Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 148 of 259
Found at i:48449695 original size:40 final size:40
Alignment explanation
Indices: 48449640--48449720 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
48449630 TTTAGGAACT
*
48449640 AAGATAATTCTAATCCTTCTTTTCACCATGCATAAATTGA
1 AAGATAATTCTAATCCTTCTTTTCACCATGCATAAACTGA
48449680 AAGATAATTCTAATCCTTCTTTTCACCATGCATAAACTGA
1 AAGATAATTCTAATCCTTCTTTTCACCATGCATAAACTGA
48449720 A
1 A
48449721 CCAACAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (40 bp):
AAGATAATTCTAATCCTTCTTTTCACCATGCATAAACTGA
Found at i:48451576 original size:103 final size:103
Alignment explanation
Indices: 48451397--48451604 Score: 308
Period size: 103 Copynumber: 2.0 Consensus size: 103
48451387 GCTATATCTG
* * * * *
48451397 ATTTTTCTATTCTAAGTATAGTGTTGATTTTTCCGTTGCTTGTATTCTACTAGTTTGAACTCCCT
1 ATTTTTCTATTCTAAGTACAATGCTGATTTTTCCATTGCTTGTATTCTACTAGCTTGAACTCCCT
48451462 GTTGTGTCTTTATTGCCATAAATGCTATTGCCATAAGA
66 GTTGTGTCTTTATTGCCATAAATGCTATTGCCATAAGA
* * * *
48451500 ATTTTTCTATTTTGAGTACAATGCTGATTTTTCTATTGCTTGTATTCTACTAGCTTGAACTCCGT
1 ATTTTTCTATTCTAAGTACAATGCTGATTTTTCCATTGCTTGTATTCTACTAGCTTGAACTCCCT
* * *
48451565 GTTTTGTCTTTATTGCCATATATGCTATTTCCATAAGA
66 GTTGTGTCTTTATTGCCATAAATGCTATTGCCATAAGA
48451603 AT
1 AT
48451605 AACCTAGTAT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (103 bp):
ATTTTTCTATTCTAAGTACAATGCTGATTTTTCCATTGCTTGTATTCTACTAGCTTGAACTCCCT
GTTGTGTCTTTATTGCCATAAATGCTATTGCCATAAGA
Found at i:48452993 original size:14 final size:15
Alignment explanation
Indices: 48452976--48453008 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48452966 TTTGAAACAG
*
48452976 AAAACA-TTTACTTA
1 AAAACATTTTAATTA
48452990 AAAACATTTTAATTA
1 AAAACATTTTAATTA
48453005 AAAA
1 AAAA
48453009 TAATTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAACATTTTAATTA
Found at i:48459225 original size:12 final size:12
Alignment explanation
Indices: 48459194--48459223 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48459184 ATTGTAGAAG
48459194 GAGATTTGAGGA
1 GAGATTTGAGGA
48459206 GAGATTTGAGGA
1 GAGATTTGAGGA
48459218 G-GATTT
1 GAGATTT
48459224 TGTGGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.30, C:0.00, G:0.40, T:0.30
Consensus pattern (12 bp):
GAGATTTGAGGA
Found at i:48468821 original size:34 final size:34
Alignment explanation
Indices: 48468736--48468842 Score: 99
Period size: 34 Copynumber: 3.1 Consensus size: 34
48468726 GATTCTTTGT
* *
48468736 CTGCATACTG-TACTGATATGGGCTAAGGCCGAAA
1 CTGC-TACTGTTACTGAAATGGGCTAAGGCCTAAA
** * *
48468770 CTGCTTTTATCACTGAAATGGGCTAAGGCCTAAA
1 CTGCTACTGTTACTGAAATGGGCTAAGGCCTAAA
* * *
48468804 CTGCTACTGTTATTGAAAAGAGGCTAAGGCTCTTAA
1 CTGCTACTGTTACTGAAATG-GGCTAAGGC-CTAAA
48468840 CTG
1 CTG
48468843 AAACTAAAAC
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
33 2 0.04
34 39 0.68
35 9 0.16
36 7 0.12
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (34 bp):
CTGCTACTGTTACTGAAATGGGCTAAGGCCTAAA
Found at i:48470766 original size:84 final size:84
Alignment explanation
Indices: 48470678--48470863 Score: 255
Period size: 84 Copynumber: 2.2 Consensus size: 84
48470668 ACCAATATCG
*
48470678 AATAAAATCTTGTTAAACAGCAGGAATAAATCCCAAAAAATATTTTATTTAACTCAATTCAAATT
1 AATAAAATCTTGTTAAACAGCAGGAATAAATCCCAAAAAAGATTTTATTTAACTCAATTCAAATT
* *
48470743 AGAAAACAAAATAAAATCA
66 AGAAAACAAAAGAAAATAA
* ** ** * * * *
48470762 AATAAAATCTTTTTAAATGGTGGGAATAAATCTCAAAACAGATTTTATTTAATTTAATTCAAATT
1 AATAAAATCTTGTTAAACAGCAGGAATAAATCCCAAAAAAGATTTTATTTAACTCAATTCAAATT
*
48470827 AGGAAACAAAAGAAAATAA
66 AGAAAACAAAAGAAAATAA
48470846 AATAAAATCTTGTTAAAC
1 AATAAAATCTTGTTAAAC
48470864 GGCTGTAACA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (84 bp):
AATAAAATCTTGTTAAACAGCAGGAATAAATCCCAAAAAAGATTTTATTTAACTCAATTCAAATT
AGAAAACAAAAGAAAATAA
Found at i:48472654 original size:6 final size:6
Alignment explanation
Indices: 48472643--48472683 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
48472633 GAAACTTTGA
* *
48472643 AAAAAG AAAAAG AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
48472684 TAGAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:48473688 original size:14 final size:13
Alignment explanation
Indices: 48473654--48473679 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48473644 CAAATGGGTA
48473654 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
48473667 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
48473680 CAGTTTCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTGCAAAT
Found at i:48475267 original size:14 final size:14
Alignment explanation
Indices: 48475244--48475283 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48475234 ACAGAAAAGT
*
48475244 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
48475258 AAATCATTTTACGG
1 AAAACATTTTACAG
48475272 AAAACATTTTAC
1 AAAACATTTTAC
48475284 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:48475269 original size:34 final size:35
Alignment explanation
Indices: 48475209--48475275 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
48475199 CAAACACCAG
* *
48475209 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
48475244 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
48475276 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:48475445 original size:87 final size:87
Alignment explanation
Indices: 48475339--48475530 Score: 255
Period size: 87 Copynumber: 2.2 Consensus size: 87
48475329 TCTATTCTAA
* * * *
48475339 TTTGGAAATAAAATAAAATCAAATAAAAT-TTTGTTAAACGACGGGAATAAATCTCA-AAATAGG
1 TTTGGAAAAAAAATCAAATCAAAT-AAATCTTTATTAAACGACGGGAATAAATC-CAGAAATAGA
*
48475402 TTTAATTTAATTTAATTTATCGTT
64 TTTAATTTAATTTAATTTATCATT
*
48475426 TTTGGAAAAAAAATCAAATCAAATAAATCTTTATTAAACGGCGGGAATAAATCCAGAAATAGATT
1 TTTGGAAAAAAAATCAAATCAAATAAATCTTTATTAAACGACGGGAATAAATCCAGAAATAGATT
* *
48475491 TTATTTTATTTAATTTATCATT
66 TAATTTAATTTAATTTATCATT
*
48475513 TTT-GACAACAAAATCAAA
1 TTTGGA-AAAAAAATCAAA
48475531 ATTTAATAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
86 8 0.09
87 85 0.91
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (87 bp):
TTTGGAAAAAAAATCAAATCAAATAAATCTTTATTAAACGACGGGAATAAATCCAGAAATAGATT
TAATTTAATTTAATTTATCATT
Found at i:48475579 original size:86 final size:86
Alignment explanation
Indices: 48475302--48475593 Score: 242
Period size: 87 Copynumber: 3.4 Consensus size: 86
48475292 AAACATACCC
* * *
48475302 TAAATCCCGAAACAGATTTTATTTAATTCT-ATTCTA--A--TTTGGAAATAAAATAAAATCAAA
1 TAAATCCAGAAACAGATTTTATTTAATT-TAATT-TATCATTTTTGGAAAAAAAATCAAATCAAA
* ** * *
48475362 TAAAATTTTGTTAAACGACGGGAA
64 T-AAATCTCATTAAACGGCAGGAA
* * * *
48475386 TAAATCTCA-AAATAGGTTTAATTTAATTTAATTTATCGTTTTTGGAAAAAAAATCAAATCAAAT
1 TAAATC-CAGAAACAGATTTTATTTAATTTAATTTATCATTTTTGGAAAAAAAATCAAATCAAAT
* *
48475450 AAATCTTTATTAAACGGCGGGAA
65 AAATC-TCATTAAACGGCAGGAA
* * * **
48475473 TAAATCCAGAAATAGATTTTATTTTATTTAATTTATCATTTTT-GACAACAAAATCAAAATTTAA
1 TAAATCCAGAAACAGATTTTATTTAATTTAATTTATCATTTTTGGA-AAAAAAATC-AAATCAAA
48475537 TAAATC-CATTAAACGGCAGGAA
64 TAAATCTCATTAAACGGCAGGAA
* * *
48475559 TCAATCCCA-AAACGGATTTTATTTACCTTTAATTT
1 TAAAT-CCAGAAACAGATTTTATTTA-ATTTAATTT
48475594 CCCGTTTGAA
Statistics
Matches: 172, Mismatches: 24, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
83 3 0.02
84 25 0.15
85 1 0.01
86 39 0.23
87 92 0.53
88 12 0.07
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (86 bp):
TAAATCCAGAAACAGATTTTATTTAATTTAATTTATCATTTTTGGAAAAAAAATCAAATCAAATA
AATCTCATTAAACGGCAGGAA
Found at i:48475654 original size:89 final size:89
Alignment explanation
Indices: 48475555--48475771 Score: 305
Period size: 89 Copynumber: 2.4 Consensus size: 89
48475545 TTAAACGGCA
* *
48475555 GGAATCAATCCCAAAACGGATTTTATTTACCTTTAATTTCCCGTTTGAAAATAGAAA-CAAAATA
1 GGAATAAATCCCGAAACGGATTTTATTTACCTTTAATTTCCCGTTTGAAAATA-AAATCAAAATA
*
48475619 ATATAATAAAA-TCTATTGAACAG-CG
65 ATAGAATAAAATTC-ATTGAA-AGACG
* *
48475644 GGAATAAATCCTGAAACGGATTTTATTTACCTTTAATTTCCCGTTTGGAAATAAAATCAAAATAA
1 GGAATAAATCCCGAAACGGATTTTATTTACCTTTAATTTCCCGTTTGAAAATAAAATCAAAATAA
* *
48475709 TAGAATAAAATTCGTTGAATGACG
66 TAGAATAAAATTCATTGAAAGACG
* *
48475733 GGAATAAATCCCGAAACGAATTTTATTTACTTTTAATTT
1 GGAATAAATCCCGAAACGGATTTTATTTACCTTTAATTT
48475772 TGGAAAAAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
88 4 0.03
89 109 0.95
90 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (89 bp):
GGAATAAATCCCGAAACGGATTTTATTTACCTTTAATTTCCCGTTTGAAAATAAAATCAAAATAA
TAGAATAAAATTCATTGAAAGACG
Found at i:48477574 original size:12 final size:12
Alignment explanation
Indices: 48477554--48477588 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
48477544 AATTTTGGGC
48477554 AAGAATAGGAAT
1 AAGAATAGGAAT
*
48477566 AAGAGTAGGAAT
1 AAGAATAGGAAT
48477578 AAGAATAGGAA
1 AAGAATAGGAA
48477589 AGCGCACGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (12 bp):
AAGAATAGGAAT
Found at i:48478837 original size:20 final size:19
Alignment explanation
Indices: 48478783--48478857 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
48478773 ATTATTCTAG
48478783 AAAATTTT-TAATTTTTTT
1 AAAATTTTATAATTTTTTT
**
48478801 AACTTTTTTATATATTTTTTT
1 AA-AATTTTATA-ATTTTTTT
*
48478822 GAAAATTTTATAATTTTTAT
1 -AAAATTTTATAATTTTTTT
*
48478842 AAATATTTTAAAATTT
1 AAA-ATTTTATAATTT
48478858 AAAATTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.04
19 7 0.15
20 20 0.43
21 15 0.33
22 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (19 bp):
AAAATTTTATAATTTTTTT
Found at i:48480346 original size:3 final size:3
Alignment explanation
Indices: 48480338--48480375 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
48480328 GATCACACGT
*
48480338 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
48480376 TGTTAGAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48484853 original size:24 final size:24
Alignment explanation
Indices: 48484791--48484854 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
48484781 TTTCTAGAAG
* *
48484791 ATTTAGTA-TTTATGAGTATAATAT
1 ATTTAG-ACTTTATTAGCATAATAT
* *
48484815 ATTTAGCCTTTATTAGCATAATGT
1 ATTTAGACTTTATTAGCATAATAT
48484839 ATTT-GACTTTGATTAG
1 ATTTAGACTTT-ATTAG
48484855 AATTAGGATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 5 0.15
24 28 0.85
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (24 bp):
ATTTAGACTTTATTAGCATAATAT
Found at i:48485016 original size:3 final size:3
Alignment explanation
Indices: 48485008--48485063 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
48484998 TTATTTTCAC
48485008 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48485056 AAT AAT AA
1 AAT AAT AA
48485064 AACCTCATGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48487686 original size:3 final size:3
Alignment explanation
Indices: 48487678--48487715 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
48487668 GAATCTAGTA
* *
48487678 ATG ATG ATG ATG ATG ATG ATG ATG AGG A-G ATG GTG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
48487716 TTTACAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:48490603 original size:19 final size:20
