Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 164 of 214
Found at i:48610520 original size:13 final size:13
Alignment explanation
Indices: 48610493--48610530 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
48610483 GGAATCATAT
*
48610493 AAAA-ATTTAAAA
1 AAAATATTTTAAA
*
48610505 AAAATGTTTTAAA
1 AAAATATTTTAAA
48610518 AAAATATTTTAAA
1 AAAATATTTTAAA
48610531 TTTTATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AAAATATTTTAAA
Found at i:48611008 original size:25 final size:24
Alignment explanation
Indices: 48610972--48611019 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
48610962 AATAAAAATT
*
48610972 AATATTATTTTTATTTATTTTATAA
1 AATATTATTTTTAATT-TTTTATAA
48610997 AATATT-TCTTTTAATTTTTTATA
1 AATATTAT-TTTTAATTTTTTATA
48611020 CACCTAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
AATATTATTTTTAATTTTTTATAA
Found at i:48611241 original size:16 final size:16
Alignment explanation
Indices: 48611203--48611248 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
48611193 TTCTGGACAT
*
48611203 AACTTTTAATTTTTTT
1 AACTTTTAATTTTTTG
* *
48611219 TATTTTTAATTTTTTG
1 AACTTTTAATTTTTTG
48611235 AACTTTTGAATTTT
1 AACTTTT-AATTTT
48611249 ATTTAATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (16 bp):
AACTTTTAATTTTTTG
Found at i:48611316 original size:16 final size:16
Alignment explanation
Indices: 48611291--48611321 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48611281 TATAGATTTA
*
48611291 TAAATTTTTTAAAATT
1 TAAATCTTTTAAAATT
48611307 TAAATCTTTTAAAAT
1 TAAATCTTTTAAAAT
48611322 ATTTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAATCTTTTAAAATT
Found at i:48618818 original size:51 final size:51
Alignment explanation
Indices: 48618759--48618877 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
48618749 TTTTCTCTAG
* *
48618759 TTAATTTAAATTAATTAAAAGATAGATAATAAAAAATTATATCATCACTAA
1 TTAATTTAAATTAATTAAAAAATAAATAATAAAAAATTATATCATCACTAA
* *
48618810 TTAATTTAAACTAATTAAAAAATAAATAATAAAAAATTATATTATCACTAA
1 TTAATTTAAATTAATTAAAAAATAAATAATAAAAAATTATATCATCACTAA
* *
48618861 -TAAATTAAATTATTTAA
1 TTAATTTAAATTAATTAA
48618878 GTGATAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 14 0.23
51 47 0.77
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (51 bp):
TTAATTTAAATTAATTAAAAAATAAATAATAAAAAATTATATCATCACTAA
Found at i:48626367 original size:21 final size:21
Alignment explanation
Indices: 48626341--48626380 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48626331 TATTTAACGC
*
48626341 TAAATCTCGAACCTTGAACAT
1 TAAATCTCGAACCTCGAACAT
*
48626362 TAAATCTTGAACCTCGAAC
1 TAAATCTCGAACCTCGAAC
48626381 CCTAAGGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (21 bp):
TAAATCTCGAACCTCGAACAT
Found at i:48626562 original size:22 final size:22
Alignment explanation
Indices: 48626537--48626592 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
48626527 TTTGGGTTTA
48626537 AGGTTTAAGGG-TTTGAGATTAT
1 AGGTTT-AGGGTTTTGAGATTAT
*
48626559 AGGTTTAGGGTTTTGAGATTCT
1 AGGTTTAGGGTTTTGAGATTAT
* *
48626581 AGATTTTGGGTT
1 AGGTTTAGGGTT
48626593 CAGGGTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (22 bp):
AGGTTTAGGGTTTTGAGATTAT
Found at i:48628381 original size:17 final size:17
Alignment explanation
Indices: 48628359--48628411 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
48628349 AAATCTTAAA
*
48628359 TTTTGATACCCATATCT
1 TTTTGATACCTATATCT
**
48628376 TTTTGATATTTATATCT
1 TTTTGATACCTATATCT
* *
48628393 TTCTGGTACCTATATCT
1 TTTTGATACCTATATCT
48628410 TT
1 TT
48628412 GACTTTCTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.21, C:0.17, G:0.08, T:0.55
Consensus pattern (17 bp):
TTTTGATACCTATATCT
Found at i:48630493 original size:29 final size:30
Alignment explanation
Indices: 48630446--48630513 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
48630436 TGGCCCAAGA
* *
48630446 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
48630476 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
48630506 GCAAATAT
1 GTAAATAT
48630514 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:48632996 original size:46 final size:46
Alignment explanation
Indices: 48632944--48633258 Score: 506
Period size: 46 Copynumber: 6.8 Consensus size: 46
48632934 GCTCTTTGAA
*
48632944 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
*
48632990 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
*
48633036 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
* *
48633082 ATGAAATGTGTAAGACCATGGTCGAAAGACACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
*
48633128 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
* *
48633174 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
* * * *
48633220 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
48633259 TCATGTCAAA
Statistics
Matches: 255, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 254 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
Found at i:48635689 original size:17 final size:17
Alignment explanation
Indices: 48635664--48635712 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
48635654 AAATCTCAGA
48635664 TTTTGATACCCATATAT
1 TTTTGATACCCATATAT
* *
48635681 TTTTTATACCTATATAT
1 TTTTGATACCCATATAT
*
48635698 TTCTGATACCCATAT
1 TTTTGATACCCATAT
48635713 CTTTGACTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (17 bp):
TTTTGATACCCATATAT
Found at i:48642353 original size:29 final size:30
Alignment explanation
Indices: 48642294--48642351 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
48642284 TCCAAACTTT
*
48642294 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
*
48642324 GGGGC-AAAATCGTAATTTTGAAAAAGTT
1 GGGGCAAAAAT-GTAATTATGAAAAAGTT
48642352 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:48642835 original size:50 final size:50
Alignment explanation
Indices: 48642689--48642930 Score: 378
Period size: 50 Copynumber: 4.8 Consensus size: 50
48642679 ATTTGGGTAA
* *
48642689 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
48642739 AGAGGTCCCATGTAAGACCAT-TCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
48642788 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
48642838 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
48642888 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48642931 TGTTATGATC
Statistics
Matches: 176, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
49 47 0.27
50 95 0.54
51 34 0.19
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:48647728 original size:15 final size:15
Alignment explanation
Indices: 48647691--48647739 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
48647681 TTTATACAAT
48647691 TTATAGA-AATTATA-
1 TTATAGATAA-TATAC
48647705 TTATAAGATAATATAC
1 TTAT-AGATAATATAC
48647721 TTATAGATAATATAC
1 TTATAGATAATATAC
48647736 TTAT
1 TTAT
48647740 TCATAAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.12
15 22 0.69
16 6 0.19
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (15 bp):
TTATAGATAATATAC
Found at i:48647745 original size:15 final size:15
Alignment explanation
Indices: 48647712--48647745 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48647702 ATATTATAAG
*
48647712 ATAATATACTTATAG
1 ATAATATACTTATAC
*
48647727 ATAATATACTTATTC
1 ATAATATACTTATAC
48647742 ATAA
1 ATAA
48647746 AGATAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAATATACTTATAC
Found at i:48647749 original size:36 final size:36
Alignment explanation
Indices: 48647709--48647817 Score: 111
Period size: 36 Copynumber: 3.1 Consensus size: 36
48647699 ATTATATTAT
48647709 AAGATAATATACTTATAGATAATATACTTATTCATA
1 AAGATAATATACTTATAGATAATATACTTATTCATA
*
48647745 AAGATAATATACTTATAGA-AAT-TA-TT-TTTATA
1 AAGATAATATACTTATAGATAATATACTTATTCATA
* * *
48647777 CAATTTATACA-ATTCTTAAAGATAATATACTTATTCATA
1 -AA--GATA-ATATACTTATAGATAATATACTTATTCATA
48647816 AA
1 AA
48647818 AAAATATTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
32 5 0.08
33 4 0.07
34 2 0.03
35 15 0.25
36 23 0.38
37 2 0.03
38 4 0.07
39 5 0.08
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (36 bp):
AAGATAATATACTTATAGATAATATACTTATTCATA
Found at i:48649026 original size:4 final size:5
Alignment explanation
Indices: 48649001--48649033 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
48648991 GCTGTCGTCT
48649001 TTTTA TTTTA TTTTA TTTTA -TTTA TTTATA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTT
48649034 CCTGGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:48653372 original size:44 final size:44
Alignment explanation
Indices: 48653324--48653413 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
48653314 TAATTGTAAT
* * *
48653324 TTAAATTCTAATTATTTTTAAATGTGCAATTATCATAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTA
* *
48653368 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTA
48653412 TT
1 TT
48653414 TTAATTCAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTA
Found at i:48661029 original size:13 final size:13
Alignment explanation
Indices: 48661011--48661035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48661001 TTACGTTTTA
48661011 ACTCCTCCTTAAC
1 ACTCCTCCTTAAC
48661024 ACTCCTCCTTAA
1 ACTCCTCCTTAA
48661036 TCAAATCCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTCCTCCTTAAC
Found at i:48662048 original size:28 final size:28
Alignment explanation
Indices: 48662016--48662070 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
48662006 ATTGAAAGAA
48662016 TGATACATTGGACTCGACCCAAATTGAG
1 TGATACATTGGACTCGACCCAAATTGAG
48662044 TGATACATTGGACTCGACCCAAATTGA
1 TGATACATTGGACTCGACCCAAATTGA
48662071 ATTAATTCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (28 bp):
TGATACATTGGACTCGACCCAAATTGAG
Found at i:48663246 original size:14 final size:13
Alignment explanation
Indices: 48663227--48663259 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
48663217 CGAAACAAAG
48663227 AAGAAAAAGAGAGA
1 AAGAAAAAG-GAGA
48663241 AAGAAAAAGGAGA
1 AAGAAAAAGGAGA
48663254 AA-AAAA
1 AAGAAAA
48663260 TTAGGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGGAGA
Found at i:48665107 original size:30 final size:30
Alignment explanation
Indices: 48665071--48665138 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
48665061 CCACACGGTC
*
48665071 AGACACACGGGCGTGTGACTGGACCGTGTG
1 AGACACACGGGCGTGTGACTGGACCGCGTG
48665101 AGACACACGGGCGTGTGACTGGACCGCGTG
1 AGACACACGGGCGTGTGACTGGACCGCGTG
48665131 AGACACAC
1 AGACACAC
48665139 AGCTAACACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.24, C:0.26, G:0.37, T:0.13
