Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 157 of 214
Found at i:46597433 original size:3 final size:3
Alignment explanation
Indices: 46597425--46597460 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
46597415 TTAAAAGAGT
46597425 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46597461 TGAAATTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46598677 original size:19 final size:20
Alignment explanation
Indices: 46598624--46598679 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
46598614 CTGTGGGTTA
46598624 GTTTGTTGGGTCTTGGGTCT
1 GTTTGTTGGGTCTTGGGTCT
*
46598644 GTTTG--GGTGTATTGGG-CT
1 GTTTGTTGG-GTCTTGGGTCT
*
46598662 GTTTGTTGGGCCTTGGGT
1 GTTTGTTGGGTCTTGGGT
46598680 ATTTATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 9 0.31
19 13 0.45
20 7 0.24
ACGTcount: A:0.02, C:0.09, G:0.43, T:0.46
Consensus pattern (20 bp):
GTTTGTTGGGTCTTGGGTCT
Found at i:46604012 original size:50 final size:50
Alignment explanation
Indices: 46603935--46604049 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 50
46603925 GACACACCAT
* *
46603935 AGCTCTCTTGAGCTTCCCGATACTTGGCTCT-CATGAGCTTCCCGAT-TAAC
1 AGCTCTCTTGAGCTTCCCAATACTTGGCT-TGCAAGAGCTTCCCGATAT-AC
*
46603985 AGCTCTCTTGAGCTTCCCAATATTTGGCTTGCAAGAGCTTCCCGATATAC
1 AGCTCTCTTGAGCTTCCCAATACTTGGCTTGCAAGAGCTTCCCGATATAC
* *
46604035 AGCTCACATGAGCTT
1 AGCTCTCTTGAGCTT
46604050 TCCGTTATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
49 1 0.02
50 56 0.97
51 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (50 bp):
AGCTCTCTTGAGCTTCCCAATACTTGGCTTGCAAGAGCTTCCCGATATAC
Found at i:46604047 original size:25 final size:25
Alignment explanation
Indices: 46603935--46604058 Score: 92
Period size: 25 Copynumber: 5.0 Consensus size: 25
46603925 GACACACCAT
* *
46603935 AGCTCTCTTGAGCTTCCCGATACT-T
1 AGCTCTCATGAGCTTCCCGATA-TAC
*
46603960 GGCTCTCATGAGCTTCCCGAT-TAAC
1 AGCTCTCATGAGCTTCCCGATAT-AC
* * **
46603985 AGCTCTCTTGAGCTTCCCAATATTT
1 AGCTCTCATGAGCTTCCCGATATAC
* *
46604010 GGCT-TGCAAGAGCTTCCCGATATAC
1 AGCTCT-CATGAGCTTCCCGATATAC
* * *
46604035 AGCTCACATGAGCTTTCCGTTATA
1 AGCTCTCATGAGCTTCCCGATATA
46604059 TGGCTCGAAA
Statistics
Matches: 75, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
23 1 0.01
24 1 0.01
25 72 0.96
26 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCCCGATATAC
Found at i:46604063 original size:50 final size:50
Alignment explanation
Indices: 46603943--46604074 Score: 124
Period size: 50 Copynumber: 2.6 Consensus size: 50
46603933 ATAGCTCTCT
* ** * * *
46603943 TGAGCTTCCCGATACT-TGGCTCTCATGAGCTTCCCGATTAACAGCTCTCT
1 TGAGCTTCCCAATA-TATGGCTCGAAAGAGCTTCCCGATTAACAGCTCACA
* * *
46603993 TGAGCTTCCCAATATTTGGCTTGCAAGAGCTTCCCGA-TATACAGCTCACA
1 TGAGCTTCCCAATATATGGCTCGAAAGAGCTTCCCGATTA-ACAGCTCACA
* **
46604043 TGAGCTTTCCGTTATATGGCTCGAAAGAGCTT
1 TGAGCTTCCCAATATATGGCTCGAAAGAGCTT
46604075 TTCGCTTACA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.04
50 65 0.96
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (50 bp):
TGAGCTTCCCAATATATGGCTCGAAAGAGCTTCCCGATTAACAGCTCACA
Found at i:46616821 original size:6 final size:6
Alignment explanation
Indices: 46616810--46616855 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
46616800 TGCCCTTACC
46616810 CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAA
1 CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAA
46616856 GGTCTCTCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.50, C:0.35, G:0.15, T:0.00
Consensus pattern (6 bp):
CCAAAG
Found at i:46616956 original size:2 final size:2
Alignment explanation
Indices: 46616949--46616984 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
46616939 CCTTCGCCAA
46616949 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
46616985 ACTTATTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:46633971 original size:90 final size:90
Alignment explanation
Indices: 46633678--46633954 Score: 333
Period size: 90 Copynumber: 3.1 Consensus size: 90
46633668 GATTAATTAT
* * * * * * *
46633678 CTGCAACTCTGGTGATTCATCCA-CAACTTATCTAGAAACTTTAATCTGCAAATATGTTGTGCAT
1 CTGCAACACTGGTGGTTCATCCACCCACAT-TCTGGAAACTTTCATATGCAAATATGTTGTGCAT
*
46633742 TCACAACCATCTGACAACGTATTAAC
65 TCACAACCATCTGACAGCGTATTAAC
* * * *
46633768 TTGCAACACTGGTGGTTCATCCACCCATATTCTGGCAACTTTCATATGCAAATATGTTGTGTATT
1 CTGCAACACTGGTGGTTCATCCACCCACATTCTGGAAACTTTCATATGCAAATATGTTGTGCATT
* * * * *
46633833 TAGAGCCATTTGACAGTGTATTAAC
66 CACAACCATCTGACAGCGTATTAAC
46633858 CTGCAACACTGGTGGTTCATCCACCCACATTCTGGAAACTCTT-ATATGCAAATATGTTGTGCAT
1 CTGCAACACTGGTGGTTCATCCACCCACATTCTGGAAACT-TTCATATGCAAATATGTTGTGCAT
** *
46633922 TCACAACCATCTGGTAGCATATTAAC
65 TCACAACCATCTGACAGCGTATTAAC
*
46633948 CTACAAC
1 CTGCAAC
46633955 TTTTGTGGTT
Statistics
Matches: 155, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
90 150 0.97
91 5 0.03
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (90 bp):
CTGCAACACTGGTGGTTCATCCACCCACATTCTGGAAACTTTCATATGCAAATATGTTGTGCATT
CACAACCATCTGACAGCGTATTAAC
Found at i:46635860 original size:8 final size:8
Alignment explanation
Indices: 46635846--46635875 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
46635836 ATAAAATTTT
46635846 AATATATA
1 AATATATA
*
46635854 TATATATA
1 AATATATA
46635862 AATATATA
1 AATATATA
46635870 AATATA
1 AATATA
46635876 AAGAATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
AATATATA
Found at i:46636503 original size:25 final size:27
Alignment explanation
Indices: 46636460--46636516 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
46636450 TGAACTTGCA
*
46636460 TTTTGTTTTTTAGAAAGATAAATAT-AT
1 TTTTATTTTTTAG-AAGATAAATATCAT
*
46636487 TTTTATTTTTTAG-AGATAAATTTCAT
1 TTTTATTTTTTAGAAGATAAATATCAT
46636513 TTTT
1 TTTT
46636517 TAAAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 9 0.33
26 6 0.22
27 12 0.44
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.58
Consensus pattern (27 bp):
TTTTATTTTTTAGAAGATAAATATCAT
Found at i:46644304 original size:50 final size:50
Alignment explanation
Indices: 46644180--46644475 Score: 267
Period size: 50 Copynumber: 5.8 Consensus size: 50
46644170 GAATATAACA
* * * * ** * * * *
46644180 TGCCAAAGCTATGTCCCAAACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * **
46644229 TGCCAATGCCATATCCTAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * *
46644279 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATATAGG
* * *
46644329 TGCCAACT-CCATGT-CCAGACATGGTCTTACATGGGACCTCTAATCTCGG
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
46644378 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
*
46644434 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46644476 TTACCCAAAT
Statistics
Matches: 201, Mismatches: 34, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
49 78 0.39
50 80 0.40
51 1 0.00
53 1 0.00
56 41 0.20
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:46644353 original size:99 final size:103
Alignment explanation
Indices: 46644229--46644467 Score: 274
Period size: 99 Copynumber: 2.3 Consensus size: 103
46644219 TTTCTTGTAC
* * * ** * * *
46644229 TGCCAATGCCATATCCTAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTAATATAGGTGCCAACGCCATGTC
*
46644294 CCAGACATGGTCTTAC-GGAGGACCTCTC-ATCT-A-GG
66 CCAGACATGGTCTTACAGG-GGACCTCTCAATCTAATGA
* * *
46644329 TGCCAACT-CCATGT-CCAGACATGGTCTTACATGGGACCTCTAATCTCGGTGCCAACGCCATGT
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATGAGACCTCTAATATAGGTGCCAACGCCATGT
*
46644392 CCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
65 CCCAGACATGGTCTTACAGGGGACCTCTC--AATCT-AATGA
46644434 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
46644468 GGATCTCTTT
Statistics
Matches: 116, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
99 65 0.56
100 12 0.10
101 1 0.01
102 4 0.03
104 2 0.02
105 13 0.11
106 19 0.16
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (103 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTAATATAGGTGCCAACGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCAATCTAATGA
Found at i:46644366 original size:49 final size:50
Alignment explanation
Indices: 46644180--46644475 Score: 276
Period size: 49 Copynumber: 5.8 Consensus size: 50
46644170 GAATATAACA
* * * * ** * * * *
46644180 TGCCAAAGCTATGTCCCAAACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * ** *
46644229 TGCCAATGCCATATCCTAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* *
46644279 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTAGG
* *
46644329 TGCCAACT-CCATGT-CCAGACATGGTCTTACATGGGACCTCTAATCTCGG
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* *
46644378 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-GG
*
46644434 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46644476 TTACCCAAAT
Statistics
Matches: 202, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
49 78 0.39
50 78 0.39
51 1 0.00
53 4 0.02
56 41 0.20
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:46645958 original size:37 final size:37
Alignment explanation
Indices: 46645897--46646116 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
46645887 TACGTATGAT
* *
46645897 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
46645932 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
46645969 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
46646006 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
46646043 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
46646080 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
46646117 TAAAGCTATC
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 9 0.05
36 3 0.02
37 163 0.93
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:46646159 original size:52 final size:52
Alignment explanation
Indices: 46646080--46646296 Score: 284
Period size: 52 Copynumber: 4.2 Consensus size: 52
46646070 TAAGTGTAGC
* * *
46646080 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACT-TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
