGGTCACAATGGGGAGTCG
AAGTTTTACATAGAAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCA
GAAAAGCTGAAACTGTGTGGAAACATCCTCAGGTA
Found at i:775611 original size:116 final size:115
Alignment explanation
Indices: 775387--775616 Score: 295
Period size: 116 Copynumber: 2.0 Consensus size: 115
775377 TCTCAGAAAC
* * *
775387 TAATCAGCAAGGGAAGCTGAAACTTGTTTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTG
1 TAATCAGCAAGGAAAGCTGAAACTTGTATGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGTG
* **
775452 AAAAGAATGACACTCCCGGGATTAGGGTTTAGCCAAAATGGGGGGGGGGG
66 AAAAGAATGACACTCCCGGGAGTAGGGTGGAGCCAAAATGGGGGGGGGGG
* *
775502 NTAATCAGCCAGGAAAGCTGAAATTTGTATGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGT
1 -TAATCAGCAAGGAAAGCTGAAACTTGTATGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGT
** * * **
775567 GAAAATCATGAC-C-CCCAGGG-GTAGGGTGGGGCCACAATTAGGGGGGGGG
65 GAAAAGAATGACACTCCC-GGGAGTAGGGTGGAGCCAAAATGGGGGGGGGGG
775616 T
1 T
775617 CGACGTTTTA
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
113 1 0.01
114 25 0.25
115 4 0.04
116 69 0.70
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (115 bp):
TAATCAGCAAGGAAAGCTGAAACTTGTATGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGTG
AAAAGAATGACACTCCCGGGAGTAGGGTGGAGCCAAAATGGGGGGGGGGG
Found at i:775732 original size:287 final size:283
Alignment explanation
Indices: 775218--775786 Score: 786
Period size: 287 Copynumber: 2.0 Consensus size: 283
775208 TCTCAGAAAC
* * *
775218 TAATCAGCCAGAAAAGCTGAAACTCGTGTGGAAAAATCCCCAGGTCGTGTAGATTCAAAGTTGTG
1 TAATCAGCCAGAAAAGCTGAAACTCGTATGGAAAAATCCCCAGGTAGTGTAGACTCAAAGTTGTG
* * * * *
775283 AAAATCATGATACCTGGGGTAGGGTGGGTCCACATTGGGGGGTGTTAAAGTTTTACATAGGAATA
66 AAAATCATGACACCAGGGGTAGGGTGGGGCCACATTGGGGGGGGTCAAAGTTTTACATAGGAATA
*
775348 TATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCAAGGGAAGCTGAAACTTG
131 TATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCAAGGAAAGCTGAAACTTG
* *
775413 TTTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAAGAATGACA-CTCCCGGGATTAG
196 TATGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTG-AAAGAATGACATC-CCCGGGAGTAG
*
775477 GGTTTAGCCAAAATGGGGGGGGGGG
259 GGTTGAGCCAAAATGGGGGGGGGGG
* * * ** *
775502 NTAATCAGCCAGGAAAGCTGAAATTTGTATGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGT
1 -TAATCAGCCAGAAAAGCTGAAACTCGTATGGAAAAATCCCCAGGTAGTGTAGACTCAAAGTTGT
* * *
775567 GAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATTAGGGGGGGGGTCGACGTTTTACAT-G
65 GAAAATCATGA-CACCAGGGGTAGGGTGGGGCCAC-ATT--GGGGGGGGTCAAAGTTTTACATAG
* * *
775631 GGA-ATATATAGAGTAAATCTTTAAAAATCTTCTTCTCA-AAAGCTAATTAGCCAGGAAAGCTGA
126 GAATATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAA-CTAATCAGCAAGGAAAGCTGA
* *
775694 AATTTGTATGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAATAATGACATCCCCGGGA
190 AACTTGTATGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAGAATGACATCCCCGGGA
* *
775759 GTAGGGTTGGGCCACAATGGGGGGGGGG
255 GTAGGGTTGAGCCAAAATGGGGGGGGGG
775787 TCAAAGTTTT
Statistics
Matches: 250, Mismatches: 28, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
285 66 0.26
286 63 0.25
287 100 0.40
288 3 0.01
289 18 0.07
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (283 bp):
TAATCAGCCAGAAAAGCTGAAACTCGTATGGAAAAATCCCCAGGTAGTGTAGACTCAAAGTTGTG
AAAATCATGACACCAGGGGTAGGGTGGGGCCACATTGGGGGGGGTCAAAGTTTTACATAGGAATA
TATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCAAGGAAAGCTGAAACTTG
TATGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAGAATGACATCCCCGGGAGTAGGG
TTGAGCCAAAATGGGGGGGGGGG
Found at i:775798 original size:171 final size:171
Alignment explanation
Indices: 775503--775855 Score: 543
Period size: 171 Copynumber: 2.1 Consensus size: 171
775493 GGGGGGGGGN
775503 TAATCAGCCAGGAAAGCTGAAATTTGTATGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGTG
1 TAATCAGCCAGGAAAGCTGAAATTTGTATGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGTG
* * * *
775568 AAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATTAGGGGGGGGGTCGACGTTTTACATGGG
66 AAAATAATGACCCCCAGGGGTAGGGTGGGGCCACAATTAGGGGGGGGGTCAAAGTTTTACATAGG
775633 AATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAAAAGC
131 AATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAAAAGC
* *
775674 TAATTAGCCAGGAAAGCTGAAATTTGTATGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTG
1 TAATCAGCCAGGAAAGCTGAAATTTGTATGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGTG
* *
775739 -AAATAATGACATCCCC-GGGAGTAGGGTTGGGCCACAA-TGGGGGGGGGGTCAAAGTTTTACAT
66 AAAATAATGAC--CCCCAGGG-GTAGGGTGGGGCCACAATTAGGGGGGGGGTCAAAGTTTTACAT
* *
775801 AGGAATATGTAGAGTGAATCTTTAAAAATCTTCTTCTCAGAAA-C
128 AGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCA-AAAGC
*
775845 TTATCAGCCAG
1 TAATCAGCCAG
775856 ATGATTCTTT
Statistics
Matches: 166, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
170 9 0.05
171 134 0.81
172 23 0.14
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (171 bp):
TAATCAGCCAGGAAAGCTGAAATTTGTATGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGTG
AAAATAATGACCCCCAGGGGTAGGGTGGGGCCACAATTAGGGGGGGGGTCAAAGTTTTACATAGG
AATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAAAAGC
Found at i:776290 original size:18 final size:18
Alignment explanation
Indices: 776256--776288 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
776246 ATGTAACTTT
776256 CTTTTCTTTTCTTTTTTC
1 CTTTTCTTTTCTTTTTTC
776274 CTTTT-TTTT-TTTTTT
1 CTTTTCTTTTCTTTTTT
776289 TTGAAAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
CTTTTCTTTTCTTTTTTC
Found at i:786394 original size:24 final size:24
Alignment explanation
Indices: 786367--786415 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
786357 AGAACGAAAG
786367 GAGGCGCCAAAAAATAACGCACAA
1 GAGGCGCCAAAAAATAACGCACAA
786391 GAGGCGCCAAAAAATAACGCACAA
1 GAGGCGCCAAAAAATAACGCACAA
786415 G
1 G
786416 TGACGGTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.22, T:0.04
Consensus pattern (24 bp):
GAGGCGCCAAAAAATAACGCACAA
Found at i:788550 original size:39 final size:39
Alignment explanation
Indices: 788495--788573 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
788485 GATGCACCAA
* *
788495 ATGAAGTTATATATTTGCAATAGAGTGTATTGAAATGAT
1 ATGAAGTTATAAATTTGCAATAGAATGTATTGAAATGAT
* *
788534 ATGAAGTTATAAATTTGTAATATAATGTATTGAAATGAT
1 ATGAAGTTATAAATTTGCAATAGAATGTATTGAAATGAT
788573 A
1 A
788574 CCCTTGCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.18, T:0.39
Consensus pattern (39 bp):
ATGAAGTTATAAATTTGCAATAGAATGTATTGAAATGAT
Found at i:790229 original size:34 final size:34
Alignment explanation
Indices: 788757--790227 Score: 2353
Period size: 34 Copynumber: 43.4 Consensus size: 34
788747 GAACTATACA
