Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000418.1 Hibiscus syriacus cultivar Beakdansim tig00000765_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 909013
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:287657 original size:58 final size:62
Alignment explanation
Indices: 287589--287723 Score: 215
Period size: 63 Copynumber: 2.2 Consensus size: 62
287579 TGATTTTAAT
*
287589 TTTAATTTTA-ATT-TTTTTAAATAAATTAAATATTAA-TTTTTAATATTATATTATAGATA
1 TTTAATTTTATATTATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTAGAGATA
287648 -TTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTAGAGATA
1 TTTAATTTT-ATATT-ATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTAGAGATA
287711 TTTAATTTTATAT
1 TTTAATTTTATAT
287724 CGTATAAATT
Statistics
Matches: 69, Mismatches: 1, Indels: 8
0.88 0.01 0.10
Matches are distributed among these distances:
58 8 0.12
59 1 0.01
60 3 0.04
62 23 0.33
63 26 0.38
64 8 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (62 bp):
TTTAATTTTATATTATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTAGAGATA
Found at i:287663 original size:39 final size:36
Alignment explanation
Indices: 287617--287699 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 36
287607 AAATAAATTA
*
287617 AATATTAATTTTTAATATTATATTATAGATATTAA-TTTT
1 AATATTAATTTTTAA-A-TAAATTA-A-ATATTAATTTTT
287656 AATATTAATTTTTAAATAAATTAAATATTAATTTTTT
1 AATATTAATTTTTAAATAAATTAAATATTAA-TTTTT
287693 AATATTA
1 AATATTA
287700 TATTAGAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
35 7 0.17
36 1 0.02
37 17 0.41
38 1 0.02
39 15 0.37
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (36 bp):
AATATTAATTTTTAAATAAATTAAATATTAATTTTT
Found at i:287673 original size:62 final size:63
Alignment explanation
Indices: 287561--287720 Score: 231
Period size: 62 Copynumber: 2.6 Consensus size: 63
287551 GGTTTTATAT
* *
287561 TTAA-TTTT-ATATTATATT-T-GATTTTAATTTTAATTTTAATTTTTTTAAATAAATTAAATA
1 TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTAA-TTTTTTAAATAAATTAAATA
287621 TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTAA-TTTTTAAATAAATTAAATA
1 TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
*
287683 TTAATTTTTTAATATTATATTAGAGATATTTAATTTTA
1 TTAA-TTTTTAATATTATATTATAGATA-TTAATTTTA
287721 TATCGTATAA
Statistics
Matches: 91, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
60 4 0.04
61 4 0.04
62 33 0.36
63 23 0.25
64 27 0.30
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (63 bp):
TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
Found at i:288276 original size:31 final size:31
Alignment explanation
Indices: 288239--288298 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
288229 TAGTTGTATG
* *
288239 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
288270 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
288299 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:293074 original size:22 final size:22
Alignment explanation
Indices: 293049--293105 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
293039 TGTATATAGT
293049 TTTAATTATACTTTTTTATTTA
1 TTTAATTATACTTTTTTATTTA
* *
293071 TTTACTATATTCCTTTTTTATTTA
1 TTTAAT-TA-TACTTTTTTATTTA
293095 TATTATATTAT
1 T-TTA-ATTAT
293106 TTATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 5 0.18
23 2 0.07
24 15 0.54
25 5 0.18
26 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTAATTATACTTTTTTATTTA
Found at i:293114 original size:2 final size:2
Alignment explanation
Indices: 293093--293176 Score: 136
Period size: 2 Copynumber: 43.0 Consensus size: 2
293083 CTTTTTTATT
*
293093 TA TA T- TA TA T- TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
293133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
293175 TA
1 TA
293177 GATGTATTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
1 2 0.03
2 74 0.97
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:293316 original size:48 final size:50
Alignment explanation
Indices: 293238--293334 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 50
293228 TTTATACGTT
* *
293238 TATATATATATATTTTCTTAATATTCTATTTT-TGTTTTTAT-TTATTTA
1 TATATATATATATTATATTAATATTCTATTTTATGTTTTTATATTATTTA
** *
293286 TATATATATATATTATATTTTTACTT-TATTTTATTTTTTTATATTATTT
1 TATATATATATATTATATTAATA-TTCTATTTTATGTTTTTATATTATTT
293335 TTTTCTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 25 0.61
49 10 0.24
50 6 0.15
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (50 bp):
TATATATATATATTATATTAATATTCTATTTTATGTTTTTATATTATTTA
Found at i:293324 original size:18 final size:18
Alignment explanation
Indices: 293288--293335 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
293278 TTTATTTATA
*
293288 TATATATATATTATATTTT
1 TATAT-TATTTTATATTTT
*
293307 TACT-TTATTTTATTTTTT
1 TA-TATTATTTTATATTTT
293325 TATATTATTTT
1 TATATTATTTT
293336 TTTCTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 1 0.04
18 20 0.80
19 3 0.12
20 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TATATTATTTTATATTTT
Found at i:293348 original size:17 final size:18
Alignment explanation
Indices: 293311--293349 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
293301 TATTTTTACT
* *
293311 TTATTTTATTTTTTTATA
1 TTATTTTATTTCTTAATA
293329 TTATTTT-TTTCTTAATA
1 TTATTTTATTTCTTAATA
293346 TTAT
1 TTAT
293350 GTATATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTTTATTTCTTAATA
Found at i:293369 original size:36 final size:36
Alignment explanation
Indices: 293329--293412 Score: 102
Period size: 36 Copynumber: 2.3 Consensus size: 36
293319 TTTTTTTATA
293329 TTATTT-TTTT-CTTAATATTATGTATATCT-TTATTTT
1 TTATTTGTTTTACTTAATATTA--TATATCTATTA-TTT
* *
293365 TTATTTGTTTTACTTAGTATTATATATTTATTATTT
1 TTATTTGTTTTACTTAATATTATATATCTATTATTT
293401 TTATTTGTTTTA
1 TTATTTGTTTTA
293413 GTAAATACTA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 27 0.63
37 7 0.16
38 9 0.21
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.69
Consensus pattern (36 bp):
TTATTTGTTTTACTTAATATTATATATCTATTATTT
Found at i:293478 original size:18 final size:17
Alignment explanation
Indices: 293451--293484 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
293441 TTTTTATTCC
293451 TTTTTAATTTCTTTTACA
1 TTTTTAATTT-TTTTACA
*
293469 TTTTTTATTTTTTTAC
1 TTTTTAATTTTTTTAC
293485 TCCATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTAATTTTTTTACA
Found at i:293482 original size:17 final size:17
Alignment explanation
Indices: 293438--293484 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
293428 TATGTACACA
*
293438 TTATTTTTATT-CCTTTT
1 TTATTTTT-TTACATTTT
*
293455 TAATTTCTTTTACATTTT
1 TTATTT-TTTTACATTTT
293473 TTATTTTTTTAC
1 TTATTTTTTTAC
293485 TCCATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACATTTT
Found at i:293536 original size:10 final size:10
Alignment explanation
Indices: 293521--293566 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
293511 GTCTTTGTTT
*
293521 TTTTTTAATA
1 TTTTTTATTA
293531 TTTTTTATTCA
1 TTTTTTATT-A
*
293542 TTTTGT-TTA
1 TTTTTTATTA
293551 -TTTTTATTA
1 TTTTTTATTA
293560 TTTTTTA
1 TTTTTTA
293567 CGTGTTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
10 16 0.53
11 6 0.20
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:296550 original size:17 final size:17
Alignment explanation
Indices: 296528--296570 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
296518 AATCAAGAAC
*
296528 AAAAAAGAAA-AGAAGTA
1 AAAAAAGAAACAAAAG-A
296545 AAAAAA-AAACAAAAGA
1 AAAAAAGAAACAAAAGA
296561 AAAAAAGAAA
1 AAAAAAGAAA
296571 TAACAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAACAAAAGA
Found at i:296575 original size:20 final size:19
Alignment explanation
Indices: 296544--296592 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
296534 GAAAAGAAGT
296544 AAAAA-AAAAAC-AAAAGAA
1 AAAAAGAAAAACAAAAAG-A
296562 AAAAAGAAATAACAAAAAGA
1 AAAAAGAAA-AACAAAAAGA
296582 AAAAAGAAAAA
1 AAAAAGAAAAA
296593 GGTACAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.18
19 5 0.18
20 13 0.46
21 5 0.18
ACGTcount: A:0.86, C:0.04, G:0.08, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAACAAAAAGA
Found at i:296578 original size:13 final size:13
Alignment explanation
Indices: 296544--296593 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
296534 GAAAAGAAGT
*
296544 AAAAA-AAAAACA
1 AAAAACAAAAAGA
296556 AAAGAA-AAAAAGA
1 AAA-AACAAAAAGA
*
296569 AATAACAAAAAGA
1 AAAAACAAAAAGA
*
296582 AAAAAGAAAAAG
1 AAAAACAAAAAG
296594 GTACAAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 5 0.16
13 27 0.84
ACGTcount: A:0.84, C:0.04, G:0.10, T:0.02
Consensus pattern (13 bp):
AAAAACAAAAAGA
Found at i:296578 original size:25 final size:25
Alignment explanation
Indices: 296530--296592 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
296520 TCAAGAACAA
*
296530 AAAAGAAAAGAAGTAAAAAAAAAAC
1 AAAAGAAAAAAAGTAAAAAAAAAAC
* *
296555 AAAAGAAAAAAAGAAATAACAAAAAGAA
1 AAAAGAAAAAAAGTAA-AA-AAAAA-AC
296583 AAAAGAAAAA
1 AAAAGAAAAA
296593 GGTACAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.44
26 2 0.06
27 5 0.16
28 11 0.34
ACGTcount: A:0.83, C:0.03, G:0.11, T:0.03
Consensus pattern (25 bp):
AAAAGAAAAAAAGTAAAAAAAAAAC
Found at i:296578 original size:28 final size:29
Alignment explanation
Indices: 296522--296592 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
296512 AGATCCAATC
* *
296522 AAGAACAAAA-AAGAAAAGAAGTAAAAAA
1 AAGAACAAAAGAAAAAAAGAAATAAAAAA
*
296550 AA-AACAAAAGAAAAAAAGAAATAACAAA
1 AAGAACAAAAGAAAAAAAGAAATAAAAAA
296578 AAGAA-AAAAGAAAAA
1 AAGAACAAAAGAAAAA
296593 GGTACAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 7 0.18
28 29 0.76
29 2 0.05
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.03
Consensus pattern (29 bp):
AAGAACAAAAGAAAAAAAGAAATAAAAAA
Found at i:298055 original size:37 final size:38
Alignment explanation
Indices: 298008--298082 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
297998 GAAGATTTTA
* * *
298008 TCTCGCTTGAGATAGTTTCCCTTAAAACA-AAATATTG
1 TCTCCCTTGAGACAGTTTCCCTTAAAACATAAACATTG
* *
298045 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
1 TCTCCCTTGAGACAGTTTCCCTTAAAACATAAACATTG
298083 AAAACATTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 25 0.78
38 7 0.22
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (38 bp):
TCTCCCTTGAGACAGTTTCCCTTAAAACATAAACATTG
Found at i:298148 original size:37 final size:37
