Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 159 of 208
Found at i:51765958 original size:33 final size:32
Alignment explanation
Indices: 51765912--51765980 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
51765902 TTTGGTTCGC
51765912 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
51765944 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
51765977 TGTA
1 TGTA
51765981 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:51766045 original size:44 final size:45
Alignment explanation
Indices: 51765961--51766051 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
51765951 GGATTAGAGG
* * *
51765961 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
51766006 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
51766050 TG
1 TG
51766052 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:51766237 original size:18 final size:19
Alignment explanation
Indices: 51766216--51766252 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
51766206 TTATTATTAA
51766216 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
51766234 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
51766253 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:51767364 original size:15 final size:15
Alignment explanation
Indices: 51767317--51767372 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
51767307 TTCCAAAAAT
51767317 CATATAACAAGCAAG
1 CATATAACAAGCAAG
* *
51767332 CAACATAACATAAACAAG
1 C-ATATAAC--AAGCAAG
51767350 CATATAACAAGCAAG
1 CATATAACAAGCAAG
51767365 CATATAAC
1 CATATAAC
51767373 CGTGATTAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 15 0.44
16 6 0.18
17 6 0.18
18 7 0.21
ACGTcount: A:0.55, C:0.21, G:0.09, T:0.14
Consensus pattern (15 bp):
CATATAACAAGCAAG
Found at i:51772406 original size:21 final size:21
Alignment explanation
Indices: 51772382--51772424 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
51772372 ACACCAAAAC
*
51772382 AGGCTTTTA-CGGCGCTTTTTT
1 AGGCCTTTAGCGGCG-TTTTTT
51772403 AGGCCTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
51772424 A
1 A
51772425 ACGCCGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.44
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGTTTTTT
Found at i:51772570 original size:43 final size:43
Alignment explanation
Indices: 51772517--51772711 Score: 169
Period size: 43 Copynumber: 4.3 Consensus size: 43
51772507 TTTTATAAAT
** *
51772517 AAACGCCGCTAAAGACCATAACCTTTAGCAGCGCTTTTCCAAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAC
* * *
51772560 AAACGCCGCTAAAGGTCATGCAAGACCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGC------T-A---AAGACCAGGACCTTTAGCGGCGCTTTTCCAAC
* *
51772613 AAACGCCGCTAAAGACTAGGACCTTTAACGGCGCTTTTCTC-AC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTC-CAAC
* *
51772656 AAACGCCGCGAAAGACCAGGACCTTTAGCGGCGCTTTT-TACAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCA-AC
*
51772699 AAACGCCGTTAAA
1 AAACGCCGCTAAA
51772712 AATATATCTT
Statistics
Matches: 125, Mismatches: 14, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
43 83 0.66
44 1 0.01
46 1 0.01
47 1 0.01
49 1 0.01
50 1 0.01
53 37 0.30
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAC
Found at i:51773032 original size:43 final size:43
Alignment explanation
Indices: 51772984--51773074 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
51772974 ACATATGCAA
* * *
51772984 GGTAATAAAATATACAATGCATTTTCTTAATC-AAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAAG-AAATCTT
*
51773027 GGTAATAAAAGATATAATACATTTACTTAATCAAAGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAAGAAATCTT
51773070 -GTAAT
1 GGTAAT
51773075 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 35 0.81
44 3 0.07
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAAGAAATCTT
Found at i:51776793 original size:13 final size:13
Alignment explanation
Indices: 51776775--51776801 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51776765 ATTGTCAATC
51776775 TGTTACATTAATT
1 TGTTACATTAATT
51776788 TGTTACATTAATT
1 TGTTACATTAATT
51776801 T
1 T
51776802 ATTTATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:51777598 original size:42 final size:42
Alignment explanation
Indices: 51777551--51777706 Score: 221
Period size: 41 Copynumber: 3.8 Consensus size: 42
51777541 AAATATATTT
* *
51777551 ATTTTTTTTAATTTTAAAATATTTTTTACATACTTTTTTTAA
1 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
51777593 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT-A
1 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
*
51777634 ATTTTTTTTAATTTTAAAATATTTTTAAAATA--TTTTTAAA
1 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
* *
51777674 ATACTTTTTTAATTTTTTAAA-ATTTTTAAAATA
1 AT-TTTTTTTAA-TTTTAAAATATTTTTAAAATA
51777707 AAAATGGGCC
Statistics
Matches: 106, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
39 5 0.05
40 3 0.03
41 53 0.50
42 45 0.42
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (42 bp):
ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:51777609 original size:17 final size:17
Alignment explanation
Indices: 51777587--51777620 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51777577 TACATACTTT
* *
51777587 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
51777604 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
51777621 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:51777617 original size:52 final size:51
Alignment explanation
Indices: 51777562--51777707 Score: 170
Period size: 52 Copynumber: 2.8 Consensus size: 51
51777552 TTTTTTTTAA
***
51777562 TTTTAAAATA-TTTTTTACATACTTTTTTTAAATTTT-TTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTA-AT--TTTTTTT-AATTTTAAAATAATTTTAAAATAT
*
51777615 TTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAAATATTTTTAAAATAT
1 TTTTAAAATAC-TTTTTTAATTTTTTTTAATTTTAAAATAATTTTAAAATAT
**
51777667 TTTTAAAATACTTTTTTAATTTTTTAAAATTTTTAAAATAA
1 TTTTAAAATACTTTTTTAATTTTTTTTAA-TTTTAAAATAA
51777708 AAATGGGCCG
Statistics
Matches: 82, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
51 22 0.27
52 41 0.50
53 10 0.12
54 2 0.02
55 7 0.09
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (51 bp):
TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAATTTTAAAATAT
Found at i:51777618 original size:11 final size:11
Alignment explanation
Indices: 51777604--51777706 Score: 87
Period size: 11 Copynumber: 9.9 Consensus size: 11
51777594 TTTTTTTTAA
51777604 TTTTAAAATAT
1 TTTTAAAATAT
51777615 TTTTAAAATACT
1 TTTTAAAATA-T
**
51777627 TTTTTTAAT-T
1 TTTTAAAATAT
* *
51777637 TTTT---TTAA
1 TTTTAAAATAT
51777645 TTTTAAAATAT
1 TTTTAAAATAT
51777656 TTTTAAAATAT
1 TTTTAAAATAT
51777667 TTTTAAAATACT
1 TTTTAAAATA-T
*
51777679 TTTT-TAAT-T
1 TTTTAAAATAT
51777688 TTTT-AAA-AT
1 TTTTAAAATAT
51777697 TTTTAAAATA
1 TTTTAAAATA
51777707 AAAATGGGCC
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
7 1 0.01
8 4 0.05
9 12 0.16
10 8 0.11
11 37 0.49
12 13 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:51778127 original size:21 final size:21
Alignment explanation
Indices: 51778093--51778162 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
51778083 AATCTTTAAA
* *
51778093 CCCTAAATCACTAACTCTTAAC
1 CCCT-AATCCCTAACTCATAAC
* *
51778115 CTCTAA-CCTCTAACCCATAAC
1 CCCTAATCC-CTAACTCATAAC
51778136 CCCTAATCCCTAACT-ACTAAC
1 CCCTAATCCCTAACTCA-TAAC
51778157 CCCTAA
1 CCCTAA
51778163 ATCTTATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
20 2 0.05
21 32 0.82
22 5 0.13
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCTAATCCCTAACTCATAAC
Found at i:51778162 original size:7 final size:7
Alignment explanation
Indices: 51778111--51778162 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
51778101 CACTAACTCT
*
51778111 TAACCTC
1 TAACCCC
*
51778118 TAACCTC
1 TAACCCC
*
51778125 TAACCCA
1 TAACCCC
51778132 TAACCCC
1 TAACCCC
*
51778139 TAATCCC
1 TAACCCC
**
51778146 TAACTAC
1 TAACCCC
51778153 TAACCCC
1 TAACCCC
51778160 TAA
1 TAA
51778163 ATCTTATTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (7 bp):
TAACCCC
Found at i:51778284 original size:74 final size:75
Alignment explanation
Indices: 51778152--51778293 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 75
51778142 TCCCTAACTA
* *
51778152 CTAACCCCTAAATCTTATTTAATATATAAATTAAAAACACTAATTAATCTAGACCCTAAACCCTA
1 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAACCCTAAACCCTA
51778217 ACCCAAATCC
66 ACCCAAATCC
* * *
51778227 CTAACCCCTACACCTTA-TTCA-ATATAAATTAGAACACACTAATTAATCTAAACCCTAAACCCT
1 CTAACCCCTAAACCTTATTTAATATATAAATTA-AAAACACTAATTAATCTAAACCCTAAACCCT
51778290 AACC
65 AACC
51778294 TGACACTGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
73 10 0.16
74 36 0.59
75 15 0.25
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.27
Consensus pattern (75 bp):
CTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAACCCTAAACCCTA
ACCCAAATCC
Found at i:51778396 original size:14 final size:15
Alignment explanation
Indices: 51778377--51778405 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51778367 AACCAGAATT
51778377 CCTAAT-CCATAATC
1 CCTAATCCCATAATC
51778391 CCTAATCCCATAATC
1 CCTAATCCCATAATC
51778406 TATAAACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (15 bp):
CCTAATCCCATAATC
Found at i:51779000 original size:39 final size:39
Alignment explanation
Indices: 51778942--51779063 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 39