* *
788757 TTGTACAGACATTCTATTTA-ACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
788790 TTGTACAGACACTCTATCTATTCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
788824 TTGTACAGACATTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
788858 TTGTACAGACATTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
788892 TTGTACAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
788926 TTGTACAGACATTCTATCTATACTGTGTACAGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
788960 TTGTACAGACATTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
788994 TTGTACAGACACTCTGTCTATACGGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
789028 TTGTACAGACACTTTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
789062 TTGTACAGACA---T-TCTATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
789092 TTGTACAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789126 TTGCACAGACACTCTATATATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789160 TTGTACAGAGACTCTATCTATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
789194 TTGTACAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789228 TTGCACAGACACTCTATATATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789262 TTGTACAGAGACTCTATCTATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
789296 TTGTACAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
789330 TTGTACAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789364 TTGTACAGACATTCTATCTATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789398 TTGTACAGAGACTCTATCTATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
789432 TTGTACAGACACTCTATCTATACTGTGTACTGGG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
789466 TTGTAGAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789500 TTGTACAGAGACTCTATCTATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789534 TTGTACAGACACTCTATATATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
789568 TTGTACAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789602 TTGTACAGACATTCTATCTATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
789636 TTGTACAGAGACTCTATCTATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
789670 TTGTACAGACACTCTATCTATACTGTGTACTGGG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
789704 TTGTAGAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* * *
789738 TTGTTCAGACTCTGTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
789772 TTGTACAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
789806 TTGTACAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
** * * *
789840 CCGTACAGACACTCCATCTTTCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* * *
789874 TTTTATAGACA-TTTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
789907 TTGTACAGACACTCTATCTATACTGTGTACTGGG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
789941 TTGTAGAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
789975 TTGTAGAGACACTCTATCTATACTGTGTACTG-G
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* *
790008 TATGTAGAGACACTCTATCTATACTGTGTACTGGG
1 T-TGTACAGACACTCTATCTATACTGTGTACTGAG
* *
790043 TTGTAGAGACACTCTATCTATACTGTGTACTGGG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
* * *
790077 TTGTAGAGACATTCTATCTATCCTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
790111 TTGTACAGACACTCTATCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
790145 TTGTACAGACACTCTATCTATACTGTGTACTGAA
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
*
790179 TTGTACAGACACTCTCTCTATACTGTGTACTGAG
1 TTGTACAGACACTCTATCTATACTGTGTACTGAG
790213 TTGTACAGACACTCT
1 TTGTACAGACACTCT
790228 CTATAGGTTG
Statistics
Matches: 1337, Mismatches: 93, Indels: 15
0.93 0.06 0.01
Matches are distributed among these distances:
30 28 0.02
31 1 0.00
33 48 0.04
34 1258 0.94
35 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (34 bp):
TTGTACAGACACTCTATCTATACTGTGTACTGAG
Found at i:808867 original size:20 final size:20
Alignment explanation
Indices: 808842--808883 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
808832 ACCAGTATGT
808842 AAAATGTTTCAAGATATCCA
1 AAAATGTTTCAAGATATCCA
808862 AAAATGTTTCAAGATATCCA
1 AAAATGTTTCAAGATATCCA
808882 AA
1 AA
808884 TTATTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAATGTTTCAAGATATCCA
Found at i:810125 original size:50 final size:50
Alignment explanation
Indices: 810066--810191 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 50
810056 AAATGATTTT
* *
810066 GAATTGTGGGATTGATCTTCAAGATTATTACAGCACAGACACCAGCAAGA
1 GAATTGTGGGATTGATCTACAAGATTATTACAGCACAAACACCAGCAAGA
* * * * *
810116 GGATTGTGGGATTGATCTACAGGATTATTACAGCGCAAACAGCAGCAATA
1 GAATTGTGGGATTGATCTACAAGATTATTACAGCACAAACACCAGCAAGA
* * *
810166 GAATTGTGGAATTGTTTTACAAGATT
1 GAATTGTGGGATTGATCTACAAGATT
810192 GTTTAAAGCA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (50 bp):
GAATTGTGGGATTGATCTACAAGATTATTACAGCACAAACACCAGCAAGA
Found at i:811168 original size:33 final size:33
Alignment explanation
Indices: 811126--811440 Score: 400
Period size: 33 Copynumber: 9.3 Consensus size: 33
811116 GACACTAAAA
* *
811126 GGAATGTGATTGGTTAAGATACTAACTCATAAT
1 GGAATGTGATTGGTTAAGATACTAACACATAAC
*
811159 GGAATGTGATTGGTTTAGATACTAACACATAAC
1 GGAATGTGATTGGTTAAGATACTAACACATAAC
* * *
811192 AGAATGTGATTGGTTAAGATACTAACTCATAAT
1 GGAATGTGATTGGTTAAGATACTAACACATAAC
*
811225 GGAATGTGATTGGTTTAGATACTAACACATAAC
1 GGAATGTGATTGGTTAAGATACTAACACATAAC
* * *
811258 AGAATGTGATTGGTTAAGATACAAACACAAAAC
1 GGAATGTGATTGGTTAAGATACTAACACATAAC
* *
811291 GGAATGTGATTGGTTAAGATACAAACACAAAAC
1 GGAATGTGATTGGTTAAGATACTAACACATAAC
*
811324 GGAATGTGATTGGTTGAGATACTAACACATAAC
1 GGAATGTGATTGGTTAAGATACTAACACATAAC
811357 GGAATGTGATTGGTTACTAAGATACTAACACATAGTAC
1 GGAATGTGATTGG-T--TAAGATACTAACACATA--AC
811395 --AATGTGATTTGTTGTTTCAAAGATACTAACACATAAC
1 GGAATGTGA-TTG--G-TT--AAGATACTAACACATAAC
811432 GGAATGTGA
1 GGAATGTGA
811441 CTTATTACAA
Statistics
Matches: 250, Mismatches: 20, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
33 192 0.77
34 1 0.00
36 23 0.09
37 6 0.02
38 2 0.01
39 26 0.10
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (33 bp):
GGAATGTGATTGGTTAAGATACTAACACATAAC
Found at i:812403 original size:34 final size:34
Alignment explanation
Indices: 812348--812446 Score: 119
Period size: 34 Copynumber: 2.9 Consensus size: 34
812338 CATTTTGTTC
** *
812348 ATTTTGCTAAGAACATAGGATCAAGTTAGATTTA
1 ATTTTGCTGGGAACATTGGATCAAGTTAGATTTA
*
812382 ATTTTGCT-GGAATCATTGGATCAAGTTAGATTTT
1 ATTTTGCTGGGAA-CATTGGATCAAGTTAGATTTA
* * *
812416 GTTTTGCTGGGAACATTCGATCAAGGTAGAT
1 ATTTTGCTGGGAACATTGGATCAAGTTAGAT
812447 ATCAACATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
33 3 0.05
34 50 0.88