Alignment explanation
Indices: 48490560--48490615 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
48490550 ATTGGGTCTT
48490560 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
48490580 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
48490599 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
48490616 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:48503610 original size:196 final size:196
Alignment explanation
Indices: 48503276--48503670 Score: 745
Period size: 196 Copynumber: 2.0 Consensus size: 196
48503266 AATGATAATA
48503276 AAAGCACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCTA
1 AAAGCACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCTA
* *
48503341 ACCAAGGTTGCAACGCCCCAAATACTTTTATATTTTTGAATATGTATGGTTGTTAGATAAGTTGC
66 ACCAAGGTTGCAACGCCCCAAATACTTTTATATTTTTAAATATGTATGGTTGTCAGATAAGTTGC
48503406 CTTAGTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTATTATGTTCGAGTGTTGTTGGGTG
131 CTTAGTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTATTATGTTCGAGTGTTGTTGGGTG
48503471 T
196 T
48503472 AAAGCACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCTA
1 AAAGCACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCTA
*
48503537 ACCAAGGTTGCAACGCCCCAAATACTTTTATATTTTTAAATGTGTATGGTTGTCAGATAAGTTGC
66 ACCAAGGTTGCAACGCCCCAAATACTTTTATATTTTTAAATATGTATGGTTGTCAGATAAGTTGC
* *
48503602 CTTAGTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTCTTATGTTCGAGTGTTGTTGGGTT
131 CTTAGTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTATTATGTTCGAGTGTTGTTGGGTG
48503667 T
196 T
48503668 AAA
1 AAA
48503671 TTGTCGAATA
Statistics
Matches: 194, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
196 194 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (196 bp):
AAAGCACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCTA
ACCAAGGTTGCAACGCCCCAAATACTTTTATATTTTTAAATATGTATGGTTGTCAGATAAGTTGC
CTTAGTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTATTATGTTCGAGTGTTGTTGGGTG
T
Found at i:48507307 original size:29 final size:28
Alignment explanation
Indices: 48507275--48507351 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
48507265 AGGCACTAGA
48507275 TGCCGGTGATTATAGTATCAAGAACTTTG
1 TGCCGGTG-TTATAGTATCAAGAACTTTG
* * * *
48507304 TGCCGATGTTATATTTATCAGGTACTTTG
1 TGCCGGTGTTATA-GTATCAAGAACTTTG
* *
48507333 TACTGGTGTTATAGTATCA
1 TGCCGGTGTTATAGTATCA
48507352 GACATTCTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 10 0.26
29 29 0.74
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (28 bp):
TGCCGGTGTTATAGTATCAAGAACTTTG
Found at i:48507347 original size:57 final size:58
Alignment explanation
Indices: 48507279--48507399 Score: 160
Period size: 57 Copynumber: 2.1 Consensus size: 58
48507269 ACTAGATGCC
*
48507279 GGTGATTATAGTATCAAGA-ACTT-TGTGCCGA-TGTTATATTTATCAGGTACTTTGTACT
1 GGTGATTATAGTATC-AGACA-TTCTATG-CGAGTGTTATATTTATCAGGTACTTTGTACT
* *
48507337 GGTG-TTATAGTATCAGACATTCTATGCTAGTGTTATATTTATTAGGTACTTTGTACT
1 GGTGATTATAGTATCAGACATTCTATGCGAGTGTTATATTTATCAGGTACTTTGTACT
48507394 GGTGAT
1 GGTGAT
48507400 GGATACCATA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
56 7 0.12
57 44 0.79
58 5 0.09
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (58 bp):
GGTGATTATAGTATCAGACATTCTATGCGAGTGTTATATTTATCAGGTACTTTGTACT
Found at i:48517217 original size:43 final size:44
Alignment explanation
Indices: 48517128--48517242 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 44
48517118 TGTGATTACA
* * *
48517128 TGTAAGACCATGTCTGGTACATTGGCAT-TGTATTGTGATTATG
1 TGTAAGACCATGTCTGGAACATTGGCATCTGTAATGCGATTATG
48517171 TGTAAGACCATGTCTGGAACATTGGCATCCT-TAAT-CGATT-TCG
1 TGTAAGACCATGTCTGGAACATTGGCAT-CTGTAATGCGATTAT-G
* * * *
48517214 TGTAAAACCCTGTCTGGGACAGTGGCATC
1 TGTAAGACCATGTCTGGAACATTGGCATC
48517243 GATATGTGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 56 0.90
44 3 0.05
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGAACATTGGCATCTGTAATGCGATTATG
Found at i:48519949 original size:16 final size:16
Alignment explanation
Indices: 48519928--48519958 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48519918 TTGTATATAC
*
48519928 ATGAATTGATGATGAG
1 ATGAATTGATAATGAG
48519944 ATGAATTGATAATGA
1 ATGAATTGATAATGA
48519959 TGATATATGA
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:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGAATTGATAATGAG
Found at i:48522822 original size:15 final size:15
Alignment explanation
Indices: 48522799--48522828 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48522789 TTAGTTGAGG
*
48522799 AAAGCAAAAAAGAAA
1 AAAGAAAAAAAGAAA
48522814 AAAGAAAAAAAGAAA
1 AAAGAAAAAAAGAAA
48522829 TATGGAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAGAAA
Found at i:48526290 original size:16 final size:17
Alignment explanation
Indices: 48526258--48526292 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48526248 AGAAAAACCT
48526258 TTGTTTGTGTAAAATCG
1 TTGTTTGTGTAAAATCG
*
48526275 TTGTTTTTGT-AAATCG
1 TTGTTTGTGTAAAATCG
48526291 TT
1 TT
48526293 TTGACAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.54
Consensus pattern (17 bp):
TTGTTTGTGTAAAATCG
Found at i:48541457 original size:69 final size:70
Alignment explanation
Indices: 48541341--48541471 Score: 201
Period size: 69 Copynumber: 1.9 Consensus size: 70
48541331 CCAACATATA
* * * *
48541341 TATTTAGCTAGTAACCAATTGAAGCTACAACATGCCGTCTGATCCTAAGTCTGTA-GTTCACCTG
1 TATTAAGCTAGTAACCAATTGAAGCTACAACACGCCGTCCGATCCTAAGTCTGCAGGTTCACCTG
48541405 AAATG
66 AAATG
* *
48541410 TATTAAGCTAGTAACCAATTGAAGCTACCACACGTCGTCCGATCCTAAGTCTGCAGGTTCAC
1 TATTAAGCTAGTAACCAATTGAAGCTACAACACGCCGTCCGATCCTAAGTCTGCAGGTTCAC
48541472 AACAGAATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
69 49 0.89
70 6 0.11
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (70 bp):
TATTAAGCTAGTAACCAATTGAAGCTACAACACGCCGTCCGATCCTAAGTCTGCAGGTTCACCTG
AAATG
Found at i:48542501 original size:18 final size:17
Alignment explanation
Indices: 48542460--48542494 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48542450 ATTTGGTCAA
*
48542460 TTATCTATTTTTATATT
1 TTATTTATTTTTATATT
48542477 TTATTTATTTTTA-ATT
1 TTATTTATTTTTATATT
48542493 TT
1 TT
48542495 TAATTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTATTTTTATATT
Found at i:48554596 original size:19 final size:19
Alignment explanation
Indices: 48554559--48554596 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
48554549 ACCAGTCAGA
*
48554559 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
48554578 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
48554597 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:48559738 original size:21 final size:21
Alignment explanation
Indices: 48559720--48559906 Score: 132
Period size: 21 Copynumber: 9.0 Consensus size: 21
48559710 TTTCGTTTAG
* *
48559720 CTCTTACGAGCTTCTGTTTAA
1 CTCTTATGAGCTTCTGTTCAA
* *
48559741 CTCATATGAG-TTTTCGTTCAA
1 CTCTTATGAGCTTCT-GTTCAA
48559762 CTCTT-TCGAGCTTCTGTTCAA
1 CTCTTAT-GAGCTTCTGTTCAA
* * *
48559783 CTC-TATGAGTTTCTATTCAG
1 CTCTTATGAGCTTCTGTTCAA
* *
48559803 CT-TTAATGAGCTTCCGTTTAA
1 CTCTT-ATGAGCTTCTGTTCAA
* * *
48559824 CTCATATGAGTTTATGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
* *
48559845 CTCTTACGAGCTTCTGTTCAG
1 CTCTTATGAGCTTCTGTTCAA
* * * *
48559866 CCCTTAT-AGGTTTCTGTTTAG
1 CTCTTATGA-GCTTCTGTTCAA
*
48559887 CTCTCATGAGCTTCTGTTCA
1 CTCTTATGAGCTTCTGTTCA
48559907 GCTTTCGAGC
Statistics
Matches: 125, Mismatches: 32, Indels: 18
0.71 0.18 0.10
Matches are distributed among these distances:
20 20 0.16
21 100 0.80
22 5 0.04
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAA
Found at i:48559772 original size:42 final size:42
Alignment explanation
Indices: 48559709--48559862 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
48559699 CGTGTTTTAC
* *
48559709 TTTTCGTTTAGCTCTTACGAGCTTCTGTTTAACTCATATGAG
1 TTTTCGTTCAACTCTTACGAGCTTCTGTTTAACTCATATGAG
* *
48559751 TTTTCGTTCAACTCTTTCGAGCTTCTGTTCAACTC-TATGAG
1 TTTTCGTTCAACTCTTACGAGCTTCTGTTTAACTCATATGAG
* * * *
48559792 -TTTCTATTCAGCT-TTAATGAGCTTCCGTTTAACTCATATGAG
1 TTTTC-GTTCAACTCTT-ACGAGCTTCTGTTTAACTCATATGAG
48559834 TTTAT-GTTCAACTCTTACGAGCTTCTGTT
1 TTT-TCGTTCAACTCTTACGAGCTTCTGTT
48559863 CAGCCCTTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
40 6 0.07
41 27 0.29
42 54 0.59
43 4 0.04
44 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (42 bp):
TTTTCGTTCAACTCTTACGAGCTTCTGTTTAACTCATATGAG
Found at i:48562557 original size:71 final size:72
Alignment explanation
Indices: 48562431--48562614 Score: 271
Period size: 71 Copynumber: 2.5 Consensus size: 72
48562421 CCGTGTGTGG
* * * * *
48562431 CACACAGCCTAGCACACAGGCATGTGACTAGGCCGTGTGAACCCTACACCTTAATATTGCAAGTT
1 CACACGGCCTAGCACACAGGCGTGTGGCTTGG-CGTGTGAACCCTACACCTTAATACTGCAAGTT
48562496 AGTATGCT
65 AGTATGCT
* *
48562504 CACACGGCCTAGCACACAGGCGTATGGCTTGGC-TGTGAACCCTGCACCTTAATACTGCAAGTTA
1 CACACGGCCTAGCACACAGGCGTGTGGCTTGGCGTGTGAACCCTACACCTTAATACTGCAAGTTA
48562568 GTATGCT
66 GTATGCT
*
48562575 CACACGGCCTAGCACACAAGCGTGTGGCTTGGCCGTGTGA
1 CACACGGCCTAGCACACAGGCGTGTGGCTTGG-CGTGTGA
48562615 CATAAGTTAG
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 66 0.66
72 2 0.02
73 32 0.32
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (72 bp):
CACACGGCCTAGCACACAGGCGTGTGGCTTGGCGTGTGAACCCTACACCTTAATACTGCAAGTTA
GTATGCT
Found at i:48567428 original size:44 final size:44
Alignment explanation
Indices: 48567378--48567505 Score: 193
Period size: 44 Copynumber: 2.9 Consensus size: 44
48567368 GGCTATATGC
*
48567378 ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATG
1 ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATG
* *
48567422 ATAAAATGAGTAAGACCATAGTTGAAAGATGCTATGGAATCATG
1 ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATG
* * * *
48567466 ATAAAATGAGTAATACCATATCTAAAAGATGATATGGCAT
1 ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCAT
48567506 GATATGAAAC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (44 bp):
ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATG
Found at i:48568771 original size:22 final size:22
Alignment explanation
Indices: 48568743--48568787 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
48568733 CAAATTTGAG
48568743 AAGGTTTCAAAAGGGTAAACTA
1 AAGGTTTCAAAAGGGTAAACTA
48568765 AAGGTTTCAAAAGGGTAAACTA
1 AAGGTTTCAAAAGGGTAAACTA
48568787 A
1 A
48568788 GGAAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (22 bp):
AAGGTTTCAAAAGGGTAAACTA
Found at i:48575453 original size:22 final size:22
Alignment explanation
Indices: 48575428--48575470 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48575418 GGCCTTTAGC
48575428 CGTCCCATCTACGGCATTGAGT
1 CGTCCCATCTACGGCATTGAGT
** *
48575450 CGTCCTGTCTACGGCGTTGAG
1 CGTCCCATCTACGGCATTGAG
48575471 CTGTCCTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.30, G:0.28, T:0.28
Consensus pattern (22 bp):
CGTCCCATCTACGGCATTGAGT
Found at i:48575476 original size:22 final size:22
Alignment explanation
Indices: 48575435--48575479 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
48575425 AGCCGTCCCA