Alignment explanation
Indices: 298089--298175 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
298079 ATTGAAAACA
* * *
298089 TTTCCCTTGAAAC-GAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
298125 TTTCCCTTGTAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
298162 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
298176 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.27
37 32 0.73
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:298178 original size:102 final size:102
Alignment explanation
Indices: 298002--298378 Score: 479
Period size: 102 Copynumber: 3.7 Consensus size: 102
297992 TAAAAAGAAG
* * * * *
298002 ATTTTATCTCGCTTGAGATAGTTTCCCTTAAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
298067 TGAAACATAAACATTGAAAACATTTCCCTTGAAACGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
* *
298104 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGTAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
298169 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
* * *
298206 ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* * ** ***
298270 TGAAACA-AAATATTTGAATATGTTTTATTTGAAACAA
66 TGAAACATAAACA-TTGAAAACATTTCCCTTGAAACAA
* * * ** * * * *
298307 ATTTTGTCTCCCTTAAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
298372 TGAAACA
66 TGAAACA
298379 AATTTCGTCT
Statistics
Matches: 246, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
100 4 0.02
101 81 0.33
102 161 0.65
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
Found at i:298244 original size:36 final size:36
Alignment explanation
Indices: 298191--298416 Score: 227
Period size: 36 Copynumber: 6.4 Consensus size: 36
298181 ATTGAAAACA
* *
298191 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
298227 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
298263 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
* * * *
298292 TTT-TATTTGAAACAAATTTTGTCTCCCTTAAGACAA
1 TTTCT-CTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
298328 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
298365 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
298401 TTTCCCTTGAAACAAA
1 TTTCTCTTGAAACAAA
298417 ATCTTTGAAT
Statistics
Matches: 154, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.01
29 18 0.12
30 2 0.01
35 1 0.01
36 98 0.64
37 33 0.21
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:298302 original size:65 final size:64
Alignment explanation
Indices: 298226--298531 Score: 218
Period size: 65 Copynumber: 4.5 Consensus size: 64
298216 TCTTGAGACA
* *
298226 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 GTTT-TCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
* * * ** * **
298291 GTTTTATTTGAAACAAATTTTGTCTCCCTTAAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTT-CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AA------AATCT-
*
298356 TTGAGACA-
57 TTGA-ATAT
* * *
298364 GTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 GTTT-TCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
* * * * * * *
298429 ATTTCCCCTAAAACAAATTTTGTCTCCCTTTAGACAGTTTCTCTTGAAACACAAAATCTTTAAAT
1 GTTT-TCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAAT
*
298494 TT
63 AT
* * * *
298496 ATTTCCCTTAAAACAAAATTTTGTTTCCCTTGAGAC
1 GTTT-TCTTGAAAC-AAATTTTGTCTCCCTTGAGAC
298532 CATTTTCATG
Statistics
Matches: 191, Mismatches: 35, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
64 2 0.01
65 83 0.43
66 7 0.04
67 29 0.15
68 19 0.10
72 4 0.02
73 44 0.23
74 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (64 bp):
GTTTTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
Found at i:298349 original size:138 final size:138
Alignment explanation
Indices: 298207--298470 Score: 429
Period size: 138 Copynumber: 1.9 Consensus size: 138
298197 TTGAAATAAA
*
298207 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
* * ** *
298272 AAACAAAATATTTGAATATGTTTTATTTGAAACAAATTTTGTCTCCCTTAAGACAATTTCTTTTG
66 AAACAAAATATTTGAATATATTTCACCTAAAACAAATTTTGTCTCCCTTAAGACAATTTCTTTTG
298337 GAACTAAG
131 GAACTAAG
298345 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
* * * * *
298410 AAACAAAATCTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTTAGACAGTTTCT
66 AAACAAAATATTTGAATATATTTCACCTAAAACAAATTTTGTCTCCCTTAAGACAATTTCT
298471 CTTGAAACAC
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 115 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (138 bp):
TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
AAACAAAATATTTGAATATATTTCACCTAAAACAAATTTTGTCTCCCTTAAGACAATTTCTTTTG
GAACTAAG
Found at i:298544 original size:67 final size:67
Alignment explanation
Indices: 298374--298546 Score: 219
Period size: 67 Copynumber: 2.6 Consensus size: 67
298364 GTTTCTCTTG
* * * * *
298374 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACAAAATCTTTAAATTTATTTCCCC
298437 TA
66 TA
* * *
298439 AAACAAATTTTGTCTCCCTTTAGACAGTTTCTCTTGAAACACAAAATCTTTAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACAAAATCTTTAAATTTATTTCCCC
298504 TA
66 TA
*
298506 AAACAAAATTTTGTTTCCCTTGAGACCA-TTT-TCATGAAACA
1 AAAC-AAATTTTGTCTCCCTTGAGA-CAGTTTCTCATGAAACA
298547 ACAGATATCT
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
65 32 0.34
66 2 0.02
67 38 0.40
68 21 0.22
69 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACAAAATCTTTAAATTTATTTCCCC
TA
Found at i:299270 original size:106 final size:106
Alignment explanation
Indices: 299147--299528 Score: 476
Period size: 106 Copynumber: 3.6 Consensus size: 106
299137 ATATCGTGCC
* * ** *
299147 ACTCGAGACAACACAAGTTCAACTTCACAACGAAAGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAACTTCCC
* *
299212 AGTTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * **
299253 ATTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGTTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAACTTCCC
299318 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * **
299359 ACTCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCTT
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAACTTCCC
* * * * ** *
299424 AATTTTAGGGTCAATTTCAATTTCACAATGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * ** * *
299465 ACTCGAGATAGCACAAGCTCAACTTCACAGTGAAGGGGCGGCTGACTGTCAACAAACAATTTCC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAACTTCC
299529 ATAGCTAATT
Statistics
Matches: 245, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 245 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:300948 original size:9 final size:9
Alignment explanation
Indices: 300936--300982 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
300926 TATTCCTTTT
*
300936 TTATTTATA
1 TTATATATA
*
300945 TTATATTTA
1 TTATATATA
300954 TTATATATA
1 TTATATATA
*
300963 TCATATATCA
1 TTATATAT-A
300973 TTATATATA
1 TTATATATA
300982 T
1 T
300983 AGATGTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATATATA
Found at i:301179 original size:38 final size:36
Alignment explanation
Indices: 301128--301199 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 36
301118 TATTTTTTTT
301128 CTTAATATCATATATATCT-TTATTTTTTATTTGTTTCA
1 CTTAATATCATATAT-T-TATTA-TTTTTATTTGTTTCA
* *
301166 CTTAGTATTATATATTTATTATTTTTATTTGTTT
1 CTTAATATCATATATTTATTATTTTTATTTGTTT
301200 TAGTAAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 14 0.45
37 4 0.13
38 13 0.42
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.64
Consensus pattern (36 bp):
CTTAATATCATATATTTATTATTTTTATTTGTTTCA
Found at i:301261 original size:18 final size:17
Alignment explanation
Indices: 301229--301273 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
301219 TGTACACGTT
301229 ATTTTTATT-CCTTTTTA
1 ATTTTT-TTACCTTTTTA
*
301246 ATTTCTTTTACCTTTTTT
1 ATTT-TTTTACCTTTTTA
301264 ATTTTTTTAC
1 ATTTTTTTAC
301274 TCCATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTTACCTTTTTA
Found at i:301271 original size:17 final size:17
Alignment explanation
Indices: 301227--301273 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
301217 TATGTACACG
301227 TTATTTTTATT-CCTTTT
1 TTATTTTT-TTACCTTTT
*
301244 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACCTTTT
301262 TTATTTTTTTAC
1 TTATTTTTTTAC
301274 TCCATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACCTTTT
Found at i:306825 original size:27 final size:30
Alignment explanation
Indices: 306795--306854 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
306785 TTCCAAAATG
306795 ATATT-TA-ATAATAATATTTTTAA-TTAA
1 ATATTATATATAATAATATTTTTAATTTAA
*
306822 ATATTAATATATAATATTATTTTTAATTTAA
1 ATATT-ATATATAATAATATTTTTAATTTAA
306853 AT
1 AT
306855 TATAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 5 0.18
29 2 0.07
30 15 0.54
31 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
ATATTATATATAATAATATTTTTAATTTAA
Found at i:308457 original size:49 final size:49
Alignment explanation
Indices: 308404--309030 Score: 445
Period size: 49 Copynumber: 12.6 Consensus size: 49
308394 ATTTATCTAC
* * * *
308404 ACTTGGTTGATTTTCTTCCTCGTATCTTCATGAAGGTCAAATTTGAAAA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCATGAAGGTCAAATTTAAAAA
* *
308453 ACTTGGTTGATCTACTTTCTCATCTCTT-AGTGAAGGTCAAATCTTAAAAAA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCA-TGAAGGTCAAAT-TT-AAAAA
* * * *
308504 ATTTGGTTGATCTGCTTTCTCATCTCTT-AGTGAAGGTCAAATCTTAAAAAAA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCA-TGAAGGTCAAAT-TT--AAAAA
* * * * ** *
308556 ACTTGGATGATCTACTTTCACATCTCTTTGTGAAGGTCAAATCTAAAAA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCATGAAGGTCAAATTTAAAAA
** * * *
308605 ACTTATTTGATTTACTTCTTCATCTCTTCGTGAAGGTCAAATATGAAACATA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCATGAAGGTCAAAT-TTAAA-A-A
* ** *
308657 ACTTAGTTGATTTACTTCCTCATCAT-TTCATGAAGGTTGAATCTAAAAA
1 ACTTGGTTGATTTACTTCCTCATC-TCTTCATGAAGGTCAAATTTAAAAA
* * * * ** *
308706 AATTGGTTGATTTGCTTCCTCTTCTCTTCGTGAAGAACAAATCTAAAAA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCATGAAGGTCAAATTTAAAAA
* * * * *
308755 AGTTGGTTGATCTACTTTCTCATCTCTTCGTGAATGTCAAATCTTAAAAAAA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCATGAAGGTCAAAT-TT--AAAAA
* ** ** * * *
308807 ATTTGGTTGATTTGTTTCCTCATCTCTTTTTAAATGTCAAATATAAAAA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCATGAAGGTCAAATTTAAAAA
* ** * *
308856 ACTTGTTTGATTTACTTCCTCATCTCTTTGTGAAGGTCAAATATGAAAA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCATGAAGGTCAAATTTAAAAA
* * * * *
308905 AGTTGATTGATTTTCCTT-CTCATCTTTTCACGAAGGTCAAATTTAAAAAA
1 ACTTGGTTGA-TTTACTTCCTCATCTCTTCATGAAGGTCAAATTT-AAAAA
** * ** * ** * * *
308955 AAATGGTTGATATGTTTCATCATCTCTTTGTGAAGATCAAATCT-ATAA
1 ACTTGGTTGATTTACTTCCTCATCTCTTCATGAAGGTCAAATTTAAAAA
* * *
309003 ATTTCGTTGATTTACTTCCTCGTCTCTT
1 ACTTGGTTGATTTACTTCCTCATCTCTT
309031 TTTGAAAGCC
Statistics
Matches: 465, Mismatches: 97, Indels: 33
0.78 0.16 0.06
Matches are distributed among these distances:
48 25 0.05
49 226 0.49
50 43 0.09
51 53 0.11
52 117 0.25
53 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (49 bp):
ACTTGGTTGATTTACTTCCTCATCTCTTCATGAAGGTCAAATTTAAAAA
Found at i:308673 original size:101 final size:97
Alignment explanation
Indices: 308410--309030 Score: 505
Period size: 101 Copynumber: 6.2 Consensus size: 97
308400 CTACACTTGG
* * * * * *
308410 TTGATTTTCTTCCTCGTATCTTCATGAAGGTCAAATTTGAAAAACTTGGTTGATCTACTTTCTCA
1 TTGATTTGCTTCCTCATCTCTTCGTGAAGGTCAAATATAAAAAACTTGGTTGATCTACTTTCTCA
*
308475 TCTCTTAGTGAAGGTCAAATCTTAAAAAAATTT
66 TCTCTTTGTGAAGGTCAAATC-TAAAAAAATTT
* * * * *
308508 GGTTGATCTGCTTTCTCATCTCTTAGTGAAGGTCAAATCTTAAAAAAAACTTGGATGATCTACTT
1 --TTGATTTGCTTCCTCATCTCTTCGTGAAGGTCAAA---TATAAAAAACTTGGTTGATCTACTT
* *
308573 TCACATCTCTTTGTGAAGGTCAAATCTAAAAAACTTAT
61 TCTCATCTCTTTGTGAAGGTCAAATCTAAAAAAATT-T
* * * * *
308611 TTGATTTACTTCTTCATCTCTTCGTGAAGGTCAAATATGAAACATAACTTAGTTGATTTACTTCC
1 TTGATTTGCTTCCTCATCTCTTCGTGAAGGTCAAATAT-AAA-A-AACTTGGTTGATCTACTTTC
** ** *
308676 TCATCAT-TTCATGAAGGTTGAATCTAAAAAAATTGG
63 TCATC-TCTTTGTGAAGGTCAAATCTAAAAAAATT-T
* ** * *
308712 TTGATTTGCTTCCTCTTCTCTTCGTGAAGAACAAATCTAAAAAAGTTGGTTGATCTACTTTCTCA
1 TTGATTTGCTTCCTCATCTCTTCGTGAAGGTCAAATATAAAAAACTTGGTTGATCTACTTTCTCA
* *
308777 TCTCTTCGTGAATGTCAAATCTTAAAAAAAATTT
66 TCTCTTTGTGAAGGTCAAATC-T-AAAAAAATTT
* ** * * * * *
308811 GGTTGATTTGTTTCCTCATCTCTTTTTAAATGTCAAATATAAAAAACTTGTTTGATTTACTTCCT
1 --TTGATTTGCTTCCTCATCTCTTCGTGAAGGTCAAATATAAAAAACTTGGTTGATCTACTTTCT
* * * *
308876 CATCTCTTTGTGAAGGTCAAATATGAAAAAGTTGA
64 CATCTCTTTGTGAAGGTCAAATCTAAAAAAATT-T
* * ** * ** * *
308911 TTGATTTTCCTT-CTCATCTTTTCACGAAGGTCAAATTTAAAAAAAAATGGTTGATAT-GTTTCA
1 TTGA-TTTGCTTCCTCATCTCTTCGTGAAGGTCAAATAT-AAAAAACTTGGTTGATCTACTTTC-
* *
308974 TCATCTCTTTGTGAAGATCAAATCT--ATAAATTT
63 TCATCTCTTTGTGAAGGTCAAATCTAAAAAAATTT
* *
309007 CGTTGATTTACTTCCTCGTCTCTT
1 --TTGATTTGCTTCCTCATCTCTT
309031 TTTGAAAGCC
Statistics
Matches: 412, Mismatches: 89, Indels: 42
0.76 0.16 0.08
Matches are distributed among these distances:
97 12 0.03
98 74 0.18
99 54 0.13
100 42 0.10
101 174 0.42
102 10 0.02
103 46 0.11
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (97 bp):
TTGATTTGCTTCCTCATCTCTTCGTGAAGGTCAAATATAAAAAACTTGGTTGATCTACTTTCTCA
TCTCTTTGTGAAGGTCAAATCTAAAAAAATTT
Found at i:308816 original size:150 final size:149
Alignment explanation
Indices: 308406--309048 Score: 587
Period size: 150 Copynumber: 4.3 Consensus size: 149
308396 TTATCTACAC
* * * * * *
308406 TTGGTTGATTTTCTTCCTCGTATCTTCATGAAGGTCAAATTTGAAAAACTTGGTTGATCTACTTT
1 TTGGTTGATTTACTTCCTCATCTCTTCGTGAAGGTCAAATCTAAAAAACTTGGTTGATCTACTTT
* * *
308471 CTCATCTCTTAGTGAAGGTCAAATCTT-AAAAAAATTTGGTTGATCTGCTTTCTCATCTCTTAGT
66 CTCATCTCTTCGTGAAGGTCAAATCTTAAAAAAAATTTGGTTGATTTGCTTCCTCATCTCTTA-T
308535 GAAGGTCAAATCTTAAAAAAAA
130 GAAGGTCAAATC-T-AAAAAAA
* * * * * ** *
308557 CTTGGATGATCTACTTTCACATCTCTTTGTGAAGGTCAAATCTAAAAAACTTATTTGATTTAC-T
1 -TTGGTTGATTTACTTCCTCATCTCTTCGTGAAGGTCAAATCTAAAAAACTTGGTTGATCTACTT
* * * * * * *
308621 TCTTCATCTCTTCGTGAAGGTCAAATATGAAACATAACTTAGTTGATTTACTTCCTCATCAT-TT
65 TC-TCATCTCTTCGTGAAGGTCAAATCTTAAAAAAAATTTGGTTGATTTGCTTCCTCATC-TCTT
**
308685 CATGAAGGTTGAATCTAAAAAAA
128 -ATGAAGGTCAAATCTAAAAAAA
* * ** *
308708 TTGGTTGATTTGCTTCCTCTTCTCTTCGTGAAGAACAAATCTAAAAAAGTTGGTTGATCTACTTT
1 TTGGTTGATTTACTTCCTCATCTCTTCGTGAAGGTCAAATCTAAAAAACTTGGTTGATCTACTTT
* * *
308773 CTCATCTCTTCGTGAATGTCAAATCTTAAAAAAAATTTGGTTGATTTGTTTCCTCATCTCTTTTT
66 CTCATCTCTTCGTGAAGGTCAAATCTTAAAAAAAATTTGGTTGATTTGCTTCCTCATCTC-TTAT
* * * *
308838 AAATGTCAAATATAAAAAAC
130 GAAGGTCAAATCTAAAAAAA
* * * * * * * * *
308858 TTGTTTGATTTACTTCCTCATCTCTTTGTGAAGGTCAAATATGAAAAAGTTGATTGATTTTCCTT
1 TTGGTTGATTTACTTCCTCATCTCTTCGTGAAGGTCAAATCTAAAAAACTTGGTTGATCTACTTT
* ** * * * * *
308923 CTCATCTTTTCACGAAGGTCAAAT-TTAAAAAAAA-ATGGTTGATATGTTTCATCATCTCTTTGT
66 CTCATCTCTTCGTGAAGGTCAAATCTTAAAAAAAATTTGGTTGATTTGCTTCCTCATCTC-TTAT
* * *
308986 GAAGATCAAATCT-ATAAAT
130 GAAGGTCAAATCTAAAAAAA
* * ** * *
309005 TTCGTTGATTTACTTCCTCGTCTCTTTTTGAAAGCCAAATCTAA
1 TTGGTTGATTTACTTCCTCATCTCTTCGTGAAGGTCAAATCTAA
309049 TTTTTTGTTT
Statistics
Matches: 395, Mismatches: 89, Indels: 19
0.79 0.18 0.04
Matches are distributed among these distances:
147 40 0.10
148 34 0.09
149 11 0.03
150 185 0.47
151 15 0.04
152 72 0.18
153 36 0.09
154 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (149 bp):
TTGGTTGATTTACTTCCTCATCTCTTCGTGAAGGTCAAATCTAAAAAACTTGGTTGATCTACTTT
CTCATCTCTTCGTGAAGGTCAAATCTTAAAAAAAATTTGGTTGATTTGCTTCCTCATCTCTTATG
AAGGTCAAATCTAAAAAAA
Found at i:315577 original size:43 final size:43
Alignment explanation
Indices: 315504--315782 Score: 172
Period size: 42 Copynumber: 6.5 Consensus size: 43
315494 TTAAGAACCC
* * *
315504 CAATTATAAATGTAAAAAATGATATT-AAAAAAATAGGGGCAT
1 CAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATAGGGGCAT
* * * *
315546 CAATTTTAAAGGTAAAAAGTGAGATTGAAAAAATTAGAGGCAA
1 CAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATAGGGGCAT
* * * * * * *
315589 AAATTAT-ATGAGTAAAAA-TGTGATTGAGAAAATTAGGGACCT
1 CAATTATAAAG-GTAAAAAGTGAGATTGAAAAAAATAGGGGCAT
* * * * *
315631 CAATTATAAAGGTAAACAGTGAGATTGAAAAAAAAAATGAGCTT
1 CAATTATAAAGGTAAAAAGTGAGATTG-AAAAAAATAGGGGCAT
* * * ** **
315675 C-ATTATAAAGGTACAAGGTG-GAATTGATAAACTTAGGATCAT
1 CAATTATAAAGGTAAAAAGTGAG-ATTGAAAAAAATAGGGGCAT
* * * * *
315717 CAATTATAAATGTAAAAAAATGGGATTGAAAAAAAATTAAGGGCCT
1 CAATTATAAAGGT-AAAAAGTGAGATTG-AAAAAAA-TAGGGGCAT
* *
315763 CTATTATAAAGATAAAAAGT
1 CAATTATAAAGGTAAAAAGT
315783 ATGATTACAA
Statistics
Matches: 174, Mismatches: 52, Indels: 19
0.71 0.21 0.08
Matches are distributed among these distances:
42 65 0.37
43 64 0.37
44 19 0.11
45 11 0.06
46 15 0.09
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (43 bp):
CAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATAGGGGCAT
Found at i:315646 original size:42 final size:42
Alignment explanation
Indices: 315504--315814 Score: 136
Period size: 43 Copynumber: 7.2 Consensus size: 42
315494 TTAAGAACCC
* * *
315504 CAATTATAAATGTAAAAAATGAT-ATT-AAAAAAATAGGGGCAT
1 CAATTATAAAGGT-AAAAATG-TGATTGAAAAAATTAGGGACAT
* * *
315546 CAATTTTAAAGGTAAAAAGTGAGATTGAAAAAATTAGAGG-CAA
1 CAATTATAAAGGTAAAAA-TGTGATTGAAAAAATTAG-GGACAT
* * * *
315589 AAATTAT-ATGAGTAAAAATGTGATTGAGAAAATTAGGGACCT
1 CAATTATAAAG-GTAAAAATGTGATTGAAAAAATTAGGGACAT
* * ** ** *
315631 CAATTATAAAGGTAAACAGTGAGATTGAAAAAAAAAATGAGCTT
1 CAATTATAAAGGTAAA-AATGTGATTGAAAAAATTAGGGA-CAT
* * * *
315675 C-ATTATAAAGGT-ACAAGGTGGAATTGATAAACTTA-GGATCAT
1 CAATTATAAAGGTAAAAATGT-G-ATTGAAAAAATTAGGGA-CAT
* * *
315717 CAATTATAAATGTAAAAAAATGGGATTGAAAAAAAATTAAGGG-CCT
1 CAATTATAAAGGT--AAAAATGTGATTG--AAAAAATT-AGGGACAT
* * * * * *
315763 CTATTATAAAGATAAAAAGTATGATT-ACAAAAATTAAGAACCT
1 CAATTATAAAGGTAAAAA-TGTGATTGA-AAAAATTAGGGACAT
315806 CAATTATAA
1 CAATTATAA
315815 GGATACAAAA
Statistics
Matches: 199, Mismatches: 48, Indels: 43
0.69 0.17 0.15
Matches are distributed among these distances:
41 9 0.05
42 56 0.28
43 89 0.45
44 14 0.07
45 6 0.03
46 22 0.11
47 1 0.01
48 2 0.01
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (42 bp):
CAATTATAAAGGTAAAAATGTGATTGAAAAAATTAGGGACAT
Found at i:319736 original size:31 final size:31
Alignment explanation
Indices: 319701--319763 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
319691 AATTCGGTGA
*
319701 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCATTCTCACTAGGAACTCCC
*
319732 ATTCAATATGTCATTCTCATTAGGAACTCCC
1 ATTCAATATGTCATTCTCACTAGGAACTCCC
319763 A
1 A
319764 AACTCTTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (31 bp):
ATTCAATATGTCATTCTCACTAGGAACTCCC
Found at i:345945 original size:20 final size:20
Alignment explanation
Indices: 345916--345968 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
345906 GGGTAGGTCG
*
345916 CCATGCACGCCCAGCGACCT
1 CCATGCACGCCCAACGACCT
345936 ACCA-GCACGCCCAACGACCT
1 -CCATGCACGCCCAACGACCT
345956 CCATGCACGCCCA
1 CCATGCACGCCCA
345969 TGCACGCCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.10
20 24 0.80
21 3 0.10
ACGTcount: A:0.25, C:0.51, G:0.17, T:0.08
Consensus pattern (20 bp):
CCATGCACGCCCAACGACCT
Found at i:345971 original size:10 final size:10
Alignment explanation
Indices: 345956--346006 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
345946 CCAACGACCT
345956 CCATGCACGC
1 CCATGCACGC
345966 CCATGCACGC
1 CCATGCACGC
*
345976 CCA-ACGAC-C
1 CCATGC-ACGC
345985 TCCATGCACGC
1 -CCATGCACGC
345996 CCATGCACGC
1 CCATGCACGC
346006 C
1 C
346007 AAAGGTCACC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.22, C:0.51, G:0.18, T:0.10
Consensus pattern (10 bp):
CCATGCACGC
Found at i:345974 original size:30 final size:30
Alignment explanation
Indices: 345940--346006 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
345930 CGACCTACCA
345940 GCACGCCCAACGACCTCCATGCACGCCCAT
1 GCACGCCCAACGACCTCCATGCACGCCCAT
345970 GCACGCCCAACGACCTCCATGCACGCCCAT
1 GCACGCCCAACGACCTCCATGCACGCCCAT
346000 GCACGCC
1 GCACGCC
346007 AAAGGTCACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.51, G:0.18, T:0.09
Consensus pattern (30 bp):
GCACGCCCAACGACCTCCATGCACGCCCAT
Found at i:346514 original size:8 final size:9
Alignment explanation
Indices: 346484--346521 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
346474 AAGTTTTTTT
346484 TTTTAATTA
1 TTTTAATTA
346493 TTTTAATTA
1 TTTTAATTA
*
346502 GTTT-ATTA
1 TTTTAATTA
346510 TTTTAAATTA
1 TTTT-AATTA
346520 TT
1 TT
346522 AGTTTGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 12 0.48
10 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTAATTA
Found at i:346643 original size:28 final size:27
Alignment explanation
Indices: 346604--346656 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
346594 ATATTAAAAA
346604 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