51778932 TTTGCGTCGC
*
51778942 TTTTCAAAAAACGCCGCTAATGCTT-ATTTTTAGCGGCG
1 TTTTCAAAAAGCGCCGCTAATGCTTGATTTTTAGCGGCG
**
51778980 TTTTCCAAAAAGCGCCGCTAATGCTTGACCTTTAGCGGCG
1 TTTT-CAAAAAGCGCCGCTAATGCTTGATTTTTAGCGGCG
* * *
51779020 TTTTTATAAAAGCGCCGCTAATGCTTGATTTTTAGTGGCA
1 TTTTCA-AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCG
51779060 TTTT
1 TTTT
51779064 TTGCCCGAGC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
38 4 0.05
39 21 0.29
40 48 0.66
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (39 bp):
TTTTCAAAAAGCGCCGCTAATGCTTGATTTTTAGCGGCG
Found at i:51783020 original size:8 final size:8
Alignment explanation
Indices: 51783007--51783050 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
51782997 GAGTTGCATC
51783007 AATTTTCT
1 AATTTTCT
51783015 AATTTTCT
1 AATTTTCT
51783023 AATTTTCT
1 AATTTTCT
*
51783031 AATTTTCC
1 AATTTTCT
*
51783039 AATTTTCC
1 AATTTTCT
51783047 AATT
1 AATT
51783051 ATAAGCCTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (8 bp):
AATTTTCT
Found at i:51795911 original size:80 final size:79
Alignment explanation
Indices: 51795778--51795931 Score: 236
Period size: 80 Copynumber: 1.9 Consensus size: 79
51795768 ATTATTATAT
* * ** * *
51795778 ATTCCAACAACTTGAATTTCCATTCTTGTATAAGAATTGAATGAAATGGATTTCTTATTAACTTC
1 ATTCCAACAACTTGAATTTCCATTCTTGTATAAGAAATAAATGAAATAAATTTC-CATTAACTAC
51795843 AATTATGTTACATAC
65 AATTATGTTACATAC
*
51795858 ATTCCTACAACTTGAATTTCCATTCTTGTATAAGAAATAAATGAAATAAATTTCCATTAACTACA
1 ATTCCAACAACTTGAATTTCCATTCTTGTATAAGAAATAAATGAAATAAATTTCCATTAACTACA
51795923 ATTATGTTA
66 ATTATGTTA
51795932 GGGCTATTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
79 18 0.27
80 49 0.73
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (79 bp):
ATTCCAACAACTTGAATTTCCATTCTTGTATAAGAAATAAATGAAATAAATTTCCATTAACTACA
ATTATGTTACATAC
Found at i:51801033 original size:19 final size:21
Alignment explanation
Indices: 51800991--51801033 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
51800981 ACTTTAATAA
* *
51800991 TTGTGAATTGATCTTTTGGGT
1 TTGTAAATTGATCTTTTGGAT
51801012 TTGTAAATTG-TC-TTTGGAT
1 TTGTAAATTGATCTTTTGGAT
51801031 TTG
1 TTG
51801034 CCTTGCTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.16, C:0.05, G:0.26, T:0.53
Consensus pattern (21 bp):
TTGTAAATTGATCTTTTGGAT
Found at i:51805843 original size:13 final size:13
Alignment explanation
Indices: 51805825--51805853 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
51805815 ATCATATTTA
51805825 TAGACAAAGAGTT
1 TAGACAAAGAGTT
51805838 TAGACAAAGAGTT
1 TAGACAAAGAGTT
51805851 TAG
1 TAG
51805854 GCTGTGTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (13 bp):
TAGACAAAGAGTT
Found at i:51806357 original size:39 final size:38
Alignment explanation
Indices: 51806309--51806411 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 38
51806299 AATACTAATC
* *
51806309 CGAGAGAATACCAAAAAATATGAGAGATACCAAAAATGA
1 CGAGGGAATACCAAAAAATATGAGAAATACC-AAAATGA
** *
51806348 CGAGGGAATATTAAAAAAATATGAAGAAATACCAAAATTA
1 CGAGGGAATA-CCAAAAAATATG-AGAAATACCAAAATGA
* * *
51806388 AGAGGAAATACCAAAAAACATGAG
1 CGAGGGAATACCAAAAAATATGAG
51806412 GGGATGTCAA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.04
39 18 0.35
40 24 0.46
41 8 0.15
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.15
Consensus pattern (38 bp):
CGAGGGAATACCAAAAAATATGAGAAATACCAAAATGA
Found at i:51806681 original size:20 final size:20
Alignment explanation
Indices: 51806631--51806675 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
51806621 TATTTACTCC
*
51806631 AAAAATATGAAGAAATATAA
1 AAAAATATGAGGAAATATAA
51806651 AAAAATATGAGGAAATATAA
1 AAAAATATGAGGAAATATAA
51806671 AAAAA
1 AAAAA
51806676 ATTGAGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAAATATGAGGAAATATAA
Found at i:51806684 original size:19 final size:19
Alignment explanation
Indices: 51806631--51806700 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 19
51806621 TATTTACTCC
51806631 AAAAATATGAAGAAATATAA
1 AAAAATATG-AGAAATATAA
51806651 AAAAATATGAGGAAATATAA
1 AAAAATATGA-GAAATATAA
*
51806671 AAAAA-ATTGAGAAAGTACCAA
1 AAAAATA-TGAGAAA-TA-TAA
51806692 AAAAATATG
1 AAAAATATG
51806701 TGGATGTACC
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
19 6 0.14
20 28 0.64
21 9 0.20
22 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.13, T:0.19
Consensus pattern (19 bp):
AAAAATATGAGAAATATAA
Found at i:51812622 original size:15 final size:15
Alignment explanation
Indices: 51812604--51812633 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51812594 GATTTTTTTT
*
51812604 AAAAAGAGAGAAAAA
1 AAAAAGAAAGAAAAA
51812619 AAAAAGAAAGAAAAA
1 AAAAAGAAAGAAAAA
51812634 TGGGTGTCAA
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:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAAA
Found at i:51817763 original size:25 final size:25
Alignment explanation
Indices: 51817735--51817793 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
51817725 TGAATTGGAT
*
51817735 TGAATTGATATATGTATAAATATTA
1 TGAATTGATATATGTATAAATATGA
*
51817760 TGAA-T-ATATATGTGTAAATATGA
1 TGAATTGATATATGTATAAATATGA
51817783 T-AATTGGATAT
1 TGAATT-GATAT
51817794 TGGTTGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 2 0.07
23 18 0.62
24 1 0.03
25 8 0.28
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (25 bp):
TGAATTGATATATGTATAAATATGA
Found at i:51817991 original size:41 final size:40
Alignment explanation
Indices: 51817944--51818029 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 40
51817934 GGTTTAACCA
* *
51817944 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTTATTCG
1 ATGAGACACTGGGTGTCAATTTATTACTTC-GAATTATCCG
51817985 ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCCG
1 ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCCG
51818025 ATGAG
1 ATGAG
51818030 GCAATAGGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 13 0.30
41 30 0.70
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCCG
Found at i:51818773 original size:13 final size:13
Alignment explanation
Indices: 51818755--51818782 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51818745 GACTTGAATA
51818755 ATGTTTTGATGAT
1 ATGTTTTGATGAT
51818768 ATGTTTTGATGAT
1 ATGTTTTGATGAT
51818781 AT
1 AT
51818783 AAATGTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (13 bp):
ATGTTTTGATGAT
Found at i:51819737 original size:5 final size:6
Alignment explanation
Indices: 51819715--51819744 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
51819705 AGCAATCATT
51819715 TTTTCTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTT
51819745 TCAAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:51829998 original size:45 final size:45
Alignment explanation
Indices: 51829905--51830008 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
51829895 ACGGTAGCAA
* * * **
51829905 TAACAGTAAGAGTAACAGTATTCAACACACAAAGTGTTGAATTTG
1 TAACAGTAAAAGTAACAGTATTCAACACACAAAGTATCGAATCAG
* **
51829950 TAACTGTAAAAGTAACAGTATTTGACACACAAAGTATCGAATCAG
1 TAACAGTAAAAGTAACAGTATTCAACACACAAAGTATCGAATCAG
*
51829995 TAACAGTAACAGTA
1 TAACAGTAAAAGTA
51830009 GTCGGCACAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.25
Consensus pattern (45 bp):
TAACAGTAAAAGTAACAGTATTCAACACACAAAGTATCGAATCAG
Found at i:51831256 original size:5 final size:5
Alignment explanation
Indices: 51831248--51831275 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
51831238 ATTTTACATA
51831248 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
51831276 TTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:51831282 original size:22 final size:20
Alignment explanation
Indices: 51831257--51831297 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
51831247 AATAATATAA
*
51831257 TATAATATAATATAATATATTT
1 TATAAT-TAA-ATAACATATTT
51831279 TATAATTAAATAACATATT
1 TATAATTAAATAACATATT
51831298 AATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAATTAAATAACATATTT
Found at i:51837093 original size:19 final size:21
Alignment explanation
Indices: 51837041--51837094 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
51837031 TTTTTTTTGC
51837041 AAAATCAAAA-TTTTCTTTTAA
1 AAAATCAAAACTTTTC-TTTAA
**
51837062 AAAATCACTACTTTTC-TT-A
1 AAAATCAAAACTTTTCTTTAA
51837081 AAAATCAAAACTTT
1 AAAATCAAAACTTT
51837095 ATATCGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.46
20 2 0.07
21 8 0.29
22 5 0.18
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATCAAAACTTTTCTTTAA
Found at i:51837322 original size:137 final size:137
Alignment explanation
Indices: 51837054--51837318 Score: 365
Period size: 137 Copynumber: 1.9 Consensus size: 137
51837044 ATCAAAATTT
*
51837054 TCTTTTAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATATCGAAATAGTTGAAAAAAATC
1 TCTTTTAAAAAAACACTACTTTTCTTAAAAATCAAAACTTTATATCGAAATAGTTGAAAAAAATC
* * *
51837119 AGAACTTTGTTTTAAAAAATTTAAACTTTTTCTTTAAAATGACTAGAAACATATTTTTTATTTTA
66 AAAACTTTGTTTTAAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAACATATTTTTTATTTTA
51837184 AACTTTC
131 AACTTTC
** * * * * *
51837191 TCTTTTAAAAAAAACACTA-TTTTCTTAAATTTCAAAATTTTATTTTGAAATAGTTGAGAAAAGT
1 TCTTTT-AAAAAAACACTACTTTTCTTAAAAATCAAAACTTTATATCGAAATAGTTGAAAAAAAT
* * *
51837255 CAAAACTTTGTTTT-AAAATTTTAAAC-TTTCCTTTAAAATGATTAAAATATATATTTTTTATTT
65 CAAAACTTTGTTTTAAAAAATTTAAACTTTTCCTTTAAAATGACTAAAA-ACATATTTTTTATTT
51837318 T
129 T