35 4 0.07
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (34 bp):
ATTTTGCTGGGAACATTGGATCAAGTTAGATTTA
Found at i:815992 original size:59 final size:59
Alignment explanation
Indices: 815929--816171 Score: 468
Period size: 59 Copynumber: 4.1 Consensus size: 59
815919 TATAGTTGAA
* *
815929 AGAACTAGGTGGTAAGTCTAGTAGTTAATTCTTTACACAGACACATGTATAGTGTAGAC
1 AGAACTAGGTGGTAAGTCTTGTAGTTTATTCTTTACACAGACACATGTATAGTGTAGAC
815988 AGAACTAGGTGGTAAGTCTTGTAGTTTATTCTTTACACAGACACATGTATAGTGTAGAC
1 AGAACTAGGTGGTAAGTCTTGTAGTTTATTCTTTACACAGACACATGTATAGTGTAGAC
816047 AGAACTAGGTGGTAAGTCTTGTAGTTTATTCTTTACACAGACACATGTATAGTGTAGAC
1 AGAACTAGGTGGTAAGTCTTGTAGTTTATTCTTTACACAGACACATGTATAGTGTAGAC
816106 AGAACTAGGTGGTAAGTCTTGTAGTTTATTCTTTACACAGACACATGTATAGTGTAGAC
1 AGAACTAGGTGGTAAGTCTTGTAGTTTATTCTTTACACAGACACATGTATAGTGTAGAC
816165 AGAACTA
1 AGAACTA
816172 CATGACATAT
Statistics
Matches: 182, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 182 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (59 bp):
AGAACTAGGTGGTAAGTCTTGTAGTTTATTCTTTACACAGACACATGTATAGTGTAGAC
Found at i:817430 original size:53 final size:53
Alignment explanation
Indices: 817308--817659 Score: 501
Period size: 53 Copynumber: 6.5 Consensus size: 53
817298 GCCTGGACCA
817308 ACTGTAGCATGTACTGAGACAGGTCG-TCGTCACTGTAAACAAACAAACAAACAACAG
1 ACTGTAGCATGTACTGAGACAGGTCGCT-GTCACTGT----AAACAAACAAACAACAG
* *
817365 GCTGTAGCATGTACTGAGACAAGTCGCTGTCACTGTAAACAAACAAACAACAG
1 ACTGTAGCATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
*
817418 ACTGTAGTATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
1 ACTGTAGCATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
*
817471 ACTGTAGTATGTACTGAGACAGGTCG-TCGTCACTGTAAACAAACAAACAAACAACAG
1 ACTGTAGCATGTACTGAGACAGGTCGCT-GTCACTGT----AAACAAACAAACAACAG
* * * *
817528 GCTGTAGCATGCACTGAGACAAGTTGCTGTCACTGTAAACAAACAAACAACAG
1 ACTGTAGCATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
*
817581 ACTGTAGTATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
1 ACTGTAGCATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
* *
817634 ACTGTAACATGAACTGAGACAGGTCG
1 ACTGTAGCATGTACTGAGACAGGTCG
817660 TGTTAACAAA
Statistics
Matches: 270, Mismatches: 18, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.00
53 189 0.70
57 78 0.29
58 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (53 bp):
ACTGTAGCATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
Found at i:817515 original size:110 final size:106
Alignment explanation
Indices: 817308--817659 Score: 510
Period size: 110 Copynumber: 3.2 Consensus size: 106
817298 GCCTGGACCA
*
817308 ACTGTAGCATGTACTGAGACAGGTCG-TCGTCACTGTAAACAAACAAACAAACAACAGGCTGTAG
1 ACTGTAGCATGTACTGAGACAGGTCGCT-GTCACTGT----AAACAAACAAACAACAGACTGTAG
* *
817372 CATGTACTGAGACAAGTCGCTGTCACTGTAAACAAACAAACAACAG
61 TATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
*
817418 ACTGTAGTATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGT
1 ACTGTAGCATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGT
817483 ACTGAGACAGGTCG-TCGTCACTGTAAACAAACAAACAAACAACAG
66 ACTGAGACAGGTCGCT-GTCACTGT----AAACAAACAAACAACAG
* * * *
817528 GCTGTAGCATGCACTGAGACAAGTTGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGT
1 ACTGTAGCATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGT
817593 ACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