46646133 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
46646185 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
46646231 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
46646283 CACTTTGTCACTTG
1 CACTTT-TCACTTG
46646297 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 84 0.58
53 16 0.11
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:46646202 original size:46 final size:46
Alignment explanation
Indices: 46646130--46646302 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
46646120 AGCTATCACT
*
46646130 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
46646175 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
46646221 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
46646273 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
46646303 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:46646221 original size:98 final size:98
Alignment explanation
Indices: 46646079--46646302 Score: 358
Period size: 98 Copynumber: 2.3 Consensus size: 98
46646069 ATAAGTGTAG
* * * * *
46646079 CCACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
46646144 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
46646177 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
46646242 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
46646275 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
46646303 AGTACTCAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 115 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:46649256 original size:29 final size:28
Alignment explanation
Indices: 46649197--46649256 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
46649187 AATTAAAATG
* * *
46649197 AATTTCAAATAAATAATATATATATGAA
1 AATTTAAAATAAATAAAATATATATAAA
46649225 AATTTAAAATAAATCAAAATATAGT-TAAA
1 AATTTAAAATAAAT-AAAATATA-TATAAA
46649254 AAT
1 AAT
46649257 AAATACTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 13 0.48
29 13 0.48
30 1 0.04
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
AATTTAAAATAAATAAAATATATATAAA
Found at i:46656611 original size:13 final size:14
Alignment explanation
Indices: 46656588--46656617 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
46656578 ATAAATATTA
46656588 TTTATTAAATTAAT
1 TTTATTAAATTAAT
46656602 TTTATT-AATTAAT
1 TTTATTAAATTAAT
46656615 TTT
1 TTT
46656618 CCAATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTATTAAATTAAT
Found at i:46660163 original size:190 final size:190
Alignment explanation
Indices: 46659827--46660204 Score: 605
Period size: 190 Copynumber: 2.0 Consensus size: 190
46659817 GACCACTAAG
* * * *
46659827 TGCTTCTTAGAACACTAGGCCATTAGGTTACCTCTAAAAAATATACAGAACTCAATTATGGATCT
1 TGCTTCCTAGAACACTAGGCCATTAGGCTACCTCCAAAAAATATACAGAACCCAATTATGGATCT
* * *
46659892 TCTACCTTCAGGACAAGATGCCTAGTTTGCATCAGCAAAACATTCTAACTTAAGAACATTAGTTT
66 TCTACCTTCAGGACAAGATGCCCAGTTTGCATCAGCAAAACATTCTAACTTAAGAACAATAGTTC
* * * *
46659957 TTTTGTATTCCAAAGCATTGCTTAAAGTGCTTTTGAGGTATCTTAAAATCCTTTTAACCT
131 TTTTGTAATCCAAAGCATTGCTTAAAGTGCCTTTGAGATACCTTAAAATCCTTTTAACCT
* *
46660017 TGCTTCCTAGAACACTAGGCCATTAGGCTACCTCCAAAAAATATTCAGAACCCAATTGTGGATCT
1 TGCTTCCTAGAACACTAGGCCATTAGGCTACCTCCAAAAAATATACAGAACCCAATTATGGATCT
*
46660082 TCTACCTTCAGGGCAAGATGCCCAGTTTGCATCAGCAAAACATTCTAACTTAAGAACAATAGTTC
66 TCTACCTTCAGGACAAGATGCCCAGTTTGCATCAGCAAAACATTCTAACTTAAGAACAATAGTTC
*
46660147 TTTTGTACAT-CAAAGCATTGTTTAAAGTGCCTTTGAGATACCTTAAAATCCTTTTAAC
131 TTTTGTA-ATCCAAAGCATTGCTTAAAGTGCCTTTGAGATACCTTAAAATCCTTTTAAC
46660205 AGCTTGTCAG
Statistics
Matches: 172, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
190 171 0.99
191 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (190 bp):
TGCTTCCTAGAACACTAGGCCATTAGGCTACCTCCAAAAAATATACAGAACCCAATTATGGATCT
TCTACCTTCAGGACAAGATGCCCAGTTTGCATCAGCAAAACATTCTAACTTAAGAACAATAGTTC
TTTTGTAATCCAAAGCATTGCTTAAAGTGCCTTTGAGATACCTTAAAATCCTTTTAACCT
Found at i:46662894 original size:26 final size:26
Alignment explanation
Indices: 46662858--46662911 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
46662848 TCACTGCGGA
46662858 TAGTTATACATGTGATTTATTTTTCT
1 TAGTTATACATGTGATTTATTTTTCT
46662884 TAGTTATACATGTGATTTATTTTTCT
1 TAGTTATACATGTGATTTATTTTTCT
46662910 TA
1 TA
46662912 CTTCATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.07, G:0.11, T:0.57
Consensus pattern (26 bp):
TAGTTATACATGTGATTTATTTTTCT
Found at i:46675043 original size:10 final size:10
Alignment explanation
Indices: 46675015--46675071 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 10
46675005 ATGAGAAAAA
46675015 ATATATTTTT
1 ATATATTTTT
*
46675025 AT-TA-ATTT
1 ATATATTTTT
46675033 ATATATTTTT
1 ATATATTTTT
*
46675043 AAATATTTTT
1 ATATATTTTT
*
46675053 -TTTATTTTT
1 ATATATTTTT
*
46675062 ATTTATTTTT
1 ATATATTTTT
46675072 TCACGTAGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 5 0.13
9 11 0.28
10 23 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATATATTTTT
Found at i:46675058 original size:19 final size:19
Alignment explanation
Indices: 46675036--46675072 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46675026 TTAATTTATA
46675036 TATTTTTAAATATTTTTTT
1 TATTTTTAAATATTTTTTT
**
46675055 TATTTTTATTTATTTTTT
1 TATTTTTAAATATTTTTT
46675073 CACGTAGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TATTTTTAAATATTTTTTT
Found at i:46682899 original size:21 final size:21
Alignment explanation
Indices: 46682870--46682919 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
46682860 GGACCAACTC
*
46682870 TTACAAGCTTCTGTTCAGCTT
1 TTACAAGCTTCTATTCAGCTT
* *
46682891 TTACGAGCTTCTATTTAGC-T
1 TTACAAGCTTCTATTCAGCTT
46682911 TT-CAAGCTT
1 TTACAAGCTT
46682920 TTGTTGACGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 6 0.24
20 3 0.12
21 16 0.64
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (21 bp):
TTACAAGCTTCTATTCAGCTT
Found at i:46687133 original size:33 final size:33
Alignment explanation
Indices: 46687096--46687168 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
46687086 TTACATTTGA
**
46687096 GAGATTAGCGGAACTATATATATCTGAGATTGT
1 GAGATTAGAAGAACTATATATATCTGAGATTGT
*
46687129 GAGATTAGAAGAACTATATATATCTTAGATTGT
1 GAGATTAGAAGAACTATATATATCTGAGATTGT
46687162 GAGATTA
1 GAGATTA
46687169 CACGGAGTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (33 bp):
GAGATTAGAAGAACTATATATATCTGAGATTGT
Found at i:46692076 original size:47 final size:47
Alignment explanation
Indices: 46692007--46692101 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
46691997 GAGATATAAT
46692007 AGGTTTTGTGAGACAAGGTCAGAATGATTTCGGGTTCCCATATTCTG
1 AGGTTTTGTGAGACAAGGTCAGAATGATTTCGGGTTCCCATATTCTG
*
46692054 AGGTTTTGTGAGACAAGGTCAGAATGATTTCGGGTTCCCCTATTCTG
1 AGGTTTTGTGAGACAAGGTCAGAATGATTTCGGGTTCCCATATTCTG
46692101 A
1 A
46692102 CTTTGGAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (47 bp):
AGGTTTTGTGAGACAAGGTCAGAATGATTTCGGGTTCCCATATTCTG
Found at i:46694520 original size:18 final size:18
Alignment explanation
Indices: 46694497--46694533 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46694487 TAATAAACTG
46694497 TGTATAA-TAAAATTAAAA
1 TGTATAAGT-AAATTAAAA
46694515 TGTATAAGTAAATTAAAA
1 TGTATAAGTAAATTAAAA
46694533 T
1 T
46694534 AAAACTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (18 bp):
TGTATAAGTAAATTAAAA
Found at i:46707108 original size:19 final size:20
Alignment explanation
Indices: 46707076--46707118 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
46707066 AATAAAATAA
*
46707076 TTTCTGGAAAATGATTTAGT
1 TTTCTGGAAAATGATTTACT
46707096 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
46707115 TTTC
1 TTTC
46707119 GGTGTTTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:46707704 original size:48 final size:48
Alignment explanation
Indices: 46707645--46707749 Score: 203
Period size: 48 Copynumber: 2.2 Consensus size: 48
46707635 CAGCCAGCTT
46707645 CCTAGGCCCGGACACGGCCCGAAATATGGGCCCGATAATTTGTCCAAG
1 CCTAGGCCCGGACACGGCCCGAAATATGGGCCCGATAATTTGTCCAAG
46707693 CCTAGGCCCGGACACGGCCCGAAATATGGGCCCGATAATTTGTCCAAG
1 CCTAGGCCCGGACACGGCCCGAAATATGGGCCCGATAATTTGTCCAAG
46707741 CCTA-GCCCG
1 CCTAGGCCCG
46707750 AGAAAAAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 5 0.09
48 52 0.91
ACGTcount: A:0.24, C:0.33, G:0.27, T:0.16
Consensus pattern (48 bp):
CCTAGGCCCGGACACGGCCCGAAATATGGGCCCGATAATTTGTCCAAG
Found at i:46707852 original size:16 final size:16
Alignment explanation
Indices: 46707815--46707854 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
46707805 TTGATAAAAT
* *
46707815 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
46707831 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
46707847 TAAAATTA
1 TAAAATTA
46707855 TCAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:46708087 original size:16 final size:16
Alignment explanation
Indices: 46708066--46708099 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
46708056 TATATATTTT
46708066 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
46708082 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
46708098 AA
1 AA
46708100 CTAGTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:46713933 original size:25 final size:25
Alignment explanation
Indices: 46713896--46713944 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
46713886 TTTAATTTTT
*
46713896 TTTTAAAAATAATTATTTTATTATA
1 TTTTAAAAATAATAATTTTATTATA
* *
46713921 TTTTAATATTAATAATTTTATTAT
1 TTTTAAAAATAATAATTTTATTAT
46713945 TTATTTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTAAAAATAATAATTTTATTATA
Found at i:46715719 original size:22 final size:22
Alignment explanation
Indices: 46715696--46715737 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46715686 AAATTAATTA
46715696 AAAG-GATATAAGT-AAATAAAT
1 AAAGCGATATAA-TAAAATAAAT
46715717 AAAGCGATATAATAAAATAAA
1 AAAGCGATATAATAAAATAAA
46715738 CGTATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.21