48575435 TCTACGGCATTGAGTCGTCCTG
1 TCTACGGCATTGAGTCGTCCTG
*
48575457 TCTACGGCGTTGAG-CTGTCCTG
1 TCTACGGCATTGAGTC-GTCCTG
48575479 T
1 T
48575480 TGACTTAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.11, C:0.27, G:0.29, T:0.33
Consensus pattern (22 bp):
TCTACGGCATTGAGTCGTCCTG
Found at i:48579768 original size:5 final size:5
Alignment explanation
Indices: 48579758--48579848 Score: 76
Period size: 5 Copynumber: 16.8 Consensus size: 5
48579748 AAGCTAATTG
* *
48579758 TAAAA TAAAA TAAAAA TAAAA CAAAA -AAAG TAAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA
*
48579809 TATTAAA TAAAA CAAAA TAAGAAA TAATAA TAATAA TAAA
1 TA--AAA TAAAA TAAAA T-A-AAA TAA-AA TAA-AA TAAA
48579849 GAATAATAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
4 3 0.04
5 39 0.53
6 22 0.30
7 9 0.12
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:48579792 original size:7 final size:6
Alignment explanation
Indices: 48579759--48579860 Score: 66
Period size: 6 Copynumber: 16.2 Consensus size: 6
48579749 AGCTAATTGT
*
48579759 AAAAT- AAAATA AAAATA AAACAAA AAAAGTA AAAAT- AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAA-ATA AAAA-TA AAAATA AAAATA AAAATA
* * *
48579806 AAATATTA AATAAAA CAAAATA AGAAATA ATAATA ATAATA AAGAATA
1 AAA-A-TA AA-AATA -AAAATA A-AAATA AAAATA AAAATA AA-AATA
*
48579854 ATAATA A
1 AAAATA A
48579861 TTTAATAATA
Statistics
Matches: 80, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
5 15 0.19
6 31 0.39
7 26 0.32
8 7 0.09
9 1 0.01
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:48579833 original size:17 final size:17
Alignment explanation
Indices: 48579796--48579835 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
48579786 AGTAAAAATA
* **
48579796 AAATAAAATAAAATATT
1 AAATAAAACAAAATAAG
48579813 AAATAAAACAAAATAAG
1 AAATAAAACAAAATAAG
48579830 AAATAA
1 AAATAA
48579836 TAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAAACAAAATAAG
Found at i:48579838 original size:42 final size:42
Alignment explanation
Indices: 48579758--48579844 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
48579748 AAGCTAATTG
48579758 TAAAATAAAATAAAAATAAAACAAAAAAAGTAAAAATAA-AA
1 TAAAATAAAATAAAAATAAAACAAAAAAAGTAAAAATAATAA
* *
48579799 TAAAATAAAATATTAAATAAAACAAAATAAG-AAATAATAATAA
1 TAAAATAAAATA-AAAATAAAACAAAAAAAGTAAA-AATAATAA
48579842 TAA
1 TAA
48579845 TAAAGAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 15 0.37
42 21 0.51
43 5 0.12
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (42 bp):
TAAAATAAAATAAAAATAAAACAAAAAAAGTAAAAATAATAA
Found at i:48579839 original size:3 final size:3
Alignment explanation
Indices: 48579831--48580035 Score: 162
Period size: 3 Copynumber: 67.7 Consensus size: 3
48579821 CAAAATAAGA
* * *
48579831 AAT AAT AAT AAT AAT AAAG AAT AAT AAT AAT -TT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
48579876 AAT AAT AAG CAT GAT AAT AAT AAT AAT AAT ATT AAT AAT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * **
48579924 GAT AAT AGT AAT AAA AAT AAA AAT AAT AGT AAT AAT AAT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * **
48579972 AAAT AGT AAT GAT AAT -AT ATT AAT AAG AAT AAC AAT AAGGT GTT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT
48580019 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
48580036 ATTAATTAAT
Statistics
Matches: 153, Mismatches: 43, Indels: 12
0.74 0.21 0.06
Matches are distributed among these distances:
2 3 0.02
3 144 0.94
4 5 0.03
5 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48580732 original size:16 final size:16
Alignment explanation
Indices: 48580713--48580749 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
48580703 AAAATATTTC
48580713 GAAAAGAAAAAAAAAA
1 GAAAAGAAAAAAAAAA
**
48580729 GAAAAGAAGGAAAAAA
1 GAAAAGAAAAAAAAAA
48580745 GAAAA
1 GAAAA
48580750 AAAGGAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
GAAAAGAAAAAAAAAA
Found at i:48580754 original size:16 final size:16
Alignment explanation
Indices: 48580723--48580756 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48580713 GAAAAGAAAA
*
48580723 AAAAAAGAAAAGAAGG
1 AAAAAAGAAAAAAAGG
48580739 AAAAAAGAAAAAAAGG
1 AAAAAAGAAAAAAAGG
48580755 AA
1 AA
48580757 TGAAACTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAGG
Found at i:48581131 original size:17 final size:17
Alignment explanation
Indices: 48581109--48581146 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
48581099 ATATTGGGCT
48581109 GTTTGGGATTG-GGTTTA
1 GTTTGGG-TTGAGGTTTA
48581126 GTTTGGGTTGATGGTTTA
1 GTTTGGGTTGA-GGTTTA
48581144 GTT
1 GTT
48581147 GGGCTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 7 0.37
18 9 0.47
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (17 bp):
GTTTGGGTTGAGGTTTA
Found at i:48581737 original size:140 final size:140
Alignment explanation
Indices: 48581581--48581842 Score: 350
Period size: 140 Copynumber: 1.9 Consensus size: 140
48581571 GTAACTTGTG
* * *
48581581 GCTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAAACTT-G-TTTCTTTAACCCGCTCCACTG
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAAA-TTCGCTATCTTCAACCCGCTCCACTG
* * *
48581644 TAACTTCAGGGAGATAAG-GTCTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
65 CAACTTCAGGGAGATAAGAGT-TG-TATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGA
48581708 TCTATAATTTATA
128 TCTATAATTTATA
* ** *
48581721 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGC
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAAATTCGCTATCTTCAACCCGCTCCACTGC
* * * *
48581786 AACTTCAGGGAGATAAGAGTTGTTTTTTCACCCTGCTCCATTACAACTTCAGGGAGA
66 AACTTCAGGGAGATAAGAGTTGTATCTTCAACCTGCTCCACTACAACTTCAGGGAGA
48581843 CAAGGTTTGT
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
139 2 0.02
140 66 0.63
141 35 0.33
142 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (140 bp):
GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAAATTCGCTATCTTCAACCCGCTCCACTGC
AACTTCAGGGAGATAAGAGTTGTATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATCT
ATAATTTATA
Found at i:48581747 original size:51 final size:45
Alignment explanation
Indices: 48581582--48582619 Score: 309
Period size: 44 Copynumber: 22.8 Consensus size: 45
48581572 TAACTTGTGG
* * * * *
48581582 CTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAAACTT-G-TTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCTAT
* * * * *
48581626 CTTTAACCCGCTCCACTGTAACTTCAGGGAGATAAGGTCT-GCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAGCTAT
**
48581671 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATAATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-AGCTAT
* * *
48581720 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* *
48581767 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAGTT-G-TTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCTAT
* ** * * * * *
48581811 TTTCACCCTGCTCCATTACAACTTCAGGGAGACAAGGTTTG-T-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* * ** * *
48581854 -TT-GATCTGTTATACTGCAACTTCAGAGAAATAAGATCT-GTCATCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAG-C-T-AT
* * * * * * * * *
48581900 AGCTTCAACCTGTTCCATTGCAATTTCAAGAAAATAAGACTCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
** * *
48581947 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCT-GGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* * * *
48581991 CTTTAATCTGCTCCACTGAAACTTCAGGAAGATAAGATTCGCCATAGTTTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-C-TA-----T
* * * * * * * *
48582043 AGCTTTAATCTACTCCACTGTAACATCAGGGAAATAAGATTCGATGT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
** * * * * * **
48582090 CTTCAGCCTACTCCGCTGCAACTTTAGGGAGATAAGGTT-GGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* * * * *
48582134 CTCCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTCA-CCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AGCTAT
* * * * * * * *
48582179 ATTCGATCT-ATTCACTGCAACTTCAGAGAGATAAAACTTGACATGGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT---A-GCTAT
* * * ** *
48582228 CTTCAATATGC-CCTACTACAACTTCAGTGGGACGGTTTGTTTA--TAT
1 CTTCAATCTGCTCC-ACTGCAACTTCA--GGGA-GATAAGATTAGCTAT
* * * * **
48582274 -TT-AACCTGCTCCATTGCAACTTCAGAGG-GATAAGGTTTG-TCG
1 CTTCAATCTGCTCCACTGCAACTTCAG-GGAGATAAGATTAGCTAT
* * *
48582316 CTTTC-ATCTACTCCACTGTAACTTCAGGGAGATAAGATTCGTCATGAT
1 C-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-C-T-AT
* * * *
48582364 AACTTCAATCTGCTCCACTGAAACTTCAAGGAGATAAAACTT-G-TAA
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCTAT
* *
48582410 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGGTT---T-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* * * * **
48582451 CTAT-GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTAT
1 CT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-AGCTAT
** * *
48582500 AACTTCAATCTATTCCACT---A---CAAGGAAATAAGATTCA-CTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AGCTAT
* * * *
48582541 CTTCAATCTTCTCTACTGCAACTTCAGTGAGATAAGACTT---TAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCTAT
* *
48582584 CTTCAACCTGCTCCACTGCTACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
48582620 GTTTGTTGTG
Statistics
Matches: 733, Mismatches: 184, Indels: 155
0.68 0.17 0.14
Matches are distributed among these distances:
39 14 0.02
41 60 0.08
42 10 0.01
43 45 0.06
44 235 0.32
45 163 0.22
46 8 0.01
47 14 0.02
48 4 0.01
49 21 0.03
50 67 0.09
51 48 0.07
52 6 0.01
53 2 0.00
54 36 0.05
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
Found at i:48581766 original size:96 final size:94
Alignment explanation
Indices: 48581582--48581982 Score: 330
Period size: 96 Copynumber: 4.4 Consensus size: 94
48581572 TAACTTGTGG
* * * * * * * *
48581582 CTTCAATTTGTTCCACTGCAACTTCAGGGAAATAA-AACTT-GTT-T--CTTTAACCCGCTCCAC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTATTTATAGCTTCAACCTGTTCCAC
* * *
48581642 TGTAACTTCAGGGAGATAAG-GTCTGCTAT
66 TGCAACTTCAGGGAAATAAGATTC-GCTAT
*
48581671 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-T-ATTTATAGCTTCAACCTGTTCC
48581736 ACTGCAACTTCAGGGAAATAAGATTCGCTAT
64 ACTGCAACTTCAGGGAAATAAGATTCGCTAT
* * * * * *
48581767 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-GTTGTTT-T---TTCACCCTGCTCCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTATTTATAGCTTCAACCTGTTCCAC
* * * * *
48581827 TACAACTTCAGGGAGACAAGGTTTG-T-T
66 TGCAACTTCAGGGAAATAAGATTCGCTAT
* * ** * * *
48581854 -TT-GATCTGTTATACTGCAACTTCAGAGAAATAAGATCTGTCA-TCATAGCTTCAACCTGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-T-ATTTATAGCTTCAACCTGTTCC
* * * * *
48581916 ATTGCAATTTCAAGAAAATAAGACTCGCTAT
64 ACTGCAACTTCAGGGAAATAAGATTCGCTAT
48581947 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
48581983 GCTGGTAGCT
Statistics
Matches: 242, Mismatches: 51, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
85 26 0.11
86 3 0.01
87 3 0.01
88 2 0.01
89 63 0.26
90 3 0.01
91 30 0.12
92 2 0.01
93 6 0.02
94 4 0.02
95 27 0.11
96 71 0.29
97 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (94 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTATTTATAGCTTCAACCTGTTCCAC