Consensus pattern (30 bp):
AGACACACGGGCGTGTGACTGGACCGCGTG
Found at i:48667537 original size:18 final size:18
Alignment explanation
Indices: 48667472--48667537 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
48667462 ATGTAAATGA
** *
48667472 ATAGGCTCATATAAGTGC
1 ATAGGCTCGCATAAGTGT
*
48667490 ATAGGCTCGCACAAGTGT
1 ATAGGCTCGCATAAGTGT
* *
48667508 TTAAGCTCGCATAAGTGT
1 ATAGGCTCGCATAAGTGT
*
48667526 ATAGGCACGCAT
1 ATAGGCTCGCAT
48667538 GATACTAGGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (18 bp):
ATAGGCTCGCATAAGTGT
Found at i:48668464 original size:13 final size:13
Alignment explanation
Indices: 48668448--48668482 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
48668438 TCAAACTCGT
*
48668448 AAATATTTATTAG
1 AAATATTTATTAA
48668461 AAATATTTATTAA
1 AAATATTTATTAA
48668474 AAATATTTA
1 AAATATTTA
48668483 CGAGGCTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:48669620 original size:16 final size:16
Alignment explanation
Indices: 48669595--48669628 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48669585 ATGAATATAT
* *
48669595 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
48669611 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
48669627 AT
1 AT
48669629 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:48680723 original size:94 final size:93
Alignment explanation
Indices: 48680560--48681172 Score: 578
Period size: 94 Copynumber: 6.6 Consensus size: 93
48680550 AACAGATCAG
* * * *
48680560 TGAAGCTACAATTCCTATACCCTTAAAGTTGAAGTGGGTCGAAATGAAACTACAATGGTGAATTT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCG-AATGAAACTACAATGGTGAATCT
* *
48680625 TATATCCCTGAAGTTGCAGTAGATTGGAT
65 TATATCCCTGAAGTTGCAGTGGATCGGAT
* * * * * *
48680654 TGAAGCTACAATTCTTATATCCCTAAAATTGCAGTGGGTCAGAATGAAACTACAACGGTGAATCC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAATGGTGAATCT
** *
48680719 TATATCCCTGAAGTTATAGTGGATCAGAT
65 TATATCCCTGAAGTTGCAGTGGATCGGAT
* * * *
48680748 TAAAGCTACAATTCCTATACCCCTGAAGTT-CTAATGGGTCGAAATGAAACTACAATAGTGAATA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGC-AGTGGGTCG-AATGAAACTACAATGGTGAATC
* *
48680812 TTATATTCCTAAAGTTGCAGTGGATCGGAT
64 TTATATCCCTGAAGTTGCAGTGGATCGGAT
* ** * * *
48680842 TGAAGCTACAATTCCTATACCCCTAAAGTTGTGGTGGGTCGGATTGAAATTACAATGGCGAATCT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAATGGTGAATCT
** * * * * *
48680907 TACCTCTCTGAAGTTGCAATAGAGCAAGA-
65 TATATCCCTGAAGTTGCAGTGGATC-GGAT
* * * * * *
48680936 TGAAGTTACGATTCTTATACCCCTGAAGTTGCAGTGGGTCGAAATGAAACTACAAAGGCGAATCC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCG-AATGAAACTACAATGGTGAATCT
* * * *
48681001 TATATCCCTAAAGTTACAGCGAATCGGAT
65 TATATCCCTGAAGTTGCAGTGGATCGGAT
* * * *
48681030 TGAAGCTACAATTCCTACACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAA---T---TCA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAATGGTGAATCT
* *
48681089 TATA-CCTCTGAAGTTGTAGTGGGTCGGAT
65 TATATCC-CTGAAGTTGCAGTGGATCGGAT
* * * * *
48681118 TGAAGCTACAATTCATATACCCCTGAAGTTACAATGGGTCAGATTGAAGCTACAA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAA
48681173 CTTCTATACC
Statistics
Matches: 423, Mismatches: 86, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
87 2 0.00
88 73 0.17
93 5 0.01
94 338 0.80
95 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (93 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGAATGAAACTACAATGGTGAATCTT
ATATCCCTGAAGTTGCAGTGGATCGGAT
Found at i:48680881 original size:188 final size:187
Alignment explanation
Indices: 48680560--48681157 Score: 649
Period size: 188 Copynumber: 3.2 Consensus size: 187
48680550 AACAGATCAG
* * * * *
48680560 TGAAGCTACAATTCCTATACCCTTAAAGTTGA-AGTGGGTCGAAATGAAACTACAATGGTGAATT
1 TGAAGCTACAATTCCTATACCCCTGAAGTT-ACAATGGGTCGAAATGAAACTACAATAGTGAATA
* * * * * *
48680624 TTATATCCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAATTCTTATATCCCTAAAATTGCAGT
65 TTATATCCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAGT
* * *
48680689 GGGTCAGAATGAAACTACAACGGTGAATCCTATATCCCTGAAGTTATAGTGGATCAGAT
130 GGGTCAGATTGAAACTACAA-GGTGAATCATATATCCCTGAAGTTGTAGTGGATCAGAT
*
48680748 TAAAGCTACAATTCCTATACCCCTGAAGTT-CTAATGGGTCGAAATGAAACTACAATAGTGAATA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTAC-AATGGGTCGAAATGAAACTACAATAGTGAATA
* **
48680812 TTATATTCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGTGGT
65 TTATATCCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAGT
* * * * ** * * * * *
48680877 GGGTCGGATTGAAATTACAATGGCGAATCTTACCTCTCTGAAGTTGCAATAGAGCAAGA-
130 GGGTCAGATTGAAACTACAA-GGTGAATCATATATCCCTGAAGTTGTAGTGGATC-AGAT
* * * * * * *
48680936 TGAAGTTACGATTCTTATACCCCTGAAGTTGCAGTGGGTCGAAATGAAACTACAA-AGGCGAATC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTACAATGGGTCGAAATGAAACTACAATA-GTGAATA
* * * * * *
48681000 CTATATCCCTAAAGTTACAGCGAATCGGATTGAAGCTACAATTCCTACACCCCTGAAGTTGCAGT
65 TTATATCCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAGT
* * *
48681065 GGGTCAGATTGAAGCTACAA--T---TCATATA-CCTCTGAAGTTGTAGTGGGTCGGAT
130 GGGTCAGATTGAAACTACAAGGTGAATCATATATCC-CTGAAGTTGTAGTGGATCAGAT
*
48681118 TGAAGCTACAATTCATATACCCCTGAAGTTACAATGGGTC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTACAATGGGTC
48681158 AGATTGAAGC
Statistics
Matches: 339, Mismatches: 64, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
181 3 0.01
182 52 0.15
187 1 0.00
188 279 0.82
189 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (187 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTACAATGGGTCGAAATGAAACTACAATAGTGAATAT
TATATCCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAGTG
GGTCAGATTGAAACTACAAGGTGAATCATATATCCCTGAAGTTGTAGTGGATCAGAT
Found at i:48680983 original size:44 final size:44
Alignment explanation
Indices: 48680620--48681293 Score: 321
Period size: 44 Copynumber: 14.7 Consensus size: 44
48680610 TACAATGGTG
* * * * *
48680620 AATT-TTATATCCCTGAAGTTGCAGTAGATTGGATTGAAGCTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * * *
48680663 AATTCTTATATCCCTAAAATTGCAGTGGGTCAGAA-TGAAACTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTC-GAATTGAAGCTAC
* * ** * *
48680707 AACGGTGAATCCTATATCCCTGAAGTTATAGTGGATC-AGATTAAAGCTAC
1 AA---T---TCTTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAAGCTAC
* * * *
48680757 AATTCCTATACCCCTGAAGTT-CTAATGGGTCGAAATGAAACTAC
1 AATTCTTATACCCCTGAAGTTGC-AGTGGGTCGAATTGAAGCTAC
* ** * * *
48680801 AATAGTGAATATTATATTCCTAAAGTTGCAGTGGATCGGATTGAAGCTAC
1 -A-A-T---TCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * ** * **
48680851 AATTCCTATACCCCTAAAGTTGTGGTGGGTCGGATTGAAATTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * * * *
48680895 AATGGCGAATCT-TACCTCTCTGAAGTTGCAATAGAG-C-AAGATGAAGTTAC
1 AAT-TC---T-TATACC-C-CTGAAGTTGCAGT-GGGTCGAA-TTGAAGCTAC
* * *
48680945 GATTCTTATACCCCTGAAGTTGCAGTGGGTCGAAATGAAACTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * * * * * ** *
48680989 AAAGGCGAATCCTATATCCCTAAAGTTACAGCGAATCGGATTGAAGCTAC
1 --A----ATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* *
48681039 AATTCCTACACCCCTGAAGTTGCAGTGGGTC-AGATTGAAGCTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAAGCTAC
* * * *
48681083 AATTCATATACCTCTGAAGTTGTAGTGGGTCGGATTGAAGCTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * *
48681127 AATTCATATACCCCTGAAGTTACAATGGGTC-AGATTGAAGCTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAAGCTAC
*
48681171 AACTTC-TATACCCCTGAAGTTGTAGTGGGTCGAATTGAAGTTACCATAGC
1 AA-TTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAG----C-TA-C
* * *
48681221 AAATCTTAT-CTCCCAGAAGTTGCAGTGGAGTAG-A-TGAAGCTAC
1 AATTCTTATAC-CCCTGAAGTTGCAGTGG-GTCGAATTGAAGCTAC
*
48681264 AAATCTTATACCCCTGAAGTTGCAGTGGGT
1 AATTCTTATACCCCTGAAGTTGCAGTGGGT
48681294 ACATTAGCGA
Statistics
Matches: 483, Mismatches: 96, Indels: 105
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.00
43 32 0.07
44 261 0.54
45 14 0.03
46 6 0.01
47 4 0.01
48 8 0.02
49 16 0.03
50 134 0.28
51 6 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
Found at i:48681365 original size:82 final size:81
Alignment explanation
Indices: 48681217--48681375 Score: 246
Period size: 82 Copynumber: 2.0 Consensus size: 81
48681207 GAAGTTACCA
* * *
48681217 TAGCAAATCTTATCTCCCAGAAGTTGCAGTGGAGTAGATGAAGCTACAAATCTTATACCCCTGAA
1 TAGCAAATCTTATCTCCCAGAAGTTGCAGTGGAGAAGAAGAAGCTACAAATCCTATACCCCTGAA
48681282 GTTGCAGTGGGTACAT
66 GTTGCAGTGGGTACAT
* **
48681298 TAGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGA
1 TAGCAAATCTTATCTCCCAGAAGTTGCAGTGGAG-AAGAAGAAGCTACAAATCCTATACCCCTGA
*
48681363 AGTTGGAGTGGGT
65 AGTTGCAGTGGGT
48681376 CAAATTAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
81 31 0.44
82 39 0.56
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (81 bp):
TAGCAAATCTTATCTCCCAGAAGTTGCAGTGGAGAAGAAGAAGCTACAAATCCTATACCCCTGAA
GTTGCAGTGGGTACAT
Found at i:48681621 original size:188 final size:188
Alignment explanation
Indices: 48681302--48681701 Score: 518
Period size: 188 Copynumber: 2.1 Consensus size: 188
48681292 GTACATTAGC
*
48681302 GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGAAGTT
1 GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTAAAGTT
** * * *
48681367 GGAGTGGGTCAAATTAAATCTACCATAATAAATCTTATCTCCCTGAATATGCAGTGAAGCAAGAT
66 ACAGTGGGTCAAATTAAATATACCATAACAAATCTTATCTCCCTGAAGATGCAGTGAAGCAAGAT
* ** ** *
48681432 GAAGCTACAAATTTTATACCCCT-AAAGTTACAGTGGGTTGGATTGAATCTAC-CATAA
131 GAACCTACAAATCCTATACCCCTGAAA-TTACAGTGGAATGGATTGAAACTACACATAA
* * * *
48681489 GGAATCTTATCTCCTTGACGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATATCCCTAAAGT
1 -GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTAAAGT
* * * * * *
48681554 TACAGTGGGTTAGATTGAATATACCATAACGAATCTTATCTCCCTGAAGATGTAGTGAAGTAAGA
65 TACAGTGGGTCAAATTAAATATACCATAACAAATCTTATCTCCCTGAAGATGCAGTGAAGCAAGA
* ** *
48681619 TGAACCTACAAATCCTATATCCCTGAAATTGTAGTGGAATGGATTGAAACTACAACATCA
130 TGAACCTACAAATCCTATACCCCTGAAATTACAGTGGAATGGATTGAAACTAC-ACATAA
48681679 -AATCTTATCTCCTTGAAGTTGCA
1 GAATCTTATCTCCTTGAAGTTGCA
48681702 ATTGAACAAG
Statistics
Matches: 182, Mismatches: 27, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
188 175 0.96
189 3 0.02
190 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (188 bp):
GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTAAAGTT
ACAGTGGGTCAAATTAAATATACCATAACAAATCTTATCTCCCTGAAGATGCAGTGAAGCAAGAT
GAACCTACAAATCCTATACCCCTGAAATTACAGTGGAATGGATTGAAACTACACATAA
Found at i:48681666 original size:94 final size:94
Alignment explanation
Indices: 48681301--48681642 Score: 432