66 ACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
* *
817634 ACTGTAACATGAACTGAGACAGGTCG
1 ACTGTAGCATGTACTGAGACAGGTCG
817660 TGTTAACAAA
Statistics
Matches: 221, Mismatches: 14, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
105 1 0.00
106 86 0.39
110 132 0.60
111 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (106 bp):
ACTGTAGCATGTACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGT
ACTGAGACAGGTCGCTGTCACTGTAAACAAACAAACAACAG
Found at i:817578 original size:163 final size:163
Alignment explanation
Indices: 817308--817660 Score: 661
Period size: 163 Copynumber: 2.2 Consensus size: 163
817298 GCCTGGACCA
817308 ACTGTAGCATGTACTGAGACAGGTCGTCGTCACTGTAAACAAACAAACAAACAACAGGCTGTAGC
1 ACTGTAGCATGTACTGAGACAGGTCGTCGTCACTGTAAACAAACAAACAAACAACAGGCTGTAGC
*
817373 ATGTACTGAGACAAGTCGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGTACTGAGAC
66 ATGCACTGAGACAAGTCGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGTACTGAGAC
817438 AGGTCGCTGTCACTGTAAACAAACAAACAACAG
131 AGGTCGCTGTCACTGTAAACAAACAAACAACAG
*
817471 ACTGTAGTATGTACTGAGACAGGTCGTCGTCACTGTAAACAAACAAACAAACAACAGGCTGTAGC
1 ACTGTAGCATGTACTGAGACAGGTCGTCGTCACTGTAAACAAACAAACAAACAACAGGCTGTAGC
*
817536 ATGCACTGAGACAAGTTGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGTACTGAGAC
66 ATGCACTGAGACAAGTCGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGTACTGAGAC
817601 AGGTCGCTGTCACTGTAAACAAACAAACAACAG
131 AGGTCGCTGTCACTGTAAACAAACAAACAACAG
* *
817634 ACTGTAACATGAACTGAGACAGGTCGT
1 ACTGTAGCATGTACTGAGACAGGTCGT
817661 GTTAACAAAC
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
163 184 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (163 bp):
ACTGTAGCATGTACTGAGACAGGTCGTCGTCACTGTAAACAAACAAACAAACAACAGGCTGTAGC
ATGCACTGAGACAAGTCGCTGTCACTGTAAACAAACAAACAACAGACTGTAGTATGTACTGAGAC
AGGTCGCTGTCACTGTAAACAAACAAACAACAG
Found at i:818018 original size:67 final size:67
Alignment explanation
Indices: 817827--818102 Score: 319
Period size: 67 Copynumber: 4.2 Consensus size: 67
817817 GATCCTATCT
* * * * * *
817827 AGACGTTTACAGGGTATATTTTGTTCCTATCTAAATGTTTACAGGCAGACCTTACTTGAGTTCCT
1 AGACATTTACAGGGTATACTTTGTTCCTATCTAGACGTTTACAGGCAGACTTTACCTGAGTTCCT
817892 CC
66 CC
* * * * **
817894 AGACATTTACA-GG----CTTTGTTCCTATCTAGCCTTTTACAGCCAGACATTACCCAAGTTCCT
1 AGACATTTACAGGGTATACTTTGTTCCTATCTAGACGTTTACAGGCAGACTTTACCTGAGTTCCT
817954 CC
66 CC
* * * * * *
817956 AGACATTTACAGGGAATAATTTGTTCCTATCTAGGCGTTTAGAGGCATACTTTACCTGAGTTCTT
1 AGACATTTACAGGGTATACTTTGTTCCTATCTAGACGTTTACAGGCAGACTTTACCTGAGTTCCT
**
818021 TT
66 CC
* *
818023 AGAAATTTACAGGGTATACTTTGTTCCTATCTAGACTTTTACAGGCAGACTTTACCTGAGTTCCT
1 AGACATTTACAGGGTATACTTTGTTCCTATCTAGACGTTTACAGGCAGACTTTACCTGAGTTCCT
818088 CC
66 CC
818090 AGACATTTACAGG
1 AGACATTTACAGG
818103 CGAACTCCCT
Statistics
Matches: 170, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
62 50 0.29
63 2 0.01
66 2 0.01
67 116 0.68
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (67 bp):
AGACATTTACAGGGTATACTTTGTTCCTATCTAGACGTTTACAGGCAGACTTTACCTGAGTTCCT
CC
Found at i:819204 original size:165 final size:166
Alignment explanation
Indices: 818703--820014 Score: 1308
Period size: 165 Copynumber: 7.9 Consensus size: 166
818693 AAAGAATCAT
* *