Consensus pattern (22 bp):
AAAGCGATATAATAAAATAAAT
Found at i:46716454 original size:20 final size:21
Alignment explanation
Indices: 46716429--46716468 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
46716419 TCGTCTTTTA
46716429 TATATATATATATC-ATATGT
1 TATATATATATATCTATATGT
*
46716449 TATATATATTTATCTATATG
1 TATATATATATATCTATATG
46716469 CAGTTCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
TATATATATATATCTATATGT
Found at i:46717489 original size:143 final size:143
Alignment explanation
Indices: 46717173--46718180 Score: 1392
Period size: 143 Copynumber: 7.1 Consensus size: 143
46717163 TCACTTTAGG
** * * * *
46717173 GAGATAAAACTGGTGGCTTCAATCTGCTCCACTACAACTTTAGGAAGATAAGATCCACCATAATT
1 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATT
* * * * *
46717238 TGTAGCTTTAATTTATTCCACTGCAACG-CAGGGAAATAAGATCCGCTGTCTTTAGTCTGCTCCG
66 TGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCG
* * *
46717302 CCGCAACTTTAGG
131 CTGCAACTTCAGA
*
46717315 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGCCATAATT
1 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATT
* * * *
46717380 TGTAGCTTTAATCTGTTCCATTACAACGCCATGGAAATAAGATTAGTTGTCTTCAGTCTGCTCCG
66 TGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCG
*
46717445 CTGCAACTTCAAA
131 CTGCAACTTCAGA
* * * *
46717458 GAGATAAGGTTGGTGGCTTCAATTTGCTCCACTGCAACTTCAAGAAGATAAGATCCGCCATAATT
1 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATT
* * *
46717523 TGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTTCG
66 TGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCG
* * * *
46717588 GTACCACTTCAGG
131 CTGCAACTTCAGA
* * *
46717601 GAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATCCGCCACAATT
1 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATT
* * * * *
46717666 TGTAGCTTTAATTTGTTCCACTGCAATGCTAGGGAAATAAGATTTGTTGTATTCAGTCTGCTCCG
66 TGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCG
* *
46717731 CTGTAACTTCAAA
131 CTGCAACTTCAGA
* *
46717744 GTGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGAAAAGA-TCTGCCATAAT
1 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTC-GCCATAAT
* * *
46717808 TTGTAACTTTAATTTGTTCCACTGCAACGCCAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCC
65 TTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCC
* *
46717873 GCTGTAACTTCAGG
130 GCTGCAACTTCAGA
* * *
46717887 GAGATAAGGCCGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAATATTTGCCATAATT
1 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATT
* * * * *
46717952 TGTAGCTTTAATCTGTTCCACTGCAATGCTAGGGAAATAAGCTTCGATGTCTTTAGTCTGCTCCG
66 TGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCG
46718017 CTGCAACTTCAGA
131 CTGCAACTTCAGA
* * *
46718030 GAGATAAGGCCGGTGGCTTCAATCTGCTCCATTGCAACTTCAGGAAGATAAGA-TCTGTCATAAT
1 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTC-GCCATAAT
* ** *
46718094 TTGTAGCTTTAATCTGTTCCACTGCAAGGTGAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCC
65 TTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCC
*
46718159 GCTGCAACTTCAGG
130 GCTGCAACTTCAGA
*
46718173 GAAATAAG
1 GAGATAAG
46718181 ATTGTCATTT
Statistics
Matches: 770, Mismatches: 92, Indels: 7
0.89 0.11 0.01
Matches are distributed among these distances:
142 84 0.11
143 685 0.89
144 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (143 bp):
GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATT
TGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCG
CTGCAACTTCAGA
Found at i:46725889 original size:22 final size:21
Alignment explanation
Indices: 46725860--46725902 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
46725850 AAATCAATTA
46725860 AAAGGATATAAGT-AAATAAAT
1 AAAGGATATAA-TAAAATAAAT
46725881 AAAGCGATATAATAAAATAAAT
1 AAAG-GATATAATAAAATAAAT
46725903 GTATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAGGATATAATAAAATAAAT
Found at i:46727416 original size:16 final size:17
Alignment explanation
Indices: 46727397--46727429 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
46727387 AAACTCACAA
46727397 AACAAAATTCT-TTTAT
1 AACAAAATTCTCTTTAT
46727413 AACAAAATTCTCTTTAT
1 AACAAAATTCTCTTTAT
46727430 TATTTTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
AACAAAATTCTCTTTAT
Found at i:46729106 original size:20 final size:21
Alignment explanation
Indices: 46729083--46729129 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
46729073 TTCCACATCA
*
46729083 ATTTAATATTAAA-GAATAAT
1 ATTTAATATCAAACGAATAAT
** *
46729103 ATTTTCTATCAAACTAATAAT
1 ATTTAATATCAAACGAATAAT
46729124 ATTTAA
1 ATTTAA
46729130 ATATAAATTA
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTAATATCAAACGAATAAT
Found at i:46729151 original size:15 final size:16
Alignment explanation
Indices: 46729124--46729164 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
46729114 AACTAATAAT
46729124 ATTTAA-ATATAAATT-
1 ATTTAATAT-TAAATTA
*
46729139 ATTTTATATTAAATTA
1 ATTTAATATTAAATTA
46729155 ATTTAATATT
1 ATTTAATATT
46729165 TTATGATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTAATATTAAATTA
Found at i:46729166 original size:23 final size:22
Alignment explanation
Indices: 46729138--46729228 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 22
46729128 AAATATAAAT
46729138 TATTTTATATTAAATTAATTTAA
1 TATTTTATA-TAAATTAATTTAA
*
46729161 TATTTTATGATAAATTATTTTAA
1 TATTTTAT-ATAAATTAATTTAA
* **
46729184 TATTTTCTA-AAATTTGAAAATAA
1 TATTTTATATAAA-TT-AATTTAA
46729207 TATTTTATACTAAATTATATTT
1 TATTTTATA-TAAATTA-ATTT
46729229 GTAATGGCCC
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
21 3 0.06
22 3 0.06
23 40 0.74
24 5 0.09
25 3 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TATTTTATATAAATTAATTTAA
Found at i:46731627 original size:26 final size:26
Alignment explanation
Indices: 46731571--46731628 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
46731561 AAAATGGATG
* * *
46731571 AATTTGAAATAATGACACATAGAAAT
1 AATTTGAAATAATAAAACATAGAAAA
46731597 AATTTGAAATAA-AAAACATAGAAAA
1 AATTTGAAATAATAAAACATAGAAAA
46731622 ATATTTG
1 A-ATTTG
46731629 TTAAAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.28
Consensus pattern (26 bp):
AATTTGAAATAATAAAACATAGAAAA
Found at i:46731903 original size:14 final size:15
Alignment explanation
Indices: 46731875--46731907 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
46731865 AAGGTTTATA
46731875 GATTATGGAATTAGG
1 GATTATGGAATTAGG
46731890 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
46731904 GATT
1 GATT
46731908 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:46732152 original size:14 final size:13
Alignment explanation
Indices: 46732133--46732192 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 13
46732123 TAAATAAGGT
46732133 TTAGGGGTTAGTAG
1 TTAGGGGTTAG-AG
* *
46732147 TTAGGGGATAGGGG
1 TTAGGGGTTA-GAG
46732161 TTAGGGGTTAGATG
1 TTAGGGGTTAGA-G
46732175 TTAGGGGTTAGATG
1 TTAGGGGTTAGA-G
46732189 TTAG
1 TTAG
46732193 ATGTTAGAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
13 1 0.03
14 38 0.95
15 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (13 bp):
TTAGGGGTTAGAG
Found at i:46732168 original size:7 final size:7
Alignment explanation
Indices: 46732133--46732185 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
46732123 TAAATAAGGT
46732133 TTAGGGG
1 TTAGGGG
**
46732140 TTAGTAG
1 TTAGGGG
46732147 TTAGGGG
1 TTAGGGG
*
46732154 ATAGGGG
1 TTAGGGG
46732161 TTAGGGG
1 TTAGGGG
**
46732168 TTAGATG
1 TTAGGGG
46732175 TTAGGGG
1 TTAGGGG
46732182 TTAG
1 TTAG
46732186 ATGTTAGATG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:46732170 original size:21 final size:21
Alignment explanation
Indices: 46732134--46732213 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
46732124 AAATAAGGTT
* *
46732134 TAGGGGTTAGTAGTTAGGGGA
1 TAGGGGTTAGGAGTTAGAGGA
* * *
46732155 TAGGGGTTAGGGGTTAGATGT
1 TAGGGGTTAGGAGTTAGAGGA
* *
46732176 TAGGGGTTA-GATGTTAGATGT
1 TAGGGGTTAGGA-GTTAGAGGA
* *
46732197 TAGAGGTTAAGAGTTAG
1 TAGGGGTTAGGAGTTAG
46732214 TGATTTAGGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.02
21 47 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (21 bp):
TAGGGGTTAGGAGTTAGAGGA
Found at i:46732191 original size:7 final size:7
Alignment explanation
Indices: 46732167--46732205 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
46732157 GGGGTTAGGG
46732167 GTTAGAT
1 GTTAGAT
**
46732174 GTTAGGG
1 GTTAGAT
46732181 GTTAGAT
1 GTTAGAT
46732188 GTTAGAT
1 GTTAGAT
*
46732195 GTTAGAG
1 GTTAGAT
46732202 GTTA
1 GTTA
46732206 AGAGTTAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (7 bp):
GTTAGAT
Found at i:46732198 original size:14 final size:14
Alignment explanation
Indices: 46732160--46732205 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
46732150 GGGGATAGGG
*
46732160 GTTAGGGGTTAGAT
1 GTTAGAGGTTAGAT
*
46732174 GTTAGGGGTTAGAT
1 GTTAGAGGTTAGAT
* *
46732188 GTTAGATGTTAGAG
1 GTTAGAGGTTAGAT
46732202 GTTA
1 GTTA
46732206 AGAGTTAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (14 bp):
GTTAGAGGTTAGAT
Found at i:46732212 original size:14 final size:14
Alignment explanation
Indices: 46732167--46732213 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
46732157 GGGGTTAGGG
* *
46732167 GTTAGATGTTAGGG
1 GTTAGATGTTAAGA
46732181 GTTAGATGTT-AGA
1 GTTAGATGTTAAGA
*
46732194 TGTTAGAGGTTAAGA
1 -GTTAGATGTTAAGA
46732209 GTTAG
1 GTTAG
46732214 TGATTTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 1 0.04
14 24 0.86
15 3 0.11
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (14 bp):
GTTAGATGTTAAGA
Found at i:46740273 original size:10 final size:11
Alignment explanation
Indices: 46740258--46740286 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
46740248 TCCAAAGATG
46740258 TGAATTGAAT-
1 TGAATTGAATA
46740268 TGAATTGAATA
1 TGAATTGAATA
46740279 TGAATTGA
1 TGAATTGA
46740287 TGTTAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (11 bp):
TGAATTGAATA
Found at i:46740623 original size:24 final size:24