51837319 TAAAATCTAA
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
135 18 0.16
136 26 0.23
137 57 0.51
138 11 0.10
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (137 bp):
TCTTTTAAAAAAACACTACTTTTCTTAAAAATCAAAACTTTATATCGAAATAGTTGAAAAAAATC
AAAACTTTGTTTTAAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAACATATTTTTTATTTTA
AACTTTC
Found at i:51844963 original size:22 final size:22
Alignment explanation
Indices: 51844915--51845005 Score: 94
Period size: 22 Copynumber: 4.2 Consensus size: 22
51844905 TATCAGAGGT
*
51844915 TATCATATCTCATATCA-AATA
1 TATCATATCTCATATCATAACA
* *
51844936 TATCATGTCTCATATCATAGCA
1 TATCATATCTCATATCATAACA
* *
51844958 TATCATATTTCATATCAAAACA
1 TATCATATCTCATATCATAACA
** * *
51844980 TATCATATAACACATCATAGCA
1 TATCATATCTCATATCATAACA
51845002 TATC
1 TATC
51845006 CTACCCTCAA
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
21 16 0.28
22 41 0.72
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (22 bp):
TATCATATCTCATATCATAACA
Found at i:51847072 original size:21 final size:21
Alignment explanation
Indices: 51847046--51847088 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
51847036 AAACTCAATG
51847046 TCATACCTTTTAAGGTCCGCA
1 TCATACCTTTTAAGGTCCGCA
51847067 TCATACCTTTTAAGGTCCGCA
1 TCATACCTTTTAAGGTCCGCA
51847088 T
1 T
51847089 AAGAGTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (21 bp):
TCATACCTTTTAAGGTCCGCA
Found at i:51849004 original size:25 final size:25
Alignment explanation
Indices: 51848945--51848996 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
51848935 GTATGTTCTC
51848945 ATGAGCTGTAA-ATCGGTAAGCTCAT
1 ATGAGCTG-AATATCGGTAAGCTCAT
51848970 ATGAGCTGAATATCGGTAAGCTCAT
1 ATGAGCTGAATATCGGTAAGCTCAT
51848995 AT
1 AT
51848997 TAGGTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (25 bp):
ATGAGCTGAATATCGGTAAGCTCAT
Found at i:51852978 original size:39 final size:40
Alignment explanation
Indices: 51852827--51852996 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
51852817 GGACTAAGAT
* * *
51852827 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
51852867 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
51852907 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
51852947 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
51852986 CCGAAGGCATT
1 CCGAAGGCATT
51852997 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:51853016 original size:79 final size:80
Alignment explanation
Indices: 51852849--51853031 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
51852839 GTGCGAGATA
* * * *
51852849 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
51852914 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
51852929 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
51852993 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
51853008 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
51853032 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:51860252 original size:39 final size:40
Alignment explanation
Indices: 51860101--51860270 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
51860091 GGACTAAGAT
* * *
51860101 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
51860141 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
51860181 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
51860221 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
51860260 CCGAAGGCATT
1 CCGAAGGCATT
51860271 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:51860290 original size:79 final size:80
Alignment explanation
Indices: 51860123--51860305 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
51860113 GTGCGAGATA
* * * *
51860123 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
51860188 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
51860203 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
51860267 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
51860282 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
51860306 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:51865815 original size:37 final size:37
Alignment explanation
Indices: 51865754--51865832 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
51865744 TTATTACGAA
* * *
51865754 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
51865791 GTCTTACCCGTACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
51865828 GTCTT
1 GTCTT
51865833 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:51866066 original size:47 final size:47
Alignment explanation
Indices: 51865950--51866219 Score: 486
Period size: 47 Copynumber: 5.7 Consensus size: 47
51865940 GCCCTTCGGG
*
51865950 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATTTAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATA--TAC
*
51866000 ACTTTCACATTCATCACATCGGCCATTAGGCCGTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51866047 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
51866094 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51866141 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51866188 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
51866220 ATACTATCAT
Statistics
Matches: 216, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 173 0.80
49 39 0.18
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:51875396 original size:5 final size:5
Alignment explanation
Indices: 51875388--51875442 Score: 58
Period size: 5 Copynumber: 11.2 Consensus size: 5
51875378 TATTTAATTT
* * * * *
51875388 ATATA ATATA ATACA ATATA ATATA TTATA TTATA AAATA AAATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
51875437 ATATA A
1 ATATA A
51875443 AACATAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
4 4 0.09
5 39 0.91
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:51875439 original size:27 final size:27
Alignment explanation
Indices: 51875386--51875441 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
51875376 TCTATTTAAT
* *
51875386 TTATATAATATAATACAATATAATATA
1 TTATATAATAAAATAAAATATAATATA
*
51875413 TTATATTATAAAATAAAATAATATATATA
1 TTATATAATAAAATAAAAT-ATA-ATATA
51875442 AAACATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.67
28 3 0.12
29 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
TTATATAATAAAATAAAATATAATATA
Found at i:51879442 original size:41 final size:41
Alignment explanation
Indices: 51879396--51879485 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
51879386 TACAACATCC
* * *
51879396 TTTTCATTTGCTATCCT-TTTCGGATAGCATCCTTTTCAACA
1 TTTTCATTTGATATCATGTTT-GGATAACATCCTTTTCAACA
*
51879437 TTTTCATTTGATATCATGTTTGGATAACATCCTTTTCAACC
1 TTTTCATTTGATATCATGTTTGGATAACATCCTTTTCAACA
51879478 TTTTCATT
1 TTTTCATT
51879486 GATTCGGTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 41 0.93
42 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (41 bp):
TTTTCATTTGATATCATGTTTGGATAACATCCTTTTCAACA
Found at i:51880456 original size:6 final size:6
Alignment explanation
Indices: 51880448--51880500 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
51880438 CTTTCATTAT
* *
51880448 CATTTT CATTTT CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
51880496 CATTT
1 CATTT
51880501 TGAGAAAACC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (6 bp):
CATTTC
Found at i:51880571 original size:44 final size:46
Alignment explanation
Indices: 51880505--51880590 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 46
51880495 CCATTTTGAG
* *
51880505 AAAACCACATTCATTTCCAAATG-ATTCTATTTCTCCATTTCGAAT
1 AAAACCACAATCATTTCCAAATGTATTCCATTTCTCCATTTCGAAT
* * * *
51880550 AAAACCATAATCA-TTCTAAATGTTTTCCATTTCTCTATTTC
1 AAAACCACAATCATTTCCAAATGTATTCCATTTCTCCATTTC
51880591 TATTTATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 8 0.24
45 26 0.76
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (46 bp):
AAAACCACAATCATTTCCAAATGTATTCCATTTCTCCATTTCGAAT
Found at i:51884561 original size:39 final size:39
Alignment explanation
Indices: 51884518--51884693 Score: 158
Period size: 39 Copynumber: 4.5 Consensus size: 39
51884508 AGAGTCCTCT
* *
51884518 GATTTTCTCTTTGGCCCTGATAAATTACAGGAATCTTCA
1 GATTTTCTCTTTGGCCCTGAGAAATCACAGGAATCTTCA
* * * * *
51884557 GATTTTCTCTTTGGTCCTGAGGAATTAGAGGAATCTCCA
1 GATTTTCTCTTTGGCCCTGAGAAATCACAGGAATCTTCA
* * * * *
51884596 TATTTTCTCTTTGCCCCTGAGACATCACAAGAATCTTCT
1 GATTTTCTCTTTGGCCCTGAGAAATCACAGGAATCTTCA
* * * * *
51884635 GGTTTTCGCTTTGCCCCAGA-AATATCATAGGAATCTTC-
1 GATTTTCTCTTTGGCCCTGAGAA-ATCACAGGAATCTTCA
*
51884673 TATTTTCCTCTTTGGCCCTGA
1 GATTTT-CTCTTTGGCCCTGA
51884694 AATAGCAAAA
Statistics
Matches: 108, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
38 5 0.05
39 103 0.95
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (39 bp):
GATTTTCTCTTTGGCCCTGAGAAATCACAGGAATCTTCA
Found at i:51892181 original size:18 final size:18
Alignment explanation
Indices: 51892158--51892203 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
51892148 TTGAAATTTA
51892158 TTTTATAATAAAATAATG
1 TTTTATAATAAAATAATG
51892176 TTTTATAAT-AAATAATG
1 TTTTATAATAAAATAATG
*
51892193 TATTAT-ATAAA
1 TTTTATAATAAA
51892204 GTTAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.08
17 15 0.58
18 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
TTTTATAATAAAATAATG
Found at i:51892420 original size:19 final size:20
Alignment explanation
Indices: 51892383--51892421 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