346632 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
346657 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:346662 original size:27 final size:29
Alignment explanation
Indices: 346603--346667 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
346593 TATATTAAAA
346603 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
346632 -AATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
346658 AAATAGTTAA
1 AAATAATTAA
346668 GTTATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:346806 original size:18 final size:18
Alignment explanation
Indices: 346783--346837 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
346773 AATAATTATT
346783 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
346801 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
346813 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
346830 TAAATTAG
1 TAAATTAG
346838 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:347151 original size:30 final size:30
Alignment explanation
Indices: 347083--347186 Score: 115
Period size: 30 Copynumber: 3.4 Consensus size: 30
347073 ATTAGTTAAT
* *
347083 TAGTTTTTTAGTAGTAAATTATAATTAAA-AA
1 TAGTTTATTAGT-TTAAATTAT-ATTAAAGAA
*
347114 TCA-TTTATTAGTTTAATTTATATTAAAGAA
1 T-AGTTTATTAGTTTAAATTATATTAAAGAA
*
347144 TAGTTTATTAG-TTAACGTTATATTAAAGAA
1 TAGTTTATTAGTTTAA-ATTATATTAAAGAA
347174 TAGTTTATTAGTT
1 TAGTTTATTAGTT
347187 GTTTAAGGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
29 11 0.17
30 42 0.66
31 10 0.16
32 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (30 bp):
TAGTTTATTAGTTTAAATTATATTAAAGAA
Found at i:349517 original size:14 final size:14
Alignment explanation
Indices: 349498--349545 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
349488 TTCAAGTCGT
349498 AAATCATTACTATC
1 AAATCATTACTATC
349512 AAATCATTAC--T-
1 AAATCATTACTATC
* *
349523 AAATTATTAATATC
1 AAATCATTACTATC
349537 AAATCATTA
1 AAATCATTA
349546 AATATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 8 0.29
12 1 0.04
13 1 0.04
14 18 0.64
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:349588 original size:48 final size:48
Alignment explanation
Indices: 349517--349738 Score: 282
Period size: 48 Copynumber: 4.4 Consensus size: 48
349507 CTATCAAATC
* * *
349517 ATTACTAAATTATTAATATCAAATCATTAAATATTAATAATAAATTATT
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAAATTATT
*
349566 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAAATTATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAATTATT
349614 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAAT-A----A--ATTA-T--T
*
349672 CATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 -ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAATT-ATT
349722 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
349739 AATCATTAAT
Statistics
Matches: 157, Mismatches: 4, Indels: 24
0.85 0.02 0.13
Matches are distributed among these distances:
48 79 0.50
49 24 0.15
50 1 0.01
52 3 0.02
53 2 0.01
54 1 0.01
55 4 0.03
56 1 0.01
58 2 0.01
59 40 0.25
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.41
Consensus pattern (48 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAATTATT
Found at i:349676 original size:10 final size:10
Alignment explanation
Indices: 349663--349689 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
349653 TAATTTCATT
349663 ATTACTAATC
1 ATTACTAATC
349673 ATTACTAATC
1 ATTACTAATC
349683 ATTACTA
1 ATTACTA
349690 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:349772 original size:60 final size:60
Alignment explanation
Indices: 349614--349866 Score: 474
Period size: 60 Copynumber: 4.2 Consensus size: 60
349604 ATAAATTATT
349614 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
349673 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
349732 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
349792 ATTACTAAATTATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
349852 ATTACTAAATCATTA
1 ATTACTAAATCATTA
349867 AATATTAATA
Statistics
Matches: 189, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
59 65 0.34
60 124 0.66
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:349852 original size:109 final size:108
Alignment explanation
Indices: 349732--350189 Score: 504
Period size: 106 Copynumber: 4.1 Consensus size: 108
349722 ATTACTAATC
349732 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACT-AATCATTAA-AT-AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
*
349797 TA-AATTATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
63 TACAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
349842 ATTACTAATCATT-ACTAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA-
1 ATTACTAATCATTAAATAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAC
*
349905 AATCATTAATATCAAATCATT-AAAATTAATAATAATTTCATT
66 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* * * * * * *
349947 ATTACTAATCATT-ACTAAATCATT-AATATCAAATCATTAA-AT-ATTAATAATAATTTCATTA
1 ATTACTAATCATTAAATAAATCATTAAAAAT-TAAT-AATAATTTCATTATTACTAA--TCATTA
*
350008 TTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
62 CTAC-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
350056 ATTACTAATCATTACTAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTAC
1 ATTACTAATCA-T--TAAAT-A--A--ATC--AT--TA-AAAATTAATAATAATTTCATTATTAC
* * *
350121 TAATCATTACTATCAA--ATTACTATTAAATCATTAAATATTAATAATAATTTCATC
53 TAATCATTACTA-CAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
350176 ATTACTAATCATTA
1 ATTACTAATCATTA
350190 CTAAATCTTA
Statistics
Matches: 300, Mismatches: 23, Indels: 43
0.82 0.06 0.12
Matches are distributed among these distances:
104 14 0.05
105 49 0.16
106 77 0.26
107 1 0.00
108 21 0.07
109 39 0.13
110 7 0.02
112 1 0.00
113 2 0.01
114 1 0.00
116 1 0.00
117 2 0.01
118 3 0.01
119 1 0.00
120 49 0.16
122 15 0.05
123 5 0.02
124 12 0.04
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (108 bp):
ATTACTAATCATTAAATAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAC
AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Found at i:349862 original size:120 final size:119
Alignment explanation
Indices: 349614--350196 Score: 765
Period size: 120 Copynumber: 5.1 Consensus size: 119
349604 ATAAATTATT
*
349614 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
349678 TAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
66 TAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
349732 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
*
349797 TAAATTATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
66 T-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* * * * * * *
349852 ATTACTAAATCATTAA-AT---ATTAATAATAATT--TCATTATTACTAATCATTACTAA--A-T
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATT--TCATTATTACTAATCATT
*
349908 -C--AT---TAATATCAAATCATT-AAAATTAATAATAATTTCATTATTACTAATC
64 ACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
349957 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTC------A-T--T-ATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
350012 TAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
66 TAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
350066 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATCATTA
1 ATTACTAAATCATTAATATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATCATTA
* * *
350130 CT-ATCAAATTACTATTAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
65 CTAATC--ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
350186 ATTACTAAATC
1 ATTACTAAATC
350197 TTATAAATAC
Statistics
Matches: 409, Mismatches: 24, Indels: 62
0.83 0.05 0.13
Matches are distributed among these distances:
101 1 0.00
102 2 0.00
103 2 0.00
105 49 0.12
106 16 0.04
108 16 0.04
109 84 0.21
111 6 0.01
112 1 0.00
113 1 0.00
114 7 0.02
115 1 0.00
116 22 0.05
118 10 0.02
119 66 0.16
120 125 0.31
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (119 bp):
ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
TAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:349864 original size:11 final size:10
Alignment explanation
Indices: 349842--349912 Score: 53
Period size: 10 Copynumber: 7.4 Consensus size: 10
349832 TAATTTCATT
349842 ATTACTAATC
1 ATTACTAATC
349852 ATTACTAAATC
1 ATTACT-AATC
349863 ATTA--AAT-
1 ATTACTAATC
* *
349870 ATTAATAATA
1 ATTACTAATC
* *
349880 ATT--TCATT
1 ATTACTAATC
349888 ATTACTAATC
1 ATTACTAATC
349898 ATTACTAAATC
1 ATTACT-AATC
349909 ATTA
1 ATTA
349913 ATATCAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
7 4 0.08
8 9 0.18
9 3 0.06
10 18 0.36
11 16 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (10 bp):
ATTACTAATC
Found at i:349865 original size:46 final size:46
Alignment explanation
Indices: 349812--349913 Score: 195
Period size: 46 Copynumber: 2.2 Consensus size: 46
349802 TATTACTATC
349812 AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
1 AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
*
349858 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT
1 AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
349904 AAATCATTAA
1 AAATCATTAA
349914 TATCAAATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (46 bp):
AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
Found at i:349940 original size:225 final size:220
Alignment explanation
Indices: 349513--350196 Score: 941
Period size: 225 Copynumber: 3.1 Consensus size: 220
349503 ATTACTATCA
* * *
349513 AATCATTACTAAATTATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAA-T-
1 AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATTA
* *
349575 C----ATTACTATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATCATTACTATCAA
66 CTAATATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTA--AA
*
349635 ATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAATCATTACTATCAAATCATT
129 ATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAATCATTACTATCAAATCATT
349700 AAAAATTAATAATAATTTCATTATTACT
194 -AAAATTAATAATAATTTCATTATTACT
349728 AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACT-A--A
349793 TTACTAAATTATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
63 TTACT-AA-TATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
*
349858 -AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAAT
126 AAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT-AATCATTACTATCAAAT