Alignment explanation
Indices: 46740596--46740653 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
46740586 CGAAAGAGTG
* *
46740596 TCCCGTTATTAGCTCTCATGTGCA
1 TCCCGTTATTAGCTCTCACGAGCA
* * *
46740620 TCCCGATATTTGGCTCTCACGAGCT
1 TCCCGTTA-TTAGCTCTCACGAGCA
46740645 TCCCGTTAT
1 TCCCGTTAT
46740654 ATGCTTCTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (24 bp):
TCCCGTTATTAGCTCTCACGAGCA
Found at i:46747138 original size:3 final size:3
Alignment explanation
Indices: 46747132--46747157 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46747122 CATCATCATC
46747132 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
46747158 ACTCCTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:46747583 original size:31 final size:32
Alignment explanation
Indices: 46747544--46747616 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
46747534 TAATTTTTAG
46747544 AGGA-TGATTAATAC-AAT-CATTGAAGAAATT
1 AGGATTGATTAATACAAATAC-TTGAAGAAATT
46747574 AGGATTGATTAATACAAATACTTGAAGAAATT
1 AGGATTGATTAATACAAATACTTGAAGAAATT
*
46747606 AAGATTGATTA
1 AGGATTGATTA
46747617 GAAATTTAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 4 0.10
31 10 0.26
32 24 0.62
33 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.32
Consensus pattern (32 bp):
AGGATTGATTAATACAAATACTTGAAGAAATT
Found at i:46749544 original size:31 final size:31
Alignment explanation
Indices: 46749506--46749567 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
46749496 GGATGCAATG
46749506 ATTGCTTATAAATCCTTTCATAAGCTTTTCT
1 ATTGCTTATAAATCCTTTCATAAGCTTTTCT
46749537 ATTGCTTATAAATCCTTTCATAAGCTTTTCT
1 ATTGCTTATAAATCCTTTCATAAGCTTTTCT
46749568 GTTTAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (31 bp):
ATTGCTTATAAATCCTTTCATAAGCTTTTCT
Found at i:46755304 original size:11 final size:10
Alignment explanation
Indices: 46755264--46755316 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
46755254 GGCCCATTTT
46755264 TATTTTAAAA
1 TATTTTAAAA
*
46755274 TTTTTTTAAAA
1 -TATTTTAAAA
*
46755285 T-TTTAAAAA
1 TATTTTAAAA
46755294 GTATTTTAAAAA
1 -TATTTT-AAAA
46755306 TATTTTAAAA
1 TATTTTAAAA
46755316 T
1 T
46755317 TAAAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
9 7 0.19
10 7 0.19
11 18 0.50
12 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:46755333 original size:28 final size:29
Alignment explanation
Indices: 46755301--46755373 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
46755291 AAAGTATTTT
46755301 AAAAA-TATTTTAAAATTAAAAAAAATT-A
1 AAAAAGTATTTTAAAATT-AAAAAAATTAA
46755329 AAAAAGTATTTTAAAATTAAAAAAATTAA
1 AAAAAGTATTTTAAAATTAAAAAAATTAA
46755358 AAAAAGTATTTTAAAA
1 AAAAAGTATTTTAAAA
46755374 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
28 14 0.33
29 29 0.67
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAAAGTATTTTAAAATTAAAAAAATTAA
Found at i:46755340 original size:40 final size:40
Alignment explanation
Indices: 46755289--46755434 Score: 140
Period size: 40 Copynumber: 3.9 Consensus size: 40
46755279 TTAAAATTTT
46755289 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTA
46755329 AAAAAG-----------TATTTTAAAATT-AAAAAAATTAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATT-A
46755358 AAAAAGTATTTTAAAAATAT-TT-TAAAATTTAAAAAAAATTA
1 AAAAAGTATTTT-AAAA-ATATTTTAAAA-TTAAAAAAAATTA
* *
46755399 AAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA
46755435 TAAATATATT
Statistics
Matches: 86, Mismatches: 2, Indels: 36
0.69 0.02 0.29
Matches are distributed among these distances:
28 9 0.10
29 19 0.22
39 2 0.02
40 26 0.30
41 20 0.23
42 10 0.12
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (40 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTA
Found at i:46755352 original size:8 final size:9
Alignment explanation
Indices: 46755312--46755362 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
46755302 AAAATATTTT
46755312 AAAATTAAAA
1 AAAATT-AAA
46755322 AAAATTAAA
1 AAAATTAAA
**
46755331 AAAGTATT-TT
1 AAA--ATTAAA
46755341 AAAATTAAA
1 AAAATTAAA
46755350 AAAATTAAA
1 AAAATTAAA
46755359 AAAA
1 AAAA
46755363 GTATTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
8 3 0.09
9 19 0.56
10 9 0.26
11 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (9 bp):
AAAATTAAA
Found at i:46755425 original size:11 final size:11
Alignment explanation
Indices: 46755264--46755315 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
46755254 GGCCCATTTT
46755264 TATTTT-AAAA
1 TATTTTAAAAA
**
46755274 T-TTTTTTAAA
1 TATTTTAAAAA
46755284 -ATTTTAAAAA
1 TATTTTAAAAA
46755294 GTATTTTAAAAA
1 -TATTTTAAAAA
46755306 TATTTTAAAA
1 TATTTTAAAA
46755316 TTAAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 4 0.11
10 11 0.31
11 10 0.29
12 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:46755693 original size:10 final size:9
Alignment explanation
Indices: 46755669--46755704 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
46755659 TTTATTATAT
46755669 AATTTTTAG
1 AATTTTTAG
46755678 AATTTTTAG
1 AATTTTTAG
46755687 AATTTTTATG
1 AATTTTTA-G
46755697 AATTTTTA
1 AATTTTTA
46755705 ATTAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (9 bp):
AATTTTTAG
Found at i:46755699 original size:19 final size:18
Alignment explanation
Indices: 46755669--46755704 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
46755659 TTTATTATAT
46755669 AATTTTTAGAATTTTTAG
1 AATTTTTAGAATTTTTAG
46755687 AATTTTTATGAATTTTTA
1 AATTTTTA-GAATTTTTA
46755705 ATTAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (18 bp):
AATTTTTAGAATTTTTAG
Found at i:46755822 original size:20 final size:21
Alignment explanation
Indices: 46755768--46755823 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
46755758 TTAAATTGAA
*
46755768 TTTTTAGACATTTTTAAGATTC
1 TTTTTA-ATATTTTTAAGATTC
* *
46755790 TTTTTTATGTTTTT-AGATT-
1 TTTTTAATATTTTTAAGATTC
46755809 TTTTTAATAATTTTT
1 TTTTTAAT-ATTTTT
46755824 CCAGAATCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 7 0.25
20 10 0.36
21 6 0.21
22 5 0.18
ACGTcount: A:0.23, C:0.04, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTTTAATATTTTTAAGATTC
Found at i:46756933 original size:23 final size:24
Alignment explanation
Indices: 46756898--46756947 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
46756888 GAAACAATAT
*
46756898 AAAAAATACACAAAAATAACAACA
1 AAAAAATACACAAAAACAACAACA
* *
46756922 AAAAAATA-ACAATAACAACACCA
1 AAAAAATACACAAAAACAACAACA
46756945 AAA
1 AAA
46756948 CACTAGGAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.74, C:0.18, G:0.00, T:0.08
Consensus pattern (24 bp):
AAAAAATACACAAAAACAACAACA
Found at i:46758023 original size:19 final size:20
Alignment explanation
Indices: 46757999--46758038 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
46757989 GTTTTTGTAT
*
46757999 TTTTAAGTAATATA-ATTTA
1 TTTTAAATAATATATATTTA
*
46758018 TTTTAAATATTATATATTTA
1 TTTTAAATAATATATATTTA
46758038 T
1 T
46758039 ATATAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTAAATAATATATATTTA
Found at i:46759761 original size:31 final size:31
Alignment explanation
Indices: 46759668--46759763 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
46759658 GGCAAATTAC
*
46759668 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
46759699 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
46759731 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
46759762 AA
1 AA
46759764 ATTATCTAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:46760593 original size:31 final size:31
Alignment explanation
Indices: 46760500--46760595 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
46760490 GGCAAATTAC
*
46760500 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
46760531 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
46760563 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
46760594 AA
1 AA
46760596 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:46760878 original size:832 final size:833
Alignment explanation
Indices: 46759270--46760930 Score: 3207
Period size: 832 Copynumber: 2.0 Consensus size: 833
46759260 GGGCACACGG
* *
46759270 CTGATGCGGAATCCCCGATCTAGACACAAGAGAATCACAAATTAGAAATAAAACGAGAATAAAAT
1 CTGATGCGGAATCCCCGATCTAGACACAAGAGAAACACAAATTAGAAATAAAACAAGAATAAAAT
46759335 TAGTTAAATAATAAATAAATAAATAAATAAAAAGGATAGATTTGCCCTATGGAACCCTTGGTTAA
66 TAGTTAAATAATAAATAAATAAATAAATAAAAAGGATAGATTTGCCCTATGGAACCCTTGGTTAA
46759400 CTTGTAACCAAAAACGCCAATGATTGAGCGGCTCCCTACGAAACCCCTAGAAGAAGAACCTCTAG
131 CTTGTAACCAAAAACGCCAATGATTGAGCGGCTCCCTACGAAACCCCTAGAAGAAGAACCTCTAG
* * *
46759465 AAACACCGATGAATAGGAAAGAAATTTGAATATTTGCAACTCTGAAATACCCTCGAAAGTAACAA
196 AAACACCGATCAACAGGAAAGAAATTTGAATATTTGCAACTCCGAAATACCCTCGAAAGTAACAA
* *
46759530 ACTCCAAACTAAATAGCAAGAGAAGAATCACTCTACTTTAAAAAAATTTGCTTCACACAAATTTG
261 ACTCCAAACTAAATAGCAAGAGAAGAATCACTCTACTCTAAAAAAATTTGCCTCACACAAATTTG
46759595 AAAGAAAACAAATACTCTTCTTTTTATTCCTCCCTCAATGTGTAGAAAACAAGCCTATTTATAGG
326 AAAGAAAACAAATACTCTTCTTTTTATTCCTCCCTCAATGTGTAGAAAACAAGCCTATTTATAGG
46759660 CAAATTACAAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAAC
391 CAAATTACAAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAAC
46759725 TCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTTAAAATTATCTAAAAAAATAAATAAATAAT
456 TCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTTAAAATTATCTAAAAAAATAAATAAATAAT
46759790 AACCTAACCAATAAAATTACTTAACTCATAAATGATGTGTCCCAACCAATGAGAATTAAGTAAAT
521 AACCTAACCAATAAAATTACTTAACTCATAAATGATGTGTCCCAACCAATGAGAATTAAGTAAAT
46759855 AATAATAATAATAAGATACATAAAAAATTAATCCACCAATTTATGGGCTTTTACTATTCCAAGAT
586 AATAATAATAATAAGATACATAAAAAATTAATCCACCAATTTATGGGCTTTTACTATTCCAAGAT
46759920 TGGTCCAGTGAATTGCATTCCCGTATTTATCAATGTCACGAACATGATGAATTAAATTTGTCGCA
651 TGGTCCAGTGAATTGCATTCCCGTATTTATCAATGTCACGAACATGATGAATTAAATTTGTCGCA
* *
46759985 ACAAAGTCTTGGACAAAAGCATTCATCTTTGATTTTAATTGTCGTGCCTTGCTTTGAGTGATTGG
716 ACAAAGTCTTGGACAAAAGCATTCATCTTTGATTTTAATTGGCGTGCCTTGCTTCGAGTGATTGG