818703 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTAAAAGATTTACTCTATATATTCCTTTGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* * * *
818768 T-TAACCCCCCCCCCCCCCCAATGTGGCCTCACCCTACCCCAAGGGATCATG-TTTTCACAACTT
66 TCGAA----------CCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTT
* * *
818831 TGAATCTACACTACCTGAGGATACTTCAACACAATTTTCAGCTTTC
121 TGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* *
818877 CTGGCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTACAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* * * *
818942 TCG-ACCCCCATTGT-GCCTCACCCTACCCCCGGGGGTCATGAATTTCACAACTTTGAATCTACA
66 TCGAACCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTACA
* *
819005 CTGCCTGAGGATGCTTCCACACACGTTTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
*
819041 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* *
819106 TCGAACCCCCATTGTGGCCCCACCCTA-CCCCTGGGGTCATGATTTTCACAACTTTGAATCTACA
66 TCGAACCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTACA
*
819170 CTGCCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* *
819206 CTGGCTGATTAGTTTCTGAGAAGAAGAATTTTAAAGATTTACTCTATATATTCCTTTGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* *
819271 TCG-ACCCTCCATTGT-GCCCCACCCTACCCCCAGGGATCATGAGTTTCACAACTTTGAATCTGC
66 TCGAACCC-CCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTAC
*
819334 ACTACCTGAGGATGCTTCCACATAAGTTTCAGCTTTC
130 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
*************************************************
819371 CTGGCTGATTAGTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 CTGGCTGATTAGTTT-CTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAAC
********************** ** *
819436 NNNNNNNNNNNNNNNNNNNNNNACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTAC
65 TTCGAACCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTAC
*
819501 ACTATCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
130 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* *
819538 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTTTGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
** * * *
819603 TTAACACCCCCCTAGTGTGGCCTCACCCTACCCCCAGGGATCATGATATTCACAACTTTGAATCT
66 TCGA-A-CCCCC-ATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCT
819668 ACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
128 ACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * *
819707 CTGGCTGTTTAGTTTCTGAGAAGAAGATTTTTGAAGATTTACTCTATATATTCCTATGTACAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* * * *
819772 TCGACCCCCCATTGT-GCCCCACCGTACCCCTAGGGATCATGAATTTCACAACTTTGAATCTACA
66 TCGAACCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTACA
* * *
819836 CTGCCTGAGGATACTTCCACACGAGTTTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* *
819872 CTGGCTGATTTGTTTCTGAGAAGAAGATTTTTAAAGATTTATTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* * *
819937 TCGACCACCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTAC
66 TCGAAC-CCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTAC
*
820002 ACTGCCTGAGGAT
130 ACTACCTGAGGAT
820015 NNNNNNNNNN
Statistics
Matches: 914, Mismatches: 210, Indels: 35
0.79 0.18 0.03
Matches are distributed among these distances:
163 23 0.03
164 141 0.15
165 378 0.41
166 23 0.03
167 149 0.16
169 137 0.15
174 63 0.07
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.31