Period size: 94 Copynumber: 3.6 Consensus size: 94
48681291 GGTACATTAG
* * * * * *
48681301 CGAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGAAGT
1 CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
** * * *
48681366 TGGAGTGGGTCAAATTAAATCTACCATAA
66 TACAGTGGGTTAGATTGAATCTACCATAA
** * * **
48681395 TAAATCTTATCTCCCTGAATATGCAGTGAAGCAAGATGAAGCTACAAATTTTATACCCCTAAAGT
1 CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
*
48681460 TACAGTGGGTTGGATTGAATCTACCATAA
66 TACAGTGGGTTAGATTGAATCTACCATAA
* * * * * *
48681489 GGAATCTTATCTCCTTGACGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATATCCCTAAAGT
1 CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
*
48681554 TACAGTGGGTTAGATTGAATATACCATAA
66 TACAGTGGGTTAGATTGAATCTACCATAA
* * *
48681583 CGAATCTTATCTCCCTGAAGATGTAGTGAAGTAAGATGAACCTACAAATCCTATATCCCT
1 CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCT
48681643 GAAATTGTAG
Statistics
Matches: 211, Mismatches: 37, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 211 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (94 bp):
CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
TACAGTGGGTTAGATTGAATCTACCATAA
Found at i:48681683 original size:94 final size:94
Alignment explanation
Indices: 48681303--48681701 Score: 371
Period size: 94 Copynumber: 4.2 Consensus size: 94
48681293 TACATTAGCG
* * * * * *
48681303 AATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGAAGTTG
1 AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTA
* * *
48681368 GAGTGGGTCAAATT-AAATCTACCATA-AT-A
66 CAGTGGGTTAGATTGAAA-CTA-CA-ACATCA
* * * **
48681397 AATCTTATCTCCCTGAATATGCAGTGAAGCAAGATGAAGCTACAAATTTTATACCCCTAAAGTTA
1 AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTA
* * *
48681462 CAGTGGGTTGGATTGAATCTAC--CATAA
66 CAGTGGGTTAGATTGAAACTACAACATCA
* * * *
48681489 GGAATCTTATCTCCTTGACGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATATCCCTAAAGT
1 --AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
* * * *
48681554 TACAGTGGGTTAGATTGAATA-TACCATAACG
64 TACAGTGGGTTAGATTGAA-ACTACAACATCA
* * * *
48681585 AATCTTATCTCCCTGAAGATGTAGTGAAGTAAGATGAACCTACAAATCCTATATCCCTGAAA-TT
1 AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCT-AAAGTT
** ** *
48681649 GTAGTGGAATGGATTGAAACTACAACATCA
65 ACAGTGGGTTAGATTGAAACTACAACATCA
*
48681679 AATCTTATCTCCTTGAAGTTGCA
1 AATCTTATCTCCTTGAAGATGCA
48681702 ATTGAACAAG
Statistics
Matches: 247, Mismatches: 48, Indels: 20
0.78 0.15 0.06
Matches are distributed among these distances:
91 2 0.01
92 1 0.00
93 2 0.01
94 236 0.96
95 5 0.02
96 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (94 bp):
AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTA
CAGTGGGTTAGATTGAAACTACAACATCA
Found at i:48682369 original size:16 final size:15
Alignment explanation
Indices: 48682344--48682381 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
48682334 GTAACGTAAC
48682344 AAAAAAAGAATA-AGA
1 AAAAAAAGAATACA-A
48682359 AAAAAATAGAATACAA
1 AAAAAA-AGAATACAA
48682375 AAAAAAA
1 AAAAAAA
48682382 CTAAGTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 13 0.62
17 1 0.05
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAGAATACAA
Found at i:48682807 original size:12 final size:12
Alignment explanation
Indices: 48682778--48682823 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
48682768 AGAATGTTTT
48682778 TTTTTTAAAATA
1 TTTTTTAAAATA
**
48682790 GGTTTTAAAATGA
1 TTTTTTAAAAT-A
48682803 TTTTTTTAAAATA
1 -TTTTTTAAAATA
48682816 TTTTTTAA
1 TTTTTTAA
48682824 CTTATATAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 17 0.61
13 2 0.07
14 9 0.32
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:48683266 original size:12 final size:12
Alignment explanation
Indices: 48683233--48683274 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 12
48683223 TACTTATTTT
48683233 TTTATTTTTATTA
1 TTTA-TTTTATTA
48683246 TCGTTATTTTATTA
1 T--TTATTTTATTA
48683260 TTTATTTTATTA
1 TTTATTTTATTA
48683272 TTT
1 TTT
48683275 CTGGCACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 14 0.52
13 1 0.04
14 9 0.33
15 3 0.11
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:48683403 original size:25 final size:25
Alignment explanation
Indices: 48683374--48683424 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
48683364 TATGATAATA
*
48683374 TGATTATTGTTATTATTATTACCAT
1 TGATTAATGTTATTATTATTACCAT
*
48683399 TGATTAATGTTATTATTATTATCAT
1 TGATTAATGTTATTATTATTACCAT
48683424 T
1 T
48683425 ATAGTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (25 bp):
TGATTAATGTTATTATTATTACCAT
Found at i:48686200 original size:30 final size:30
Alignment explanation
Indices: 48686154--48686277 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
48686144 TTTTATTATG
*
48686154 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
48686185 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
48686215 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
48686245 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
48686275 CCA
1 CCA
48686278 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:48686209 original size:15 final size:15
Alignment explanation
Indices: 48686164--48686271 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
48686154 CCAATATCTC
48686164 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
48686179 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
48686194 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
48686209 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
48686224 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
48686239 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
48686254 GATACCCATATCTTT
1 GATACCCATATCTTT
48686269 GAT
1 GAT
48686272 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:48690892 original size:30 final size:30
Alignment explanation
Indices: 48690848--48690968 Score: 174
Period size: 30 Copynumber: 4.0 Consensus size: 30
48690838 TTTATTATGC
*
48690848 CAATATCTCGATACCCATATCTTTGACTTTT
1 CAATAT-TTGATACCCATATCTTTGACTTTT
*
48690879 CAATATTTGATACCCATATCTTTGACTTTC
1 CAATATTTGATACCCATATCTTTGACTTTT
48690909 CAATATTTGATACCCATATCTTTGAC-TTT
1 CAATATTTGATACCCATATCTTTGACTTTT
* *
48690938 CTATTATTTGATACACATATCTTTGA-TTTT
1 C-AATATTTGATACCCATATCTTTGACTTTT
48690968 C
1 C
48690969 CATAAATATG
Statistics
Matches: 83, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.04
30 74 0.89
31 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (30 bp):
CAATATTTGATACCCATATCTTTGACTTTT
Found at i:48690902 original size:15 final size:15
Alignment explanation
Indices: 48690857--48690964 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
48690847 CCAATATCTC
48690857 GATACCCATATCTTT
1 GATACCCATATCTTT
*** *
48690872 GACTTTTCA-ATATTT
1 GA-TACCCATATCTTT
48690887 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
48690902 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
48690917 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
48690932 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
*
48690947 GATACACATATCTTT
1 GATACCCATATCTTT
48690962 GAT
1 GAT
48690965 TTTCCATAAA
Statistics
Matches: 64, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
14 10 0.16
15 43 0.67
16 11 0.17
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:48694737 original size:13 final size:13
Alignment explanation
Indices: 48694721--48694745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48694711 TATATATTTT
48694721 TTGATAAATTTAA
1 TTGATAAATTTAA
48694734 TTGATAAATTTA
1 TTGATAAATTTA
48694746 TTTTTTTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TTGATAAATTTAA
Found at i:48698909 original size:11 final size:11
Alignment explanation
Indices: 48698880--48698998 Score: 67
Period size: 11 Copynumber: 11.3 Consensus size: 11
48698870 AAATTAAAAT
*
48698880 AAAA-ATTTAA
1 AAAATATTTTA
48698890 AAAAGTATTTTA
1 AAAA-TATTTTA
48698902 AAAATATTTT-
1 AAAATATTTTA
**
48698912 -AAA-ATTAAA
1 AAAATATTTTA
48698921 AAAAGTATTTTA
1 AAAA-TATTTTA
*
48698933 AAAAAATTTTA
1 AAAATATTTTA
*
48698944 AAAAAATTTT-
1 AAAATATTTTA
48698954 -AAA-A--TTA
1 AAAATATTTTA
* *
48698961 AAAAAATTTAAA
1 AAAATATTT-TA
48698973 AAAAGTATTTTA
1 AAAA-TATTTTA
*
48698985 AAAGTATTTTA
1 AAAATATTTTA
48698996 AAA
1 AAA
48698999 TAAAAAAATA
Statistics
Matches: 86, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
6 2 0.02
8 7 0.08
9 7 0.08
10 7 0.08
11 33 0.38
12 26 0.30
13 4 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:48698923 original size:31 final size:31
Alignment explanation
Indices: 48698881--48698946 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
48698871 AATTAAAATA
* *
48698881 AAAATTTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAAAATTTT
48698912 AAAATTAAAAAAAGTATTTTAAAAAAATTTT
1 AAAATTAAAAAAAGTATTTTAAAAAAATTTT
48698943 AAAA
1 AAAA
48698947 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (31 bp):
AAAATTAAAAAAAGTATTTTAAAAAAATTTT
Found at i:48698958 original size:52 final size:54
Alignment explanation
Indices: 48698880--48698998 Score: 147
Period size: 52 Copynumber: 2.2 Consensus size: 54
48698870 AAATTAAAAT
***
48698880 AAAAA-TTTAAAAAAGTATTTTAAAAATATTTTAAAA-TTAAAAAAAGTATTTTAA
1 AAAAATTTTAAAAAAG-ATTTTAAAAAT-TAAAAAAATTTAAAAAAAGTATTTTAA
48698934 AAAAATTTTAAAAAA-ATTTT-AAAATTAAAAAAATTTAAAAAAAGTATTTTAA
1 AAAAATTTTAAAAAAGATTTTAAAAATTAAAAAAATTTAAAAAAAGTATTTTAA
**
48698986 AAGTATTTTAAAA
1 AAAAATTTTAAAA
48698999 TAAAAAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
51 5 0.09
52 34 0.59
53 5 0.09
54 5 0.09
55 9 0.16
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (54 bp):
AAAAATTTTAAAAAAGATTTTAAAAATTAAAAAAATTTAAAAAAAGTATTTTAA
Found at i:48698962 original size:28 final size:29
Alignment explanation
Indices: 48698930--48698987 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
48698920 AAAAAGTATT
*
48698930 TTAAAAAAATTTTAAAAAA-ATTTTAAAA
1 TTAAAAAAATTTAAAAAAAGATTTTAAAA
48698958 TTAAAAAAATTTAAAAAAAGTATTTTAAAA
1 TTAAAAAAATTTAAAAAAAG-ATTTTAAAA
48698988 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
30 9 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (29 bp):
TTAAAAAAATTTAAAAAAAGATTTTAAAA
Found at i:48698974 original size:17 final size:17
Alignment explanation
Indices: 48698941--48698974 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48698931 TAAAAAAATT
*
48698941 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTAAAAA
48698958 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