349922 CATTAAAATTAATAATAATTTCATTATTACT
190 CATTAAAATTAATAATAATTTCATTATTACT
*
349953 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA-T-
1 AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATTA
350016 C----ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATC
66 CTAATATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAA--
350077 ATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATCATTACT-ATCAAATTA
129 A-T-C-AT----T-A-A-AT-ATTAATAATAATTTCATTATTACTAATCATTACTAATC--ATTA
* *
350141 CTATTAAATCATTAAATATTAATAATAATTTCATCATTACT
181 CTATCAAATCATTAAA-ATTAATAATAATTTCATTATTACT
350182 AATCATTACTAAATC
1 AATCATTACTAAATC
350197 TTATAAATAC
Statistics
Matches: 427, Mismatches: 11, Indels: 48
0.88 0.02 0.10
Matches are distributed among these distances:
214 55 0.13
215 49 0.11
216 9 0.02
217 2 0.00
218 1 0.00
219 2 0.00
220 4 0.01
221 2 0.00
222 1 0.00
224 2 0.00
225 132 0.31
226 24 0.06
227 35 0.08
228 71 0.17
229 38 0.09
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (220 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATTA
CTAATATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAAAT
CATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAATCATTACTATCAAATCATTAA
AATTAATAATAATTTCATTATTACT
Found at i:349995 original size:60 final size:60
Alignment explanation
Indices: 349858--350023 Score: 325
Period size: 59 Copynumber: 2.8 Consensus size: 60
349848 AATCATTACT
349858 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
349918 AAATCATTAAA-ATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
349977 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
350024 TCAAATCATT
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
59 59 0.56
60 46 0.44
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (60 bp):
AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
Found at i:350020 original size:49 final size:50
Alignment explanation
Indices: 349957--350190 Score: 229
Period size: 60 Copynumber: 4.3 Consensus size: 50
349947 ATTACTAATC
349957 ATTACTAAATCATTA-ATATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACATATCAAATCATTAAATATTAATAATAATTTCATT
*
350007 ATTACTAATCATTAC-TATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACATATCAAATCATTAAATATTAATAATAATTTCATT
* *
350056 ATTACTAATCATTACTAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATT
1 ATTACTAATCATTAC-ATATCA--A--ATC--AT--TAAAT-ATTAATAATAATTTCATT
*
350116 ATTACTAATCATTACTATCAAATTACTATTAAATCATTAAATATTAATAATAATTTCATC
1 ATTACTAATCATTAC-AT---A-T-C----AAATCATTAAATATTAATAATAATTTCATT
350176 ATTACTAATCATTAC
1 ATTACTAATCATTAC
350191 TAAATCTTAT
Statistics
Matches: 156, Mismatches: 7, Indels: 32
0.80 0.04 0.16
Matches are distributed among these distances:
49 56 0.36
50 6 0.04
51 4 0.03
53 1 0.01
55 3 0.02
57 2 0.01
59 3 0.02
60 67 0.43
61 4 0.03
63 3 0.02
64 1 0.01
65 4 0.03
67 1 0.01
69 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (50 bp):
ATTACTAATCATTACATATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:350058 original size:274 final size:267
Alignment explanation
Indices: 349513--350132 Score: 912
Period size: 274 Copynumber: 2.3 Consensus size: 267
349503 ATTACTATCA
* * *
349513 AATCATTACTAAATTATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATCA
1 AATCATTACTAAATTATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
349577 TTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTATCAAATCATTA
66 TTAC--T-AAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTATCAAATCATTA
*
349642 AAAATTAATAATAATTTCATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATT
128 AAAATTAATAATAATTTCATTATTACTAATCATTACTAATCATTAATATCAAATCATTAAAAATT
349707 AATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAA
193 AATAATAATTTCATTATTACTAATCATTA-T-AATC----ATATCAAATCATTAAAAATTAATAA
349772 TAATTTCATTATTACT
252 TAATTTCATTATTACT
349788 AATCATTACTAAATTATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATTATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
*
349853 TTACTAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
66 TTACTAAATCATTAAATATTAATAATAAATT-ATTATTACTAATCATTACT--ATC---AA-ATC
*
349918 AAATCATTAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATCA
124 --AT--TAAAAATTAATAATAATTTCATTATTACTAATCATTACT-AATCATTAATATCAAATCA
*
349983 TTAAATATTAATAATAATTTCATTATTACTAATCA-T-T-A-C-TATCAAATCATTAAAAATTAA
184 TTAAAAATTAATAATAATTTCATTATTACTAATCATTATAATCATATCAAATCATTAAAAATTAA
350043 TAATAATTTCATTATTACT
249 TAATAATTTCATTATTACT
* *
350062 AATCATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 AATCATTACTAAATTATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
350126 ATTACTA
65 ATTACTA
350133 TCAAATTACT
Statistics
Matches: 322, Mismatches: 9, Indels: 29
0.89 0.03 0.08
Matches are distributed among these distances:
273 27 0.08
274 126 0.39
275 47 0.15
276 21 0.07
279 3 0.01
280 4 0.01
282 3 0.01
284 39 0.12
285 52 0.16
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (267 bp):
AATCATTACTAAATTATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
TTACTAAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTATCAAATCATTAAAA
ATTAATAATAATTTCATTATTACTAATCATTACTAATCATTAATATCAAATCATTAAAAATTAAT
AATAATTTCATTATTACTAATCATTATAATCATATCAAATCATTAAAAATTAATAATAATTTCAT
TATTACT
Found at i:350077 original size:60 final size:59
Alignment explanation
Indices: 350007--350193 Score: 288
Period size: 60 Copynumber: 3.1 Consensus size: 59
349997 TAATTTCATT
350007 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
350066 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACT-AATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
* * *
350126 ATTACT-ATCAAATTACTATTAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAATC--ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
350186 ATTACTAA
1 ATTACTAA
350194 ATCTTATAAA
Statistics
Matches: 117, Mismatches: 5, Indels: 10
0.89 0.04 0.08
Matches are distributed among these distances:
58 3 0.03
59 8 0.07
60 103 0.88
61 3 0.03
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (59 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:350088 original size:334 final size:330
Alignment explanation
Indices: 349566--350205 Score: 970
Period size: 334 Copynumber: 1.9 Consensus size: 330
349556 ATAAATTATT
*
349566 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTA
1 ATTACTAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTA
* * *
349631 TCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAATCATTACTATCAAAT
66 TCAAATCATCAAAAATTAATAATAA-TTAATAATTA-TAATCATTACTAATCATTACTATCAAAT
349696 CATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATCATTA
129 CATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATCA-TA
349761 -AAAATTAATAATAATTTCATTATTACTAATCATTACTA-AATTATTACTATCAAATCATTAAAA
193 CAAAATTAATAATAATTTCATTATTACTAATCATTACTACAA--ATTACTATCAAATCATTAAAA
*
349824 ATTAATAATAATTTCATTATTACTAATCATTACTAAATCAT-TAAATATTAATAATAATTTCATT
256 ATTAATAATAATTTCATCATTACTAATCATTACTAAATCATATAAATATTAATAATAATTTCATT
349888 ATTACTAATC
321 ATTACTAATC
*
349898 ATTACTAAATCATTAATATCAAATCATTAAA-ATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACT-AATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATCATTAC
* * * *
349962 TAAATCATTAAT-ATCAAATCATTAAATATTAA-TAATAATT-TCATTATTACTAATCATTACTA
64 T--ATCA--AATCATCAAA-AATT-AATAATAATTAATAATTATAATCATTACTAATCATTACTA
*
350024 TCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAA
123 TCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAA
* *
350089 TCATACATAATTAATAATAATTTCATTATTACTAATCATTACTATCAAATTACTATTAAATCATT
188 TCATACAAAATTAATAATAATTTCATTATTACTAATCATTACTA-CAAATTACTATCAAATCATT
* *
350154 AAATATTAATAATAATTTCATCATTACTAATCATTACTAAATCTTATAAATA
252 AAAAATTAATAATAATTTCATCATTACTAATCATTACTAAATCATATAAATA
350206 CATAGAAATT
Statistics
Matches: 281, Mismatches: 15, Indels: 21
0.89 0.05 0.07
Matches are distributed among these distances:
332 19 0.07
333 44 0.16
334 182 0.65
335 10 0.04
336 13 0.05
337 6 0.02
338 7 0.02
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (330 bp):
ATTACTAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTA
TCAAATCATCAAAAATTAATAATAATTAATAATTATAATCATTACTAATCATTACTATCAAATCA
TTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATCATACAA
AATTAATAATAATTTCATTATTACTAATCATTACTACAAATTACTATCAAATCATTAAAAATTAA
TAATAATTTCATCATTACTAATCATTACTAAATCATATAAATATTAATAATAATTTCATTATTAC
TAATC
Found at i:350190 original size:109 final size:107
Alignment explanation
Indices: 349792--350192 Score: 370
Period size: 109 Copynumber: 3.7 Consensus size: 107
349782 ATTACTAATC
* *
349792 ATTACTAAATTATTACTATCAAATCATTAAAAATTAATAATAA-T--T--TCAT--T-ATTACT-
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTAATAATTATAATCATTACTA
349848 AATCATTAC--T-AAATCATTAAATATTAATAATAATTTCATT
65 AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
* *
349888 ATTACTAATCATTACTAAATCATTAAT-ATCAAATCATTAA-AATTAATAATAATTTCATTATTA
1 ATTACTAATCATTACT--ATCA--AATCATTAAA-AATTAATAA-TAAT--TAA--T-A--ATTA
*
349951 CTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
53 -TAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
* *
350007 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAA-TTAATAATTA-TAATCATTACT
*
350072 AAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATT
64 AAATCATTACTATCAAATCATTAAAT-ATTAATAATAATTTCATT
* * *
350116 ATTACTAATCATTACTATCAAATTACTATTAAATCATTAAATATTAA-TAATAATT-TCATCATT
1 ATTACTAATCATTACTATCAAA-T-C-ATTAAA-AATT-AATAATAATTAATAATTATAATCATT
350179 ACT-AATCATTACTA
61 ACTAAATCATTACTA
350193 AATCTTATAA
Statistics
Matches: 254, Mismatches: 16, Indels: 57
0.78 0.05 0.17
Matches are distributed among these distances:
95 9 0.04
96 6 0.02
97 4 0.02
98 7 0.03
99 11 0.04
102 1 0.00
106 1 0.00
108 4 0.02
109 86 0.34
110 11 0.04
111 3 0.01
112 14 0.06
113 3 0.01
114 10 0.04
115 17 0.07
116 16 0.06
117 4 0.02
118 1 0.00
119 46 0.18
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (107 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTAATAATTATAATCATTACTAA
ATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:353241 original size:28 final size:28
Alignment explanation
Indices: 353210--353263 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
353200 ATAATCTAAT
*
353210 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