TGCAACTTCAGGGAAATAAGATTCGCTAT
Found at i:48581946 original size:180 final size:185
Alignment explanation
Indices: 48581582--48582018 Score: 510
Period size: 180 Copynumber: 2.4 Consensus size: 185
48581572 TAACTTGTGG
* * * * **
48581582 CTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAAACTTGTTTCTTTAACCCGCTCCACTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTCTTTAACCCGCTCCACTACAA
* * * *
48581647 CTTCAGGGAGATAAGGTCTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA
66 CTTCAGGGAGACAAGGTCTGCTATCTTCAATCTGCTACACTGCAACTTCAGAGAAATAAGATCTA
* * * * *
48581712 TAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
131 TAATTCATAGCTTCAACCTGTTCCACTGCAACTTCAAGAAAATAAGACTCGCTAT
* * * *
48581767 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTTT-TTTCACCCTGCTCCATTACA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTCTTTAACCC-GCTCCACTACA
* * * *
48581831 ACTTCAGGGAGACAAGGTTTG-T-T-TT-GATCTGTTATACTGCAACTTCAGAGAAATAAGATCT
65 ACTTCAGGGAGACAAGGTCTGCTATCTTCAATCTGCTACACTGCAACTTCAGAGAAATAAGATCT
* * * *
48581892 GTCA-TCATAGCTTCAACCTGTTCCATTGCAATTTCAAGAAAATAAGACTCGCTAT
130 ATAATTCATAGCTTCAACCTGTTCCACTGCAACTTCAAGAAAATAAGACTCGCTAT
* * ** * *
48581947 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTAGCTTTAATCTGCTCCACTGA-A
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTCTTTAACCCGCTCCACT-ACA
48582011 ACTTCAGG
65 ACTTCAGG
48582019 AAGATAAGAT
Statistics
Matches: 212, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
180 98 0.46
181 38 0.18
182 2 0.01
183 1 0.00
184 8 0.04
185 65 0.31
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (185 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTCTTTAACCCGCTCCACTACAA
CTTCAGGGAGACAAGGTCTGCTATCTTCAATCTGCTACACTGCAACTTCAGAGAAATAAGATCTA
TAATTCATAGCTTCAACCTGTTCCACTGCAACTTCAAGAAAATAAGACTCGCTAT
Found at i:48582781 original size:181 final size:179
Alignment explanation
Indices: 48582315--48582806 Score: 557
Period size: 181 Copynumber: 2.7 Consensus size: 179
48582305 AAGGTTTGTC
* * * *
48582315 GCTTTCATCTACTCCACTGTAACTTCAGGGAGATAAGATTCGTCATGATAACTTCAATCTGCTCC
1 GCTTTCATCTA-TTCA-TGCAACTTCAGGGAAATAAGATTCG-C-T-AT--CTTCAATCTACTCC
* * * * *
48582380 ACTGAAACTTCAAGGAGATAAAACTTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
59 ACTGAAACTTCAGGGAGATAAGACTT-TAACTTCAACCTGCTCCACTGCTACTTCAGGGAGATAA
48582445 GGTTT-TCTATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATA
123 GGTTTGTCTATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATA
* * * * * * *
48582501 AC-TTCAATCTATTC---C-ACTACAAGGAAATAAGATTCACTATCTTCAATCTTCTCTACTGCA
1 GCTTTC-ATCTATTCATGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGAA
*
48582561 ACTTCAGTGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTACTTCAGGGAGATAAGGTTTGT
65 ACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTACTTCAGGGAGATAAGGTTTGT
* * * * * *
48582626 -TGTGATCTGCTCTACTATAACTTCAGAGGGATAATATCTGTTTATTTATA
130 CTATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCT-ATAATTTATA
* * *
48582676 GCTTTCATCTATTCGATTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTACTCCACTGT
1 GCTTTCATCTATTC-A-TGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGA
* * * *
48582741 GATTTCAGGGAGATAAGACTTTAACTTTAACCTGCTCCACTACTACTTCAGGGAGATAAGGTTTG
64 AACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTACTTCAGGGAGATAAGGTTTG
48582806 T
129 T
48582807 GGATTCACCG
Statistics
Matches: 260, Mismatches: 36, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
174 75 0.29
175 52 0.20
176 3 0.01
177 2 0.01
178 1 0.00
179 1 0.00
180 18 0.07
181 97 0.37
185 5 0.02
186 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (179 bp):
GCTTTCATCTATTCATGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGAAA
CTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTACTTCAGGGAGATAAGGTTTGTC
TATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATA
Found at i:48585014 original size:28 final size:28
Alignment explanation
Indices: 48584963--48585032 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
48584953 GTATGACTAC
*
48584963 GAATGTGATTGGGCTTGATGGGCCA-CAT
1 GAATGTGATTGGGCTCGATGGGCCATC-T
*
48584991 GAATGTGATTAGGG-TCGATTGGCCATCT
1 GAATGTGATT-GGGCTCGATGGGCCATCT
*
48585019 GAATGAGATTGGGC
1 GAATGTGATTGGGC
48585033 CAAAAGGGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.08
28 29 0.81
29 4 0.11
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.29
Consensus pattern (28 bp):
GAATGTGATTGGGCTCGATGGGCCATCT
Found at i:48592547 original size:28 final size:28
Alignment explanation
Indices: 48592494--48592566 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
48592484 TTGTATGACT
*
48592494 ATGAATGTGATTGGGCTTGATGGGCCA-C
1 ATGAATGTGATTGGG-TCGATGGGCCATC
*
48592522 ATGAATGTGATTAGGGTCGATTGGCCATC
1 ATGAATGTGATT-GGGTCGATGGGCCATC
*
48592551 -TGAATGAGATTGGGTC
1 ATGAATGTGATTGGGTC
48592567 TAAAGGGACC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
27 5 0.12
28 31 0.77
29 4 0.10
ACGTcount: A:0.23, C:0.12, G:0.34, T:0.30
Consensus pattern (28 bp):
ATGAATGTGATTGGGTCGATGGGCCATC
Found at i:48593637 original size:17 final size:18
Alignment explanation
Indices: 48593604--48593637 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48593594 TCTTTTAAAG
48593604 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
48593622 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
48593638 CTTTAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:48594326 original size:6 final size:6
Alignment explanation
Indices: 48594310--48594365 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
48594300 GGCCTCTCTA
* * *
48594310 TTTTCT CTTTCT TTTTCT TCTTCT TTTTCT TCTTC- TTTTCT TTTT-T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
*
48594356 TCTTCT TTTT
1 TTTTCT TTTT
48594366 TTTGAGGACT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 8 0.20
6 32 0.80
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTCT
Found at i:48594365 original size:12 final size:12
Alignment explanation
Indices: 48594310--48594368 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 12
48594300 GGCCTCTCTA
48594310 TTTTC-TCTTTCT
1 TTTTCTTCTTT-T
*
48594322 TTTTCTTCTTCT
1 TTTTCTTCTTTT
*
48594334 TTTTCTTC-TTC
1 TTTTCTTCTTTT
48594345 TTTTCTT-TTTT
1 TTTTCTTCTTTT
*
48594356 TCTTCTT-TTTT
1 TTTTCTTCTTTT
48594367 TT
1 TT
48594369 GAGGACTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 21 0.54
12 14 0.36
13 4 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:48599957 original size:6 final size:6
Alignment explanation
Indices: 48599941--48600015 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
48599931 AGCTAATTGT
* *
48599941 AAAAT- AAAATA AAAATA AAAGTA AAAATA AAACA-A AATAAGA AATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AA-AATA AA-AATA
* * *
48599990 ATAATA ATAATA AAGAATA AGAATA A
1 AAAATA AAAATA AA-AATA AAAATA A
48600016 TATAATATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
5 5 0.08
6 39 0.66
7 15 0.25
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:48599964 original size:22 final size:24
Alignment explanation
Indices: 48599939--48600043 Score: 76
Period size: 25 Copynumber: 4.4 Consensus size: 24
48599929 CAAGCTAATT
48599939 GTAA-AATAAAATAAAAATAA-AA
1 GTAATAATAAAATAAAAATAAGAA
* *
48599961 GTAAAAATAAAA-CAAAATAAGAA
1 GTAATAATAAAATAAAAATAAGAA
* * *
48599984 ATAATAATAATAATAATAAAGAATAA
1 GTAATAATAA-AATAA-AAATAAGAA
* *
48600010 G-AATAATATAATATAATAATAA-TA
1 GTAATAATA-AA-ATAAAAATAAGAA
48600034 GTAATAATAA
1 GTAATAATAA
48600044 TAAGCATGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
22 11 0.17
23 17 0.26
24 5 0.08
25 20 0.31
26 12 0.18
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.24
Consensus pattern (24 bp):
GTAATAATAAAATAAAAATAAGAA
Found at i:48599972 original size:17 final size:16
Alignment explanation
Indices: 48599940--48599999 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 16
48599930 AAGCTAATTG
48599940 TAAAAT-AAAATAAAAA
1 TAAAATAAAAAT-AAAA
48599956 TAAAAGTAAAAATAAAA
1 TAAAA-TAAAAATAAAA
*
48599973 CAAAATAAGAAATAATAA
1 TAAAATAA-AAATAA-AA
48599991 TAATAATAA
1 TAA-AATAA
48600000 TAAAGAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 8 0.22
17 15 0.41
18 9 0.24
19 5 0.14
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:48599991 original size:3 final size:3
Alignment explanation
Indices: 48599983--48600217 Score: 208
Period size: 3 Copynumber: 78.3 Consensus size: 3
48599973 CAAAATAAGA
* *
48599983 AAT AAT AAT AAT AAT AAT AAAG AAT AAG AAT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
48600027 AAT AAT AGT AAT AAT AAT AAG CAT GAT AAT AAT AAT ATT AAT AAT AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
48600075 AAT AAT GAT AAT GAT AAT AAT AAT AAT AAT AA- AAGT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
** * * * *
48600120 AAT AAT GGT AAT AAT AAAT AGT AAT GAT AAT ATAT AAT AAG AAT AAC
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* ** * *
48600167 AAT AAT -GT GTT CAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48600214 AAT A
1 AAT A
48600218 TTTATTAATT
Statistics
Matches: 184, Mismatches: 40, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
2 7 0.04
3 167 0.91
4 10 0.05
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48600848 original size:11 final size:9
Alignment explanation
Indices: 48600819--48600857 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
48600809 ATATTTCGAA
48600819 AAGGAAAAG
1 AAGGAAAAG
48600828 AAGGAAAAG
1 AAGGAAAAG
48600837 AAGGAAAA-
1 AAGGAAAAG
48600845 AA-GAAAA-
1 AAGGAAAAG
48600852 AAGGAA
1 AAGGAA
48600858 TGAAACTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.24
8 5 0.17
9 17 0.59
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (9 bp):
AAGGAAAAG
Found at i:48602295 original size:29 final size:30
Alignment explanation
Indices: 48602229--48602310 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 30
48602219 AACTATTAAA
*
48602229 ATTATACATGAATTTTGATTTAATGTGTAAT
1 ATTATACATAAATTTTGATTT-ATGTGTAAT
* *
48602260 ATCATACATAAACTTTGATTT-TGTGTAAT
1 ATTATACATAAATTTTGATTTATGTGTAAT
*
48602289 TTTATACATAAAATTTTGATTT
1 ATTATACAT-AAATTTTGATTT
48602311 GATTTAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 15 0.34
30 11 0.25
31 18 0.41
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (30 bp):
ATTATACATAAATTTTGATTTATGTGTAAT
Found at i:48602319 original size:30 final size:29
Alignment explanation
Indices: 48602230--48602321 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 29
48602220 ACTATTAAAA
* * *
48602230 TTATACATGAATTTTGATTTAATGTGTAATA
1 TTATACATAAATTTTGATTTGAT-T-TAATT
* * *
48602261 TCATACATAAACTTTGATTTTG-TGTAATT
1 TTATACATAAATTTTGA-TTTGATTTAATT
48602290 TTATACATAAAATTTTGATTTGATTTAATT
1 TTATACAT-AAATTTTGATTTGATTTAATT
48602320 TT
1 TT
48602322 TATAAACCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 15 0.31
30 16 0.33
31 15 0.31
32 3 0.06
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (29 bp):
TTATACATAAATTTTGATTTGATTTAATT