48698975 AAGTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:48699846 original size:24 final size:24
Alignment explanation
Indices: 48699818--48699869 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
48699808 TTCGTAGGTC
*
48699818 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACT
* * * *
48699842 AAATATATTGTACTAGTAAATATT
1 AAATAAATTATACTAATAAATACT
48699866 AAAT
1 AAAT
48699870 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:48701819 original size:24 final size:24
Alignment explanation
Indices: 48701791--48701842 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48701781 TTCGTAGGTC
* *
48701791 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
48701815 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
48701839 AAAT
1 AAAT
48701843 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:48704842 original size:31 final size:31
Alignment explanation
Indices: 48704806--48704870 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
48704796 TTTTATAAAT
*
48704806 AAAATAGTTATTAATTAAAAATATGAATTAA
1 AAAATAGTTATTAATTAAAAACATGAATTAA
* * *
48704837 AAAATATTTATTAATTATAAACATTAATTAA
1 AAAATAGTTATTAATTAAAAACATGAATTAA
48704868 AAA
1 AAA
48704871 TAAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (31 bp):
AAAATAGTTATTAATTAAAAACATGAATTAA
Found at i:48705863 original size:12 final size:12
Alignment explanation
Indices: 48705810--48705932 Score: 77
Period size: 12 Copynumber: 9.8 Consensus size: 12
48705800 TCTTCAATTA
*
48705810 TTTTTCATCTAG
1 TTTTTCATCAAG
*
48705822 TTCTTTTATCAAG
1 TT-TTTCATCAAG
*
48705835 TTTTTAATTACCAAG
1 TTTTTCA-T--CAAG
*
48705850 TTTTTTATCAAG
1 TTTTTCATCAAG
* *
48705862 TTTTGCAGCAAG
1 TTTTTCATCAAG
* *
48705874 TTCTTT-TTAAAG
1 TT-TTTCATCAAG
48705886 TTTTTCATCAAG
1 TTTTTCATCAAG
* *
48705898 TCTTTTCATAAAA
1 T-TTTTCATCAAG
*
48705911 TTTTCCATCAAG
1 TTTTTCATCAAG
*
48705923 TTTTTAATCA
1 TTTTTCATCA
48705933 TTTCGTTTTT
Statistics
Matches: 84, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
11 3 0.04
12 47 0.56
13 23 0.27
14 1 0.01
15 10 0.12
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:48705909 original size:25 final size:24
Alignment explanation
Indices: 48705810--48705928 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
48705800 TCTTCAATTA
* *
48705810 TTTTTCATCTAGTTCTTTTATCAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
* * *
48705835 TTTTTAATTACCAAGTTTTTTATCAAG
1 TTTTTCA-T--CAAGTCTTTTATAAAG
* *
48705862 TTTTGCAGCAAGTTCTTTT-TAAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
*
48705886 TTTTTCATCAAGTCTTTTCATAAAA
1 TTTTTCATCAAGTCTTTT-ATAAAG
*
48705911 TTTTCCATCAAGT-TTTTA
1 TTTTTCATCAAGTCTTTTA
48705929 ATCATTTCGT
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
23 7 0.09
24 22 0.29
25 27 0.36
26 1 0.01
27 16 0.21
28 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTTTCATCAAGTCTTTTATAAAG
Found at i:48717138 original size:6 final size:6
Alignment explanation
Indices: 48717127--48717154 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
48717117 GCTCGCAGAT
48717127 CCACCG CCACCG CCACCG CCACCG CCAC
1 CCACCG CCACCG CCACCG CCACCG CCAC
48717155 TACAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.68, G:0.14, T:0.00
Consensus pattern (6 bp):
CCACCG
Found at i:48719137 original size:158 final size:158
Alignment explanation
Indices: 48718844--48719155 Score: 511
Period size: 158 Copynumber: 2.0 Consensus size: 158
48718834 AGCCATGTCC
48718844 ATGGTTGGATTTATTGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATGCTATGCGCCTTAGCG
1 ATGGTTGGATTTATTGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATGCTATGCGCCTTAGCG
48718909 CTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGTGC
66 CTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGTGC
*
48718974 CCTTAACTGCATTATTTTTTGTAACGCT
131 CCTTAACTGCATTAATTTTTGTAACGCT
* **
48719002 ATGGTTGGATTTATCT-GTGTTCTCAAGTTTTGCACCTAGGCATGCCTATGCCT-TGCGCCTTAG
1 ATGGTTGGATTTAT-TGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATG-CTATGCGCCTTAG
* * *
48719065 CGCTAGGCAACAAAAGCACCTCGACCCTTTCAGGCGAGGCGCATTTGGTCAGGCACACTTCTGGT
64 CGCTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGT
* *
48719130 GCTCTTAACTGCGTTAATTTTTGTAA
129 GCCCTTAACTGCATTAATTTTTGTAA
48719156 GGTGATAGGC
Statistics
Matches: 143, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
158 140 0.98
159 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (158 bp):
ATGGTTGGATTTATTGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATGCTATGCGCCTTAGCG
CTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGTGC
CCTTAACTGCATTAATTTTTGTAACGCT
Found at i:48726202 original size:16 final size:16
Alignment explanation
Indices: 48726181--48726219 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
48726171 AAGAAAATTG
48726181 TTATTTATTATTATTA
1 TTATTTATTATTATTA
*
48726197 TTATTTATTATTTTTA
1 TTATTTATTATTATTA
48726213 TT-TTTAT
1 TTATTTAT
48726220 ATTCATGCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:48726473 original size:24 final size:23
Alignment explanation
Indices: 48726425--48726474 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
48726415 TATATTTTTA
* *
48726425 TATTTTTCTTATGTTCATAAGTG
1 TATTTTTCTTATATTCATAAATG
48726448 TATTTTT-TTATATTCATATTAATG
1 TATTTTTCTTATATTCATA--AATG
48726472 TAT
1 TAT
48726475 ATATTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 10 0.43
23 7 0.30
24 6 0.26
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (23 bp):
TATTTTTCTTATATTCATAAATG
Found at i:48726675 original size:15 final size:15
Alignment explanation
Indices: 48726652--48726684 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48726642 GTGATATGTC
48726652 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
48726667 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
48726682 ATT
1 ATT
48726685 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:48727078 original size:98 final size:98
Alignment explanation
Indices: 48726958--48727154 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
48726948 TTAAAAATAA
* * * *
48726958 TAAAGGAAATATTCCTAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTC
48727023 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
48727056 TAAATGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTC
48727121 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
48727154 T
1 T
48727155 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:48731664 original size:6 final size:6
Alignment explanation
Indices: 48731650--48731690 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
48731640 AGTTCAGATT
48731650 AAAAA- AAAAAC AAAAAAAC AAAAAC AAAAA- AAAAAC AAAAA
1 AAAAAC AAAAAC --AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
48731691 ATAAAAGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 10 0.31
6 16 0.50
8 6 0.19
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:48731666 original size:8 final size:8
Alignment explanation
Indices: 48731653--48731691 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
48731643 TCAGATTAAA
48731653 AAAAAAAC
1 AAAAAAAC
48731661 AAAAAAAC
1 AAAAAAAC
*
48731669 AAAAACAAA
1 AAAAA-AAC
48731678 AAAAAAAC
1 AAAAAAAC
48731686 AAAAAA
1 AAAAAA
48731692 TAAAAGTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:48731672 original size:14 final size:13
Alignment explanation
Indices: 48731650--48731696 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 13
48731640 AGTTCAGATT
48731650 AAAAAAAAAACAA
1 AAAAAAAAAACAA
48731663 AAAAACAAAAAC--
1 AAAAA-AAAAACAA
48731675 AAAAAAAAAACAA
1 AAAAAAAAAACAA
48731688 AAAATAAAA
1 AAAA-AAAA
48731697 GTGAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.20
12 5 0.17
13 9 0.30
14 10 0.33
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:48731681 original size:17 final size:18
Alignment explanation
Indices: 48731651--48731691 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
48731641 GTTCAGATTA
48731651 AAAAAAAAACAAAAAAAC
1 AAAAAAAAACAAAAAAAC
*
48731669 AAAAACAAA-AAAAAAAC
1 AAAAAAAAACAAAAAAAC
48731686 AAAAAA
1 AAAAAA
48731692 TAAAAGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAC
Found at i:48731696 original size:17 final size:16
Alignment explanation
Indices: 48731652--48731696 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
48731642 TTCAGATTAA
48731652 AAAAAAAACAAAAAAAC
1 AAAAAAAA-AAAAAAAC
48731669 AAAAACAAAAAAAAAAC
1 AAAAA-AAAAAAAAAAC
*
48731686 AAAAAATAAAA
1 AAAAAAAAAAA
48731697 GTGAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 5 0.19
17 18 0.69
18 3 0.12
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:48731716 original size:12 final size:11
Alignment explanation
Indices: 48731650--48731696 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 11
48731640 AGTTCAGATT
48731650 AAAAAAAAAAC
1 AAAAAAAAAAC
48731661 AAAAAAACAAAAAC
1 --AAAAA-AAAAAC
48731675 AAAAAAAAAAC
1 AAAAAAAAAAC
48731686 AAAAAATAAAA
1 AAAAAA-AAAA
48731697 GTGAAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.38
12 9 0.28
13 5 0.16
14 6 0.19
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:48732874 original size:29 final size:30
Alignment explanation
Indices: 48732815--48732872 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
48732805 TCCGAGCCTT
*
48732815 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
48732845 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
48732873 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:48733102 original size:13 final size:13
Alignment explanation
Indices: 48733084--48733115 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
48733074 TTTCCAGAAA
48733084 TTATGAATTTATT
1 TTATGAATTTATT
48733097 TTATGAATTTATT
1 TTATGAATTTATT
*
48733110 TGATGA
1 TTATGA
48733116 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:48733323 original size:50 final size:50
Alignment explanation
Indices: 48733210--48733451 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
48733200 ATTTGGGTAA
* * *
48733210 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
48733266 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
48733316 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
48733366 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
48733416 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
48733452 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:48733399 original size:100 final size:103
Alignment explanation
Indices: 48733210--48733459 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