46760050 ACCACTAGGAAAGACAACCCTTTGAGTGTCACCTCCTTGGCTCGTATCATCAA
781 ACCACTAGGAAAGACAACCCTTTGAGTGTCACCTCCTTGGCTCGTATCATCAA
*
46760103 CTGATGCGGAATCCCGGATCTAGACACAAGAGAAACACAAATTAGAAATAAAACAAGAATAAAAT
1 CTGATGCGGAATCCCCGATCTAGACACAAGAGAAACACAAATTAGAAATAAAACAAGAATAAAAT
46760168 TAGTTAAATAATAAATAAATAAATAAATAAAAAGGATAGATTTGCCCTATGGAACCCTTGGTTAA
66 TAGTTAAATAATAAATAAATAAATAAATAAAAAGGATAGATTTGCCCTATGGAACCCTTGGTTAA
46760233 CTTGTAACCAAAAACGCCAATGATTGAGCGGCTCCCTACGAAACCCCTAGAAGAAGAACCTCTAG
131 CTTGTAACCAAAAACGCCAATGATTGAGCGGCTCCCTACGAAACCCCTAGAAGAAGAACCTCTAG
*
46760298 AAACACCGATCAACGGGAAAGAAATTTGAATATTTGCAACTCCGAAATACCCTCGAAAGTAACAA
196 AAACACCGATCAACAGGAAAGAAATTTGAATATTTGCAACTCCGAAATACCCTCGAAAGTAACAA
46760363 ACTCCAAACTAAATAGCAAGAGAAGAATCACTCTACTCTAAAAAAATTTGCCTCACACAAATTTG
261 ACTCCAAACTAAATAGCAAGAGAAGAATCACTCTACTCTAAAAAAATTTGCCTCACACAAATTTG
46760428 AAAGAAAACAAATACTCTTC-TTTTATTCCTCCCTCAATGTGTAGAAAACAAGCCTATTTATAGG
326 AAAGAAAACAAATACTCTTCTTTTTATTCCTCCCTCAATGTGTAGAAAACAAGCCTATTTATAGG
46760492 CAAATTACAAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAAC
391 CAAATTACAAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAAC
*
46760557 TCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTTAAAATTATCTAAGAAAATAAATAAATAAT
456 TCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTTAAAATTATCTAAAAAAATAAATAAATAAT
46760622 AACCTAACCAATAAAATTACTTAACTCATAAATGATGTGTCCCAACCAATGAGAATTAAGTAAAT
521 AACCTAACCAATAAAATTACTTAACTCATAAATGATGTGTCCCAACCAATGAGAATTAAGTAAAT
46760687 AATAATAATAATAAGATACATAAAAAATTAATCCACCAATTTATGGGCTTTTACTATTCCAAGAT
586 AATAATAATAATAAGATACATAAAAAATTAATCCACCAATTTATGGGCTTTTACTATTCCAAGAT
46760752 TGGTCCAGTGAATTGCATTCCCGTATTTATCAATGTCACGAACATGATGAATTAAATTTGTCGCA
651 TGGTCCAGTGAATTGCATTCCCGTATTTATCAATGTCACGAACATGATGAATTAAATTTGTCGCA
46760817 ACAAAGTCTTGGACAAAAGCATTCATCTTTGATTTTAATTGGCGTGCCTTGCTTCGAGTGATTGG
716 ACAAAGTCTTGGACAAAAGCATTCATCTTTGATTTTAATTGGCGTGCCTTGCTTCGAGTGATTGG
46760882 ACCACTAGGAAAGACAACCCTTTGAGTGTCACCTCCTTGGCTCGTATCA
781 ACCACTAGGAAAGACAACCCTTTGAGTGTCACCTCCTTGGCTCGTATCA
46760931 ACGGCTGTGT
Statistics
Matches: 816, Mismatches: 12, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
832 480 0.59
833 336 0.41
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.27
Consensus pattern (833 bp):
CTGATGCGGAATCCCCGATCTAGACACAAGAGAAACACAAATTAGAAATAAAACAAGAATAAAAT
TAGTTAAATAATAAATAAATAAATAAATAAAAAGGATAGATTTGCCCTATGGAACCCTTGGTTAA
CTTGTAACCAAAAACGCCAATGATTGAGCGGCTCCCTACGAAACCCCTAGAAGAAGAACCTCTAG
AAACACCGATCAACAGGAAAGAAATTTGAATATTTGCAACTCCGAAATACCCTCGAAAGTAACAA
ACTCCAAACTAAATAGCAAGAGAAGAATCACTCTACTCTAAAAAAATTTGCCTCACACAAATTTG
AAAGAAAACAAATACTCTTCTTTTTATTCCTCCCTCAATGTGTAGAAAACAAGCCTATTTATAGG
CAAATTACAAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAAC
TCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTTAAAATTATCTAAAAAAATAAATAAATAAT
AACCTAACCAATAAAATTACTTAACTCATAAATGATGTGTCCCAACCAATGAGAATTAAGTAAAT
AATAATAATAATAAGATACATAAAAAATTAATCCACCAATTTATGGGCTTTTACTATTCCAAGAT
TGGTCCAGTGAATTGCATTCCCGTATTTATCAATGTCACGAACATGATGAATTAAATTTGTCGCA
ACAAAGTCTTGGACAAAAGCATTCATCTTTGATTTTAATTGGCGTGCCTTGCTTCGAGTGATTGG
ACCACTAGGAAAGACAACCCTTTGAGTGTCACCTCCTTGGCTCGTATCATCAA
Found at i:46773236 original size:36 final size:37
Alignment explanation
Indices: 46773163--46773236 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 37
46773153 AGACCGAAGA
* * *
46773163 TTTGGGAATTTGGAGTTGTTGAAATGAATTGGGGAAT
1 TTTGGGAATTAGGAGTTGCTGAAATGAATTGGAGAAT
*
46773200 TTTGGTAATTAGG-GTTGCTGAAATGAATAT-GAGAAT
1 TTTGGGAATTAGGAGTTGCTGAAATGAAT-TGGAGAAT
46773236 T
1 T
46773237 GTCATGTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 20 0.62
37 12 0.38
ACGTcount: A:0.30, C:0.01, G:0.31, T:0.38
Consensus pattern (37 bp):
TTTGGGAATTAGGAGTTGCTGAAATGAATTGGAGAAT
Found at i:46777731 original size:19 final size:20
Alignment explanation
Indices: 46777701--46777740 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
46777691 TAAATTTTAA
46777701 AAATTAATTTAAAAAAATAT
1 AAATTAATTTAAAAAAATAT
*
46777721 AAATTAA-TTAAAAAAGTAT
1 AAATTAATTTAAAAAAATAT
46777740 A
1 A
46777741 CATTTTTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATTAATTTAAAAAAATAT
Found at i:46777824 original size:26 final size:27
Alignment explanation
Indices: 46777769--46777827 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
46777759 TGAACCTTGA
* * *
46777769 TTAAAATTTATATATATTTTTATTTTT
1 TTAAAATTTATATAAATTTTTATCTAT
*
46777796 TTAAAATTTTTA-AAATTTTTATCTAT
1 TTAAAATTTATATAAATTTTTATCTAT
46777822 TTAAAA
1 TTAAAA
46777828 ACGGTCACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TTAAAATTTATATAAATTTTTATCTAT
Found at i:46779832 original size:3 final size:3
Alignment explanation
Indices: 46779824--46779851 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
46779814 CTGCTTTTGA
46779824 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
46779852 CCTGCATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:46785543 original size:43 final size:41
Alignment explanation
Indices: 46785483--46785639 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 41
46785473 TATGTATTTT
46785483 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTATA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TTGTG-ATA
* * *
46785526 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGATT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTGATA
* *
46785567 TGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT-TGTGA-TA
* * *
46785610 CATGTAAGACCACGTCTGAGACGTTAGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
46785640 TGTACGAGCC
Statistics
Matches: 93, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 6 0.06
43 54 0.58
44 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTGTGATA
Found at i:46785829 original size:16 final size:17
Alignment explanation
Indices: 46785800--46785831 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46785790 TGAATTGATG
46785800 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
46785817 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
46785832 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:46793186 original size:41 final size:41
Alignment explanation
Indices: 46793083--46793241 Score: 135
Period size: 43 Copynumber: 3.8 Consensus size: 41
46793073 AATATGTATT
* *
46793083 TTCGTGTAAGACTAC-GTCTGGGACGTTGGCATCG-ACTTGTGTA
1 TTCGTGTAAGAC-CCTGTCTGGGACATTGGCATCGTA-TT-TG-A
* *
46793126 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTCGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGA
* * * *
46793167 TTTGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATGTGA
1 TTCGTGTAAGACCCTGTCTGGGACATTGGCATCG-TATTTGA
* * *
46793209 TTACATGTAAGACCAC-GTCTGAGACATTAGCAT
1 TT-CGTGTAAGACC-CTGTCTGGGACATTGGCAT
46793242 TGTACGAGCC
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 30 0.32
42 10 0.11
43 53 0.56
44 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (41 bp):
TTCGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGA
Found at i:46793431 original size:16 final size:17
Alignment explanation
Indices: 46793402--46793433 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46793392 TGAATTGATG
46793402 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
46793419 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
46793434 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:46796135 original size:26 final size:26
Alignment explanation
Indices: 46796105--46796155 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
46796095 ACCAATGAAC
*
46796105 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
46796131 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
46796156 CTTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:46796162 original size:104 final size:104
Alignment explanation
Indices: 46795968--46796234 Score: 430
Period size: 104 Copynumber: 2.6 Consensus size: 104
46795958 TAACCGTTAT
* **
46795968 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46796033 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
46796072 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46796136 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* * **
46796176 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAACACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46796235 TTATATACAA
Statistics
Matches: 152, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
103 25 0.16
104 126 0.83
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:46796596 original size:30 final size:29
Alignment explanation
Indices: 46796562--46796626 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46796552 TAATCCACCA
46796562 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
46796592 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
46796622 CCCAA
1 CCCAA
46796627 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:46796600 original size:31 final size:30
Alignment explanation
Indices: 46796569--46796626 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46796559 CCACCCAACT
46796569 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
46796599 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
46796627 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:46801411 original size:104 final size:105
Alignment explanation
Indices: 46801231--46801498 Score: 441
Period size: 104 Copynumber: 2.6 Consensus size: 105
46801221 TAACCGTTAT
* **
46801231 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46801296 AATCAGCACATAGCAACCCCC-CTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTCTTCACATTTCAAAGATA
*
46801335 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
46801400 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTCTTCACATTTCAAAGATA
* **
46801440 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46801499 TTATATACAA
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 82 0.54