Found at i:48603656 original size:28 final size:28
Alignment explanation
Indices: 48603615--48603735 Score: 136
Period size: 28 Copynumber: 4.2 Consensus size: 28
48603605 TAGGGTTAAT
48603615 GATTTTAGAGAAAATAAATT-AGGTTTTAGG
1 GATTTTA-A-AAAATAAATTAAGG-TTTAGG
*
48603645 GATTTTAAAAAATAAATTAAGGTTTATG
1 GATTTTAAAAAATAAATTAAGGTTTAGG
* * *
48603673 GTTTTTAAAAAATAACTTACGGTTTAGG
1 GATTTTAAAAAATAAATTAAGGTTTAGG
* * *
48603701 GATTTTTAAAAATAAATTCATGTTTAGG
1 GATTTTAAAAAATAAATTAAGGTTTAGG
*
48603729 GGTTTTA
1 GATTTTA
48603736 GTGTTTTTGT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
28 66 0.86
29 4 0.05
30 7 0.09
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.40
Consensus pattern (28 bp):
GATTTTAAAAAATAAATTAAGGTTTAGG
Found at i:48603726 original size:56 final size:56
Alignment explanation
Indices: 48603625--48603735 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
48603615 GATTTTAGAG
* *
48603625 AAAATAAATTAGGTTTTAGGGATTTTAAAAAATAAATTAAGGTTTATGGTTTTTAA
1 AAAATAAATTAGGTTTTAGGGATTTTAAAAAATAAATTAAGGTTTAGGGGTTTTAA
* * * *
48603681 AAAATAACTTACGG-TTTAGGGATTTTTAAAAATAAATTCATGTTTAGGGGTTTTA
1 AAAATAAATTA-GGTTTTAGGGATTTTAAAAAATAAATTAAGGTTTAGGGGTTTTA
48603736 GTGTTTTTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
56 46 0.96
57 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.41
Consensus pattern (56 bp):
AAAATAAATTAGGTTTTAGGGATTTTAAAAAATAAATTAAGGTTTAGGGGTTTTAA
Found at i:48604101 original size:125 final size:127
Alignment explanation
Indices: 48603930--48604234 Score: 399
Period size: 127 Copynumber: 2.4 Consensus size: 127
48603920 GATGCTTTGT
* ** **
48603930 TGCACTGTTAGCAAAAGTACT-AACAAAGCTCTCAGCTGGACGCTCTTTTTCTACATTAGTTTCT
1 TGCACTGTTAGCAAAAGTACTGAAAAAAGCTCTCCCCTGGACGCTCTTTTTCTACAGCAGTTTCT
* * *
48603994 -AAA-ATAATAATTTTGAA-AAGATGGTTCT-AAAATAA-AGGGTCAAAAGCGCTTCAAGTAGGA
66 GAAACA-AATAATTTT-AAGAAGATGGTTCTGAAAA-AATAGGATAAAAAACGCTTCAAGTAGGA
* * * *
48604054 TGCACAGTCAGCAAAAGTACTGAAAAAAACTCTCCCCTGGAAGCTCTTTTTCTACAGCAGTTTCT
1 TGCACTGTTAGCAAAAGTACTGAAAAAAGCTCTCCCCTGGACGCTCTTTTTCTACAGCAGTTTCT
48604119 GAAACAAATAATTTTAAGAAGATGGTTCTGAAAAAATAGGATAAAAAACGCTTCAAGTAGGA
66 GAAACAAATAATTTTAAGAAGATGGTTCTGAAAAAATAGGATAAAAAACGCTTCAAGTAGGA
* *
48604181 TGCACTGTTAGCAAAAGTACTGAAAAAAGCTC-CCACCTAGACGCTTTTTTTCTA
1 TGCACTGTTAGCAAAAGTACTGAAAAAAGCTCTCC-CCTGGACGCTCTTTTTCTA
48604235 TGGTACATCC
Statistics
Matches: 156, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
124 19 0.12
125 38 0.24
126 27 0.17
127 72 0.46
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (127 bp):
TGCACTGTTAGCAAAAGTACTGAAAAAAGCTCTCCCCTGGACGCTCTTTTTCTACAGCAGTTTCT
GAAACAAATAATTTTAAGAAGATGGTTCTGAAAAAATAGGATAAAAAACGCTTCAAGTAGGA
Found at i:48609361 original size:64 final size:64
Alignment explanation
Indices: 48609254--48609401 Score: 205
Period size: 64 Copynumber: 2.3 Consensus size: 64
48609244 CTATTGCCTT
* *
48609254 ATTCAAAAGAACTTTTA-TTT-TATTAAATAGGACAAAATATAAAAATAA-TTGACTACTAAA-A
1 ATTCAAAACAACTTCTATTTTATATTAAATAGGACAAAATATAAAAATAATTTGA-TAC-AAATA
48609315 C
64 C
* * *
48609316 ATTCAAAACAACTTCTATTTTATATTAAATAGGACAAAATGTAAAAATAATTTTATACAAATAT
1 ATTCAAAACAACTTCTATTTTATATTAAATAGGACAAAATATAAAAATAATTTGATACAAATAC
48609380 ATTCAAAACAACTTCTATTTTA
1 ATTCAAAACAACTTCTATTTTA
48609402 CGAAATGAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
62 15 0.19
63 6 0.08
64 53 0.69
65 3 0.04
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (64 bp):
ATTCAAAACAACTTCTATTTTATATTAAATAGGACAAAATATAAAAATAATTTGATACAAATAC
Found at i:48611454 original size:19 final size:19
Alignment explanation
Indices: 48611389--48611460 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
48611379 CGACTTTTAA
48611389 AAAAATTATAAGATAAATATTAAT
1 AAAAATTA-AA-AT-AATATT--T
* *
48611413 AAAAATT-ACATAA-ATTA
1 AAAAATTAAAATAATATTT
48611430 AAAAATTAAAATAATATTT
1 AAAAATTAAAATAATATTT
48611449 AAAAATTAAAAT
1 AAAAATTAAAAT
48611461 TAACCCTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
17 7 0.17
18 5 0.12
19 18 0.43
20 2 0.05
21 2 0.05
22 1 0.02
24 7 0.17
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAATTAAAATAATATTT
Found at i:48612240 original size:29 final size:27
Alignment explanation
Indices: 48612198--48612255 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 27
48612188 AGTCGGTGGT
48612198 ATAAACTAAAGTACTTTATTTCAGAAAAA
1 ATAAACTAAAGTACTTT-TTTCA-AAAAA
* *
48612227 ATAAACTAGAGTACTTTTTTGAAAAAA
1 ATAAACTAAAGTACTTTTTTCAAAAAA
48612254 AT
1 AT
48612256 TAAAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 7 0.26
28 4 0.15
29 16 0.59
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (27 bp):
ATAAACTAAAGTACTTTTTTCAAAAAA
Found at i:48615320 original size:16 final size:16
Alignment explanation
Indices: 48615270--48615336 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
48615260 GGTTTATTGA
*
48615270 AATGGAATAGAGTTAT
1 AATGGAATAGAATTAT
* *
48615286 AATGTAAT-GAAGTTGT
1 AATGGAATAGAA-TTAT
*
48615302 AATGGAATAGAACTAT
1 AATGGAATAGAATTAT
** *
48615318 AATAAAATAAAATTAT
1 AATGGAATAGAATTAT
48615334 AAT
1 AAT
48615337 TAGTAATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
15 2 0.05
16 34 0.87
17 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.16, T:0.31
Consensus pattern (16 bp):
AATGGAATAGAATTAT
Found at i:48615589 original size:39 final size:39
Alignment explanation
Indices: 48615532--48615608 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
48615522 TATTAAATAT
* * *
48615532 AATTTAATAATATTTTTAATATA-AATATTTTTATATTA
1 AATTTAATAAAATATTTAAAATATAATATTTTTATATTA
**
48615570 AATTATAATAAAATATTTAAAATATTTTATTTTTATATT
1 AATT-TAATAAAATATTTAAAATATAATATTTTTATATT
48615609 TTCTAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.12
39 16 0.50
40 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (39 bp):
AATTTAATAAAATATTTAAAATATAATATTTTTATATTA
Found at i:48615594 original size:41 final size:41
Alignment explanation
Indices: 48615522--48615608 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 41
48615512 ATAGGATTCT
**
48615522 TATTAAATATAATTTAATAATATTTTTAATATAAATATTTTTA
1 TATTAAATATAA-TTAATAATATTTAAAATAT-AATATTTTTA
**
48615565 TATTAAATTATAA-TAA-AATATTTAAAATATTTTATTTTTA
1 TATTAAA-TATAATTAATAATATTTAAAATATAATATTTTTA
48615605 TATT
1 TATT
48615609 TTCTAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
40 12 0.31
41 12 0.31
42 3 0.08
43 7 0.18
44 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (41 bp):
TATTAAATATAATTAATAATATTTAAAATATAATATTTTTA
Found at i:48615933 original size:13 final size:13
Alignment explanation
Indices: 48615915--48615940 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48615905 CAAAATTGCC
48615915 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
48615928 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
48615941 AGTTATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTGTTTT
Found at i:48621701 original size:22 final size:22
Alignment explanation
Indices: 48621676--48621722 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
48621666 CATGTTAACG
48621676 AATAAATATAT-AAATATAAATA
1 AATAAATATATAAAATA-AAATA
**
48621698 AATATTTATATAAAATAAAATA
1 AATAAATATATAAAATAAAATA
48621720 AAT
1 AAT
48621723 TGAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AATAAATATATAAAATAAAATA
Found at i:48621719 original size:18 final size:18
Alignment explanation
Indices: 48621676--48621716 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
48621666 CATGTTAACG
48621676 AATAAATATATAAATATA
1 AATAAATATATAAATATA
* *
48621694 AATAAATATTTATATA-A
1 AATAAATATATAAATATA
48621711 AATAAA
1 AATAAA
48621717 ATAAATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAAATATATAAATATA
Found at i:48628000 original size:14 final size:14
Alignment explanation
Indices: 48627981--48628019 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
48627971 TTGTTTCATT
*
48627981 GAAAATGACTTCTA
1 GAAAATAACTTCTA
*
48627995 GAAAATAATTTCTA
1 GAAAATAACTTCTA
*
48628009 AAAAATAACTT
1 GAAAATAACTT
48628020 TGTTACAGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (14 bp):
GAAAATAACTTCTA
Found at i:48637623 original size:16 final size:16
Alignment explanation
Indices: 48637592--48637628 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
48637582 ATGTGAATAA
48637592 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
48637608 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
48637624 TATTA
1 TATTA
48637629 AATGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:48638476 original size:33 final size:33
Alignment explanation
Indices: 48638429--48638508 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
48638419 CCCTATAGAA
*
48638429 AAGCACCGCTAAAACAATTTACGGTGCTTTGAT
1 AAGCACCGCTAAAACAATTTACGGCGCTTTGAT
* *
48638462 AAGCGCCGCTAAAACAATTTACGGCGTTTTGAT
1 AAGCACCGCTAAAACAATTTACGGCGCTTTGAT
*
48638495 AAGCACCGCAAAAA
1 AAGCACCGCTAAAA
48638509 AACGCCGCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (33 bp):
AAGCACCGCTAAAACAATTTACGGCGCTTTGAT
Found at i:48638828 original size:29 final size:29
Alignment explanation
Indices: 48638786--48638842 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
48638776 AAAGTCTAAG
*
48638786 ATGGCGGATTCTGTGACTGCTGAAACATA
1 ATGGCAGATTCTGTGACTGCTGAAACATA
48638815 ATGGCAGATTCTGTGACTGCTGAAACAT
1 ATGGCAGATTCTGTGACTGCTGAAACAT
48638843 CTTCATCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (29 bp):
ATGGCAGATTCTGTGACTGCTGAAACATA
Found at i:48659532 original size:22 final size:22
Alignment explanation
Indices: 48659493--48659534 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
48659483 ATCCAAGCTC
*
48659493 ATTAATGCAATGCTCTAAAAAT
1 ATTAATGCAATGATCTAAAAAT
48659515 ATTAATGCAAT-ATACTAAAA
1 ATTAATGCAATGAT-CTAAAA
48659535 TGCAACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (22 bp):
ATTAATGCAATGATCTAAAAAT
Found at i:48665091 original size:87 final size:87
Alignment explanation
Indices: 48664945--48665119 Score: 350
Period size: 87 Copynumber: 2.0 Consensus size: 87
48664935 TCTTAAAATA
48664945 AAATCTGGCAATTATGCATAAGAAGCATGAACTTGACAGTTCATTAAGACCTTTCGATTGTAGGA
1 AAATCTGGCAATTATGCATAAGAAGCATGAACTTGACAGTTCATTAAGACCTTTCGATTGTAGGA
48665010 TTTTGAGGACTGTCTTTCAGAT
66 TTTTGAGGACTGTCTTTCAGAT
48665032 AAATCTGGCAATTATGCATAAGAAGCATGAACTTGACAGTTCATTAAGACCTTTCGATTGTAGGA
1 AAATCTGGCAATTATGCATAAGAAGCATGAACTTGACAGTTCATTAAGACCTTTCGATTGTAGGA
48665097 TTTTGAGGACTGTCTTTCAGAT
66 TTTTGAGGACTGTCTTTCAGAT
48665119 A
1 A
48665120 GAGACCAATA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (87 bp):
AAATCTGGCAATTATGCATAAGAAGCATGAACTTGACAGTTCATTAAGACCTTTCGATTGTAGGA
TTTTGAGGACTGTCTTTCAGAT
Found at i:48665452 original size:6 final size:6
Alignment explanation
Indices: 48665443--48665483 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
48665433 ACTAACATAT
* *
48665443 ATTGAT ATTGAT ATTGAA ATTGAA ATTGAA ATTGAA ATTGA
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGA
48665484 TCTTTGAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (6 bp):
ATTGAA
Found at i:48669907 original size:92 final size:92
Alignment explanation