51892373 TTATTACTAA
*
51892383 ATATTTATAAATTGTAATAT
1 ATATTTATAAATTGAAATAT
*
51892403 ATATTTAT-TATTGAAATAT
1 ATATTTATAAATTGAAATAT
51892422 TAATATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
ATATTTATAAATTGAAATAT
Found at i:51892677 original size:24 final size:23
Alignment explanation
Indices: 51892636--51892683 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
51892626 TTTAATTATT
*
51892636 TTTAAATTTTTATTTTAATTTAA
1 TTTAAATTTTTATTTTAATATAA
*
51892659 TTTAATTTTTTATTCTTAATATAA
1 TTTAAATTTTTATT-TTAATATAA
51892683 T
1 T
51892684 AATATTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTAAATTTTTATTTTAATATAA
Found at i:51894365 original size:154 final size:155
Alignment explanation
Indices: 51894083--51894394 Score: 527
Period size: 154 Copynumber: 2.0 Consensus size: 155
51894073 TTTAACCAGT
* * *
51894083 ATGGAGGAAATAAGTCTAACTACACCATGCAGTTATTGTACAGAGTGGGAGAATGATAACAAATT
1 ATGGAGGAAATAAGACCAACTACACCATGCAGTTATTGTA-AGAGTGGGAGAATGAGAACAAATT
* * * *
51894148 TCAGGAAGGTGGGAGGTATGGCAGGTCGACGGGCTTCTAATCACCAACAAAAAAGAACTATCCCT
65 TCAGGAAGGAGGAAGGTATGGCAGGTCGAAGGGCATCTAATCACCAACAAAAAAGAACTATCCCT
*
51894213 TTCCAAGTTCACATTTGAGGACCATA
130 TTCCAAGTTCAAATTTGAGGACCATA
*
51894239 ATGGAGGAAATTAGACCAACTACACCATGCAGTTATTGT-AGAGTGGGAGAATGAGAACAAATTT
1 ATGGAGGAAATAAGACCAACTACACCATGCAGTTATTGTAAGAGTGGGAGAATGAGAACAAATTT
51894303 CAGGAAGGAGGAAGGTATGGCAGGTCGAAGGGCATCTAATCACCAACAAAAAAGAACTATCCCTT
66 CAGGAAGGAGGAAGGTATGGCAGGTCGAAGGGCATCTAATCACCAACAAAAAAGAACTATCCCTT
51894368 TCCAAGTTCAAATTTGAGGACCATA
131 TCCAAGTTCAAATTTGAGGACCATA
51894393 AT
1 AT
51894395 ATCGATATCT
Statistics
Matches: 147, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
154 111 0.76
156 36 0.24
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (155 bp):
ATGGAGGAAATAAGACCAACTACACCATGCAGTTATTGTAAGAGTGGGAGAATGAGAACAAATTT
CAGGAAGGAGGAAGGTATGGCAGGTCGAAGGGCATCTAATCACCAACAAAAAAGAACTATCCCTT
TCCAAGTTCAAATTTGAGGACCATA
Found at i:51894727 original size:65 final size:64
Alignment explanation
Indices: 51894625--51894767 Score: 198
Period size: 65 Copynumber: 2.2 Consensus size: 64
51894615 TATTAATGTT
* * * *
51894625 TTTAAATA-TTTCTCATATATATTTATAATCTAATTTTTAGTTTCTTGATAAATTATATACACA
1 TTTAAATATTTTCACATATATATTTATAATCTAATTTTTAATTTCTTAATAAATTATATAAACA
*
51894688 TTTAAATATTTTTCACATATATATTTATAGTCTAATTTTTAATTTCTTAATAAATTATATAAACA
1 TTTAAATA-TTTTCACATATATATTTATAATCTAATTTTTAATTTCTTAATAAATTATATAAACA
**
51894753 TGCAAATATATTTCA
1 TTTAAATAT-TTTCA
51894768 ATTACATTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
63 8 0.11
64 1 0.01
65 61 0.87
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (64 bp):
TTTAAATATTTTCACATATATATTTATAATCTAATTTTTAATTTCTTAATAAATTATATAAACA
Found at i:51897191 original size:12 final size:12
Alignment explanation
Indices: 51897174--51897199 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51897164 ATGTAAGTTG
51897174 AACTTCTTTAAA
1 AACTTCTTTAAA
51897186 AACTTCTTTAAA
1 AACTTCTTTAAA
51897198 AA
1 AA
51897200 AAAAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AACTTCTTTAAA
Found at i:51899360 original size:22 final size:24
Alignment explanation
Indices: 51899335--51899379 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
51899325 TACCAATATT
51899335 TTTA-TAAATA-TAATAAATTATA
1 TTTATTAAATATTAATAAATTATA
51899357 TTTATTTAAATATTAATAAATTA
1 TTTA-TTAAATATTAATAAATTA
51899380 AGTATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
24 6 0.30
25 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTATTAAATATTAATAAATTATA
Found at i:51899366 original size:24 final size:25
Alignment explanation
Indices: 51899330--51899388 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 25
51899320 ATTAATACCA
51899330 ATATTTTTATAAATA-TAATAAATT
1 ATATTTTTATAAATATTAATAAATT
51899354 ATATTTATT-TAAATATTAATAAATT
1 ATATTT-TTATAAATATTAATAAATT
51899379 AAGTATTTTT
1 -A-TATTTTT
51899389 CACGTACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 12 0.39
25 11 0.35
26 3 0.10
27 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATATTTTTATAAATATTAATAAATT
Found at i:51899472 original size:7 final size:7
Alignment explanation
Indices: 51899457--51899491 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
51899447 AATTGTGTTG
*
51899457 TTTAAAT
1 TTTATAT
51899464 TTTATAT
1 TTTATAT
51899471 TTTATAT
1 TTTATAT
51899478 TTTATAT
1 TTTATAT
51899485 TTTATAT
1 TTTATAT
51899492 AGTGCTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTATAT
Found at i:51900627 original size:26 final size:26
Alignment explanation
Indices: 51900589--51900645 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
51900579 AACAATTTGA
51900589 CTAAACTTAAAATTGAATAAAAATGG
1 CTAAACTTAAAATTGAATAAAAATGG
*
51900615 CTAAACTTGAAATTGAATAAAAATGG
1 CTAAACTTAAAATTGAATAAAAATGG
*
51900641 TTAAA
1 CTAAA
51900646 TCGCATGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (26 bp):
CTAAACTTAAAATTGAATAAAAATGG
Found at i:51901069 original size:29 final size:29
Alignment explanation
Indices: 51901027--51901111 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 29
51901017 AGGCGGCATA
*
51901027 AAATGTAAAATTATTATATATATTATTAAT
1 AAAT-TAAAGTTATTATATATATTATTAAT
51901057 AAATTAAAG---TTATATATATTATTAAT
1 AAATTAAAGTTATTATATATATTATTAAT
**
51901083 AAATTAAAGTTAAAATATATATTA-TAAT
1 AAATTAAAGTTATTATATATATTATTAAT
51901111 A
1 A
51901112 TGTTTTACTT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 26 0.53
28 5 0.10
29 14 0.29
30 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (29 bp):
AAATTAAAGTTATTATATATATTATTAAT
Found at i:51901076 original size:26 final size:26
Alignment explanation
Indices: 51901040--51901111 Score: 110
Period size: 26 Copynumber: 2.7 Consensus size: 26
51901030 TGTAAAATTA
51901040 TTATATATATTATTAATAAATTAAAG
1 TTATATATATTATTAATAAATTAAAG
51901066 TTATATATATTATTAATAAATTAAAG
1 TTATATATATTATTAATAAATTAAAG
51901092 TTAAAATATATATTA-TAATA
1 TT---ATATATATTATTAATA
51901112 TGTTTTACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
26 28 0.65
28 5 0.12
29 10 0.23
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (26 bp):
TTATATATATTATTAATAAATTAAAG
Found at i:51901108 original size:38 final size:38
Alignment explanation
Indices: 51901066--51901146 Score: 87
Period size: 38 Copynumber: 2.1 Consensus size: 38
51901056 TAAATTAAAG
51901066 TTATATATAT-TATTA-ATAA-ATTAAAGTTAAAATATATA
1 TTATA-ATATGTATTACATAATATTAAAG-T-AAATATATA
* * *
51901104 TTATAATATGTTTTACTTAATATTTAAGTAAATATATA
1 TTATAATATGTATTACATAATATTAAAGTAAATATATA
51901142 TTATA
1 TTATA
51901147 GTAATAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
37 4 0.11
38 23 0.62
39 4 0.11
40 6 0.16
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (38 bp):
TTATAATATGTATTACATAATATTAAAGTAAATATATA
Found at i:51901659 original size:19 final size:20
Alignment explanation
Indices: 51901635--51901675 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
51901625 GAATTTAGGT
*
51901635 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
51901654 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
51901674 AA
1 AA
51901676 TAGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:51903473 original size:114 final size:114
Alignment explanation
Indices: 51903273--51903496 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 114
51903263 TATGCCTTAA
* *
51903273 TTGTATAATGTTTGGATTATATTGGTATGTGTAATTGAAAATGAAATTAATGAACTAACATAACG
1 TTGTATAATGTTTGGATTATATTGATATGTGTAATTGAAAATGAAAATAATGAACTAACATAACG
* * *
51903338 TTGATCATTGATTGAGTTATTCTGGACCATTACTGTAAATCAGTCTTGT
66 TCGATCATTGATTGAGCTATTCTGGACCATTACTGGAAATCAGTCTTGT
* *
51903387 TTGTATAATGTTTGGATTATATTGATGTGTGTAATTGAAAATGAAAATAATGAATTAACATAACG
1 TTGTATAATGTTTGGATTATATTGATATGTGTAATTGAAAATGAAAATAATGAACTAACATAACG
* *
51903452 TCGATCATTGATTGAGCTATTCTGGATCGTTACTGGAAATCAGTC
66 TCGATCATTGATTGAGCTATTCTGGACCATTACTGGAAATCAGTC
51903497 CTGTAAGTTT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (114 bp):
TTGTATAATGTTTGGATTATATTGATATGTGTAATTGAAAATGAAAATAATGAACTAACATAACG
TCGATCATTGATTGAGCTATTCTGGACCATTACTGGAAATCAGTCTTGT
Found at i:51905369 original size:22 final size:22
Alignment explanation
Indices: 51905341--51905384 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
51905331 ACGCTTCTTG
51905341 TACTATAATAATTCAATCCAAA
1 TACTATAATAATTCAATCCAAA
51905363 TACTATAATAATTCAATCCAAA
1 TACTATAATAATTCAATCCAAA
51905385 CTCATTCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (22 bp):
TACTATAATAATTCAATCCAAA
Found at i:51905697 original size:20 final size:20
Alignment explanation
Indices: 51905634--51905741 Score: 87
Period size: 20 Copynumber: 5.5 Consensus size: 20
51905624 AGGAGCACCG
*
51905634 AAGTGCTAACA-AGGCAC-A
1 AAGTGCAAACAGAGGCACTA
* **
51905652 AATGTGCAAACAGGGGCACCC
1 AA-GTGCAAACAGAGGCACTA
* *
51905673 TAGTGCGAACAG-GGACACTA
1 AAGTGCAAACAGAGG-CACTA
* *
51905693 AAGTGTATACAGAGGCACTA
1 AAGTGCAAACAGAGGCACTA
**
51905713 AAGTGCAAACAGAGGCACCG
1 AAGTGCAAACAGAGGCACTA
51905733 AAGTGCAAA
1 AAGTGCAAA
51905742 TCCCGTACAA
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.03
19 10 0.14
20 55 0.79
21 3 0.04
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTGCAAACAGAGGCACTA
Found at i:51908223 original size:12 final size:12
Alignment explanation
Indices: 51908208--51908247 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