105 70 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTCTTCACATTTCAAAGATA
Found at i:46801860 original size:30 final size:29
Alignment explanation
Indices: 46801826--46801890 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46801816 TAATCCACCA
46801826 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
46801856 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
46801886 CCCAA
1 CCCAA
46801891 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:46801864 original size:31 final size:30
Alignment explanation
Indices: 46801833--46801890 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46801823 CCACCCAACT
46801833 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
46801863 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
46801891 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:46806103 original size:21 final size:21
Alignment explanation
Indices: 46806042--46806108 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
46806032 ATGGTTAATT
46806042 TGAAGCTCAAAAGAGCTAAAC
1 TGAAGCTCAAAAGAGCTAAAC
* ** * *
46806063 TGCAA-CCCGGAAGGGTTAAAC
1 TG-AAGCTCAAAAGAGCTAAAC
* *
46806084 TGAAGCTCATAAGAGCTAAAA
1 TGAAGCTCAAAAGAGCTAAAC
46806105 TGAA
1 TGAA
46806109 AAAAAACACG
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.16
Consensus pattern (21 bp):
TGAAGCTCAAAAGAGCTAAAC
Found at i:46813811 original size:59 final size:59
Alignment explanation
Indices: 46813706--46813819 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 59
46813696 TAGGCACTCA
* * * * * *
46813706 AACTTTCAGTAGAATCTAGAGATTATATCTCACCGAGGACAGTATCAAATTTATTAAAG
1 AACTTTCAATAGAATCTAGAGATTAAATCTCACCAAAGACAATATCAAACTTATTAAAG
*
46813765 AACTTTCAATATAATCTAGAGATTAAA-CTCTACCAAAGACAATATCAAACTTATT
1 AACTTTCAATAGAATCTAGAGATTAAATCTC-ACCAAAGACAATATCAAACTTATT
46813820 GAACGACACT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 3 0.06
59 44 0.94
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (59 bp):
AACTTTCAATAGAATCTAGAGATTAAATCTCACCAAAGACAATATCAAACTTATTAAAG
Found at i:46814570 original size:21 final size:21
Alignment explanation
Indices: 46814544--46814584 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46814534 TTTGACTATG
* *
46814544 CTTTCTTCTTCCTTTCTAATT
1 CTTTCTTCTACCTTTATAATT
46814565 CTTTCTTCTACCTTTATAAT
1 CTTTCTTCTACCTTTATAAT
46814585 GTTTAACGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.59
Consensus pattern (21 bp):
CTTTCTTCTACCTTTATAATT
Found at i:46815169 original size:21 final size:21
Alignment explanation
Indices: 46815130--46815170 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46815120 CGTTTAACCA
*
46815130 ATTCAAAACATGATCAAATAT
1 ATTCAAAACATGATAAAATAT
*
46815151 ATTCAAAACATGCTAAAATA
1 ATTCAAAACATGATAAAATA
46815171 ATCATCCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.27
Consensus pattern (21 bp):
ATTCAAAACATGATAAAATAT
Found at i:46816196 original size:11 final size:11
Alignment explanation
Indices: 46816140--46816244 Score: 64
Period size: 11 Copynumber: 9.9 Consensus size: 11
46816130 ATTTTTTTAA
*
46816140 TTTTAAAATAC
1 TTTTAAAATAT
46816151 TTTTAAAATACTTT
1 TTTTAAAATA---T
46816165 TTTTAAAA-AT
1 TTTTAAAATAT
*
46816175 TTTT----TAA
1 TTTTAAAATAT
46816182 TTTTAAAATAT
1 TTTTAAAATAT
46816193 TTTTAAAATACT
1 TTTTAAAATA-T
**
46816205 TTTTTTAAT-T
1 TTTTAAAATAT
**
46816215 TTTTTTAA-A-
1 TTTTAAAATAT
46816224 TTTTAAAATAT
1 TTTTAAAATAT
46816235 TTTTAAAATA
1 TTTTAAAATA
46816245 AATTTTTTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 24
0.71 0.07 0.23
Matches are distributed among these distances:
7 5 0.07
9 6 0.08
10 15 0.20
11 32 0.43
12 8 0.11
13 1 0.01
14 8 0.11
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:46816260 original size:42 final size:40
Alignment explanation
Indices: 46816124--46816260 Score: 195
Period size: 42 Copynumber: 3.3 Consensus size: 40
46816114 AATATTTTTA
*
46816124 TTTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
*
46816163 TTTTTTAAAAATTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTT--AATTTTTTTAATTTTAAAATATTTTTAAAATACT
*
46816205 TTTTTTAATTTTTTTTAAATTTTAAAATATTTTTAAAATAAAT
1 TTTTTTAA-TTTTTTT-AATTTTAAAATATTTTTAAAAT-ACT
46816248 TTTTTTAATTTTT
1 TTTTTTAATTTTT
46816261 AAAATAAATT
Statistics
Matches: 88, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
39 6 0.07
40 2 0.02
41 6 0.07
42 64 0.73
43 10 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:46816280 original size:22 final size:21
Alignment explanation
Indices: 46816232--46816280 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
46816222 AATTTTAAAA
*
46816232 TATTTTTAAAATAAATTTTTT
1 TATTTTTAAAATAAATTTTTG
46816253 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
46816276 TATTT
1 TATTT
46816281 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:46816798 original size:20 final size:20
Alignment explanation
Indices: 46816773--46816814 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46816763 TCATATCTGA
46816773 AATATATATAA-TTTTTTATT
1 AATATATATAAGTTTTTT-TT
*
46816793 AATATATGTAAGTTTTTTTT
1 AATATATATAAGTTTTTTTT
46816813 AA
1 AA
46816815 GTTACAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AATATATATAAGTTTTTTTT
Found at i:46817185 original size:12 final size:12
Alignment explanation
Indices: 46817168--46817192 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46817158 TTAATTTTTC
46817168 ACATACATATAT
1 ACATACATATAT
46817180 ACATACATATAT
1 ACATACATATAT
46817192 A
1 A
46817193 TATTAAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ACATACATATAT
Found at i:46817781 original size:3 final size:3
Alignment explanation
Indices: 46817775--46817845 Score: 83
Period size: 3 Copynumber: 23.7 Consensus size: 3
46817765 TATTTAGCTA
46817775 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATCT -TT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * *
46817820 AAT ATT -TAT GTT ATT ATT ATC ATT AT
1 ATT ATT AT-T ATT ATT ATT ATT ATT AT
46817846 GTTTCCATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.03
3 55 0.93
4 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:46817857 original size:24 final size:22
Alignment explanation
Indices: 46817785--46817874 Score: 69
Period size: 24 Copynumber: 3.9 Consensus size: 22
46817775 ATTATTATTA
*
46817785 TTATTATTATTATTATTATC-T
1 TTATTATTATTATTATTTTCAT
46817806 TTATTATTATTATTAATATTT-AT
1 TTATTATTATTATT-AT-TTTCAT
*
46817829 GTTATTATTATCATTATGTTTCCAT
1 -TTATTATTATTATTAT-TTT-CAT
46817854 TTA-TATTTACTTATGTATTTT
1 TTATTA-TTA-TTAT-TATTTT
46817875 TTTAAATATA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
21 14 0.25
22 2 0.04
23 10 0.18
24 19 0.34
25 8 0.14
26 3 0.05
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (22 bp):
TTATTATTATTATTATTTTCAT
Found at i:46818694 original size:109 final size:109
Alignment explanation
Indices: 46818492--46819003 Score: 792
Period size: 109 Copynumber: 4.7 Consensus size: 109
46818482 TCAAAAAAGG
*
46818492 AAAATTTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
46818557 GGGTGTTGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* *
46818602 AAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
46818667 GGTGTCGATTTTTCTCGTTCAACCAAATGGTTAAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* *
46818711 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAATGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
46818776 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCTTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* * * *
46818820 AAAATTTTTAAAATAAGGAAATGTTTTACTTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * *
46818885 GGTGTCGATTTTTTTCATTCAATCAAATGGCTAAATATTCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* * * * * *
46818929 AAAAATTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
46818993 GGTTTCGATTT
66 GGTGTCGATTT
46819004 CTCGATTGAC
Statistics
Matches: 370, Mismatches: 32, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
108 28 0.08
109 312 0.84
110 30 0.08
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (109 bp):
AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
Found at i:46823208 original size:42 final size:42
Alignment explanation
Indices: 46823070--46823258 Score: 224
Period size: 42 Copynumber: 4.5 Consensus size: 42
46823060 TTTAAACAGA
* * * ***
46823070 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAA
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* * * *
46823111 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
46823152 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
46823194 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* *
46823236 TTCACTGGCAATAAGCCTGCTAG
1 TTCACCGGCATTAAGCCTGCTAG
46823259 GCGCTAAGCC
Statistics
Matches: 130, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 2 0.02
41 61 0.47
42 67 0.52
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:46824237 original size:4 final size:4
Alignment explanation
Indices: 46824228--46824267 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
46824218 TACAATAGAT
46824228 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
46824268 TGATTTGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:46830098 original size:14 final size:13
Alignment explanation
Indices: 46830069--46830112 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
46830059 TATTTACAAA
46830069 TTTAAATTTTAGTT
1 TTTAAATTTTA-TT
46830083 TTTAAATTTTTATT
1 TTTAAA-TTTTATT
*
46830097 TTCTAAAATTTATT
1 TT-TAAATTTTATT
46830111 TT
1 TT
46830113 GATATGGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (13 bp):
TTTAAATTTTATT
Found at i:46830391 original size:10 final size:10
Alignment explanation
Indices: 46830376--46830417 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
46830366 TTATATTCAC
46830376 AATAATTTTT
1 AATAATTTTT
46830386 AATAATTTATT
1 AATAATTT-TT
*
46830397 -ATAATTCTT
1 AATAATTTTT
*
46830406 AACAATTTTT
1 AATAATTTTT