48733200 ATTTGGGTAA
48733210 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
48733275 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
48733316 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
48733378 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
48733416 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
48733460 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:48734857 original size:54 final size:55
Alignment explanation
Indices: 48734793--48734906 Score: 203
Period size: 55 Copynumber: 2.1 Consensus size: 55
48734783 TTTTTTATTG
48734793 AATTTGTTA-TTTTTTGGAATACCTCATTCTTTTCCAAGATATACATTCCCAATC
1 AATTTGTTATTTTTTTGGAATACCTCATTCTTTTCCAAGATATACATTCCCAATC
* *
48734847 AATTTGTTATTTTTTTTGAATACCTCATTCTTTTCCAAGATATATATTCCCAATC
1 AATTTGTTATTTTTTTGGAATACCTCATTCTTTTCCAAGATATACATTCCCAATC
48734902 AATTT
1 AATTT
48734907 CTTTGTTATC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
54 9 0.16
55 48 0.84
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.47
Consensus pattern (55 bp):
AATTTGTTATTTTTTTGGAATACCTCATTCTTTTCCAAGATATACATTCCCAATC
Found at i:48735902 original size:44 final size:44
Alignment explanation
Indices: 48735798--48735919 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
48735788 GAAGATGGAA
* * *
48735798 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTGAT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACTGAT
* * * *
48735842 AATCCTATCCCCTTGAAGTTGCAGTGGAGCAGATCACAACT-TT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACTGAT
* * *
48735885 GGATCTTATCTCTTTGAAGTTGCAG-AGAGCAGATC
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATC
48735920 CCATCCTCCT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 10 0.15
44 55 0.85
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACTGAT
Found at i:48736242 original size:217 final size:216
Alignment explanation
Indices: 48735788--48736472 Score: 964
Period size: 217 Copynumber: 3.2 Consensus size: 216
48735778 GGAGCAAATC
* * * *
48735788 GAAGATGGAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTGATAATCCTATCCC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCCC
* * * ** *
48735853 CTTGAAGTTGCAGTGGAGCA-GATCACAACTTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAG
66 C-TGAAGTTGCAGTGGAG-AGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
* *
48735917 ATC-C--C-A-TC----CT-CCTGAAGTTGTAGTGGGGCAGACTGAAG-ATAGCAAGTCTTATCC
129 ATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTA-AGCAAGTCTTATCC
*
48735971 TCCTAAAGTTGCAGTGGGGCAGACT
192 TCCTGAAGTTGCAGTGGGGCAGACT
* * * *
48735996 GAAGATGGTAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATC-C
*
48736061 CCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
65 CCTGAAGTTGCAGTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
*
48736126 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATCCTCC
130 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCC
48736191 TGAAGTTGCAGTGGGGCAGACT
195 TGAAGTTGCAGTGGGGCAGACT
* *
48736213 GAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCGATAATCCTATCAC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATC-C
*
48736278 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
65 CCTGAAGTTGCAGTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
*
48736343 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGTAGCAGACTAAGTAAGCAAGTCTTATCCTCC
130 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCC
*
48736408 TGAAGTTGCAGTGAGGCAGACT
195 TGAAGTTGCAGTGGGGCAGACT
** ** *
48736430 GAAGATTTCAAATCTTATCTCCCT-AAGCAGTAGTGGAGCAGAT
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
48736473 CGAAGATGGC
Statistics
Matches: 429, Mismatches: 35, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
207 1 0.00
208 112 0.26
209 4 0.01
211 1 0.00
212 1 0.00
213 2 0.00
216 15 0.03
217 271 0.63
218 22 0.05
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (216 bp):
GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCCC
CTGAAGTTGCAGTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGAT
CGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCT
GAAGTTGCAGTGGGGCAGACT
Found at i:48736400 original size:44 final size:43
Alignment explanation
Indices: 48735927--48736471 Score: 325
Period size: 44 Copynumber: 12.5 Consensus size: 43
48735917 ATCCCATCCT
* *
48735927 CCTGAAGTTGTAGTGGGGCAGACTGAAGATAGCAAGTCTTATC-C
1 CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCTTATCTC
* * * *
48735971 TCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGTAAGTCTTATCTC
1 -CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCTTATCTC
* * * * *
48736017 CTTGAAGTTGCAGTGGAGTAGA-TTA-AAGCCGATAATCCTATCTC
1 CCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTATCTC
* * * *
48736061 CCTGAAGTTGCATTGGAG-AGGATTAA-AACCTCAGATCTTATCTC
1 CCTGAAGTTGCAGTGGAGCA-GACTAAGAAGC-AAG-TCTTATCTC
* * * * * *
48736105 TCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTC
*
48736145 CCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATC-C
1 CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCTC
* *
48736188 TCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTC
1 -CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCTTATCTC
* * * * *
48736234 CCTGAAGTTGCAGAGGAGCAGA-TTA-AAGCCGATAATCCTATCAC
1 CCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTATCTC
* * * *
48736278 CCTGAAGTTGCAGTGGAGCGGATTAA-AACCTCAGATCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCTTATCTC
* * * * * *
48736322 TCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTC
*
48736362 CCTGAAGTTGCAGTGTAGCAGACTAAGTAAGCAAGTCTTATC-C
1 CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCTC
** *
48736405 TCCTGAAGTTGCAGT-GAGGCAGACTGAAGATTTCAAATCTTATCTC
1 -CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCTTATCTC
** *
48736451 CCT-AAGCAGTAGTGGAGCAGA
1 CCTGAAGTTGCAGTGGAGCAGA
48736472 TCGAAGATGG
Statistics
Matches: 392, Mismatches: 75, Indels: 67
0.73 0.14 0.13
Matches are distributed among these distances:
40 42 0.11
41 18 0.05
42 11 0.03
43 23 0.06
44 177 0.45
45 118 0.30
46 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
CCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTC
Found at i:48736403 original size:84 final size:84
Alignment explanation
Indices: 48736134--48736427 Score: 238
Period size: 89 Copynumber: 3.4 Consensus size: 84
48736124 GATCGCATCT
* * * * *
48736134 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCA-AGTCTTATCCTCCTGAAGTT
1 AGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTAAG-CAG-ATAGTCTTATCC-CCTGAAGTT
* *
48736198 GCAGTGGGGCAGACTGAAGATGGCA
62 GCAGTGGAGCAGACT-AAGA-AGCA
* * * *
48736223 AGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCGATAATCCTATCACCCTGAAGTTG
1 AGTCTTATCTCTCTGAAGTTGCAGA-GAGCAGATT-AAGCAGATAGTCTTATC-CCCTGAAGTTG
* * * *
48736288 CAGTGGAGCGGATTAA-AACCTC
63 CAGTGGAGCAGACTAAGAAGC-A
* **
48736310 AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA-T-CGCATCTAGTCTTATCTCCCTGAAGTTGC
1 AG-TCTTATCTCTCTGAAGTTGCAGAGAGCAGATTAAGCAGATAGTCTTATC-CCCTGAAGTTGC
*
48736373 AGTGTAGCAGACTAAGTAAGCA
64 AGTGGAGCAGACTAAG-AAGCA
*
48736395 AGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGA
1 AGTCTTATCTCT-CTGAAGTTGCAGAGA-GCAGA
48736428 CTGAAGATTT
Statistics
Matches: 168, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
83 2 0.01
84 55 0.33
85 7 0.04
86 5 0.03
87 10 0.06
88 25 0.15
89 60 0.36
90 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (84 bp):
AGTCTTATCTCTCTGAAGTTGCAGAGAGCAGATTAAGCAGATAGTCTTATCCCCTGAAGTTGCAG
TGGAGCAGACTAAGAAGCA
Found at i:48737870 original size:19 final size:19
Alignment explanation
Indices: 48737846--48737887 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
48737836 AAGAAAATTG
48737846 TTATTTATTATTATTATTA
1 TTATTTATTATTATTATTA
* *
48737865 TTATTTATTATTTTTATTT
1 TTATTTATTATTATTATTA
48737884 TTAT
1 TTAT
48737888 ATTCATGCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTATTATTATTATTA
Found at i:48737872 original size:16 final size:15
Alignment explanation
Indices: 48737846--48737887 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
48737836 AAGAAAATTG
48737846 TTATTTATTATTATTA
1 TTATTT-TTATTATTA
*
48737862 TTATTATTTATTATTT
1 TTATT-TTTATTATTA
48737878 TTATTTTTAT
1 TTATTTTTAT
48737888 ATTCATGCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 5 0.21
16 18 0.75
17 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTTTATTATTA
Found at i:48738144 original size:28 final size:27
Alignment explanation
Indices: 48738090--48738150 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
48738080 TATATATTTT
* *
48738090 TATATTTTTCTTATGTTCATAAGTGTA
1 TATATTTTTCTTATATTCATAAATGTA
*
48738117 T-TATTTTTTTTATATTCATATTAATGTA
1 TATATTTTTCTTATATTCATA--AATGTA
48738145 TATATT
1 TATATT
48738151 ATGTGCCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 17 0.61
27 1 0.04
28 6 0.21
29 4 0.14
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.61
Consensus pattern (27 bp):
TATATTTTTCTTATATTCATAAATGTA
Found at i:48738346 original size:15 final size:15
Alignment explanation
Indices: 48738323--48738355 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48738313 GTGATATGTC
48738323 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
48738338 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
48738353 ATT
1 ATT
48738356 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:48738735 original size:98 final size:98
Alignment explanation
Indices: 48738628--48738824 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
48738618 TTAAAAATAA
* * * *
48738628 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGAGTGTGATTTC
*
48738693 TTAAATCTTGGGTAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
48738726 TAAAGGAAATATTCTGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGAGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGAGTGTGATTTC
48738791 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
48738824 T
1 T
48738825 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGAGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:48739019 original size:19 final size:21
Alignment explanation
Indices: 48738987--48739048 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
48738977 AATTCTCGAC
48738987 CTTAAGACACTAATTAATTAA
1 CTTAAGACACTAATTAATTAA
** *
48739008 C-T-AGGTACTAATTAATTAC
1 CTTAAGACACTAATTAATTAA
48739027 CTTAAGACACTAATTAATTAA
1 CTTAAGACACTAATTAATTAA
48739048 C
1 C