51908198 GGGACACAGG
*
51908208 CTGCCACACGGT
1 CTGCGACACGGT
51908220 CTGCGACACGGT
1 CTGCGACACGGT
51908232 CTGCGACACGG-
1 CTGCGACACGGT
51908243 CTGCG
1 CTGCG
51908248 TTTTGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.15, C:0.38, G:0.33, T:0.15
Consensus pattern (12 bp):
CTGCGACACGGT
Found at i:51908227 original size:24 final size:23
Alignment explanation
Indices: 51908200--51908247 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
51908190 CATGGCCTGG
51908200 GACACAGG-CTGCCACACGGTCTGC
1 GACAC-GGTCTGCCACACGG-CTGC
*
51908224 GACACGGTCTGCGACACGGCTGC
1 GACACGGTCTGCCACACGGCTGC
51908247 G
1 G
51908248 TTTTGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.12
Consensus pattern (23 bp):
GACACGGTCTGCCACACGGCTGC
Found at i:51909423 original size:20 final size:19
Alignment explanation
Indices: 51909393--51909444 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
51909383 TTGGAGTAGG
*
51909393 AATATCAATACCTT-AGGAA
1 AATATCGATACCTTGA-GAA
51909412 ATATATCGATACCTTGAGAA
1 A-ATATCGATACCTTGAGAA
51909432 AAGTATCGATACC
1 AA-TATCGATACC
51909445 GGATCAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTGAGAA
Found at i:51909532 original size:10 final size:10
Alignment explanation
Indices: 51909516--51909572 Score: 69
Period size: 10 Copynumber: 5.5 Consensus size: 10
51909506 GAGTATCATA
51909516 TTTGAAAATG
1 TTTGAAAATG
* *
51909526 GTTGAAACATA
1 TTTGAAA-ATG
51909537 TTTGAAAATG
1 TTTGAAAATG
*
51909547 TTTGAAACATA
1 TTTGAAA-ATG
51909558 TTTGAAAATG
1 TTTGAAAATG
51909568 TTTGA
1 TTTGA
51909573 CTCAATTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 22 0.56
11 17 0.44
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.39
Consensus pattern (10 bp):
TTTGAAAATG
Found at i:51909538 original size:21 final size:21
Alignment explanation
Indices: 51909512--51909572 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
51909502 AGAGGAGTAT
*
51909512 CATATTTGAAAATGGTTGAAA
1 CATATTTGAAAATGTTTGAAA
51909533 CATATTTGAAAATGTTTGAAA
1 CATATTTGAAAATGTTTGAAA
51909554 CATATTTGAAAATGTTTGA
1 CATATTTGAAAATGTTTGA
51909573 CTCAATTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (21 bp):
CATATTTGAAAATGTTTGAAA
Found at i:51910750 original size:118 final size:116
Alignment explanation
Indices: 51910526--51910750 Score: 256
Period size: 118 Copynumber: 1.9 Consensus size: 116
51910516 ACTTTGAAGT
* *
51910526 TTTAACAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACATTT
1 TTTAACAGGATATTTGGCTATTTGGTCAAACGAAAAATCGAAACCCAGCAAGTTAGGGCACATTT
** * *
51910591 TCTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAAAAATTTTGAAAC
66 TCTCGAATTTAAAAACCCAAAATATTGCCTTAATTA-AAAAAATTTTGAAAC
* ** * * *
51910643 TTTAA-AGGATATTTTGCTATTTAGGTTTAACGATAAAATCGAAACCCCGTAAGTTAGGGTACGA
1 TTTAACAGGATATTTGGCTATTT-GGTCAAACGA-AAAATCGAAACCCAGCAAGTTAGGGCAC-A
* *
51910707 -TTTCTCGAATCTCTAAAAACCCGAAATTTTGCCTTAATTAAAAA
63 TTTTCTCGAAT-T-TAAAAACCCAAAATATTGCCTTAATTAAAAA
51910751 TTTCTTCTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
116 16 0.18
117 13 0.15
118 33 0.37
119 6 0.07
120 21 0.24
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (116 bp):
TTTAACAGGATATTTGGCTATTTGGTCAAACGAAAAATCGAAACCCAGCAAGTTAGGGCACATTT
TCTCGAATTTAAAAACCCAAAATATTGCCTTAATTAAAAAAATTTTGAAAC
Found at i:51912987 original size:38 final size:41
Alignment explanation
Indices: 51912935--51913016 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 41
51912925 TAAAATATCT
*
51912935 ATTAATAAATTTCACAAA-AAAA-T-TTATTTAATAAATTC
1 ATTAATAAACTTCACAAATAAAATTATTATTTAATAAATTC
51912973 ATTAATAAACTTCACAAATAAAATTTTATTATTTAATAAATTC
1 ATTAATAAACTTCACAAATAAAA--TTATTATTTAATAAATTC
51913016 A
1 A
51913017 AAATTAACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
38 17 0.45
39 4 0.11
42 1 0.03
43 16 0.42
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (41 bp):
ATTAATAAACTTCACAAATAAAATTATTATTTAATAAATTC
Found at i:51916709 original size:27 final size:27
Alignment explanation
Indices: 51916679--51916745 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 27
51916669 GCAAAATAAA
*
51916679 AAAAAAACATTATAATTTTATTTATAT
1 AAAAAAACATTATAATTTTATTTACAT
*
51916706 AAAAAACCATTATAATTTTATTTACAT
1 AAAAAAACATTATAATTTTATTTACAT
51916733 AAAAAAATCATTA
1 AAAAAAA-CATTA
51916746 CATAAATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 31 0.86
28 5 0.14
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAAAAACATTATAATTTTATTTACAT
Found at i:51917098 original size:6 final size:6
Alignment explanation
Indices: 51917070--51917122 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
51917060 AGAATGTAGT
* * * *
51917070 TCTGTC TCTGGC ACTAGC ACTGGC TCTGGC TCTGGC TCTGGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
51917118 TCTGG
1 TCTGG
51917123 TGCATGATGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.06, C:0.32, G:0.30, T:0.32
Consensus pattern (6 bp):
TCTGGC
Found at i:51918775 original size:16 final size:15
Alignment explanation
Indices: 51918744--51918787 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
51918734 ACAAAATCAA
51918744 ATAAAATTAAATTAT
1 ATAAAATTAAATTAT
*
51918759 ATAAAAGTTACATTAT
1 ATAAAA-TTAAATTAT
51918775 ATAAAAATTAAAT
1 AT-AAAATTAAAT
51918788 GAGTTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
ATAAAATTAAATTAT
Found at i:51919085 original size:19 final size:19
Alignment explanation
Indices: 51919082--51919321 Score: 144
Period size: 19 Copynumber: 12.5 Consensus size: 19
51919072 CATACAAAAT
51919082 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
51919101 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
* *
51919123 TATAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
51919139 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
*
51919154 -AAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
51919172 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
51919191 TACAAAAAATTGCAATATTCA
1 TAC--AAAATTACAATATTCA
* *
51919212 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
* *
51919230 AACTATAGA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
51919253 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
51919273 TAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
51919292 TACAAAAAATTAGAATATTCA
1 TAC--AAAATTACAATATTCA
51919313 TACAAAATT
1 TACAAAATT
51919322 CTAATCCAAA
Statistics
Matches: 173, Mismatches: 23, Indels: 50
0.70 0.09 0.20
Matches are distributed among these distances:
14 9 0.05
15 1 0.01
16 10 0.06
17 3 0.02
18 9 0.05
19 63 0.36
20 12 0.07
21 38 0.22
22 21 0.12
23 5 0.03
25 2 0.01
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:51919117 original size:22 final size:22
Alignment explanation
Indices: 51919061--51919218 Score: 171
Period size: 22 Copynumber: 6.9 Consensus size: 22
51919051 ATATTCCGAC
51919061 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATAC--AA--A-AAA
51919088 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
* *
51919110 ATTGCAATATTCATATAAAATTATAA
1 ATTACAATATTCATA-CAAA--A-AA
51919136 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
51919159 ATTACAATATTCATAC---AAA
1 ATTACAATATTCATACAAAAAA
51919178 ATTACAATATTCATAC-AAAAA
1 ATTACAATATTCATACAAAAAA
*
51919199 ATTGCAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
51919219 TACTAATCCA
Statistics
Matches: 118, Mismatches: 5, Indels: 21
0.82 0.03 0.15
Matches are distributed among these distances:
19 19 0.16
21 18 0.15
22 36 0.31
23 6 0.05
24 1 0.01
25 3 0.03
26 5 0.04
27 30 0.25
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.31
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:51919131 original size:49 final size:49
Alignment explanation
Indices: 51919065--51919219 Score: 211
Period size: 49 Copynumber: 3.3 Consensus size: 49
51919055 TCCGACATTA
51919065 CAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTG
1 CAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTG
* * * *
51919114 CAATATTCATATAAAATTATAATATTACAATATTCATACAAAAAAATTA
1 CAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTG
51919163 CAATA-T--T-C---A-TACAAAATTACAATATTCATAC-AAAAAATTG
1 CAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTG
51919203 CAATATTCATACAAAAT
1 CAATATTCATACAAAAT
51919220 ACTAATCCAA
Statistics
Matches: 90, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
40 13 0.14
41 21 0.23
42 1 0.01
43 1 0.01
44 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 50 0.56
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (49 bp):
CAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTG
Found at i:51919209 original size:40 final size:41
Alignment explanation
Indices: 51919137--51919319 Score: 152
Period size: 40 Copynumber: 4.5 Consensus size: 41
51919127 AAATTATAAT
51919137 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
*
51919178 ATTACAATATTCATAC-AAAAAATTGCAATATTCATACAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
* * * * *
51919218 A-TACTA-ATCCA-A-AACTATAGA-TACAAATTTAATT-ATAAAATA
1 ATTACAATATTCATACAA--AAAAATTAC-AA--T-ATTCATACAA-A
51919260 ATTACAATATTCAT---AAAAAATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAC--AAA
*
51919300 ATTAGAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
51919320 TTCTAATCCA
Statistics
Matches: 111, Mismatches: 13, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
37 2 0.02
38 9 0.08
39 13 0.12
40 38 0.34