46830416 AA
1 AA
46830418 ATATTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (10 bp):
AATAATTTTT
Found at i:46838165 original size:29 final size:30
Alignment explanation
Indices: 46838106--46838163 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46838096 TCCGAGCCTT
*
46838106 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
46838136 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
46838164 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:46838394 original size:13 final size:13
Alignment explanation
Indices: 46838376--46838406 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
46838366 TTCCAGCAAC
46838376 TATGAATTTATTT
1 TATGAATTTATTT
46838389 TATGAATTTATTT
1 TATGAATTTATTT
*
46838402 GATGA
1 TATGA
46838407 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:46838599 original size:49 final size:50
Alignment explanation
Indices: 46838501--46838692 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
46838491 ATTTGGGTAA
*
46838501 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
46838551 AGAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
46838600 AAAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
46838650 AGAACATCCCAAGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46838693 TGTTATTATC
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
49 45 0.36
50 46 0.37
51 33 0.27
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:46840289 original size:21 final size:19
Alignment explanation
Indices: 46840249--46840296 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
46840239 ATTCATTCAC
* *
46840249 AATCAAATATATATATCTA
1 AATCAAATATATAAACCTA
46840268 AATCAAATATATAAAAACCTA
1 AATCAAATATAT--AAACCTA
46840289 AAT-AAATA
1 AATCAAATA
46840297 AACACCGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 12 0.48
20 5 0.20
21 8 0.32
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AATCAAATATATAAACCTA
Found at i:46841731 original size:16 final size:17
Alignment explanation
Indices: 46841699--46841732 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
46841689 ACTTTAACAT
46841699 GATGTTGAATATCTTTG
1 GATGTTGAATATCTTTG
46841716 GATGTTGAAT-TCTTTG
1 GATGTTGAATATCTTTG
46841732 G
1 G
46841733 GAAATGTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (17 bp):
GATGTTGAATATCTTTG
Found at i:46849013 original size:16 final size:16
Alignment explanation
Indices: 46848992--46849024 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46848982 TTCGCTGTAT
*
46848992 TGGAATAGAGGCGTAA
1 TGGAATAGAAGCGTAA
46849008 TGGAATAGAAGCGTAA
1 TGGAATAGAAGCGTAA
46849024 T
1 T
46849025 AGCAAATCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAAGCGTAA
Found at i:46849396 original size:16 final size:16
Alignment explanation
Indices: 46849352--46849398 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
46849342 TACTATAAAA
46849352 TATAATTTAAAATA-AT
1 TATAA-TTAAAATATAT
*
46849368 TATTATT-AAATATAT
1 TATAATTAAAATATAT
46849383 TATAATTAAAATATAT
1 TATAATTAAAATATAT
46849399 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 5 0.19
15 10 0.37
16 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:46849454 original size:119 final size:120
Alignment explanation
Indices: 46849237--46849771 Score: 887
Period size: 120 Copynumber: 4.5 Consensus size: 120
46849227 ATTTAATCAT
*
46849237 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT-TTAATA
1 ATTTAAA-ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
46849301 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
46849356 ATTTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
46849421 TCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* * *
46849475 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAAA
1 ATTTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
46849540 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* * *
46849595 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTAA
1 ATTTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
46849660 TCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* * * * * *
46849715 ATTTGAAGTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
46849772 TAAAATAATT
Statistics
Matches: 394, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
118 49 0.12
119 135 0.34
120 210 0.53
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:46849515 original size:16 final size:16
Alignment explanation
Indices: 46849471--46849517 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
46849461 TACTATAAAA
*
46849471 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
46849487 TATTATT-AAATATAT
1 TATAATTAAAATATAT
46849502 TATAATTAAAATATAT
1 TATAATTAAAATATAT
46849518 AATTTAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:46849637 original size:18 final size:17
Alignment explanation
Indices: 46849616--46849650 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46849606 TTATTATTAA
*
46849616 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46849634 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46849651 TCTTAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46849663 original size:239 final size:239
Alignment explanation
Indices: 46849237--46849776 Score: 890
Period size: 239 Copynumber: 2.3 Consensus size: 239
46849227 ATTTAATCAT
* *
46849237 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAATAA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAAAAA
*
46849302 TCAATATCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAAAATAA
66 TCAATATCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAAATAA
*
46849367 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATA-TCTT
131 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATTCTT
*
46849431 ATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
196 ATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
*
46849475 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT-TTAAAA
* *
46849539 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAACAT
65 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAAAT
* *
46849604 AATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTAATCAAAATTC
129 AATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATTC
46849669 TTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
194 TTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * * * * *
46849715 ATTTGAA-GTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAA-TTTAAAA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAAAA
46849777 TAATTATAAC
Statistics
Matches: 282, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
237 51 0.18
238 21 0.07
239 115 0.41
240 93 0.33
241 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (239 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAAAAA
TCAATATCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAAATAA
TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATTCTT
ATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
Found at i:46849667 original size:16 final size:15
Alignment explanation
Indices: 46849642--46849671 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46849632 ATATATAATT
46849642 TAATAAAATTCTTAG
1 TAATAAAATTCTTAG
46849657 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
46849672 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAG
Found at i:46849822 original size:47 final size:46
Alignment explanation
Indices: 46849753--46850011 Score: 184
Period size: 47 Copynumber: 5.7 Consensus size: 46
46849743 TTAATTAAAA
*
46849753 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
46849800 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
46849845 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
46849891 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
46849936 TA-AT-AATGATATATAATTTCATAAA-ATTTTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAATTATAATAATAAATTTTCT
*
46849982 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
46850012 ATATTAAATA
Statistics
Matches: 165, Mismatches: 24, Indels: 47
0.70 0.10 0.20
Matches are distributed among these distances:
43 6 0.04
44 43 0.26
45 19 0.12
46 22 0.13
47 65 0.39
48 10 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:46849829 original size:101 final size:95
Alignment explanation
Indices: 46849710--46850032 Score: 343
Period size: 91 Copynumber: 3.4 Consensus size: 95
46849700 ATACTATAAA
* * * *
46849710 ATATAATTTGAAGTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATTTAA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAA-TAAAATATAT-ATTT-ATAAAATTT-A
*
46849775 AATAATTATAACTAATAAATTTTCTTATATGAATTT
62 AATAATT-TGA-TAATAAATTTTCTTATATGAATTT
* *
46849811 GTATAATTTAAAATAATTATTATTAAATATAATTTAAT--AATA-ATA--TAT--AATTTCATAA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAAAATATATATTTATAAAATTT-A-AA
46849869 -AATTCGTGATAATAAATTTTCTTATATGAATTT
64 TAATT--TGATAATAAATTTTCTTATATGAATTT
*
46849902 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--T--
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAA-AATATAT-ATTT-ATAAAATTTAA
46849963 -T--TTTGATAATAAATTTTCTTATATGAATTT
63 ATAATTTGATAATAAATTTTCTTATATGAATTT
*
46849993 ATACAATTTAAAATAATTAATATTAAATATAATTTAATAA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
46850033 TAAAATGTTC
Statistics
Matches: 196, Mismatches: 13, Indels: 36
0.80 0.05 0.15
Matches are distributed among these distances:
91 136 0.69
92 4 0.02
93 4 0.02
94 4 0.02
95 2 0.01
96 2 0.01
97 2 0.01
98 5 0.03
99 3 0.02
100 1 0.01
101 33 0.17
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (95 bp):
ATATAATTTAAAATAATTAATATTAAATATAATTTAATAAAATATATATTTATAAAATTTAAATA
ATTTGATAATAAATTTTCTTATATGAATTT
Found at i:46849885 original size:91 final size:91
Alignment explanation
Indices: 46849787--46850035 Score: 444
Period size: 91 Copynumber: 2.7 Consensus size: 91
46849777 TAATTATAAC
* *
46849787 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