Indices: 48669750--48669933 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
48669740 TAAGGTTTTA
48669750 TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
1 TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
48669815 TGATTTTCTGGATATGAGAACTTCAGG
66 TGATTTTCTGGATATGAGAACTTCAGG
48669842 TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
1 TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
48669907 TGATTTTCTGGATATGAGAACTTCAGG
66 TGATTTTCTGGATATGAGAACTTCAGG
48669934 GGAGCAACAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (92 bp):
TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
TGATTTTCTGGATATGAGAACTTCAGG
Found at i:48671788 original size:113 final size:113
Alignment explanation
Indices: 48671590--48671818 Score: 458
Period size: 113 Copynumber: 2.0 Consensus size: 113
48671580 TTGAATCATG
48671590 TATGGTTAAAGTCATTTTAGAATTTAGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAA
1 TATGGTTAAAGTCATTTTAGAATTTAGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAA
48671655 ATTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAA
66 ATTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAA
48671703 TATGGTTAAAGTCATTTTAGAATTTAGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAA
1 TATGGTTAAAGTCATTTTAGAATTTAGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAA
48671768 ATTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAA
66 ATTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAA
48671816 TAT
1 TAT
48671819 AAAATTTTAA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 116 1.00
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (113 bp):
TATGGTTAAAGTCATTTTAGAATTTAGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAA
ATTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAA
Found at i:48671878 original size:92 final size:92
Alignment explanation
Indices: 48671769--48671951 Score: 366
Period size: 92 Copynumber: 2.0 Consensus size: 92
48671759 TTGGCTCAAA
48671769 TTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAATATAAAATTTTAATGTCA
1 TTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAATATAAAATTTTAATGTCA
48671834 AAATTTCATCACATACAATAAATTTTT
66 AAATTTCATCACATACAATAAATTTTT
48671861 TTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAATATAAAATTTTAATGTCA
1 TTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAATATAAAATTTTAATGTCA
48671926 AAATTTCATCACATACAATAAATTTT
66 AAATTTCATCACATACAATAAATTTT
48671952 GTAAAAAAAA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (92 bp):
TTTGGATAGTACAAACTCTAATATAAAATGTACTGTAAAAAAATTAATATAAAATTTTAATGTCA
AAATTTCATCACATACAATAAATTTTT
Found at i:48672300 original size:30 final size:30
Alignment explanation
Indices: 48672266--48672352 Score: 84
Period size: 40 Copynumber: 2.6 Consensus size: 30
48672256 GCAAGCAATA
48672266 ATGAATGGTAAAGACTTTTTCTTTGGTATG
1 ATGAATGGTAAAGACTTTTTCTTTGGTATG
48672296 ATGAACAATAATGAATGGTAAAGACTTTTTCTTTGGTATG
1 ATG------AAT----GGTAAAGACTTTTTCTTTGGTATG
48672336 ATGAATGGTAAAGACTT
1 ATGAATGGTAAAGACTT
48672353 GATTGCATCA
Statistics
Matches: 47, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
30 14 0.30
34 3 0.06
36 3 0.06
40 27 0.57
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (30 bp):
ATGAATGGTAAAGACTTTTTCTTTGGTATG
Found at i:48672316 original size:40 final size:40
Alignment explanation
Indices: 48672261--48672340 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
48672251 AAGAAGCAAG
48672261 CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAA
1 CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAA
48672301 CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAA
1 CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAA
48672341 TGGTAAAGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (40 bp):
CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAA
Found at i:48672910 original size:336 final size:336
Alignment explanation
Indices: 48672292--48672971 Score: 1333
Period size: 336 Copynumber: 2.0 Consensus size: 336
48672282 TTTTCTTTGG
48672292 TATGATGAACAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATT
1 TATG-TGAACAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATT
48672357 GCATCATTATATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAA
65 GCATCATTATATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAA
48672422 TTTTCATATAAAAATTAAATTTTGCTTTAGTTATAACAATAAAGTGCATTTTAAAATTTTTATTG
130 TTTTCATATAAAAATTAAATTTTGCTTTAGTTATAACAATAAAGTGCATTTTAAAATTTTTATTG
48672487 ATATATTATATTATAATTTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGA
195 ATATATTATATTATAATTTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGA
*
48672552 TGTCCATTGACCCGCAACACCAACTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTGTA
260 TGTCCATTGACCCGCAACACCAACTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATA
48672617 ATTTAATTTTTA
325 ATTTAATTTTTA
48672629 TATGTGAACAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATTG
1 TATGTGAACAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATTG
48672694 CATCATTATATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAAT
66 CATCATTATATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAAT
*
48672759 TTTCATATAAAAATTAAATTTTGCTTTAGTTATAACAATAAAGTGCATTTTAAAGTTTTTATTGA
131 TTTCATATAAAAATTAAATTTTGCTTTAGTTATAACAATAAAGTGCATTTTAAAATTTTTATTGA
48672824 TATATTATATTATAATTTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGAT
196 TATATTATATTATAATTTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGAT
48672889 GTCCATTGACCCGCAACACCAACTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAA
261 GTCCATTGACCCGCAACACCAACTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAA
48672954 TTTAATTTTTA
326 TTTAATTTTTA
48672965 TATGTGA
1 TATGTGA
48672972 GGATAATTTA
Statistics
Matches: 341, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
336 337 0.99
337 4 0.01
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (336 bp):
TATGTGAACAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATTG
CATCATTATATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAAT
TTTCATATAAAAATTAAATTTTGCTTTAGTTATAACAATAAAGTGCATTTTAAAATTTTTATTGA
TATATTATATTATAATTTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGAT
GTCCATTGACCCGCAACACCAACTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAA
TTTAATTTTTA
Found at i:48672930 original size:115 final size:115
Alignment explanation
Indices: 48672797--48673027 Score: 462
Period size: 115 Copynumber: 2.0 Consensus size: 115
48672787 GTTATAACAA
48672797 TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
1 TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
48672862 ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAAC
66 ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAAC
48672912 TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
1 TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
48672977 ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAAC
66 ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAAC
48673027 T
1 T
48673028 CGGTAAAAGA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (115 bp):
TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAAC
Found at i:48674916 original size:55 final size:55
Alignment explanation
Indices: 48674856--48674959 Score: 181
Period size: 55 Copynumber: 1.9 Consensus size: 55
48674846 AAGATAATGG
* * *
48674856 GGTTTGTTTGTAATTTCTTATTATTCTTTTTTTTTGGTAGCTGCTGACATAATAT
1 GGTTTGTTTGTAATTTCCTATTATTCTGTTTTTTTAGTAGCTGCTGACATAATAT
48674911 GGTTTGTTTGTAATTTCCTATTATTCTGTTTTTTTAGTAGCTGCTGACA
1 GGTTTGTTTGTAATTTCCTATTATTCTGTTTTTTTAGTAGCTGCTGACA
48674960 CTGCAATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.55
Consensus pattern (55 bp):
GGTTTGTTTGTAATTTCCTATTATTCTGTTTTTTTAGTAGCTGCTGACATAATAT
Found at i:48675025 original size:82 final size:82
Alignment explanation
Indices: 48674930--48675094 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
48674920 GTAATTTCCT
48674930 ATTATTCTGTTTTTTTAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
1 ATTATTCTGTTTTTTTAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
48674995 AATTCTTCATTAGTAGC
66 AATTCTTCATTAGTAGC
48675012 ATTATTCTGTTTTTTTAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
1 ATTATTCTGTTTTTTTAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
48675077 AATTCTTCATTAGTAGC
66 AATTCTTCATTAGTAGC
48675094 A
1 A
48675095 ATTGTGTCGG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (82 bp):
ATTATTCTGTTTTTTTAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
AATTCTTCATTAGTAGC
Found at i:48676012 original size:49 final size:49
Alignment explanation
Indices: 48675958--48676056 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
48675948 TTATAAAATT
48675958 TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
1 TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
48676007 TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
1 TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
48676056 T
1 T
48676057 ATTGAAAGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (49 bp):
TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
Found at i:48676569 original size:45 final size:45
Alignment explanation
Indices: 48676505--48676595 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
48676495 AGGGTCTTGG
48676505 ATTTAAATTTTAAAATTCAACCGTTTTTGTTCCTAGATTAAAATA
1 ATTTAAATTTTAAAATTCAACCGTTTTTGTTCCTAGATTAAAATA
*
48676550 ATTTAAATTTTAAAATTCAATCGTTTTTGTTCCTAGATTAAAATA
1 ATTTAAATTTTAAAATTCAACCGTTTTTGTTCCTAGATTAAAATA
48676595 A
1 A
48676596 AATATGTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (45 bp):
ATTTAAATTTTAAAATTCAACCGTTTTTGTTCCTAGATTAAAATA
Found at i:48680765 original size:41 final size:45
Alignment explanation
Indices: 48680642--48680860 Score: 186
Period size: 45 Copynumber: 5.0 Consensus size: 45
48680632 TAGGATTCCA
* * * ** *
48680642 ATATGTGTTTTCGTTTAAGACCACGTCTGGGATGTTGGAATCAAT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCAAT
* * * *
48680687 ATATGTGGTTACGTGTAAGACCATGTTTGGAACATTGGCATC-AT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCAAT
* * * *
48680731 AT-T-TGATT-CGTGGAAGACCACGTTTGGGATATTGGCATCGAT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCAAT
* * * * *
48680773 ATATGTGGTTACATGTAAGACCATGTCTGGGACATCGGCATC-GT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCAAT
*
48680817 AT-T-TGATT-CGTGTAAGACC-CTGTCTGGGACAGTGGCATCAAT
1 ATATGTGATTACGTGTAAGACCAC-GTCTGGGACATTGGCATCAAT
48680859 AT
1 AT
48680861 GAGATAGCAT
Statistics
Matches: 140, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
41 53 0.38
42 15 0.11
43 3 0.02
44 11 0.08
45 58 0.41
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (45 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCAAT
Found at i:48680796 original size:86 final size:86
Alignment explanation
Indices: 48680658--48680860 Score: 273
Period size: 86 Copynumber: 2.4 Consensus size: 86
48680648 GTTTTCGTTT
* * * *
48680658 AAGACCACGTCTGGGATGTTGGAATCAATATATGTGGTTACGTGTAAGACCATGTTTGGAACATT