41 29 0.26
42 8 0.07
43 8 0.07
44 4 0.04
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
Found at i:51919283 original size:101 final size:100
Alignment explanation
Indices: 51919153--51919336 Score: 316
Period size: 101 Copynumber: 1.8 Consensus size: 100
51919143 ATATTCATAC
*
51919153 AAAAAAATTACAATATTCATACAAAATTACAATATTCATACAAAAAATT-GCAATATTCATACAA
1 AAAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTAG-AATATTCATACAA
51919217 AATACTAATCCAAAACTATAGATACAAATTTAATTAT
65 AATACTAATCC-AAACTATAGATACAAATTTAATTAT
*
51919254 AAAATAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTAGAATATTCATACAAA
1 AAAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTAGAATATTCATACAAA
*
51919319 ATTCTAATCCAAACTATA
66 ATACTAATCCAAACTATA
51919337 AACACTAAAT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
100 8 0.10
101 70 0.89
102 1 0.01
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (100 bp):
AAAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTAGAATATTCATACAAA
ATACTAATCCAAACTATAGATACAAATTTAATTAT
Found at i:51919298 original size:21 final size:21
Alignment explanation
Indices: 51919254--51919319 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
51919244 ATTTAATTAT
51919254 AAAATAATTACAATATTCAT--
1 AAAA-AATTACAATATTCATAC
51919274 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
51919295 AAAAAATTAGAATATTCATAC
1 AAAAAATTACAATATTCATAC
51919316 AAAA
1 AAAA
51919320 TTCTAATCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
19 15 0.35
20 4 0.09
21 24 0.56
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:51919486 original size:3 final size:3
Alignment explanation
Indices: 51919480--51919532 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
51919470 TTTTCTTTCT
*
51919480 TTC TTC TTC TTC TTC TTC -TC TTC TTC TCC TTC -TC TTC TTC -TC TT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
51919524 TTC TCTC TT
1 TTC T-TC TT
51919533 TTTTTTTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
2 8 0.19
3 32 0.74
4 3 0.07
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:51919501 original size:17 final size:16
Alignment explanation
Indices: 51919472--51919529 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 16
51919462 TACCTTTTTT
51919472 TTCT-TTCTT-TCTTC
1 TTCTCTTCTTCTCTTC
51919486 TTCTTCTTCTTCTCTTC
1 TTC-TCTTCTTCTCTTC
51919503 TTCTC--CTTCTCTTC
1 TTCTCTTCTTCTCTTC
51919517 TTCTCTT-TTCTCT
1 TTCTCTTCTTCTCT
51919530 CTTTTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
14 17 0.44
15 7 0.18
16 7 0.18
17 8 0.21
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (16 bp):
TTCTCTTCTTCTCTTC
Found at i:51919530 original size:17 final size:17
Alignment explanation
Indices: 51919475--51919544 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
51919465 CTTTTTTTTC
*
51919475 TTTCTTTCTTCTTCT-T
1 TTTCTCTCTTCTTCTCT
*
51919491 CTTCTTCTCTTCTTCTC-
1 TTTC-TCTCTTCTTCTCT
*
51919508 -CT-TCTCTTCTTCTCT
1 TTTCTCTCTTCTTCTCT
*
51919523 TTTCTCTCTT-TT-TTT
1 TTTCTCTCTTCTTCTCT
51919538 TTTCTCT
1 TTTCTCT
51919545 ACCGTGCCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
14 12 0.27
15 9 0.20
16 7 0.16
17 16 0.36
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTCTCTTCTTCTCT
Found at i:51919791 original size:16 final size:17
Alignment explanation
Indices: 51919770--51919802 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
51919760 TAAAAAAATA
*
51919770 TAAAAAATATT-TTATT
1 TAAAAAAAATTATTATT
51919786 TAAAAAAAATTATTATT
1 TAAAAAAAATTATTATT
51919803 ATTTTATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAAAAAATTATTATT
Found at i:51921354 original size:18 final size:19
Alignment explanation
Indices: 51921331--51921368 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
51921321 TGTAAAATTT
51921331 TATAAATAT-CAT-AAAAAA
1 TATAAA-ATGCATCAAAAAA
51921349 TATAAAATGCATCAAAAAA
1 TATAAAATGCATCAAAAAA
51921368 T
1 T
51921369 CCCTTTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 9 0.50
19 7 0.39
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.26
Consensus pattern (19 bp):
TATAAAATGCATCAAAAAA
Found at i:51921639 original size:28 final size:28
Alignment explanation
Indices: 51921580--51921677 Score: 74
Period size: 28 Copynumber: 3.5 Consensus size: 28
51921570 TTCTATATAT
* * *
51921580 TTTTTATAATTTTTATGATATTTATAAAA
1 TTTTTA-AATTTTTTTTATATTTTTAAAA
**
51921609 -TTTTACAATTTTTTTTATATTTTTACGA
1 TTTTTA-AATTTTTTTTATATTTTTAAAA
* * *
51921637 TTTTTATATTTTTTTTCTAATTTTTAATA
1 TTTTTAAATTTTTTTTAT-ATTTTTAAAA
*
51921666 -TTTAAAATTTTT
1 TTTTTAAATTTTT
51921678 ATTAAAATTT
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
28 42 0.76
29 13 0.24
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTAAATTTTTTTTATATTTTTAAAA
Found at i:51921668 original size:29 final size:28
Alignment explanation
Indices: 51921617--51921748 Score: 83
Period size: 29 Copynumber: 4.7 Consensus size: 28
51921607 AATTTTACAA
**
51921617 TTTTTTTTATATTTTTACGATTTTTATAT
1 TTTTTTTTA-ATTTTTAATATTTTTATAT
* *
51921646 TTTTTTTCTAATTTTTAATA--TTTAAAA
1 TTTTTTT-TAATTTTTAATATTTTTATAT
* ** * *
51921673 TTTTTATTAAAATTTAATAATATTTATAG
1 TTTTTTTTAATTTTTAAT-ATTTTTATAT
* * *
51921702 TTTTTATTGA-TATTAAT-TTTTTATAAT
1 TTTTTTTTAATTTTTAATATTTTTAT-AT
51921729 TTTTTTTCTAATTTTTAATA
1 TTTTTTT-TAATTTTTAATA
51921749 AAAGCAGGGG
Statistics
Matches: 78, Mismatches: 17, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
26 15 0.19
27 19 0.24
28 7 0.09
29 35 0.45
30 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTTTTAATTTTTAATATTTTTATAT
Found at i:51921687 original size:19 final size:20
Alignment explanation
Indices: 51921656--51921699 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
51921646 TTTTTTTCTA
*
51921656 ATTT-TTAATATTTAA-AAT
1 ATTTATTAAAATTTAATAAT
*
51921674 TTTTATTAAAATTTAATAAT
1 ATTTATTAAAATTTAATAAT
51921694 ATTTAT
1 ATTTAT
51921700 AGTTTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 3 0.14
19 10 0.48
20 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTATTAAAATTTAATAAT
Found at i:51921861 original size:85 final size:85
Alignment explanation
Indices: 51921762--51921967 Score: 254
Period size: 85 Copynumber: 2.4 Consensus size: 85
51921752 GCAGGGGCTT
* * *
51921762 AATTATTTTTTTGAAAAAAATTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTG
1 AATTATTTTTTTGAAAAAATTTGAGGG-CTTTTTGATGCATTTTAAAAGTTCAAGTACCCAAATG
* *
51921827 GGAG-AAAAAATAA-GGACTG
65 AGAGTAAAAAAAAAGGGACTG
* * *
51921846 AATTGATTTTTTTGAAAAGATTTGAGAGCTTTTTTGATGCATTTTAAAAGTTCAAGTACTCAAAT
1 AATT-ATTTTTTTGAAAAAATTTGAGGGC-TTTTTGATGCATTTTAAAAGTTCAAGTACCCAAAT
* *
51921911 GAGTGTAAAAAAAAAGGGACTT
64 GAGAGTAAAAAAAAAGGGACTG
* *
51921933 AATTACTTTTTCTGAAAAAATTTGAGGACTTTTTG
1 AATTA-TTTTTTTGAAAAAATTTGAGGGCTTTTTG
51921968 CACAATTAAA
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
84 5 0.05
85 55 0.53
86 15 0.15
87 28 0.27
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.37
Consensus pattern (85 bp):
AATTATTTTTTTGAAAAAATTTGAGGGCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAAATGA
GAGTAAAAAAAAAGGGACTG
Found at i:51929480 original size:12 final size:12
Alignment explanation
Indices: 51929465--51929501 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
51929455 ATCTGAGGTA
51929465 CGTTCTGAACTT
1 CGTTCTGAACTT
*
51929477 CGTTCTAAACTT
1 CGTTCTGAACTT
51929489 CGTTCTGAACTT
1 CGTTCTGAACTT
51929501 C
1 C
51929502 ATTCCCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.41
Consensus pattern (12 bp):
CGTTCTGAACTT
Found at i:51945133 original size:13 final size:14
Alignment explanation
Indices: 51945115--51945152 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
51945105 CTTTTATAAT
51945115 TCTTCATAATA-TA
1 TCTTCATAATATTA
*
51945128 TCTTCAAAATATTA
1 TCTTCATAATATTA
*
51945142 TATTCATAATA
1 TCTTCATAATA
51945153 AATAGGACCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTTCATAATATTA
Found at i:51948698 original size:22 final size:21
Alignment explanation
Indices: 51948652--51948705 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
51948642 ATTATTAATT
* *
51948652 TTTTAAAATTAAAATTAAGAT
1 TTTTAAAATTAAAAATAAGAG
51948673 TTTTAAAATATAAAAATATAG-G
1 TTTTAAAAT-TAAAAATA-AGAG
51948695 TTTTAGAAATT
1 TTTTA-AAATT
51948706 GTTTGTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 9 0.32
22 13 0.46
23 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
TTTTAAAATTAAAAATAAGAG
Found at i:51949388 original size:9 final size:9
Alignment explanation
Indices: 51949366--51949411 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
51949356 TACTTTTATT
51949366 AATTT-AAA
1 AATTTAAAA
*
51949374 ATTTTAAAA
1 AATTTAAAA
51949383 AATTTAAAA
1 AATTTAAAA
*
51949392 GATTTAAAA
1 AATTTAAAA
*
51949401 GATTTAAAA
1 AATTTAAAA
51949410 AA
1 AA
51949412 AAAATCTTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
8 4 0.12
9 29 0.88
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (9 bp):
AATTTAAAA
Found at i:51953096 original size:19 final size:19
Alignment explanation
Indices: 51953064--51953102 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51953054 TGCATGAAAA
*
51953064 TGAGTATGATAATTCAATT
1 TGAGTATGATAATTAAATT
51953083 TGAGT-TGATAAATTAAATT
1 TGAGTATGAT-AATTAAATT
51953102 T
1 T
51953103 AACTATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (19 bp):
TGAGTATGATAATTAAATT
Found at i:51955363 original size:42 final size:42