46849852 AATATATAATTTCATAAAATTCGTGA
66 AATATATAATTTCATAAAATTCGTGA
46849878 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* **
46849943 GATATATAATTTCATAAAATTTTTGA
66 AATATATAATTTCATAAAATTCGTGA
*
46849969 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
46850034 AA
66 AA
46850036 AATGTTCTTA
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 151 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCGTGA
Found at i:46850031 original size:17 final size:15
Alignment explanation
Indices: 46850000--46850038 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
46849990 TTTATACAAT
46850000 TTAAAATAATTAATA
1 TTAAAATAATTAATA
46850015 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
46850032 ATAAAAT
1 TTAAAAT
46850039 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:46861521 original size:17 final size:18
Alignment explanation
Indices: 46861493--46861526 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46861483 AGAATTCATC
*
46861493 TTATTATAGATTTAAATA
1 TTATTATAGATTGAAATA
46861511 TTATTAT-GATTGAAAT
1 TTATTATAGATTGAAAT
46861527 TTTTTCGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (18 bp):
TTATTATAGATTGAAATA
Found at i:46861983 original size:27 final size:26
Alignment explanation
Indices: 46861953--46862003 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
46861943 GGGTTTTTTT
* *
46861953 TACTCAAATATTATAAAAATAAAAAAA
1 TACTAAAATAATATAAAAA-AAAAAAA
*
46861980 TACTAAAATAATATACAAAAAAAA
1 TACTAAAATAATATAAAAAAAAAA
46862004 TTTATTTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.24
Consensus pattern (26 bp):
TACTAAAATAATATAAAAAAAAAAAA
Found at i:46862275 original size:151 final size:151
Alignment explanation
Indices: 46862088--46862484 Score: 602
Period size: 151 Copynumber: 2.6 Consensus size: 151
46862078 ATTTCAGTCA
* *
46862088 TTTGTTCGTA-TTTTTTCTCGAATTTTATTACTTTAAAAAATATAATATTTTCTAATTTT-TTAA
1 TTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAATATACTATTTTCTAATTTTATT-A
* * * * * * **
46862151 TTTTACATTATTTTAGTAGATTATGTTTTAAATGTATTCATTTAGTGTGTTTTTTATTTAAATTA
65 TTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTATTTTTTAAATAAATT-
46862216 AAAAAAAACT-TTATTTTGGCCC
129 AAAAAAAACTCTTATTTTGGCCC
* *
46862238 TTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAAAATGCTATTTTCTAATTTTATTAT
1 TTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAATATACTATTTTCTAATTTTATTAT
* *
46862303 TTTAGATTATTTTAGTACATTATGCTTGAAATATATTAATTTACTGTATTTTTTAAATAAATTAA
66 TTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTATTTTTTAAATAAATTAA
46862368 AAAAAACTCTTATTTTGGCCC
131 AAAAAACTCTTATTTTGGCCC
* *
46862389 TTTATTCGTATTTTTTCCCCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTA
1 TTTGTTCGTATTTTTTTCCCGAATTTTATTAC-TTTAAAAAATATACTATTTTCTAATTTTATTA
46862454 TTTTACATTATTTTAGTACATTATGTTTGAA
65 TTTTACATTATTTTAGTACATTATGTTTGAA
46862485 TTGTTGCATT
Statistics
Matches: 223, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
150 20 0.09
151 142 0.64
152 61 0.27
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (151 bp):
TTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAATATACTATTTTCTAATTTTATTAT
TTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTATTTTTTAAATAAATTAA
AAAAAACTCTTATTTTGGCCC
Found at i:46863743 original size:153 final size:149
Alignment explanation
Indices: 46863578--46864130 Score: 754
Period size: 153 Copynumber: 3.7 Consensus size: 149
46863568 TTACTTTCAA
* * *
46863578 TAAAAAGCACACTAAATGAATACATTTCAAGCATAATATACTAAAATAATGTAAAATAATAAAAT
1 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
*
46863643 TAGAAAATATTATATTTTTTAAAGTAATAAAATCTGGGGAAAAAATACGAATAAAGGACCGAAAT
66 TAGAAAATAGTATATTTTTTAAAGTAATAAAATCTGGGGAAAAAATACGAATAAAGG-CCGAAAT
*
46863708 AA-GATTTTTTAAAAAAATTTATT
130 AAGGGTTTTTT----AAATTTATT
* * *
46863731 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATTAGAAAAT
1 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* * *
46863796 TAGAAAATAGAATATTTTATAAAGTAATAAAAT-TCAGGGAAAAAATACGAATAAATGGCCGAAA
66 TAGAAAATAGTATATTTTTTAAAGTAATAAAATCT-GGGGAAAAAATACGAATAAA-GGCCGAAA
46863860 TAAGGGTTTTTTAAATTTATT
129 TAAGGGTTTTTTAAATTTATT
* * * * *
46863881 TGAAAAACACAGTAAATTAATACATTTCAAGCATAATGTACTAAAATAATGCAAAATAATAAAAT
1 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * * *
46863946 TAGAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAAAAAATACGAACAATGGGCCGAAA
66 TAGAAAATAGTATATTTTTT-AAAGTAATAAAATCTGGGGAAAAAATACGAATAA-AGGCCGAAA
46864011 TAAGGGTTTTTTTTAAATTTA--
129 TAAGGG--TTTTTTAAATTTATT
* *
46864032 AAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTAAAATAATGTAAAATAATAAAAT
1 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
*
46864097 TATAAAATAGTATATTTTTTTAAAGTAATAAAAT
66 TAGAAAATAGTATA-TTTTTTAAAGTAATAAAAT
46864131 TCGAGAAAAA
Statistics
Matches: 356, Mismatches: 35, Indels: 20
0.87 0.09 0.05
Matches are distributed among these distances:
150 84 0.24
151 126 0.35
152 7 0.02
153 130 0.37
154 9 0.03
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.30
Consensus pattern (149 bp):
TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
TAGAAAATAGTATATTTTTTAAAGTAATAAAATCTGGGGAAAAAATACGAATAAAGGCCGAAATA
AGGGTTTTTTAAATTTATT
Found at i:46864060 original size:151 final size:151
Alignment explanation
Indices: 46863578--46864152 Score: 757
Period size: 151 Copynumber: 3.8 Consensus size: 151
46863568 TTACTTTCAA
* * *
46863578 TAAAAAGCACACTAAATGAATACATTTCAAGCATAATATACTAAAATAATGTAAAATAATAAAAT
1 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * * * * *
46863643 TAGAAAATATTATATTTTTTAAAGTAATAAAATCTGGGGAAAAAATACGAATAAAGGACCGAAAT
66 TAGAAAATAGTATATTTTTTAAAGTAATAAAATCCGAGAAAAAAATACGAACAATGGGCCGAAAT
* **
46863708 AA-GATTTTTTAAAAAAATTTATT
131 AAGGGTTTTTT--TTAAATTTA-T
* * *
46863731 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATTAGAAAAT
1 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * * *
46863796 TAGAAAATAGAATATTTTATAAAGTAATAAAATTC-AGGGAAAAAATACGAATAAAT-GGCCGAA
66 TAGAAAATAGTATATTTTTTAAAGTAATAAAATCCGA-GAAAAAAATACGAA-CAATGGGCCGAA
46863859 ATAAGGG--TTTTTTAAATTTATT
129 ATAAGGGTTTTTTTTAAATTTA-T
* * * * *
46863881 TGAAAAACACAGTAAATTAATACATTTCAAGCATAATGTACTAAAATAATGCAAAATAATAAAAT
1 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
46863946 TAGAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAAAAAATACGAACAATGGGCCGAAA
66 TAGAAAATAGTATATTTTTT-AAAGTAATAAAATCCGAGAAAAAAATACGAACAATGGGCCGAAA
46864011 TAAGGGTTTTTTTTAAATTTA-
130 TAAGGGTTTTTTTTAAATTTAT
* *
46864032 AAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTAAAATAATGTAAAATAATAAAAT
1 TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* *
46864097 TATAAAATAGTATATTTTTTTAAAGTAATAAAATTCGAGAAAAAAAATACGAACAA
66 TAGAAAATAGTATA-TTTTTTAAAGTAATAAAATCCGAG-AAAAAAATACGAACAA
46864153 AAGGCTGAAA
Statistics
Matches: 372, Mismatches: 40, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
150 87 0.23
151 129 0.35
152 27 0.07
153 126 0.34
154 3 0.01
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (151 bp):
TAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
TAGAAAATAGTATATTTTTTAAAGTAATAAAATCCGAGAAAAAAATACGAACAATGGGCCGAAAT
AAGGGTTTTTTTTAAATTTAT
Found at i:46864144 original size:303 final size:302
Alignment explanation
Indices: 46863579--46864164 Score: 854
Period size: 303 Copynumber: 1.9 Consensus size: 302
46863569 TACTTTCAAT
*
46863579 AAAAAGCACACTAAATGAATACATTTCAAGCATAATATACTAAAATAATGTAAAATAATAAAATT
1 AAAAAGCACACTAAATGAATACATTTCAAGCATAATATACTAAAATAATGCAAAATAATAAAATT
* * * * *
46863644 AGAAAATATTATATTTTTTAAAGTAATAAAATCTGGGGAAAAAATACGAATAAAGGACCGAAATA
66 AGAAAATAGTATATTTTTTAAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGACCGAAATA
* *
46863709 AGATTTTTTAAAAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTA
131 AGATTTTTT-AAAAAATTTA-TAAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTA
* **
46863774 AAATAATATAAAATTAGAAAATTAGAAAATAGAATATTTTATAAAGTAATAAAATTCAGGGAAAA
194 AAATAATATAAAATAAGAAAATTAGAAAATAGAATATTTTATAAAGTAATAAAATTCAGAAAAAA
* *
46863839 AATACGAATAAATGGCCGAAATAAGGGTTTTTTAAATTTATTTG
259 AATACGAACAAAAGGCCGAAATAAGGGTTTTTTAAATTTATTTG
* * *
46863883 AAAAA-CACAGTAAATTAATACATTTCAAGCATAATGTACTAAAATAATGCAAAATAATAAAATT
1 AAAAAGCACACTAAATGAATACATTTCAAGCATAATATACTAAAATAATGCAAAATAATAAAATT
* *
46863947 AGAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAAAAAATACGAACAATGGGCCGAAAT
66 AGAAAATAGTATATTTTTT-AAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGACCGAAAT
* **
46864012 AAGGGTTTTTT-TTAAATTTA-AAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTA
130 AA-GATTTTTTAAAAAATTTATAAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTA
* * * * *
46864075 AAATAATGTAAAATAATAAAATTATAAAATAGTATATTTTTTTAAAGTAATAAAATTCGAGAAAA
194 AAATAATATAAAATAAGAAAATTAGAAAATAGAATA-TTTTATAAAGTAATAAAATTC-AGAAAA
*
46864140 AAAATACGAACAAAAGGCTGAAATA
257 AAAATACGAACAAAAGGCCGAAATA
46864165 CAAACATGTT
Statistics
Matches: 251, Mismatches: 27, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
301 72 0.29
302 20 0.08
303 106 0.42
304 46 0.18
305 7 0.03
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (302 bp):
AAAAAGCACACTAAATGAATACATTTCAAGCATAATATACTAAAATAATGCAAAATAATAAAATT
AGAAAATAGTATATTTTTTAAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGACCGAAATA
AGATTTTTTAAAAAATTTATAAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTAAA
ATAATATAAAATAAGAAAATTAGAAAATAGAATATTTTATAAAGTAATAAAATTCAGAAAAAAAA
TACGAACAAAAGGCCGAAATAAGGGTTTTTTAAATTTATTTG
Found at i:46864953 original size:17 final size:17
Alignment explanation
Indices: 46864931--46864975 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
46864921 TTAATCACTT
46864931 TAATATTAAATTTAATC
1 TAATATTAAATTTAATC
*
46864948 TAATATTAAATTTAATT
1 TAATATTAAATTTAATC
46864965 TAATATTAAAT
1 TAATATTAAAT
46864976 CTATTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATTAAATTTAATC
Done.