1 AAGACCACGTCTGGGATATTGGAATCAATATATGTGGTTACATGTAAGACCATGTCTGGAACATC
48680723 GGCATCATATTTGATTCGTGG
66 GGCATCATATTTGATTCGTGG
* * * *
48680744 AAGACCACGTTTGGGATATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCTGGGACATC
1 AAGACCACGTCTGGGATATTGGAATCAATATATGTGGTTACATGTAAGACCATGTCTGGAACATC
* *
48680809 GGCATCGTATTTGATTCGTGT
66 GGCATCATATTTGATTCGTGG
* * *
48680830 AAGACC-CTGTCTGGGACAGTGGCATCAATAT
1 AAGACCAC-GTCTGGGATATTGGAATCAATAT
48680861 GAGATAGCAT
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 101 0.99
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (86 bp):
AAGACCACGTCTGGGATATTGGAATCAATATATGTGGTTACATGTAAGACCATGTCTGGAACATC
GGCATCATATTTGATTCGTGG
Found at i:48684258 original size:44 final size:42
Alignment explanation
Indices: 48684112--48684270 Score: 124
Period size: 42 Copynumber: 3.7 Consensus size: 42
48684102 AGAACATATA
* * * * *
48684112 CAATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAA-ACAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAA--AACAAAT
* * * * * *
48684155 CGATGCCACTATCCCAGACAGGGTCTTACACG-AAACCAGAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAT
* *
48684196 ACGATGCCGATGTCCCAGACATGGTCTTACACGTAAAACATAAGT
1 -CAATGCCAATGTCCCAGACATGGTCTTACACGTAAAACA-AA-T
**
48684241 CAATGCCAATGTCCCAGATGTGGTCTTACA
1 CAATGCCAATGTCCCAGACATGGTCTTACA
48684271 TGAAATCACA
Statistics
Matches: 91, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 30 0.33
43 29 0.32
44 27 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAT
Found at i:48684914 original size:42 final size:42
Alignment explanation
Indices: 48684855--48684963 Score: 202
Period size: 42 Copynumber: 2.6 Consensus size: 42
48684845 ACAGGGGTGT
48684855 TCACACGGCCAAGCACACGCCCGTGTTCCTGACTCGTGTCCC
1 TCACACGGCCAAGCACACGCCCGTGTTCCTGACTCGTGTCCC
48684897 TCACACGGCCAAGCACACGCCCGTGTTCCTGACTCGTGTCCC
1 TCACACGGCCAAGCACACGCCCGTGTTCCTGACTCGTGTCCC
*
48684939 TCACACGGCCTAG-ACACGCCCGTGT
1 TCACACGGCCAAGCACACGCCCGTGT
48684964 CCAAAAACCC
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
41 12 0.18
42 54 0.82
ACGTcount: A:0.17, C:0.42, G:0.22, T:0.18
Consensus pattern (42 bp):
TCACACGGCCAAGCACACGCCCGTGTTCCTGACTCGTGTCCC
Found at i:48689223 original size:34 final size:34
Alignment explanation
Indices: 48689180--48689247 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
48689170 GGATCGGGAT
48689180 AGACCACCTATGAGCTCGAGAGCTACCTCAGTAG
1 AGACCACCTATGAGCTCGAGAGCTACCTCAGTAG
48689214 AGACCACCTATGAGCTCGAGAGCTACCTCAGTAG
1 AGACCACCTATGAGCTCGAGAGCTACCTCAGTAG
48689248 CTAGTGTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (34 bp):
AGACCACCTATGAGCTCGAGAGCTACCTCAGTAG
Found at i:48693833 original size:45 final size:43
Alignment explanation
Indices: 48693764--48693916 Score: 166
Period size: 45 Copynumber: 3.5 Consensus size: 43
48693754 TGTGTTTTAG
*
48693764 TGTAAGACCACGTCTAGGACATTGGCATCAATATACGTGGTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATC-ATATA-GTGGTTACA
* * * * *
48693809 TGTAAGACCATGTCTGGGATATTGGCATCGTAT-TTGATT-CA
1 TGTAAGACCACGTCTGGGACATTGGCATCATATAGTGGTTACA
* * *
48693850 TGTAAGACCACGTCTGAGACGTTGGCATCGATATATGTGGTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATC-ATATA-GTGGTTACA
*
48693895 TGTAAGACCATGTCTGGGACAT
1 TGTAAGACCACGTCTGGGACAT
48693917 CAACATCGTA
Statistics
Matches: 87, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 27 0.31
42 7 0.08
44 7 0.08
45 46 0.53
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCATATAGTGGTTACA
Found at i:48693865 original size:41 final size:43
Alignment explanation
Indices: 48693764--48693969 Score: 181
Period size: 41 Copynumber: 4.8 Consensus size: 43
48693754 TGTGTTTTAG
* * * *
48693764 TGTAAGACCACGTCTAGGACATTGGCATCAATATACGTGGTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATC-GTATA-TTGATTACA
* *
48693809 TGTAAGACCATGTCTGGGATATTGGCATCGTAT-TTGATT-CA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATATTGATTACA
* * * *
48693850 TGTAAGACCACGTCTGAGACGTTGGCATCGATATATGTGGTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCG-TATAT-TGATTACA
* *** *
48693895 TGTAAGACCATGTCTGGGACATCAACATCGTAT-TTGATT-CG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATATTGATTACA
*
48693936 TGTAAGACC-CTGTCTGGGACAATGGCATCG-ATAT
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGTATAT
48693970 GAGATAGTAT
Statistics
Matches: 131, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
40 2 0.02
41 55 0.42
42 11 0.08
43 2 0.02
44 10 0.08
45 51 0.39
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATATTGATTACA
Found at i:48693909 original size:86 final size:86
Alignment explanation
Indices: 48693764--48693969 Score: 281
Period size: 86 Copynumber: 2.4 Consensus size: 86
48693754 TGTGTTTTAG
*
48693764 TGTAAGACCACGTCT-AGGACATTGGCATCAATATACGTGGTTACATGTAAGACCATGTCTGGGA
1 TGTAAGACCACGTCTGA-GACATTGGCATCGATATACGTGGTTACATGTAAGACCATGTCTGGGA
* ***
48693828 TATTGGCATCGTATTTGATTCA
65 CATCAACATCGTATTTGATTCA
* * *
48693850 TGTAAGACCACGTCTGAGACGTTGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTGGGAC
1 TGTAAGACCACGTCTGAGACATTGGCATCGATATACGTGGTTACATGTAAGACCATGTCTGGGAC
*
48693915 ATCAACATCGTATTTGATTCG
66 ATCAACATCGTATTTGATTCA
* *
48693936 TGTAAGACC-CTGTCTGGGACAATGGCATCGATAT
1 TGTAAGACCAC-GTCTGAGACATTGGCATCGATAT
48693970 GAGATAGTAT
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
85 1 0.01
86 104 0.98
87 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (86 bp):
TGTAAGACCACGTCTGAGACATTGGCATCGATATACGTGGTTACATGTAAGACCATGTCTGGGAC
ATCAACATCGTATTTGATTCA
Found at i:48702553 original size:38 final size:38
Alignment explanation
Indices: 48702470--48702643 Score: 215
Period size: 38 Copynumber: 4.5 Consensus size: 38
48702460 AAATCCAGTC
* * * *
48702470 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* * *
48702510 ACCAGCACTAGGCTTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
48702548 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
48702586 ACCAGTACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
48702624 TCCAGCA-TATAGCCTGCGGG
1 ACCAGCACGA-AGCCTGCGGG
48702644 TCTTTAAGCC
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.01
38 96 0.81
39 5 0.04
40 17 0.14
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:48702604 original size:76 final size:78
Alignment explanation
Indices: 48702470--48702659 Score: 249
Period size: 76 Copynumber: 2.5 Consensus size: 78
48702460 AAATCCAGTC
* * * * *
48702470 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCTTGCGGGATTTA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGGGATTTA
48702535 ACCCGGATATAAT
66 ACCCGGATATAAT
* * *
48702548 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACCAGTACGAAGCCTGCGGGATTTA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGGGATTTA
*
48702611 ACCCGGATATATT
66 ACCCGGATATAAT
* * * *
48702624 TCCAGCATATAGCCTGCGGGTCTTTAAGCCCAGATA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCCCAGATA
48702660 CACATCAAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
76 59 0.62
77 10 0.11
78 26 0.27
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (78 bp):
ACCAGCACAAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGGGATTTA
ACCCGGATATAAT
Found at i:48706292 original size:21 final size:21
Alignment explanation
Indices: 48706267--48706306 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48706257 TCTTCTGTTC
* *
48706267 TTTTCTTTATTGTTTTGGGAA
1 TTTTCTTTAATGGTTTGGGAA
48706288 TTTTCTTTAATGGTTTGGG
1 TTTTCTTTAATGGTTTGGG
48706307 TTGCTGTTAA
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:0.12, C:0.05, G:0.23, T:0.60
Consensus pattern (21 bp):
TTTTCTTTAATGGTTTGGGAA
Found at i:48706812 original size:151 final size:150
Alignment explanation
Indices: 48706614--48706913 Score: 528
Period size: 151 Copynumber: 2.0 Consensus size: 150
48706604 TCATTATTGA
*
48706614 AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAATCAACATCATAAAA
1 AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAAACAACATCATAAAA
48706679 TACTCAAGTGTGTATCGAAAACACGAAAAAATAGTAATCGACAAAAGCTGAAAAAGTTCACTATC
66 TACTCAAGTGTGTATCGAAAACACG-AAAAATAGTAATCGACAAAAGCTGAAAAAGTTCACTATC
* *
48706744 AATGCTACATGGCCGTGTGTG
130 AACGCTACATGACCGTGTGTG
*
48706765 AATTGGTTGTGTTAATTTTCAATTTAGGTTTTGGGATTACTCGTGTTTGAAACAACATCATAAAA
1 AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAAACAACATCATAAAA
* * *
48706830 TACTCAAGTGTGTATCGAAAATACGAAAAATAGTAATCGACGAAAGCTGAAAAAGTTCACTGTCA
66 TACTCAAGTGTGTATCGAAAACACGAAAAATAGTAATCGACAAAAGCTGAAAAAGTTCACTATCA
48706895 ACGCTACATGACCGTGTGT
131 ACGCTACATGACCGTGTGT
48706914 CACACATGGC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
150 55 0.39
151 87 0.61
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (150 bp):
AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAAACAACATCATAAAA
TACTCAAGTGTGTATCGAAAACACGAAAAATAGTAATCGACAAAAGCTGAAAAAGTTCACTATCA
ACGCTACATGACCGTGTGTG
Found at i:48711684 original size:29 final size:31
Alignment explanation
Indices: 48711633--48711750 Score: 109
Period size: 29 Copynumber: 3.7 Consensus size: 31
48711623 TTAAAAGGTA
48711633 TGTG-TATATATATATAATATATA-GGGATT
1 TGTGTTATATATATATAATATATATGGGATT
* * *
48711662 T-TGTTATTTATATATAATTTATATGGGTTT
1 TGTGTTATATATATATAATATATATGGGATT
*
48711692 TGGTGTTATATATATCATAATATATATGTGTGCATG
1 T-GTGTTATATATAT-ATAATATATATG-G-G-ATT
*
48711728 GGTGTTATATATATAATAA-ATAT
1 TGTGTTATATATAT-ATAATATAT
48711751 TTACGTGCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.03
29 18 0.25
30 6 0.08
32 11 0.15
33 11 0.15
34 5 0.07
35 18 0.25
36 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (31 bp):
TGTGTTATATATATATAATATATATGGGATT
Found at i:48711766 original size:34 final size:35
Alignment explanation
Indices: 48711693--48711779 Score: 113
Period size: 34 Copynumber: 2.5 Consensus size: 35
48711683 TATGGGTTTT
* ** *
48711693 GGTGTTATATATATCATAATATATATGTGTGCATG
1 GGTGTTATATATATAATAATATATATACGTGCATA
*
48711728 GGTGTTATATATATAATAA-ATATTTACGTGCATA
1 GGTGTTATATATATAATAATATATATACGTGCATA
*
48711762 GGTGTTATATGTATAATA
1 GGTGTTATATATATAATA
48711780 TATGTGTCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 28 0.61
35 18 0.39
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (35 bp):
GGTGTTATATATATAATAATATATATACGTGCATA
Found at i:48715299 original size:47 final size:47
Alignment explanation
Indices: 48715248--48715985 Score: 848
Period size: 47 Copynumber: 15.4 Consensus size: 47
48715238 TTGTGATGTG
*
48715248 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48715295 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48715342 AGTGTATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48715391 AGTGTATATA--TG-T---GCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48715432 AGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48715479 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48715526 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * ** *** * *
48715573 ATTCTATATATGTGA-AATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 AGTGTATATATGTGATAA-GGCCTA-ATG-GCCGATG-TG-AT-G--AATGTGA--A