353238 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
353264 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:353270 original size:28 final size:28
Alignment explanation
Indices: 353206--353270 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
353196 TTATATAATC
*
353206 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
353234 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
353262 TAATTTATA
1 TAATATATA
353271 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:353273 original size:21 final size:21
Alignment explanation
Indices: 353240--353288 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
353230 TTAATATAAT
353240 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
353261 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
353282 ATTAACT
1 A-TAACT
353289 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:353949 original size:28 final size:28
Alignment explanation
Indices: 353918--354002 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
353908 ATGGTGACCT
353918 TTGGCGAGCTGGGCGTGCATGGAGGTCG
1 TTGGCGAGCTGGGCGTGCATGGAGGTCG
* * * ** *
353946 TT-G-G-GC-GTGCATTGCATGGTGACCT
1 TTGGCGAGCTGGGC-GTGCATGGAGGTCG
353971 TTGGCGAGCTGGGCGTGCATGGAGGTCG
1 TTGGCGAGCTGGGCGTGCATGGAGGTCG
353999 TTGG
1 TTGG
354003 GCGTGCATGG
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 3 0.08
25 13 0.32
26 2 0.05
27 2 0.05
28 17 0.43
29 3 0.08
ACGTcount: A:0.11, C:0.18, G:0.46, T:0.26
Consensus pattern (28 bp):
TTGGCGAGCTGGGCGTGCATGGAGGTCG
Found at i:353980 original size:53 final size:53
Alignment explanation
Indices: 353905--354010 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
353895 AAGCATGGAC
353905 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
353958 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
354011 GGAGGTCGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.11, C:0.19, G:0.43, T:0.26
Consensus pattern (53 bp):
TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
Found at i:354005 original size:20 final size:20
Alignment explanation
Indices: 353980--354048 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
353970 TTTGGCGAGC
353980 TGGGCGTGCATGGAGGTCGT
1 TGGGCGTGCATGGAGGTCGT
354000 TGGGCGTGCATGGAGGTCGT
1 TGGGCGTGCATGGAGGTCGT
*
354020 TGGGTGTGCATGGAGGTCGT
1 TGGGCGTGCATGGAGGTCGT
354040 TGGGCGTGC
1 TGGGCGTGC
354049 TCTGGGCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.09, C:0.14, G:0.51, T:0.26
Consensus pattern (20 bp):
TGGGCGTGCATGGAGGTCGT
Found at i:354100 original size:29 final size:29
Alignment explanation
Indices: 354059--354118 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
354049 TCTGGGCATG
*
354059 CTGGTAGGTCGCTGGGCGTGCATGGCGAC
1 CTGGTAGGTCGCTGGGCGTACATGGCGAC
354088 CTGGTAGGTCGCTGGGCGTACATGGCGAC
1 CTGGTAGGTCGCTGGGCGTACATGGCGAC
354117 CT
1 CT
354119 ACCCCCGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.12, C:0.25, G:0.42, T:0.22
Consensus pattern (29 bp):
CTGGTAGGTCGCTGGGCGTACATGGCGAC
Found at i:358814 original size:5 final size:5
Alignment explanation
Indices: 358800--358834 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
358790 TGCACAATTT
*
358800 TTTTC TTTTTC TTTTC TTTTC TTTTC TTTTG TTTT
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
358835 TTTCAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:363742 original size:13 final size:13
Alignment explanation
Indices: 363711--363742 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
363701 AAAATAAAGA
363711 TAAAAAC-TGATG
1 TAAAAACTTGATG
363723 T-AAAACTTGATG
1 TAAAAACTTGATG
363735 TAAAAACT
1 TAAAAACT
363743 AATGAAAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 7 0.39
13 6 0.33
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (13 bp):
TAAAAACTTGATG
Found at i:368090 original size:25 final size:26
Alignment explanation
Indices: 368036--368098 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 26
368026 TATTCAAAAT
*
368036 AAAATCCATTCTAATAAAAAAAAGGC
1 AAAATCCATTCTAATAAAAAAAAGGA
* *
368062 AAAATCCCTTCTAAT-AAAAAAGGGA
1 AAAATCCATTCTAATAAAAAAAAGGA
368087 AAAATCCATTCT
1 AAAATCCATTCT
368099 TATATGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.52, C:0.17, G:0.08, T:0.22
Consensus pattern (26 bp):
AAAATCCATTCTAATAAAAAAAAGGA
Found at i:368720 original size:28 final size:29
Alignment explanation
Indices: 368686--368782 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
368676 TAAAATTAAG
* * **
368686 AAAAATTAGAGGAT-CCAATTATAGGTAT
1 AAAAATTAGAGGATACCCATTACAAATAT
*
368714 AAAAATTAGGGGATACCCATTACAAATAT
1 AAAAATTAGAGGATACCCATTACAAATAT
*
368743 AAAAATTAGGGGATACCCATTACAAATAT
1 AAAAATTAGAGGATACCCATTACAAATAT
368772 AAAAATT-GAGG
1 AAAAATTAGAGG
368783 GCCCTGAGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
28 16 0.26
29 46 0.74
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.25
Consensus pattern (29 bp):
AAAAATTAGAGGATACCCATTACAAATAT
Found at i:368743 original size:29 final size:29
Alignment explanation
Indices: 368711--368783 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
368701 CAATTATAGG
368711 TATAAAAATTAGGGGATACCCATTACAAA
1 TATAAAAATTAGGGGATACCCATTACAAA
368740 TATAAAAATTAGGGGATACCCATTACAAA
1 TATAAAAATTAGGGGATACCCATTACAAA
368769 TATAAAAATTGAGGG
1 TATAAAAATT-AGGG
368784 CCCTGAGCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 39 0.91
30 4 0.09
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (29 bp):
TATAAAAATTAGGGGATACCCATTACAAA
Found at i:370077 original size:29 final size:29
Alignment explanation
Indices: 370044--370111 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
370034 CTTTTCTGTC
370044 TATATATTTGTATTTTGGAGCAATTGATG
1 TATATATTTGTATTTTGGAGCAATTGATG
370073 TATATATTTGTATTTTGGAGCAATTGATG
1 TATATATTTGTATTTTGGAGCAATTGATG
370102 TATATATTTG
1 TATATATTTG
370112 ATTGCAAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.50
Consensus pattern (29 bp):
TATATATTTGTATTTTGGAGCAATTGATG
Found at i:377178 original size:70 final size:71
Alignment explanation
Indices: 377097--377238 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
377087 AATTCTGCTT
377097 TATCAACTAAATGAATTTTTCCTTGTCTCTGATG-TGTTGAAACGAACTATCATAGTCCACTGTA
1 TATCAACTAAATGAATTTTTCCTTGTCTCTGATGTTGTTGAAACGAACTATCATAGTCCACTGTA
377161 GTAAGC
66 GTAAGC
377167 TATCAACTAAATGAATTTTTCCTTGTCTCTGATGTTGTTGAAACGAACTATCATAGTCCACTGTA
1 TATCAACTAAATGAATTTTTCCTTGTCTCTGATGTTGTTGAAACGAACTATCATAGTCCACTGTA
377232 GTAAGC
66 GTAAGC
377238 T
1 T
377239 TGGTATTCTG
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 34 0.48
71 37 0.52
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (71 bp):
TATCAACTAAATGAATTTTTCCTTGTCTCTGATGTTGTTGAAACGAACTATCATAGTCCACTGTA
GTAAGC
Found at i:381492 original size:29 final size:30
Alignment explanation
Indices: 381433--381499 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
381423 AAAACATGAA
381433 AATATGAATAAGAAATGATGTATTAGAAAAT
1 AATAT-AATAAGAAATGATGTATTAGAAAAT
* *
381464 AATATAATACGACATGAT-TATTTA-AAAAT
1 AATATAATAAGAAATGATGTA-TTAGAAAAT
*
381493 ATTATAA
1 AATATAA
381500 ATTATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.41
30 14 0.44
31 5 0.16
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (30 bp):
AATATAATAAGAAATGATGTATTAGAAAAT
Found at i:387990 original size:36 final size:36
Alignment explanation
Indices: 387932--388041 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 36
387922 ACATTTACAA
* * * *
387932 AATTAGTT-AA-A-TTAATCCTCTAATTTTAACGGT
1 AATTAGTTAAATATTTAATCATCTAAATTTAAAGAT
387965 AATTAGTTAAATATTTAATCATCTAAATTTAAAGAT
1 AATTAGTTAAATATTTAATCATCTAAATTTAAAGAT
* *
388001 AATTAGATAAATA-TTAA--ATCTAATATTTAATATAT
1 AATTAGTTAAATATTTAATCATCTAA-ATTTAA-AGAT
388036 AATTAG
1 AATTAG
388042 GAAAGTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
33 14 0.21
34 8 0.12
35 14 0.21
36 30 0.45
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (36 bp):
AATTAGTTAAATATTTAATCATCTAAATTTAAAGAT
Found at i:395936 original size:21 final size:21
Alignment explanation
Indices: 395912--395956 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
395902 GAATATAATA
395912 TAATCCT-GTTTCATATTATTT
1 TAATCCTAGTTTCATATT-TTT
* *
395933 TAATTCTATTTTCATATTTTT
1 TAATCCTAGTTTCATATTTTT
395954 TAA
1 TAA
395957 ATCTTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATCCTAGTTTCATATTTTT
Found at i:400395 original size:6 final size:6
Alignment explanation
Indices: 400384--400423 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
400374 GCGAACTTGG
400384 ACGACC ACGACC ACGACC ACGACC ACGACC -CGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
400424 CGAGACGGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.29
6 24 0.71
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:401040 original size:21 final size:20
Alignment explanation
Indices: 401014--401165 Score: 110
Period size: 21 Copynumber: 7.3 Consensus size: 20
401004 AACCAGTCGT
*
401014 TGCGATTTTGAACTATCGCAA
1 TGCGATGTTG-ACTATCGCAA
* *
401035 TGCGATAGTCGACTATTGCAA
1 TGCGAT-GTTGACTATCGCAA
**
401056 TGCGAACTTGGACTATCGCAA
1 TGCGATGTT-GACTATCGCAA
**
401077 TGCGAACTTGAACTATCGCAA
1 TGCGATGTTG-ACTATCGCAA
*
401098 TGCGATAGTCGACTATCGCAA
1 TGCGAT-GTTGACTATCGCAA
* *
401119 TGCGAAT-ATGTA-AATCGCAA
1 TGCG-ATGTTG-ACTATCGCAA
* *
401139 TGCGATAGTCGACTATCGCAT
1 TGCGAT-GTTGACTATCGCAA
401160 TGCGAT
1 TGCGAT
401166 TTACATATTC
Statistics
Matches: 105, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
19 2 0.02
20 15 0.14
21 82 0.78
22 6 0.06
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (20 bp):
TGCGATGTTGACTATCGCAA
Found at i:401071 original size:42 final size:42
Alignment explanation
Indices: 401025--401164 Score: 146
Period size: 42 Copynumber: 3.4 Consensus size: 42
401015 GCGATTTTGA
* * * *
401025 ACTATCGCAATGCGATAGTCG-ACTATTGCAATGCGA-ACTTGG
1 ACTATCGCAATGCGA-ACTCGAACTATCGCAATGCGATA-GTCG
*
401067 ACTATCGCAATGCGAACTTGAACTATCGCAATGCGATAGTCG
1 ACTATCGCAATGCGAACTCGAACTATCGCAATGCGATAGTCG
*
401109 ACTATCGCAATGCGAA-TATGTAA--ATCGCAATGCGATAGTCG
1 ACTATCGCAATGCGAACT-CG-AACTATCGCAATGCGATAGTCG
*
401150 ACTATCGCATTGCGA
1 ACTATCGCAATGCGA
401165 TTTACATATT
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
41 36 0.41
42 49 0.56
43 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (42 bp):
ACTATCGCAATGCGAACTCGAACTATCGCAATGCGATAGTCG