48739049 GCATTATGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 15 0.45
20 2 0.06
21 16 0.48
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (21 bp):
CTTAAGACACTAATTAATTAA
Found at i:48741344 original size:4 final size:4
Alignment explanation
Indices: 48741328--48741384 Score: 53
Period size: 4 Copynumber: 13.5 Consensus size: 4
48741318 ATTAACCATA
* *
48741328 TATT TAGT TATT TATT TATT TGATT TGATT TGATT T-TT TGTTT TATT
1 TATT TATT TATT TATT TATT T-ATT T-ATT T-ATT TATT T-ATT TATT
48741375 TATT TATT TA
1 TATT TATT TA
48741385 CATAATATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.06
4 27 0.57
5 17 0.36
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:48741360 original size:10 final size:9
Alignment explanation
Indices: 48741335--48741383 Score: 59
Period size: 8 Copynumber: 5.7 Consensus size: 9
48741325 ATATATTTAG
48741335 TTATTT-AT
1 TTATTTGAT
48741343 TTATTTGAT
1 TTATTTGAT
48741352 TTGATTTGAT
1 TT-ATTTGAT
*
48741362 TT-TTTGTT
1 TTATTTGAT
48741370 TTATTT-AT
1 TTATTTGAT
48741378 TTATTT
1 TTATTT
48741384 ACATAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
8 20 0.56
9 7 0.19
10 9 0.25
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (9 bp):
TTATTTGAT
Found at i:48743449 original size:42 final size:42
Alignment explanation
Indices: 48743397--48743553 Score: 116
Period size: 42 Copynumber: 3.7 Consensus size: 42
48743387 GCCCGAAGGC
* * * *
48743397 TGAATAGAAGCTCATGAGAGTTAAGCAGAAACTCATAAGGGT
1 TGAATAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * *
48743439 TGAATGGAAGCTCGTAAGAGCTAAACGGAAACCCATAAGGGT
1 TGAATAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * * * * ** * *
48743481 TAAACAGAAGCTCAAAAAAGCTGATCAGAAACTTATATGAGT
1 TGAATAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * * *
48743523 TAAACAGAAGCTCGTGAGAGCTAAACGGAAA
1 TGAATAGAAGCTCATAAGAGCTAAACAGAAA
48743554 GTAAACACAA
Statistics
Matches: 88, Mismatches: 27, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (42 bp):
TGAATAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
Found at i:48743484 original size:21 final size:21
Alignment explanation
Indices: 48743424--48743494 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
48743414 GAGTTAAGCA
* *
48743424 GAAACTCATAAGGGTTGAATG
1 GAAACTCATAAGGGTTAAACG
* * * *
48743445 GAAGCTCGTAAGAGCTAAACG
1 GAAACTCATAAGGGTTAAACG
* *
48743466 GAAACCCATAAGGGTTAAACA
1 GAAACTCATAAGGGTTAAACG
*
48743487 GAAGCTCA
1 GAAACTCA
48743495 AAAAAGCTGA
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
GAAACTCATAAGGGTTAAACG
Found at i:48746061 original size:25 final size:25
Alignment explanation
Indices: 48746045--48746153 Score: 78
Period size: 25 Copynumber: 4.4 Consensus size: 25
48746035 AGCATGTAAT
48746045 CGGGAAGCTCTTCCGAGCCATATAA
1 CGGGAAGCTCTTCCGAGCCATATAA
*** **
48746070 CGGGAAGCTCTTGTAAGCTGTATAA
1 CGGGAAGCTCTTCCGAGCCATATAA
* ** *
48746095 CGAGAAGCTCTTGTGAGCCA-ATTAT
1 CGGGAAGCTCTTCCGAGCCATA-TAA
* * *
48746120 CGGGAAACTCATACGAGCCATA-AA
1 CGGGAAGCTCTTCCGAGCCATATAA
*
48746144 TGGGAAGCTC
1 CGGGAAGCTC
48746154 AAGACAGCCA
Statistics
Matches: 64, Mismatches: 18, Indels: 5
0.74 0.21 0.06
Matches are distributed among these distances:
24 10 0.16
25 53 0.83
26 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (25 bp):
CGGGAAGCTCTTCCGAGCCATATAA
Found at i:48748647 original size:10 final size:10
Alignment explanation
Indices: 48748627--48748659 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
48748617 TTTTTAGGAT
48748627 TTTATTTTATC
1 TTTA-TTTATC
48748638 TTTATTTATC
1 TTTATTTATC
48748648 TTTATTTATC
1 TTTATTTATC
48748658 TT
1 TT
48748660 CAAACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTATC
Found at i:48749361 original size:13 final size:13
Alignment explanation
Indices: 48749343--48749372 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
48749333 ACTGGAGACT
48749343 GAATCTCCCATAA
1 GAATCTCCCATAA
48749356 GAATCTCCCATAA
1 GAATCTCCCATAA
48749369 GAAT
1 GAAT
48749373 TTCCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (13 bp):
GAATCTCCCATAA
Found at i:48754790 original size:25 final size:24
Alignment explanation
Indices: 48754759--48754867 Score: 110
Period size: 25 Copynumber: 4.4 Consensus size: 24
48754749 AGCATGTAAT
*
48754759 CGGGAAGCTCTTCCGAGCCATGTAA
1 CGGGAAGCTCTTACGAGCCAT-TAA
* **
48754784 CGGGAAGCTCTTATGAGCTGTATAA
1 CGGGAAGCTCTTACGAGCCAT-TAA
* *
48754809 CGGGAAGCTCTTGCGAGCCAATTAT
1 CGGGAAGCTCTTACGAGCC-ATTAA
* * *
48754834 CGGGAATCTCATACGAGCCATAAA
1 CGGGAAGCTCTTACGAGCCATTAA
48754858 CGGGAAGCTC
1 CGGGAAGCTC
48754868 AAGAGAGCCA
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
24 12 0.18
25 54 0.81
26 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (24 bp):
CGGGAAGCTCTTACGAGCCATTAA
Found at i:48754838 original size:50 final size:49
Alignment explanation
Indices: 48754759--48754867 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 49
48754749 AGCATGTAAT
* * **
48754759 CGGGAAGCTCTTCCGAGCCATGTAACGGGAAGCTCTTATGAGCTGTATAA
1 CGGGAAGCTCTTCCGAGCCATGTAACGGGAAGCTCATACGAGCCATA-AA
* * *
48754809 CGGGAAGCTCTTGCGAGCCAAT-TATCGGGAATCTCATACGAGCCATAAA
1 CGGGAAGCTCTTCCGAGCC-ATGTAACGGGAAGCTCATACGAGCCATAAA
48754858 CGGGAAGCTC
1 CGGGAAGCTC
48754868 AAGAGAGCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 12 0.24
50 37 0.73
51 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (49 bp):
CGGGAAGCTCTTCCGAGCCATGTAACGGGAAGCTCATACGAGCCATAAA
Found at i:48754898 original size:25 final size:24
Alignment explanation
Indices: 48754861--48754928 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
48754851 CCATAAACGG
48754861 GAAGCTCAA-GAGAGCCATTACTCGA
1 GAAGCT-AATGAGAGCCATTA-TCGA
*
48754886 GAAGCTAATGAGAGCCAAATATCGA
1 GAAGCTAATGAGAGCC-ATTATCGA
* **
48754911 GAAGATTGTGAGAGCCAT
1 GAAGCTAATGAGAGCCAT
48754929 ATAACATGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.08
25 30 0.83
26 3 0.08
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (24 bp):
GAAGCTAATGAGAGCCATTATCGA
Found at i:48762203 original size:31 final size:30
Alignment explanation
Indices: 48762169--48762228 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
48762159 TTTAAAAGAA
48762169 AAAAAAATTT-AATAACTCAGTGACTTAAAT
1 AAAAAAATTTAAATAA-TCAGTGACTTAAAT
**
48762199 AAAAACTTTTAAATAATCAGTGACTTAAAT
1 AAAAAAATTTAAATAATCAGTGACTTAAAT
48762229 GAGTATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.32
Consensus pattern (30 bp):
AAAAAAATTTAAATAATCAGTGACTTAAAT
Found at i:48764492 original size:11 final size:11
Alignment explanation
Indices: 48764476--48764500 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48764466 TTCAATTCAA
48764476 ATAATCAATAT
1 ATAATCAATAT
48764487 ATAATCAATAT
1 ATAATCAATAT
48764498 ATA
1 ATA
48764501 TACTAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATCAATAT
Found at i:48765263 original size:16 final size:17
Alignment explanation
Indices: 48765242--48765285 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
48765232 CTTTCTCTCA
48765242 CTGTTTTGTTTCTA-TT
1 CTGTTTTGTTTCTATTT
*
48765258 CTG-TTTCTTTCTATTT
1 CTGTTTTGTTTCTATTT
48765274 CT-TTTTGTTTCT
1 CTGTTTTGTTTCT
48765286 TTTATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.05, C:0.16, G:0.09, T:0.70
Consensus pattern (17 bp):
CTGTTTTGTTTCTATTT
Found at i:48765968 original size:13 final size:13
Alignment explanation
Indices: 48765950--48765976 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48765940 GTATTACTCC
48765950 TCTTTATCTCATA
1 TCTTTATCTCATA
48765963 TCTTTATCTCATA
1 TCTTTATCTCATA
48765976 T
1 T
48765977 TTGCTATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTTTATCTCATA
Found at i:48772842 original size:23 final size:22
Alignment explanation
Indices: 48772815--48772883 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
48772805 ATATTATTAA
*
48772815 TTTAAAATTAAAATATATAAACT
1 TTTAAAA-TAATATATATAAACT
*
48772838 TTTAATAT-ATATATATAAACT
1 TTTAAAATAATATATATAAACT
** *
48772859 AATAAAA-AATATATATAAAAT
1 TTTAAAATAATATATATAAACT
48772880 TTTA
1 TTTA
48772884 CATCAAGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 30 0.81
22 1 0.03
23 6 0.16
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAAAATAATATATATAAACT
Found at i:48773019 original size:26 final size:26
Alignment explanation
Indices: 48772990--48773039 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
48772980 ATATATTTAC
48772990 ATATTTTTCATAAATTTATAAATTAT
1 ATATTTTTCATAAATTTATAAATTAT
*
48773016 ATATTTTTTATAAATTTATAAATT
1 ATATTTTTCATAAATTTATAAATT
48773040 TTCAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
ATATTTTTCATAAATTTATAAATTAT
Found at i:48773027 original size:18 final size:19
Alignment explanation
Indices: 48773004--48773041 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
48772994 TTTTCATAAA
*
48773004 TTTATAAA-TTATATATTT
1 TTTATAAATTTATAAATTT
48773022 TTTATAAATTTATAAATTT
1 TTTATAAATTTATAAATTT
48773041 T
1 T
48773042 CAAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATAAATTTATAAATTT
Found at i:48774241 original size:48 final size:48
Alignment explanation
Indices: 48774179--48774505 Score: 310
Period size: 48 Copynumber: 7.0 Consensus size: 48
48774169 AAAAGTTGCT
* * * *
48774179 AATATGTTGTGGATGAACCACTAGTCGTGTAGATAAACTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * * *
48774227 AGTATGTTATGGATGAACCACTTGTCTTGCATATAAATTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * * * *
48774275 AATACGTTCTGGATGAACCACTTGTCATGTAGATAAA-AGCTG--T-T
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * *
48774319 AATACATTATGGATAAACCACTTGTCGTGCAGATAAA-AGCTG-CT--
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* *
48774363 AATAAGTTATGGATGAACCACTGGTTGTGCAGATAAACTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * *
48774411 AATACGTTGTGGATGAACCACTGGTCGTGCAGTTAAACTACAGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * *
48774459 AATATGTTGTGGATGAACCACTGGTCATGCAGACAAACTGCCGACTA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTA
48774506 CTCCCTCCCT
Statistics
Matches: 234, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
44 69 0.29
45 5 0.02
46 2 0.01
47 3 0.01
48 155 0.66
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (48 bp):
AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
Found at i:48774654 original size:34 final size:34
Alignment explanation
Indices: 48774548--48774894 Score: 176
Period size: 34 Copynumber: 10.2 Consensus size: 34
48774538 ATGCAACATG
* * *
48774548 ACATGTTTATAACAGATCAATA-TGATAGCAAT-A