* * * * *** ** ** *
48715629 ATGTGAAAGTGTATAT-ATATGTAATAA-GGTCTAATG-GCCGATGTGATGAATGTGAA
1 A-GTG-TA-TATATGTGATAAGGCCTAATGG-CCGATGTGATGA-AT-------GTGAA
*
48715685 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48715732 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48715779 AGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48715826 GGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48715873 AGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
48715920 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48715967 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
48715986 TCCCGAAGGG
Statistics
Matches: 596, Mismatches: 61, Indels: 68
0.82 0.08 0.09
Matches are distributed among these distances:
41 38 0.06
43 2 0.00
44 2 0.00
45 1 0.00
46 2 0.00
47 433 0.73
48 2 0.00
49 49 0.08
50 2 0.00
51 3 0.01
52 2 0.00
53 5 0.01
54 21 0.04
55 8 0.01
56 9 0.02
57 2 0.00
58 9 0.02
59 6 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:48715587 original size:16 final size:16
Alignment explanation
Indices: 48715566--48715603 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
48715556 GATGTGATGA
48715566 ATGTGAAATTCTATAT
1 ATGTGAAATTCTATAT
*
48715582 ATGTGAAATTGTATAT
1 ATGTGAAATTCTATAT
48715598 ATGTGA
1 ATGTGA
48715604 TAAGGCCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (16 bp):
ATGTGAAATTCTATAT
Found at i:48715595 original size:110 final size:111
Alignment explanation
Indices: 48715472--48715699 Score: 368
Period size: 110 Copynumber: 2.1 Consensus size: 111
48715462 GATGTGATGA
* *
48715472 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATA
* *
48715536 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAATTCTATAT
66 TGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTCTATAT
*
48715582 ATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATAT
* * *
48715647 ATGTAATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
65 ATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTCTATAT
48715694 ATGTGA
1 ATGTGA
48715700 TAAGGCCTAA
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
110 55 0.51
112 53 0.49
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (111 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATA
TGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTCTATAT
Found at i:48715597 original size:63 final size:63
Alignment explanation
Indices: 48715519--48715646 Score: 202
Period size: 63 Copynumber: 2.0 Consensus size: 63
48715509 GATGTGATGA
* * *
48715519 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAATTCTATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTCTATAT
* * *
48715582 ATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTCTATAT
48715645 AT
1 AT
48715647 ATGTAATAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (63 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTCTATAT
Found at i:48715711 original size:159 final size:157
Alignment explanation
Indices: 48715425--48715887 Score: 591
Period size: 159 Copynumber: 3.0 Consensus size: 157
48715415 GATGTGATGA
*
48715425 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
*
48715490 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
66 GTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
*
48715555 CGATGTGATGAATGTGAAATTCTATAT
131 CGATGTGATGAATGTGAAAGTCTATAT
*
48715582 ATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATAT
*
48715647 ATGTAATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
64 ATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
*
48715712 GCCGATGTGATGAATGTGAAAGTGTATAT
129 GCCGATGTGATGAATGTGAAAGTCTATAT
** *** * * * * * *
48715741 ATGTGATAAG-GCCTA-ATG-GCCGATG-TG-AT-G--AATGTGA--AA-GTG-TA-TATATGTG
1 ATGTGA-AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * *
48715793 ----ATAAGGCCTAATGGCTGATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGG
65 TGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
*
48715854 CCGATGTGATGAATGTGAAAGTGTATAT
130 CCGATGTGATGAATGTGAAAGTCTATAT
48715882 ATGTGA
1 ATGTGA
48715888 TAAGGCCTAA
Statistics
Matches: 281, Mismatches: 22, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
141 91 0.32
145 4 0.01
147 1 0.00
148 1 0.00
149 3 0.01
150 2 0.01
152 7 0.02
154 1 0.00
155 2 0.01
156 1 0.00
157 59 0.21
158 3 0.01
159 104 0.37
160 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (157 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
GTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
CGATGTGATGAATGTGAAAGTCTATAT
Found at i:48716160 original size:37 final size:37
Alignment explanation
Indices: 48716104--48716182 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48716094 CCGAGCTCTA
* * *
48716104 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48716141 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48716178 AAGAC
1 AAGAC
48716183 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48717718 original size:40 final size:40
Alignment explanation
Indices: 48717396--48717706 Score: 455
Period size: 40 Copynumber: 7.8 Consensus size: 40
48717386 GAGAATTGAG
* *
48717396 AGTGATGTATCCGGGCTAAGTCCCGAAGAGTATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48717436 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48717475 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48717515 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
48717555 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTACT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48717595 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48717635 AGTGATATATCCGTGCTAA-ACCCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCC-GAAGAGCATTCGTGCT
* * * *
48717675 GGTGTTATATCCGGGCTAGGTCTCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
48717707 ATCATGCTGG
Statistics
Matches: 246, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
39 40 0.16
40 204 0.83
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:48721171 original size:47 final size:47
Alignment explanation
Indices: 48721120--48721753 Score: 1025
Period size: 47 Copynumber: 13.4 Consensus size: 47
48721110 TTGTGATGTG
*
48721120 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48721167 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48721214 AGTGTATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48721263 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48721310 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48721357 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
48721404 ATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
48721451 AGTGTATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGAGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48721500 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48721547 AGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48721594 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48721641 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
48721688 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
48721735 GGTGTATAAATGTGGTAAG
1 AGTGTATATATGTGATAAG
48721754 TCCCGAAGGG
Statistics
Matches: 550, Mismatches: 33, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
47 461 0.84
49 89 0.16
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:48721494 original size:237 final size:237
Alignment explanation
Indices: 48721120--48721698 Score: 1086
Period size: 237 Copynumber: 2.4 Consensus size: 237
48721110 TTGTGATGTG
48721120 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
48721185 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
*
48721250 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
131 TGATGAATGAGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
*
48721315 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
196 ATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
48721357 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAATTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
48721422 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
48721487 TGATGAATGAGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
131 TGATGAATGAGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
*
48721552 ATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
196 ATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
48721594 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
48721659 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
48721699 GTGACAGGGC
Statistics
Matches: 331, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
237 331 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (237 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
TGATGAATGAGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
ATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:48721928 original size:37 final size:37
Alignment explanation
Indices: 48721872--48721950 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48721862 CCGAGCTCTA
* * *
48721872 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48721909 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48721946 AAGAC
1 AAGAC
48721951 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48723823 original size:16 final size:18
Alignment explanation
Indices: 48723791--48723829 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
48723781 CCAATATATC
48723791 ATTGTGTTGAGTATGTAA
1 ATTGTGTTGAGTATGTAA
*
48723809 TTTGTGTT-A-TATGTAA
1 ATTGTGTTGAGTATGTAA
48723825 ATTGT
1 ATTGT
48723830 TAAAGTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 11 0.58
17 1 0.05
18 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (18 bp):
ATTGTGTTGAGTATGTAA
Found at i:48727211 original size:18 final size:19
Alignment explanation
Indices: 48727190--48727230 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
48727180 CCCCAATATT
48727190 TTTTTA-ATCCCCCAAAAC
1 TTTTTATATCCCCCAAAAC
*
48727208 TTTTTATTTCCCCCAAAAC
1 TTTTTATATCCCCCAAAAC
48727227 TTTT
1 TTTT
48727231 ACTTCTCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTTTATATCCCCCAAAAC
Found at i:48727211 original size:19 final size:20
Alignment explanation
Indices: 48727179--48727230 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
48727169 CAAACCCATC
* *
48727179 CCCCCAATATTTTTTTA-AT
1 CCCCCAAAACTTTTTTATAT
*
48727198 CCCCCAAAAC-TTTTTATTT
1 CCCCCAAAACTTTTTTATAT
48727217 CCCCCAAAACTTTT
1 CCCCCAAAACTTTT
48727231 ACTTCTCACC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 19 0.68
20 3 0.11
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (20 bp):
CCCCCAAAACTTTTTTATAT
Found at i:48727547 original size:19 final size:18
Alignment explanation
Indices: 48727509--48727545 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
48727499 AAAAAATCAC
48727509 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAATAT
*
48727527 ATTTTTTA-ATTTAAAAT
1 ATTTTTTACATTTAATAT
48727544 AT
1 AT
48727546 ATAGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTTACATTTAATAT
Done.