Alignment explanation
Indices: 51955279--51955363 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
51955269 CACACCACAT
*
51955279 TGTGGACAAGCCACTAGTAATTGCAGATAAACTGCCAAAAATA
1 TGTGGACAAGCCACCAG-AATTGCAGATAAACTGCCAAAAATA
* *
51955322 TGTGGACAAGCCACCA-AATCTGTAGATAAACTGCCAGAAATA
1 TGTGGACAAGCCACCAGAAT-TGCAGATAAACTGCCAAAAATA
51955364 CATGGTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.08
42 20 0.53
43 15 0.39
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (42 bp):
TGTGGACAAGCCACCAGAATTGCAGATAAACTGCCAAAAATA
Found at i:51956731 original size:22 final size:22
Alignment explanation
Indices: 51956689--51956731 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
51956679 GGTAAGAAAC
* *
51956689 AAAAGTGAAGGAAAGAGAGAAG
1 AAAAGGGAAGGAAAGAAAGAAG
51956711 AAAAGGGAGAGGAAA-AAAGAA
1 AAAAGGGA-AGGAAAGAAAGAA
51956732 AAGAGTGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AAAAGGGAAGGAAAGAAAGAAG
Found at i:51957463 original size:18 final size:17
Alignment explanation
Indices: 51957440--51957492 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
51957430 AAAACCCGGG
51957440 CCCAATTACAATACAAAA
1 CCCAA-TACAATACAAAA
**
51957458 CCCAATACAACCCAAGAA
1 CCCAATACAATACAA-AA
*
51957476 CCCAAAAACAATACAAA
1 CCC-AATACAATACAAA
51957493 CCTAGCAGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 8 0.29
18 11 0.39
19 9 0.32
ACGTcount: A:0.57, C:0.32, G:0.02, T:0.09
Consensus pattern (17 bp):
CCCAATACAATACAAAA
Found at i:51958794 original size:20 final size:19
Alignment explanation
Indices: 51958771--51958820 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
51958761 TATATATTTT
51958771 TACATATTTTACAACTTATA
1 TACATATTTTACAAC-TATA
* * *
51958791 TACATATCTATATATCTATA
1 TACATAT-TTTACAACTATA
51958811 TACATATTTT
1 TACATATTTT
51958821 TTTTTTCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 2 0.08
20 18 0.72
21 5 0.20
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (19 bp):
TACATATTTTACAACTATA
Found at i:51959593 original size:109 final size:109
Alignment explanation
Indices: 51959149--51959881 Score: 1225
Period size: 110 Copynumber: 6.7 Consensus size: 109
51959139 AAAAATGAAA
* * * *
51959149 AAAAAATTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTACGGTGCTA
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
51959214 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
51959258 AAAAATTTTAAAATAAGGCAATGTTTTGCGATTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCG-TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
51959323 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
51959368 AAAAATTTTAAAATAAGGCAATGTTTTGCGATTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCG-TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
51959433 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * *
51959478 AAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* *
51959543 GGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* *
51959587 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGATGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
51959652 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
51959696 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGC
1 -AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGG-AAATTCGAGAAAACATGCCCTAAGGTGC
* *
51959761 TGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
64 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * * ***
51959807 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATACGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
51959871 GGTTTCGATTT
66 GGTGTCGATTT
51959882 CTTGATTGAC
Statistics
Matches: 592, Mismatches: 29, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
108 25 0.04
109 213 0.36
110 283 0.48
111 71 0.12
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:51959747 original size:329 final size:329
Alignment explanation
Indices: 51959149--51959881 Score: 1254
Period size: 329 Copynumber: 2.2 Consensus size: 329
51959139 AAAAATGAAA
* * * ** *
51959149 AAAAAATTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTACGGTGCTA
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* * *
51959214 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAA
66 GGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTCAAAATAAGGCAA
*
51959279 TGTTTTGCGATTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTC
131 TGTTTTGCGATTGGGAAATTCGAGAAAACATGCCCTAAGATGCTGGGTGTCGATTTTTCTCGTTC
*
51959344 AACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCGATTGGGAAATT
196 AACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCGATTGGAAAATT
* *
51959409 CGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCC
261 CGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCC
51959474 TTTT
326 TTTT
*
51959478 AAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
51959543 GGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTCAAAATAAGGCAA
66 GGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTCAAAATAAGGCAA
*
51959608 TGTTTTGCG-TTTGGAAATTCGAGAAAACATGCCCTAAGATGCTGGGTGTCGATTTTTCTCGTTC
131 TGTTTTGCGATTGGGAAATTCGAGAAAACATGCCCTAAGATGCTGGGTGTCGATTTTTCTCGTTC
*
51959672 AACCAAATGGCTTAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAAT
196 AACCAAATGGCTTAATATCCTTTT-AAAAATTTTAAAATAAGGCAATGTTTTGCGATTGGAAAAT
51959737 TCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATC
260 TCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATC
51959802 CTTTT
325 CTTTT
* * **
51959807 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATACGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
*
51959871 GGTTTCGATTT
66 GGTGTCGATTT
51959882 CTTGATTGAC
Statistics
Matches: 381, Mismatches: 22, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
328 104 0.27
329 277 0.73
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (329 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
GGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTCAAAATAAGGCAA
TGTTTTGCGATTGGGAAATTCGAGAAAACATGCCCTAAGATGCTGGGTGTCGATTTTTCTCGTTC
AACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCGATTGGAAAATT
CGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCC
TTTT
Found at i:51972735 original size:44 final size:41
Alignment explanation
Indices: 51972649--51972975 Score: 150
Period size: 44 Copynumber: 8.3 Consensus size: 41
51972639 ACAATCTTTT
* *
51972649 TTCGAT-CTCTTCCCACCATATGGGAAGACAGATCTGCATC
1 TTCGATCCACTTCCCACCATATAGGAAGACAGATCTGCATC
* * *
51972689 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATC
1 TTCGATCCACTTCCCACC-ATATAGGAAGACA-GATCTG-CATC
* * * * * *
51972733 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 TTCGATCCACTTCCCACC-ATATAGGAAGAC-AGATCTGC-ATC
* *
51972777 TTCGATCTAC-TGCCACC-TAT-GG--GACAAGATCTGCA-C
1 TTCGATCCACTTCCCACCATATAGGAAGAC-AGATCTGCATC
51972813 TT-GATCCACTT--CACCATAT--GAAGA-AGATCTG-A-C
1 TTCGATCCACTTCCCACCATATAGGAAGACAGATCTGCATC
* * *
51972846 TT--AT-TACTTACGCCA--ATACATGAAGACAAGATCTG---C
1 TTCGATCCACTT-C-CCACCATATAGGAAGAC-AGATCTGCATC
* *
51972882 TTC-AT-C-CTTCGCACCATATGGGAAGACAAGATCTGCATC
1 TTCGATCCACTTCCCACCATATAGGAAGAC-AGATCTGCATC
* * *
51972921 TTCGATCCACTTCCTACCA-ATATGGAAGATAGATCTGATATC
1 TTCGATCCACTTCCCACCATATA-GGAAGACAGATCTG-CATC
*
51972963 TTCGATCTACTTC
1 TTCGATCCACTTC
51972976 AGCAATACAT
Statistics
Matches: 224, Mismatches: 34, Indels: 56
0.71 0.11 0.18
Matches are distributed among these distances:
31 4 0.02
32 2 0.01
33 7 0.03
34 14 0.06
35 17 0.08
36 29 0.13
37 9 0.04
38 12 0.05
39 4 0.02
40 9 0.04
41 21 0.09
42 40 0.18
43 10 0.04
44 45 0.20
45 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (41 bp):
TTCGATCCACTTCCCACCATATAGGAAGACAGATCTGCATC
Found at i:51985033 original size:3 final size:3
Alignment explanation
Indices: 51985025--51985054 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
51985015 ACGCATAAAC
51985025 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51985055 CATTGGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:51986670 original size:38 final size:38
Alignment explanation
Indices: 51986587--51986670 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 38
51986577 AAATTAACCC
* *
51986587 TTATTTTTGTTTCAATTCATTGCCACTAGAGTTAATTA
1 TTATTTTTATTTCAATTCATTGCCACTACAGTTAATTA
** * ** * *
51986625 TGGTTTTTATTTCAATTTATTTTCACTCCAGTTAATTG
1 TTATTTTTATTTCAATTCATTGCCACTACAGTTAATTA
51986663 TTATTTTT
1 TTATTTTT
51986671 TACCTTTGTC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.56
Consensus pattern (38 bp):
TTATTTTTATTTCAATTCATTGCCACTACAGTTAATTA
Found at i:51992120 original size:6 final size:6
Alignment explanation
Indices: 51992111--51992146 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
51992101 AAAAGCTATT
* *
51992111 CCATTT CCATTT CCATTA CCATTA CCATTA CCATTA
1 CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA
51992147 TCTTCCTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (6 bp):
CCATTA
Found at i:52006264 original size:35 final size:35
Alignment explanation
Indices: 52006218--52006287 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
52006208 GATTAAGATT
*
52006218 AGTGGCGGAGCCAAGGAATAGGCAGGGGCCTCGAC
1 AGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGAC
*
52006253 AGTGGCGGAGCCAAGGAGTAGGCAAGGGCCTCGAC
1 AGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGAC
52006288 CCCCCTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.43, T:0.09
Consensus pattern (35 bp):
AGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGAC
Found at i:52007506 original size:10 final size:10
Alignment explanation
Indices: 52007491--52007515 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52007481 CTTTACTCTT
52007491 TAAAATTAAA
1 TAAAATTAAA
52007501 TAAAATTAAA
1 TAAAATTAAA
52007511 TAAAA
1 TAAAA
52007516 CTATTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAATTAAA
Found at i:52011717 original size:21 final size:19
Alignment explanation
Indices: 52011680--52011719 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
52011670 TATATAAATT
*
52011680 GAAAAAAAAAATTAAGAAA
1 GAAAAAAAAAATCAAGAAA
52011699 GAAAAAATAACAATCAAGAAA
1 GAAAAAA-AA-AATCAAGAAA
52011720 AAAGAGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (19 bp):
GAAAAAAAAAATCAAGAAA
Found at i:52012290 original size:23 final size:22
Alignment explanation
Indices: 52012243--52012296 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
52012233 ACATTTATAT
*
52012243 ATTTAATTAAATTTTACAAATA
1 ATTTAATTAAATTTTACAAAAA
*
52012265 ATTTATATTAATTATTTA-AAAAA
1 ATTTA-ATTAAAT-TTTACAAAAA
52012288 ATTTTAATT
1 A-TTTAATT
52012297 TTATATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 14 0.52
24 8 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTAATTAAATTTTACAAAAA
Found at i:52016720 original size:34 final size:35
Alignment explanation
Indices: 52016676--52016742 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
52016666 CAGTAAAATG
* *
52016676 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
52016710 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
52016743 TTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:52016854 original size:20 final size:20
Alignment explanation
Indices: 52016829--52016867 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
52016819 GTTTTTACAT
52016829 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
52016849 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
52016868 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:52020503 original size:25 final size:25
Alignment explanation
Indices: 52020455--52020504 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
52020445 AGAAGAGAAG
52020455 ATGAAGAACAGAAAAAGAAAAAGGA
1 ATGAAGAACAGAAAAAGAAAAAGGA
* * *
52020480 ATGAAGAACGGAAGAAGAAGAAGGA
1 ATGAAGAACAGAAAAAGAAAAAGGA
52020505 GCCTTACCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.30, T:0.04
Consensus pattern (25 bp):
ATGAAGAACAGAAAAAGAAAAAGGA
Found at i:52020585 original size:6 final size:6
Alignment explanation
Indices: 52020564--52020605 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
52020554 TTTGCAATCC
*
52020564 AAGGGG AAGGGAA AAGGGA AAGGG- AAGGGA AAGGGGA AAGGG
1 AAGGGA AAGGG-A AAGGGA AAGGGA AAGGGA AA-GGGA AAGGG
52020606 GAGAAGAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 5 0.16
6 16 0.50
7 11 0.34
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:52020590 original size:18 final size:18
Alignment explanation
Indices: 52020567--52020605 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
52020557 GCAATCCAAG
52020567 GGGAAGGGAAAAGGGAAA
1 GGGAAGGGAAAAGGGAAA
*
52020585 GGGAAGGGAAAGGGGAAA
1 GGGAAGGGAAAAGGGAAA
52020603 GGG
1 GGG
52020606 GAGAAGAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (18 bp):
GGGAAGGGAAAAGGGAAA
Found at i:52021713 original size:30 final size:31
Alignment explanation
Indices: 52021689--52021747 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
52021679 GTAAATACTC
**
52021689 AAAAGTTGAAGGGTTAA-AGTGTAAATATGA
1 AAAAGTTGAAGGACTAATAGTGTAAATATGA
52021719 AAAAGTTGAAGGACTAATAGTGTAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
52021748 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATGA
Found at i:52023302 original size:17 final size:16
Alignment explanation
Indices: 52023280--52023333 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
52023270 GAATCTCTTG
52023280 TTTTGAAAACACGAGAA
1 TTTTGAAAACACGA-AA
52023297 TTTTG-AAACAC-AATA
1 TTTTGAAAACACGAA-A
52023312 TTTTTTGAAAACACGAAA
1 --TTTTGAAAACACGAAA
52023330 TTTT
1 TTTT
52023334 TTTTTTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 1 0.03
15 2 0.06
16 10 0.31
17 10 0.31
18 7 0.22
19 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (16 bp):
TTTTGAAAACACGAAA
Found at i:52023325 original size:18 final size:17
Alignment explanation
Indices: 52023280--52023670 Score: 105
Period size: 17 Copynumber: 22.1 Consensus size: 17
52023270 GAATCTCTTG
52023280 TTTTGAAAACACGAGAA--
1 TTTTG-AAACACGA-AATT
52023297 TTTTGAAACAC-AATATT
1 TTTTGAAACACGAA-ATT
52023314 TTTTGAAAACACGAAATTTTTT
1 TTTTG-AAACACGAAA----TT
52023336 TTTTGAAAACACGAGAA-T
1 TTTTG-AAACACGA-AATT
*
52023354 TTTAGAAACACGAAATTTT
1 TTTTGAAACACGAAA--TT
* * *
52023373 TTTTAAAAAACCTGAAAAT
1 TTTTGAAACA-C-GAAATT
* *
52023392 TTTT-ACAATACGAAAAT
1 TTTTGA-AACACGAAATT
** *
52023409 TTGCGAAACATGACAA-T
1 TTTTGAAACACGA-AATT
*
52023426 TTTCGAAACACGAGAATT
1 TTTTGAAACACGA-AATT
52023444 TTTTGAGAACAC-AAA--
1 TTTTGA-AACACGAAATT
* *
52023459 --ATAAAACACGGAAA-T
1 TTTTGAAACAC-GAAATT
*
52023474 TTGTGAAACACGAGAAATTT
1 TTTTGAAACAC--GAAA-TT
* *
52023494 TTTTAAAACACGGAAA-C
1 TTTTGAAACAC-GAAATT
* *
52023511 TTTTGAAATACGAAAAT
1 TTTTGAAACACGAAATT
** *
52023528 TTTAAAAACACGAAAAT
1 TTTTGAAACACGAAATT
**
52023545 TTGCGAAACACGACAATT
1 TTTTGAAACACGA-AATT
52023563 GTTTTGAAACACGAGAAATT
1 -TTTTGAAACAC--GAAATT
* *
52023583 TTTGTG-AACGCGAAA-A
1 TTT-TGAAACACGAAATT
*
52023599 TTTTAAAACACGGAAA-T
1 TTTTGAAACAC-GAAATT
* *
52023616 TTTTAAAACACGAGGATT
1 TTTTGAAACACGA-AATT
*
52023634 TTTTTAAAGCACGGAAA-T
1 TTTTGAAA-CAC-GAAATT
*
52023652 TTTTGAAATACGAGAATT
1 TTTTGAAACACGA-AATT
52023670 T
1 T
52023671 AAAAGAACAT
Statistics
Matches: 287, Mismatches: 45, Indels: 83
0.69 0.11 0.20
Matches are distributed among these distances:
12 5 0.02
13 2 0.01
14 4 0.01
15 3 0.01
16 23 0.08
17 111 0.39
18 49 0.17
19 47 0.16
20 19 0.07
21 6 0.02
22 16 0.06
23 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (17 bp):
TTTTGAAACACGAAATT
Found at i:52023334 original size:17 final size:17
Alignment explanation
Indices: 52023280--52024014 Score: 115
Period size: 18 Copynumber: 41.9 Consensus size: 17
52023270 GAATCTCTTG
52023280 TTTTGAAAACACGAGAA-
1 TTTTGAAAACACGA-AAT
52023297 TTTTG-AAACAC-AATATT
1 TTTTGAAAACACGAA-A-T
52023314 TTTTGAAAACACGAAATTTTTT
1 TTTTGAAAACACGAAA-----T
52023336 TTTTGAAAACACGAGAAT
1 TTTTGAAAACACGA-AAT
*
52023354 TTTAG-AAACACGAAATTT
1 TTTTGAAAACACGAAA--T
* *
52023372 TTTTTAAAAAACCTGAAAAT
1 TTTTGAAAACA-C-G-AAAT
* *
52023392 TTTT-ACAATACGAAA-
1 TTTTGAAAACACGAAAT
* * *
52023407 ATTTGCGAAACATGACAAT
1 TTTTG-AAAACACGA-AAT
*
52023426 TTTCG-AAACACGAGAATT
1 TTTTGAAAACACGA-AA-T
*
52023444 TTTTGAGAACAC-AAA-
1 TTTTGAAAACACGAAAT
*
52023459 --AT-AAAACACGGAAAT
1 TTTTGAAAACAC-GAAAT
*
52023474 TTGTG-AAACACGAGAAATT
1 TTTTGAAAACAC--GAAA-T
* *
52023493 TTTTTAAAACACGGAAAC
1 TTTTGAAAACAC-GAAAT
* *
52023511 TTTTG-AAATACGAAAA
1 TTTTGAAAACACGAAAT
*
52023527 TTTTAAAAACACGAAA-
1 TTTTGAAAACACGAAAT
* *
52023543 ATTTGCGAAACACGACAATT
1 TTTTG-AAAACACGA-AA-T
52023563 GTTTTG-AAACACGAGAAAT
1 -TTTTGAAAACAC--GAAAT
** * *
52023582 TTTTGTGAACGCGAAAA
1 TTTTGAAAACACGAAAT
52023599 TTTT-AAAACACGGAAAT
1 TTTTGAAAACAC-GAAAT
*
52023616 TTTT-AAAACACGAGGATT
1 TTTTGAAAACACGA--AAT
* *
52023634 TTTTTAAAGCACGGAAAT
1 TTTTGAAAACAC-GAAAT
*
52023652 TTTTG-AAATACGAGAA-
1 TTTTGAAAACACGA-AAT
** * *
52023668 TTTAAAAGAACATGAAAG
1 TTTTGAA-AACACGAAAT
**
52023686 TTTACAAAACACGAGAAGTTTT
1 TTTTGAAAACACGA-AA----T
* * *
52023708 TTTTTAAAATACAAAAAT
1 TTTTGAAAACAC-GAAAT
* **
52023726 TTTTG-AAACAATAGATTT
1 TTTTGAAAAC-A-CGAAAT
* *
52023744 TTTTGATAACACTAGAAT
1 TTTTGAAAACACGA-AAT
*
52023762 TTTTTAAAA-A--AAAT
1 TTTTGAAAACACGAAAT
* *
52023776 TTGTG-AAATACGAGAAT
1 TTTTGAAAACACGA-AAT
*
52023793 TTTT---AATACGAGAA-
1 TTTTGAAAACACGA-AAT
* * *
52023807 --TTCAAAAAACGAAAA
1 TTTTGAAAACACGAAAT
* **
52023822 TGTACAAAACACGAAAAT
1 TTTTGAAAACACG-AAAT
52023840 TTTTGAAAACACGATAAT
1 TTTTGAAAACACGA-AAT
* *
52023858 TTTTGAAAAC-CTGGAAC
1 TTTTGAAAACAC-GAAAT
* *
52023875 TTTT-AAAATACGGGAATT
1 TTTTGAAAACAC--GAAAT
52023893 TTTTG-AAACACCGAAATT
1 TTTTGAAAACA-CGAAA-T
52023911 TTTTGAAAACACGAAGA-
1 TTTTGAAAACACGAA-AT
*
52023928 TTTT-AAAACACGCAAAA
1 TTTTGAAAACACG-AAAT
*
52023945 TTTTGGAAACACGAAAAT
1 TTTTGAAAACACG-AAAT
* *
52023963 TTTTG-AAATACGAATT
1 TTTTGAAAACACGAAAT
* *
52023979 TTTTTAAAATCGCGGAAATT
1 TTTTGAAAA-CAC-GAAA-T
52023999 CTTTTG-AAACACGAAA
1 -TTTTGAAAACACGAAA
52024015 ACTCTTGAAA
Statistics
Matches: 530, Mismatches: 101, Indels: 173
0.66 0.13 0.22
Matches are distributed among these distances:
12 8 0.02
13 4 0.01
14 13 0.02
15 22 0.04
16 54 0.10
17 153 0.29
18 154 0.29
19 58 0.11
20 20 0.04
21 11 0.02
22 30 0.06
23 3 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (17 bp):
TTTTGAAAACACGAAAT
Found at i:52023339 original size:22 final size:23
Alignment explanation
Indices: 52023312--52023356 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
52023302 AAACACAATA
52023312 TTTTTTGAAAACACGA-AATTTT
1 TTTTTTGAAAACACGAGAATTTT
52023334 TTTTTTGAAAACACGAGAATTTT
1 TTTTTTGAAAACACGAGAATTTT
52023357 AGAAACACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (23 bp):
TTTTTTGAAAACACGAGAATTTT
Done.