Found at i:401189 original size:41 final size:41
Alignment explanation
Indices: 401066--401164 Score: 148
Period size: 41 Copynumber: 2.4 Consensus size: 41
401056 TGCGAACTTG
401066 GACTATCGCAATGCGAACT-TG-AACTATCGCAATGCGATAGTC
1 GACTATCGCAATGCGAA-TATGTAA--ATCGCAATGCGATAGTC
401108 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
*
401149 GACTATCGCATTGCGA
1 GACTATCGCAATGCGA
401165 TTTACATATT
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
41 33 0.61
42 19 0.35
43 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (41 bp):
GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
Found at i:405053 original size:31 final size:31
Alignment explanation
Indices: 404956--405055 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
404946 TTCATAGAAT
* * *
404956 AAATTAATATTTTATCTAATGATCAAAGGAC
1 AAATTAATATTTTATCTAAAGTTCAAAGGTC
* * * * *
404987 AAATTGATATTCTAAT-GAAAGTTTAAAGGTT
1 AAATTAATATT-TTATCTAAAGTTCAAAGGTC
405018 AAATTAATATTTTATCTAAAGTTCAATA-GTC
1 AAATTAATATTTTATCTAAAGTTCAA-AGGTC
405049 AAATTAA
1 AAATTAA
405056 AAACGAACCT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
30 3 0.06
31 46 0.87
32 4 0.08
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (31 bp):
AAATTAATATTTTATCTAAAGTTCAAAGGTC
Found at i:415450 original size:42 final size:46
Alignment explanation
Indices: 415403--415506 Score: 135
Period size: 49 Copynumber: 2.3 Consensus size: 46
415393 ATAACTAAAG
*
415403 AATAAAATATTAATAACT-AAACA-TGTTTTAA-C-CCTAATTCCT
1 AATAAAATAATAATAACTAAAACATTGTTTTAACCACCTAATTCCT
*
415445 AATAAAATAATAATAACTAAAAATATTGTTTTAACCCAACCTAATTCCT
1 AATAAAATAATAATAACT-AAAACATTGTTTTAA-CC-ACCTAATTCCT
415494 AATAAAATAATAA
1 AATAAAATAATAA
415507 ATCTGATCCT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
42 17 0.32
44 4 0.08
45 8 0.15
47 1 0.02
49 23 0.43
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (46 bp):
AATAAAATAATAATAACTAAAACATTGTTTTAACCACCTAATTCCT
Found at i:422144 original size:21 final size:22
Alignment explanation
Indices: 422098--422146 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
422088 CAACCTTAAT
422098 TCCTAATAAAATAATAAATCTGA
1 TCCTAATAAAATAATAAATC-GA
*
422121 TCCTAA-AAAGATAATTAATC-A
1 TCCTAATAAA-ATAATAAATCGA
422142 TCCTA
1 TCCTA
422147 TATTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 3 0.12
23 15 0.62
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (22 bp):
TCCTAATAAAATAATAAATCGA
Found at i:426423 original size:14 final size:15
Alignment explanation
Indices: 426406--426459 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
426396 CTGGAAATTG
426406 AATT-CTGAAAAATA
1 AATTACTGAAAAATA
** *
426420 AATTACTGAAATTTG
1 AATTACTGAAAAATA
*
426435 AATT-CTGGAAAATA
1 AATTACTGAAAAATA
426449 AATTACTGAAA
1 AATTACTGAAA
426460 TTTGAATTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.31
Consensus pattern (15 bp):
AATTACTGAAAAATA
Found at i:426440 original size:29 final size:29
Alignment explanation
Indices: 426399--426483 Score: 136
Period size: 29 Copynumber: 3.0 Consensus size: 29
426389 TGGTTTTCTG
*
426399 GAAA-TTGAATTCTGAAAAATAAATTACT
1 GAAATTTGAATTCTGGAAAATAAATTACT
426427 GAAATTTGAATTCTGGAAAATAAATTACT
1 GAAATTTGAATTCTGGAAAATAAATTACT
* *
426456 GAAATTTGAATTATGGAAAATGAATTAC
1 GAAATTTGAATTCTGGAAAATAAATTAC
426484 ATTTCTGGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 4 0.08
29 49 0.92
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (29 bp):
GAAATTTGAATTCTGGAAAATAAATTACT
Found at i:426481 original size:14 final size:14
Alignment explanation
Indices: 426397--426482 Score: 50
Period size: 14 Copynumber: 6.0 Consensus size: 14
426387 ATTGGTTTTC
* *
426397 TGGAAATTGAATTC
1 TGGAAAATGAATTA
* *
426411 TGAAAAATAAATTA
1 TGGAAAATGAATTA
* *
426425 CT-GAAATTTGAATTC
1 -TGGAAA-ATGAATTA
*
426440 TGGAAAATAAATTA
1 TGGAAAATGAATTA
*
426454 CT-GAAATTTGAATTA
1 -TGGAAA-ATGAATTA
426469 TGGAAAATGAATTA
1 TGGAAAATGAATTA
426483 CATTTCTGGA
Statistics
Matches: 52, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
14 31 0.60
15 21 0.40
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.34
Consensus pattern (14 bp):
TGGAAAATGAATTA
Found at i:426720 original size:26 final size:27
Alignment explanation
Indices: 426674--426724 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
426664 TCATAAAACT
*
426674 TAATATTATTATTTTTAAAATATTAAA
1 TAATATTATTATTATTAAAATATTAAA
426701 TAAT-TTATTTATTATT-AAATATTA
1 TAATATTA-TTATTATTAAAATATTA
426725 TTTTTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TAATATTATTATTATTAAAATATTAAA
Found at i:426730 original size:19 final size:19
Alignment explanation
Indices: 426680--426731 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
426670 AACTTAATAT
*
426680 TATTATTTTTAAAATATTAAA
1 TATTATTTTT--ATTATTAAA
*
426701 TAATT-TATTTATTATTAAA
1 T-ATTATTTTTATTATTAAA
426720 TATTATTTTTAT
1 TATTATTTTTAT
426732 AATTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.12
19 15 0.58
21 5 0.19
22 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATTTTTATTATTAAA
Found at i:426876 original size:23 final size:23
Alignment explanation
Indices: 426827--426877 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
426817 GTGTTATATT
**
426827 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
426850 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
426873 ATATT
1 ATATT
426878 ATTAGATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:427032 original size:23 final size:23
Alignment explanation
Indices: 427002--427052 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
426992 TTAAAATAAA
427002 AATATAATAT-ATTATATTATTAT
1 AATATAAT-TGATTATATTATTAT
*
427025 AATATAATTGATTATTTTATTAT
1 AATATAATTGATTATATTATTAT
427048 AATAT
1 AATAT
427053 TAAAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AATATAATTGATTATATTATTAT
Found at i:427038 original size:18 final size:19
Alignment explanation
Indices: 427004--427050 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
426994 AAAATAAAAA
*
427004 TATAATAT-ATTATATTAT
1 TATAATATAATTAGATTAT
427022 TATAATATAATT-GATTAT
1 TATAATATAATTAGATTAT
* *
427040 TTTATTATAAT
1 TATAATATAAT
427051 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATAATATAATTAGATTAT
Found at i:427070 original size:22 final size:22
Alignment explanation
Indices: 427042--427087 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
427032 TTGATTATTT
427042 TATTATAATATTAAAAATATAA
1 TATTATAATATTAAAAATATAA
* *
427064 TATTATATTATTAGAAATATAA
1 TATTATAATATTAAAAATATAA
427086 TA
1 TA
427088 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTATAATATTAAAAATATAA
Found at i:427103 original size:53 final size:54
Alignment explanation
Indices: 426998--427106 Score: 143
Period size: 53 Copynumber: 2.0 Consensus size: 54
426988 ATTATTAAAA
* **
426998 TAAAAATATAATATATTATATTATTATAATATAATTGATTATTTTATTATAATAT
1 TAAAAATATAATATATTATATTATTAAAATATAATAAATTATTTTA-TATAATAT
427053 TAAAAATAT-A-ATATTATATTATTAGAAATATAATAAATATATTTTA-ATAATAT
1 TAAAAATATAATATATTATATTATTA-AAATATAATAAAT-TATTTTATATAATAT
427106 T
1 T
427107 TTGATTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
53 22 0.45
54 11 0.22
55 16 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (54 bp):
TAAAAATATAATATATTATATTATTAAAATATAATAAATTATTTTATATAATAT
Found at i:427104 original size:22 final size:21
Alignment explanation
Indices: 427045--427105 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
427035 ATTATTTTAT
* *
427045 TATAATATTAAAAATATAATAT
1 TATATTATT-AAAATATAATAA
427067 TATATTATTAGAAATATAATAAA
1 TATATTATTA-AAATATAAT-AA
427090 TATATT-TTAATAATAT
1 TATATTATTAA-AATAT
427106 TTTGATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 2 0.06
22 25 0.74
23 7 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TATATTATTAAAATATAATAA
Found at i:433610 original size:2 final size:2
Alignment explanation
Indices: 433603--433630 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
433593 ATAAAATAAA
433603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
433631 CCAATTTTGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:434443 original size:16 final size:15
Alignment explanation
Indices: 434405--434446 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
434395 TCGAGTCACA
434405 AAATAAAATTAATCG
1 AAATAAAATTAATCG
*
434420 ATATAAAATAATAATC-
1 AAATAAAAT--TAATCG
434436 AAATAAAATTA
1 AAATAAAATTA
434447 TTACCTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 2 0.09
15 8 0.35
16 8 0.35
17 5 0.22
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (15 bp):
AAATAAAATTAATCG
Found at i:435386 original size:16 final size:15
Alignment explanation
Indices: 435366--435399 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
435356 TTAGTAATTT
435366 ATTTTTATT-TTTAAA
1 ATTTTT-TTCTTTAAA
435381 ATTTTTTTCTTTAAA
1 ATTTTTTTCTTTAAA
435396 ATTT
1 ATTT
435400 GCGAACTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTCTTTAAA
Found at i:437208 original size:15 final size:14
Alignment explanation
Indices: 437172--437212 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
437162 ATATAATAAC
437172 ATAATTAAATATTT
1 ATAATTAAATATTT
* *
437186 TTAGTTAAATGATTT
1 ATAATTAAAT-ATTT
437201 ATAATTAAATAT
1 ATAATTAAATAT
437213 AAAAGTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (14 bp):
ATAATTAAATATTT
Found at i:438226 original size:37 final size:37
Alignment explanation
Indices: 438173--438277 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
438163 CATTTTCGTC
*
438173 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
438210 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
438247 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
438278 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:438836 original size:2 final size:2
Alignment explanation
Indices: 438820--438855 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
438810 TTTTTAATAC
*
438820 TA TA TT TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
438856 TCTTTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:439030 original size:21 final size:22
Alignment explanation
Indices: 439006--439047 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
438996 TCATTATATG
439006 TATACTTT-TATA-TTTGGTTTA
1 TATA-TTTATATATTTTGGTTTA
*
439027 TATATTTATTTATTTTGGTTT
1 TATATTTATATATTTTGGTTT
439048 TTGGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 3 0.17