1 ACATGCTTATAATAGATCAATACAG-TAGCAATAA
* * *
48774581 ACATGCTTATACTA-AGTCGATACAGTATCAACT-A
1 ACATGCTTATAATAGA-TCAATACAGTAGCAA-TAA
* **
48774615 TCATGCTTATAATAGATCAATATGGTAGCAATAA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
* * * * ** *
48774649 ACATGCTTGTGACAAATTGATACAGTAGCAATTA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
* * * * *
48774683 GCATGCCTATAACT-GATAAATACGGTAGCAATTA
1 ACATGCTTATAA-TAGATCAATACAGTAGCAATAA
* * *
48774717 TCATGCTTATAATAAATCAATGCAGTAGCAATAA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
* *
48774751 ACATGCTTGTGACA-AG-TCAATATC-GTAGCAATTA
1 ACATGCTTAT-A-ATAGATCAATA-CAGTAGCAATAA
* * * *
48774785 ACATGC-TATTAACATATCAATACAGTGGTAATAA
1 ACATGCTTA-TAATAGATCAATACAGTAGCAATAA
* * * *
48774819 ACATGCTTGTGACA-AG-TCGATACAATAGCAATTA
1 ACATGCTTAT-A-ATAGATCAATACAGTAGCAATAA
* * * *
48774853 ACATGCTTATAATAGACCATTACAGTATCATTAA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
*
48774887 ACTTGCTT
1 ACATGCTT
48774895 CTATCATGTA
Statistics
Matches: 231, Mismatches: 64, Indels: 37
0.70 0.19 0.11
Matches are distributed among these distances:
32 3 0.01
33 30 0.13
34 189 0.82
35 7 0.03
36 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (34 bp):
ACATGCTTATAATAGATCAATACAGTAGCAATAA
Found at i:48774748 original size:68 final size:68
Alignment explanation
Indices: 48774555--48774791 Score: 210
Period size: 68 Copynumber: 3.5 Consensus size: 68
48774545 ATGACATGTT
* * * * * * *
48774555 TATAACAGATCAATATGATAGCAA-TAACATGCTTATACTAAGTCGATACAGTATCAACTATCAT
1 TATAACTGATCAATATGGTAGCAATTAACATGCTTATAATAAATCGATACAGTAGCAATTAGCAT
*
48774619 GCT
66 GCC
* * * * *
48774622 TATAA-TAGATCAATATGGTAGCAATAAACATGCTTGTGACAAATTGATACAGTAGCAATTAGCA
1 TATAACT-GATCAATATGGTAGCAATTAACATGCTTATAATAAATCGATACAGTAGCAATTAGCA
48774686 TGCC
65 TGCC
* * * * * * *
48774690 TATAACTGATAAATACGGTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACAT
1 TATAACTGATCAATATGGTAGCAATTAACATGCTTATAATAAATCGATACAGTAGCAATTAGCAT
*
48774755 GCT
66 GCC
* * * *
48774758 TGTGAC-AAGTCAATATCGTAGCAATTAACATGCT
1 TATAACTGA-TCAATATGGTAGCAATTAACATGCT
48774792 ATTAACATAT
Statistics
Matches: 133, Mismatches: 33, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
67 22 0.17
68 110 0.83
69 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (68 bp):
TATAACTGATCAATATGGTAGCAATTAACATGCTTATAATAAATCGATACAGTAGCAATTAGCAT
GCC
Found at i:48774804 original size:68 final size:68
Alignment explanation
Indices: 48774639--48774864 Score: 215
Period size: 68 Copynumber: 3.3 Consensus size: 68
48774629 GATCAATATG
* * * ** * * * * * * *
48774639 GTAGCAATAAACATGCTTGTGACAAATTGATACAGTAGCAATTAGCATGCCTATAAC-TGATAAA
1 GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAG-TCAA
*
48774703 TACG
65 TACA
* * *
48774707 GTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAAT
1 GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
48774772 ATC-
66 A-CA
* * * *
48774775 GTAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTGACAAGTCGA
1 GTAGCAATTAACATGCTTA-TAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAA
48774839 TACA
65 TACA
*
48774843 ATAGCAATTAACATGCTTATAA
1 GTAGCAATTAACATGCTTATAA
48774865 TAGACCATTA
Statistics
Matches: 130, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
67 3 0.02
68 123 0.95
69 4 0.03
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.28
Consensus pattern (68 bp):
GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
ACA
Found at i:48774824 original size:102 final size:102
Alignment explanation
Indices: 48774616--48774860 Score: 253
Period size: 102 Copynumber: 2.4 Consensus size: 102
48774606 TATCAACTAT
* ** **
48774616 CATGCTTATAATAGATCAATATGGTAGCAATAAACATGCTTGTGACAAATTGATACAGTAGCAAT
1 CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAATCAATACAGTAGCAAT
* * * *
48774681 TAGCATGCCTATAACTGATAAATACGGTAGCAATTAT
66 TAACATGCCTATAACTGATAAATACAGTAGCAATAAA
* *
48774718 CATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAATATC-GTAGCAA
1 CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAATCAATA-CAGTAGCAA
* * *
48774782 TTAACATG-CTATTAACAT-ATCAATACAGTGGTAATAAA
65 TTAACATGCCTA-TAAC-TGATAAATACAGTAGCAATAAA
* * * * * * *
48774820 CATGCTTGTGACAAGTCGATACAATAGCAATTAACATGCTT
1 CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTT
48774861 ATAATAGACC
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
101 3 0.03
102 113 0.96
103 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (102 bp):
CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAATCAATACAGTAGCAAT
TAACATGCCTATAACTGATAAATACAGTAGCAATAAA
Found at i:48774877 original size:68 final size:68
Alignment explanation
Indices: 48774708--48774894 Score: 216
Period size: 68 Copynumber: 2.8 Consensus size: 68
48774698 ATAAATACGG
* *
48774708 TAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAATA
1 TAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATA
*
48774773 TCG
66 TCA
* * * * *
48774776 TAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTGACAAGTCGAT
1 TAGCAATTAACATGCTTA-TAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
48774840 A-CAA
65 ATC-A
* * * * * *
48774844 TAGCAATTAACATGCTTATAATAGACCATTACAGTATCATTAAACTTGCTT
1 TAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTT
48774895 CTATCATGTA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
67 3 0.03
68 94 0.95
69 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (68 bp):
TAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATA
TCA
Found at i:48775343 original size:13 final size:13
Alignment explanation
Indices: 48775325--48775349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48775315 GGCACATGGT
48775325 CGTGTGGTCCACC
1 CGTGTGGTCCACC
48775338 CGTGTGGTCCAC
1 CGTGTGGTCCAC
48775350 ACGCCCATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.36, G:0.32, T:0.24
Consensus pattern (13 bp):
CGTGTGGTCCACC
Found at i:48776991 original size:26 final size:26
Alignment explanation
Indices: 48776962--48777014 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
48776952 TATTATAGGC
*
48776962 TTTTT-ATATATTT-TAATTGTATATT
1 TTTTTCATAAATTTATAATT-TATATT
*
48776987 TTTTTCATAAATTTATAGTTTATATT
1 TTTTTCATAAATTTATAATTTATATT
48777013 TT
1 TT
48777015 ATATATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.21
26 15 0.62
27 4 0.17
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTTTCATAAATTTATAATTTATATT
Found at i:48783219 original size:50 final size:50
Alignment explanation
Indices: 48783154--48783296 Score: 123
Period size: 50 Copynumber: 2.9 Consensus size: 50
48783144 CATGTTGTCA
* * * *
48783154 GGAAGCTCTTCCGAGCCATATAACATGAAGCTCATGAGAGCTAAGTAAAG
1 GGAAGCTCATACGAGCCATATAACAGGAAGCTCATGAGAGCTAAATAAAG
** * **
48783204 GGAAGCTCATACGAGCTGTATATC-GGAAAGCTCAT-ACGAG-TCAAATATCG
1 GGAAGCTCATACGAGCCATATAACAGG-AAGCTCATGA-GAGCT-AAATAAAG
* *
48783254 GGAAGCTCA-AGAGAGCCAAATAACAGGAAGCTCATGAGAGCTA
1 GGAAGCTCATA-CGAGCCATATAACAGGAAGCTCATGAGAGCTA
48783297 TGGTGTGTCC
Statistics
Matches: 72, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
49 4 0.06
50 64 0.89
51 4 0.06
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (50 bp):
GGAAGCTCATACGAGCCATATAACAGGAAGCTCATGAGAGCTAAATAAAG
Found at i:48783251 original size:25 final size:25
Alignment explanation
Indices: 48783206--48783262 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
48783196 AAGTAAAGGG
**
48783206 AAGCTCATACGAGCTGTATATCGGA
1 AAGCTCATACGAGCTAAATATCGGA
*
48783231 AAGCTCATACGAG-TCAAATATCGGG
1 AAGCTCATACGAGCT-AAATATCGGA
48783256 AAGCTCA
1 AAGCTCA
48783263 AGAGAGCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
AAGCTCATACGAGCTAAATATCGGA
Found at i:48783273 original size:25 final size:25
Alignment explanation
Indices: 48783223--48783294 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
48783213 TACGAGCTGT
* * *
48783223 ATATCGGAAAGCTCATA-CGAGTCAA
1 ATATCGGGAAGCTCA-AGAGAGCCAA
48783248 ATATCGGGAAGCTCAAGAGAGCCAA
1 ATATCGGGAAGCTCAAGAGAGCCAA
* * *
48783273 ATAACAGGAAGCTCATGAGAGC
1 ATATCGGGAAGCTCAAGAGAGC
48783295 TATGGTGTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (25 bp):
ATATCGGGAAGCTCAAGAGAGCCAA
Found at i:48792999 original size:3 final size:3
Alignment explanation
Indices: 48792991--48793017 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
48792981 TGAGTTATTA
48792991 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
48793018 TTAAACAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:48799273 original size:20 final size:22
Alignment explanation
Indices: 48799248--48799304 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 22
48799238 AATTTTTTGT
48799248 TAAATTT-TAT-TTCAAATATA
1 TAAATTTATATATTCAAATATA
48799268 TAAATTTATATATTC-AA-ATA
1 TAAATTTATATATTCAAATATA
48799288 TAAA-TTATATATTCAAA
1 TAAATTTATATATTCAAA
48799305 CTAAATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
20 16 0.47
21 5 0.15
22 3 0.09
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAATTTATATATTCAAATATA
Found at i:48801595 original size:13 final size:12
Alignment explanation
Indices: 48801573--48801602 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
48801563 ATGTTAAGTT
48801573 ATTTGTGTGAAA
1 ATTTGTGTGAAA
48801585 ATTTCGTGTGAAA
1 ATTT-GTGTGAAA
48801598 ATTTG
1 ATTTG
48801603 ATCGTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.43
Consensus pattern (12 bp):
ATTTGTGTGAAA
Found at i:48802918 original size:37 final size:37
Alignment explanation
Indices: 48802877--48802996 Score: 102
Period size: 37 Copynumber: 3.2 Consensus size: 37
48802867 GAATATAAAT
*
48802877 ATGTATGCATATAATCAAGTTATTGAGTTGGGAATTA
1 ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
* * * * *
48802914 ATGTATGAATTTTAT-AA-TTATAGGGAGATT-CGAACATA
1 ATGTATGCATTTAATCAAGTTAT--TGAG-TTGGGAA-TTA
*
48802952 TATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTA
1 -ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
*
48802990 AAGTATG
1 ATGTATG
48802997 TTTCTTATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
35 4 0.06
36 2 0.03
37 24 0.39
38 8 0.13
39 18 0.29
40 2 0.03
41 4 0.06
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (37 bp):
ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
Found at i:48803022 original size:76 final size:77
Alignment explanation
Indices: 48802861--48803023 Score: 206
Period size: 76 Copynumber: 2.1 Consensus size: 77
48802851 TAAAGGTATG
* * *
48802861 AGGTTCGAATATAAATATGTATGCATATAATCAAGTTATTGAGTTGGGAATTAATGTATGAATTT