Consensus pattern (166 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
TCGAACCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTACA
CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
Found at i:821998 original size:8 final size:8
Alignment explanation
Indices: 821987--822032 Score: 74
Period size: 8 Copynumber: 5.8 Consensus size: 8
821977 TGAAAAGTTT
821987 ACGGACAG
1 ACGGACAG
821995 ACGGACAG
1 ACGGACAG
*
822003 ACGGACGG
1 ACGGACAG
*
822011 ACAGACAG
1 ACGGACAG
822019 ACGGACAG
1 ACGGACAG
822027 ACGGAC
1 ACGGAC
822033 GACAGACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.37, C:0.26, G:0.37, T:0.00
Consensus pattern (8 bp):
ACGGACAG
Found at i:822011 original size:12 final size:12
Alignment explanation
Indices: 821994--822039 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
821984 TTTACGGACA
821994 GACGGACAGACG
1 GACGGACAGACG
*
822006 GACGGACAGACA
1 GACGGACAGACG
822018 GACGGACAGACG
1 GACGGACAGACG
822030 GAC-GACAGAC
1 GACGGACAGAC
822040 AAAATGTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 7 0.22
12 25 0.78
ACGTcount: A:0.37, C:0.26, G:0.37, T:0.00
Consensus pattern (12 bp):
GACGGACAGACG
Found at i:822040 original size:4 final size:4
Alignment explanation
Indices: 821990--822040 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
821980 AAAGTTTACG
* * * * *
821990 GACA GACG GACA GACG GACG GACA GACA GACG GACA GACG GAC- GACA
1 GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA
822037 GACA
1 GACA
822041 AAATGTGATC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.39, C:0.25, G:0.35, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:823054 original size:17 final size:17
Alignment explanation
Indices: 823032--823097 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 17
823022 GGTGAACAAC
823032 ACAACAACAGAAGGTAAACA
1 ACAACAACAGAAGGT--A-A
823052 ACAACAACAGCAAAAGGTAA
1 ACAACAACAG---AAGGTAA
* *
823072 ACAACAACAGAGGGTCA
1 ACAACAACAGAAGGTAA
823089 ACAACAACA
1 ACAACAACA
823098 AACAGAAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
17 14 0.34
20 21 0.51
21 1 0.02
23 5 0.12
ACGTcount: A:0.58, C:0.23, G:0.15, T:0.05
Consensus pattern (17 bp):
ACAACAACAGAAGGTAA
Found at i:823078 original size:23 final size:22
Alignment explanation
Indices: 823006--823080 Score: 100
Period size: 23 Copynumber: 3.4 Consensus size: 22
822996 ACCGTACCTG
*
823006 ACAACAACAA-ACAGAAGGTGA
1 ACAACAACAACACAGAAGGTAA
823027 ACAAC-ACAACAACAGAAGGTAA
1 ACAACAACAAC-ACAGAAGGTAA
*
823049 ACAACAACAACAGCAAAAGGTAA
1 ACAACAACAACA-CAGAAGGTAA
823072 ACAACAACA
1 ACAACAACA
823081 GAGGGTCAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.08
21 5 0.10
22 16 0.33
23 23 0.48
ACGTcount: A:0.60, C:0.23, G:0.13, T:0.04
Consensus pattern (22 bp):
ACAACAACAACACAGAAGGTAA
Found at i:824782 original size:48 final size:48
Alignment explanation
Indices: 824664--824772 Score: 209
Period size: 48 Copynumber: 2.3 Consensus size: 48
824654 ATATAAACTT
*
824664 ATATCTTACAATTGTCATTGCCAGCATCAACGTTTCTTAAACAGAACA
1 ATATTTTACAATTGTCATTGCCAGCATCAACGTTTCTTAAACAGAACA
824712 ATATTTTACAATTGTCATTGCCAGCATCAACGTTTCTTAAACAGAACA
1 ATATTTTACAATTGTCATTGCCAGCATCAACGTTTCTTAAACAGAACA
824760 ATATTTTACAATT
1 ATATTTTACAATT
824773 TTGTTTGCCA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (48 bp):
ATATTTTACAATTGTCATTGCCAGCATCAACGTTTCTTAAACAGAACA
Done.