21 7 0.39
22 8 0.44
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (22 bp):
TATATTTATATATTTTGGTTTA
Found at i:439077 original size:18 final size:19
Alignment explanation
Indices: 439056--439106 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
439046 TTTTGGTTTT
439056 TTTTTATATTATATTA-TA
1 TTTTTATATTATATTATTA
*
439074 TTTTCATATTACTATTATTA
1 TTTTTATATTA-TATTATTA
*
439094 TTGTTATGATTAT
1 TTTTTAT-ATTAT
439107 TATTTTTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 5 0.19
20 8 0.30
21 4 0.15
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTTATATTATATTATTA
Found at i:439147 original size:21 final size:21
Alignment explanation
Indices: 439123--439165 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
439113 TCTATTTTAC
439123 TCATTTATATATATATATATT
1 TCATTTATATATATATATATT
* * *
439144 TCATTTATTTATTTATTTATT
1 TCATTTATATATATATATATT
439165 T
1 T
439166 TTCCTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TCATTTATATATATATATATT
Found at i:439174 original size:16 final size:15
Alignment explanation
Indices: 439159--439223 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 15
439149 TATTTATTTA
439159 TTTATTTTTCCTTTT
1 TTTATTTTTCCTTTT
* *
439174 ATTTTTTTTTACTTATT
1 -TTTATTTTTCCTT-TT
* *
439191 TTTATTCTTCATTTT
1 TTTATTTTTCCTTTT
*
439206 TTTATTTATTCATTTT
1 TTTATTT-TTCCTTTT
439222 TT
1 TT
439224 CCCTCTGACA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 8 0.20
16 30 0.75
17 2 0.05
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTTTCCTTTT
Found at i:439207 original size:15 final size:16
Alignment explanation
Indices: 439146--439223 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 16
439136 TATATATTTC
* *
439146 ATTTATTTATTTATTT
1 ATTTATTCATTTTTTT
*
439162 ATTT-TTCCTTTTATTT
1 ATTTATTCATTTT-TTT
*
439178 -TTT-TTTACTTATTTTT
1 ATTTATTCA-TT-TTTTT
*
439194 A-TTCTTCATTTTTTT
1 ATTTATTCATTTTTTT
439209 ATTTATTCATTTTTT
1 ATTTATTCATTTTTT
439224 CCCTCTGACA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
15 16 0.33
16 28 0.57
17 5 0.10
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTATTCATTTTTTT
Found at i:446668 original size:106 final size:106
Alignment explanation
Indices: 445396--446667 Score: 2040
Period size: 106 Copynumber: 12.0 Consensus size: 106
445386 ATGCCATTCG
* * *
445396 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
445461 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
445502 AGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAATCAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
**
445567 TTGAGCCAATTTCAACTTCAACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTC-ACAACGAAGGATATTGGACTCC
* * *
445609 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
445674 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
445715 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
445780 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
445821 AGACAAAGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
445886 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
445927 AAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
445992 CAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
446033 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* ** *
446098 CGGAGCCAATTTCAACTTCACAGTGAAAGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
446139 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
446204 CGGAGCCAATTTCAATTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
446245 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
446310 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
446351 AGACAACGCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTGCCAACAAACAACTTTCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
446416 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
446457 AGACAACGCAAGTTCAACTTCACGATGAAGGGATCGCTGGTTATCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
446522 CGGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * * * *
446563 AGACAACACAAGTTCAATTTCACAACGAAGGGACGGGTGGTTGTCAACAAACAATTTCCCAATTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
446628 CAGAGCCAATTTTAACTTCACGACGGAGGATATTGGACTC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
446668 GGAACAATGC
Statistics
Matches: 1089, Mismatches: 76, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
106 991 0.91
107 98 0.09
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:448285 original size:19 final size:20
Alignment explanation
Indices: 448257--448294 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
448247 TTGTTTTTGG
*
448257 TTTTTTATATTA-TATTATA
1 TTTTTCATATTACTATTATA
448276 TTTTTCATATTACTATTAT
1 TTTTTCATATTACTATTAT
448295 TATTGTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTCATATTACTATTATA
Found at i:448332 original size:2 final size:2
Alignment explanation
Indices: 448325--448360 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
448315 TATTTTACTC
448325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
448361 TAATATTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:448398 original size:16 final size:16
Alignment explanation
Indices: 448379--448419 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
448369 CATTTATTTA
*
448379 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
448395 TTTA-TTATTTTTACT
1 TTTATTTATTTTTACT
448410 TATT-TTTATT
1 T-TTATTTATT
448420 CTTCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:456530 original size:80 final size:82
Alignment explanation
Indices: 456469--456716 Score: 376
Period size: 85 Copynumber: 3.0 Consensus size: 82
456459 TATTAAAATT
* *
456469 TTATATTGTACAATTATTTTTTTTATTTTTAAATATAAACAGTTAAATTGATCAAAATTGTAAAC
1 TTATATTGTACAATTATTTTTTTTATTTTTAAATATTAACAGTTAAATTGATCAAAACTGTAAAC
456534 GTAAAAGATTAAAAAAAA
66 GTAAAAGATT-AAAAAAA
* * * *
456552 TTATATTGTACAATTA--CTATTT-TTTTAAAATATTAACAGTTAAATTTATCAAAACTGTAAAC
1 TTATATTGTACAATTATTTTTTTTATTTTTAAATATTAACAGTTAAATTGATCAAAACTGTAAAC
456614 GTAAAAGATTAAAAAAA
66 GTAAAAGATTAAAAAAA
*
456631 TTATATTGTACAACTATTTATTTATTTATTTTTAAATATTAACAGTTAAATTGATCAAAACTGTA
1 TTATATTGTACAATTA-TT-TTT-TTTATTTTTAAATATTAACAGTTAAATTGATCAAAACTGTA
456696 AACGTAAAAGATTAAAAAAA
63 AACGTAAAAGATTAAAAAAA
456716 T
1 T
456717 ATAGCTGATA
Statistics
Matches: 148, Mismatches: 11, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
79 22 0.15
80 46 0.31
81 4 0.03
83 17 0.11
84 3 0.02
85 56 0.38
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (82 bp):
TTATATTGTACAATTATTTTTTTTATTTTTAAATATTAACAGTTAAATTGATCAAAACTGTAAAC
GTAAAAGATTAAAAAAA
Found at i:470284 original size:17 final size:18
Alignment explanation
Indices: 470262--470295 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
470252 TAACTAAAAT
470262 TAAAATT-GGAAAAACAG
1 TAAAATTAGGAAAAACAG
*
470279 TAAAATTAGGATAAACA
1 TAAAATTAGGAAAAACA
470296 CATTTTACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.21
Consensus pattern (18 bp):
TAAAATTAGGAAAAACAG
Found at i:480557 original size:65 final size:64
Alignment explanation
Indices: 480488--480609 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
480478 CATAAATCCT
* * *
480488 ATTCGATGTTTGCA-TTTAAGGGGGGGTGCATCGACGCACTACTTGTGCATCGATACACTGATGG
1 ATTCGATGTTTGCATTTTAA--AGGAGTGCATCGACGCACTACATGTGCATCGATACACTGATGG
480552 C
64 C
** * *
480553 ATTCGATGTTTTTATTTTAAAGGAGTGCATCGATGCACTTCATGTGCATCGATACAC
1 ATTCGATGTTTGCATTTTAAAGGAGTGCATCGACGCACTACATGTGCATCGATACAC
480610 CTTGAACAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 32 0.65
65 12 0.24
66 5 0.10
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (64 bp):
ATTCGATGTTTGCATTTTAAAGGAGTGCATCGACGCACTACATGTGCATCGATACACTGATGGC
Found at i:484283 original size:11 final size:11
Alignment explanation
Indices: 484267--484292 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
484257 ATTGAAGTGG
484267 ATAGTTAAGTT
1 ATAGTTAAGTT
484278 ATAGTTAAGTT
1 ATAGTTAAGTT
484289 ATAG
1 ATAG
484293 CCGTTCAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (11 bp):
ATAGTTAAGTT
Found at i:486535 original size:31 final size:32
Alignment explanation
Indices: 486492--486551 Score: 113
Period size: 31 Copynumber: 1.9 Consensus size: 32
486482 TTTTAGATTT
486492 ATTACAAAATAGACACAACACTGTTATCTATC
1 ATTACAAAATAGACACAACACTGTTATCTATC
486524 ATTA-AAAATAGACACAACACTGTTATCT
1 ATTACAAAATAGACACAACACTGTTATCT
486552 TATAAAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (32 bp):
ATTACAAAATAGACACAACACTGTTATCTATC
Found at i:486737 original size:21 final size:22
Alignment explanation
Indices: 486713--486758 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
486703 GTTAAGAATT
*
486713 GTTTCAAT-TATTTTTATTTCA
1 GTTTCAATGTATTTTTATTTAA
*
486734 GTTTGAATGTATTTTTATTTAA
1 GTTTCAATGTATTTTTATTTAA
486756 GTT
1 GTT
486759 AAGGATTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (22 bp):
GTTTCAATGTATTTTTATTTAA
Found at i:487736 original size:3 final size:3
Alignment explanation
Indices: 487723--487772 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
487713 ATGTTAAAAG
*
487723 ATA AT- ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
487770 ATA
1 ATA
487773 CAAGAAGTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:491854 original size:2 final size:2
Alignment explanation
Indices: 491775--491841 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
491765 GATTTCTCCC
491775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
491816 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
491842 ACAATGCATA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:515180 original size:17 final size:18
Alignment explanation
Indices: 515147--515185 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
515137 CAATCTATAG
515147 TATTGACAACATTGGAAT
1 TATTGACAACATTGGAAT
515165 TATTGACAAC-TTGGAAT
1 TATTGACAACATTGGAAT
515182 TATT
1 TATT
515186 CTTATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (18 bp):
TATTGACAACATTGGAAT
Found at i:520679 original size:23 final size:23
Alignment explanation
Indices: 520653--520700 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
520643 ATAAAGTACA
*
520653 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
520676 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
520699 AT
1 AT
520701 TACCTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Done.