1 AGGTTCGAACAT-AATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATTT
**
48802926 TATAATTATAGGG
65 TATAATTATAGAA
* * *
48802939 AGATTCGAACAT-ATATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTAAAGTATG-TTTCT
1 AGGTTCGAACATAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATT-T
48803002 TAT-ATTCATAGAA
65 TATAATT-ATAGAA
48803015 AGGTTCGAA
1 AGGTTCGAA
48803024 TATAGAGATT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 5 0.07
76 59 0.80
78 10 0.14
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (77 bp):
AGGTTCGAACATAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATTTT
ATAATTATAGAA
Found at i:48803263 original size:41 final size:41
Alignment explanation
Indices: 48803218--48803317 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 41
48803208 GGCTTTGTGC
*
48803218 CTAGCAGGCTTAACGCTGGTGAAAAATTTCGGACTATACGT
1 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
*
48803259 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATATGT
1 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
*
48803300 CTAGCAGGCTTAATGCCG
1 CTAGCAGGCTTAACGCCG
48803318 ATGTTCTGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
Found at i:48808010 original size:50 final size:50
Alignment explanation
Indices: 48807934--48808174 Score: 279
Period size: 50 Copynumber: 4.8 Consensus size: 50
48807924 ATTTGGGTAA
* *
48807934 AGAGGTCCCATGTAAGACCATGTCTGGGACACGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
48807984 AGAGGTCTCATGTAAGACCATTTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
48808034 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
48808084 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** *
48808133 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48808175 TGTTATTATC
Statistics
Matches: 161, Mismatches: 29, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 122 0.76
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:48808688 original size:23 final size:23
Alignment explanation
Indices: 48808654--48809112 Score: 320
Period size: 23 Copynumber: 19.6 Consensus size: 23
48808644 TTCACACCAA
48808654 AAATTGGACAGCATATATACAAC
1 AAATTGGACAGCATATATACAAC
* * *
48808677 AATTTGGGCAGCATATATACATC
1 AAATTGGACAGCATATATACAAC
* *
48808700 AAATT-GAGCAGCAT-TTTAGCATAA
1 AAATTGGA-CAGCATATATA-CA-AC
48808724 AAATTGGACAGCATATATACAAC
1 AAATTGGACAGCATATATACAAC
* * * *
48808747 AATTTGGGCAGCCTATATATATACC
1 AAATTGGACAG-C-ATATATACAAC
* * * *
48808772 AAATT-GAGCAGTATTTTTACATC
1 AAATTGGA-CAGCATATATACAAC
*
48808795 AAAATTGGATAGCATATATACAAC
1 -AAATTGGACAGCATATATACAAC
* * *
48808819 AATTTGGGCAGCATAAATACAAC
1 AAATTGGACAGCATATATACAAC
** * *
48808842 AAATTGGGTAGCATTTA-AGCATAA
1 AAATTGGACAGCATATATA-CA-AC
*
48808866 AAATTGGACAGCATAAATACAAC
1 AAATTGGACAGCATATATACAAC
* * *
48808889 AAATTGGATAGCAT-TTTAGCATAA
1 AAATTGGACAGCATATATA-CA-AC
* * *
48808913 AAATTTGACAGCATATATGCACC
1 AAATTGGACAGCATATATACAAC
* * *
48808936 AATTTGGGCAGCATAAATACAAC
1 AAATTGGACAGCATATATACAAC
* *
48808959 AAATTGGACAGCAT-TTTAGCATAA
1 AAATTGGACAGCATATATA-CA-AC
* * *
48808983 AAATTTGACAGCATATGTGCAAC
1 AAATTGGACAGCATATATACAAC
* * * *
48809006 AATTTGGGCAGCATATATATACC
1 AAATTGGACAGCATATATACAAC
* * *
48809029 AAATT-GAGCAGCATTTTTACATC
1 AAATTGGA-CAGCATATATACAAC
48809052 AAAATTGGACAGCATATATACAAC
1 -AAATTGGACAGCATATATACAAC
* * *
48809076 AATTTGGGCAGCATAAATACAAC
1 AAATTGGACAGCATATATACAAC
48809099 AAATTGGACAGCAT
1 AAATTGGACAGCAT
48809113 TTAAGCATAA
Statistics
Matches: 328, Mismatches: 86, Indels: 44
0.72 0.19 0.10
Matches are distributed among these distances:
22 10 0.03
23 194 0.59
24 94 0.29
25 30 0.09
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (23 bp):
AAATTGGACAGCATATATACAAC
Found at i:48808743 original size:47 final size:47
Alignment explanation
Indices: 48808654--48809112 Score: 299
Period size: 47 Copynumber: 9.8 Consensus size: 47
48808644 TTCACACCAA
* * * * * *
48808654 AAATTGGACAGCATATATACA-ACAATTTGGGCAGCATATATACATC
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
*
48808700 AAATTGAGCAGCAT-TTTAGCATAAAAATTGGACAGCATATATACAAC
1 AAATTGGGCAGCATATTTA-CATAAAAATTGGACAGCATATATACAAC
* * * * * * * * *
48808747 AATTTGGGCAGCCTATATATATACCAAATT-GAGCAGTATTTTTACATC
1 AAATTGGGCAGCATATTTACATA-AAAATTGGA-CAGCATATATACAAC
** * * * * *
48808795 AAAATTGGATAGCATATATACA-ACAATTTGGGCAGCATAAATACAAC
1 -AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
* * *
48808842 AAATTGGGTAGCAT-TTAAGCATAAAAATTGGACAGCATAAATACAAC
1 AAATTGGGCAGCATATTTA-CATAAAAATTGGACAGCATATATACAAC
** * * *
48808889 AAATTGGATAGCAT-TTTAGCATAAAAATTTGACAGCATATATGCACC
1 AAATTGGGCAGCATATTTA-CATAAAAATTGGACAGCATATATACAAC
* ** * * *
48808936 AATTTGGGCAGCATAAATACA-ACAAATTGGACAGCAT-TTTAGCATAA
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATA-CA-AC
* * * * * * * * *
48808983 AAATTTGACAGCATATGTGCA-ACAATTTGGGCAGCATATATATACC
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
* * *
48809029 AAATTGAGCAGCATTTTTACATCAAAATTGGACAGCATATATACAAC
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
* ** *
48809076 AATTTGGGCAGCATAAATACA-ACAAATTGGACAGCAT
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCAT
48809113 TTAAGCATAA
Statistics
Matches: 316, Mismatches: 83, Indels: 28
0.74 0.19 0.07
Matches are distributed among these distances:
45 7 0.02
46 74 0.23
47 193 0.61
48 26 0.08
49 16 0.05
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (47 bp):
AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
Found at i:48808812 original size:142 final size:143
Alignment explanation
Indices: 48808622--48808895 Score: 417
Period size: 142 Copynumber: 1.9 Consensus size: 143
48808612 GACAGCATTC
48808622 ATATACCAAACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCA
1 ATATACCAAACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCA
* * * * *
48808687 GCATATATACATCAAATTGAGCAGCATTTTAGCATAAAAATTGGACAGCATATATACAACAATTT
66 GCATAAATACAACAAATTGAGCAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATT
48808752 GGGCAGCCTATAT
131 GGGCAGCCTATAT
* * * * *
48808765 ATATACCAAA-TTGAGCAGTATTTTTACATC-AAAATTGGATAGCATATATACAACAATTTGGGC
1 ATATACCAAACTAGA-CAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGC
* *
48808828 AGCATAAATACAACAAATTGGGTAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAAT
65 AGCATAAATACAACAAATTGAGCAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAAT
48808893 TGG
130 TGG
48808896 ATAGCATTTT
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
142 96 0.81
143 22 0.19
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (143 bp):
ATATACCAAACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCA
GCATAAATACAACAAATTGAGCAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATT
GGGCAGCCTATAT
Found at i:48808902 original size:70 final size:70
Alignment explanation
Indices: 48808652--48808895 Score: 346
Period size: 70 Copynumber: 3.5 Consensus size: 70
48808642 TTTTCACACC
*
48808652 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACATCAAATTGAGCAGCATTTT
1 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTT
48808717 AGCAT
66 AGCAT
* * *
48808722 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATATATATACCAAATTGAGCAGTATT
1 AAAAATTGGACAGCATATATACAACAATTTGGGCAG-C-ATATATACAACAAATTGAGCAGCA-T
48808787 TTTA-CAT
63 TTTAGCAT
* * * * * *
48808794 CAAAATTGGATAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGGTAGCATTTA
1 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTT
48808859 AGCAT
66 AGCAT
* *
48808864 AAAAATTGGACAGCATAAATACAACAAATTGG
1 AAAAATTGGACAGCATATATACAACAATTTGG
48808896 ATAGCATTTT
Statistics
Matches: 154, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
69 4 0.03
70 85 0.55
71 2 0.01
72 58 0.38
73 5 0.03
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (70 bp):
AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTT
AGCAT
Found at i:48808948 original size:70 final size:70
Alignment explanation
Indices: 48808869--48809127 Score: 387
Period size: 70 Copynumber: 3.7 Consensus size: 70
48808859 AGCATAAAAA
* *
48808869 TTGGACAGCATAAATACAACAAATTGGATAGCATTTTAGCATAAAAATTTGACAGCATATATGCA
1 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATATGCA
*
48808934 CCAAT
66 ACAAT
*
48808939 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATGTGCA
1 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATATGCA
48809004 ACAAT
66 ACAAT
* * * * * *
48809009 TTGGGCAGCATATATATACCAAATT-GAGCAGCATTTTTA-CATCAAAATTGGACAGCATATATA
1 TTGGGCAGCATAAATACAACAAATTGGA-CAGCA-TTTTAGCATAAAAATTTGACAGCATATATG
48809072 CAACAAT
64 CAACAAT
*
48809079 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTAAGCATAAAAATT
1 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATT
48809128 ACATGAACAT
Statistics
Matches: 169, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
69 6 0.04
70 156 0.92
71 7 0.04
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (70 bp):
TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATATGCA
ACAAT
Found at i:48809007 original size:117 final size:116
Alignment explanation
Indices: 48808786--48808997 Score: 334
Period size: 117 Copynumber: 1.8 Consensus size: 116
48808776 TGAGCAGTAT
* * **
48808786 TTTTACATCAAAATTGGATAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGGT
1 TTTTACATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGAC
48808851 AGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCA
66 AGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCA
* * *
48808902 TTTTAGCATAAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGA
1 TTTTA-CATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGA
* *
48808967 CAGCATTTTAGCATAAAAATTTGACAGCATA
65 CAGCATTTAAGCATAAAAATTGGACAGCATA
48808998 TGTGCAACAA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
116 5 0.06
117 81 0.94
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (116 bp):
TTTTACATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGAC
AGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCA
Found at i:48809856 original size:28 final size:28
Alignment explanation
Indices: 48809824--48809921 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
48809814 TTTAATAAGT
** * *
48809824 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
48809852 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
48809880 TCACACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
48809908 TCGCACACTTAGTG
1 TCGCACACTTAGTG
48809922 TCGAAAGTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Done.