Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009583.1 Hibiscus syriacus cultivar Beakdansim tig00116960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1341443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:258864 original size:29 final size:29
Alignment explanation
Indices: 258795--258895 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
258785 TATATAGTAC
258795 ATAATTGCATATTATATAG-TTCATATTAA
1 ATAATTGCATATTATATAGTTTC-TATTAA
* * * *
258824 ATAGTAGTATATTATATAGTTTCCATTAA
1 ATAATTGCATATTATATAGTTTCTATTAA
258853 ATAATTGCATA-TATAT--TTTCTATTAA
1 ATAATTGCATATTATATAGTTTCTATTAA
*
258879 ATAATTGCATATCATAT
1 ATAATTGCATATTATAT
258896 TTTTCATGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
26 20 0.33
27 4 0.07
28 5 0.08
29 29 0.48
30 3 0.05
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (29 bp):
ATAATTGCATATTATATAGTTTCTATTAA
Found at i:258872 original size:26 final size:26
Alignment explanation
Indices: 258836--258898 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
258826 AGTAGTATAT
*
258836 TATATAGTTTCCATTAAATAATTGCA
1 TATATATTTTCCATTAAATAATTGCA
*
258862 TATATATTTTCTATTAAATAATTGCA
1 TATATATTTTCCATTAAATAATTGCA
258888 TATCATATTTT
1 TAT-ATATTTT
258899 TCATGTTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 27 0.79
27 7 0.21
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (26 bp):
TATATATTTTCCATTAAATAATTGCA
Found at i:260717 original size:20 final size:20
Alignment explanation
Indices: 260682--260723 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
260672 AATATTAAAA
*
260682 TTAAACCTTAGAATTTTTAG
1 TTAAACCTTAGAATTTTAAG
260702 TTAAAGCCTTAG-ATTTTAAG
1 TTAAA-CCTTAGAATTTTAAG
260722 TT
1 TT
260724 CTTTAGTCTT
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:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TTAAACCTTAGAATTTTAAG
Found at i:261884 original size:51 final size:52
Alignment explanation
Indices: 261783--261885 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 52
261773 ATTTTATTTA
* * * *
261783 ATTTTTTATTCTTTAATTTCCTTTTAATCTTTAATCTTTTTAATTTCCTTTT
1 ATTTTTTATTCTTTAATTTACTTTTAATCTGTAATCTTGTTAATTCCCTTTT
* * * *
261835 ATTTTTTATT-TTTTATTTATTTTTAATCTGTATTCTTGTT-ATTCCCCTTT
1 ATTTTTTATTCTTTAATTTACTTTTAATCTGTAATCTTGTTAATTCCCTTTT
261885 A
1 A
261886 AATCTTTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 9 0.21
51 24 0.56
52 10 0.23
ACGTcount: A:0.18, C:0.13, G:0.02, T:0.67
Consensus pattern (52 bp):
ATTTTTTATTCTTTAATTTACTTTTAATCTGTAATCTTGTTAATTCCCTTTT
Found at i:268384 original size:67 final size:68
Alignment explanation
Indices: 268203--268388 Score: 171
Period size: 73 Copynumber: 2.7 Consensus size: 68
268193 TTGTCCGTCA
* * * *
268203 CCTTAGAGATTGTTTCTCCCGAAAC-AAAGTTGTCTCGTTTGAGACAATTTTTCTTGAAACAAAA
1 CCTT-GAGATTGTTTCTCTCGAAACAAAATTTGTCTCGCTTGAGACAATTTCTCTTGAAACAAAA
268267 TTCATCT
65 -T-A-CT
* ** ** * * *
268274 CACTTGAGATTGTTTCCTTTAAAAACAATTTTTTTCTTGCTTGAGACAATTTCTCTTGAAACACA
1 C-CTTGAGATTGTTT-CTCTCGAAACAAAATTTGTCTCGCTTGAGACAATTTCTCTTGAAACAAA
268339 A-A-T
64 ATACT
*
268342 CCTTGAGATTGTTTCTCTCGAAACAAAATTTCGTCTCACTTGAGACA
1 CCTTGAGATTGTTTCTCTCGAAACAAAATTT-GTCTCGCTTGAGACA
268389 GTTTTCCCAA
Statistics
Matches: 91, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
66 12 0.13
67 25 0.27
68 2 0.02
70 1 0.01
71 11 0.12
72 9 0.10
73 31 0.34
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.38
Consensus pattern (68 bp):
CCTTGAGATTGTTTCTCTCGAAACAAAATTTGTCTCGCTTGAGACAATTTCTCTTGAAACAAAAT
ACT
Found at i:270728 original size:34 final size:34
Alignment explanation
Indices: 270667--270837 Score: 212
Period size: 34 Copynumber: 5.2 Consensus size: 34
270657 ATCACTATCC
270667 TACTAACATTCTAACA--TT-TTTTTATTGTTCA
1 TACTAACATTCTAACATTTTATTTTTATTGTTCA
**
270698 TACTTGCATTCTAACATTTTATTTTTATTGTTCA
1 TACTAACATTCTAACATTTTATTTTTATTGTTCA
*
270732 TATTAACATTCTAACATTTTATTTTTATTGTTCA
1 TACTAACATTCTAACATTTTATTTTTATTGTTCA
* * *
270766 TACTAATATTCTAATA-TATATTTTT-TTGTTCA
1 TACTAACATTCTAACATTTTATTTTTATTGTTCA
*
270798 TACTAAC-TTACTAACATTTTA-TTTTATTGCTCA
1 TACTAACATT-CTAACATTTTATTTTTATTGTTCA
*
270831 AACTAAC
1 TACTAAC
270838 CCGCTAACTT
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.13
32 22 0.18
33 25 0.21
34 57 0.47
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.52
Consensus pattern (34 bp):
TACTAACATTCTAACATTTTATTTTTATTGTTCA
Found at i:272913 original size:7 final size:7
Alignment explanation
Indices: 272896--272934 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
272886 AAAGGTATCT
272896 ATTATATA
1 ATTA-ATA
272904 ATTAATA
1 ATTAATA
272911 ATTCAATA
1 ATT-AATA
272919 ATTAATA
1 ATTAATA
*
272926 ATTAGTA
1 ATTAATA
272933 AT
1 AT
272935 ATTGATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 18 0.62
8 11 0.38
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (7 bp):
ATTAATA
Found at i:274601 original size:59 final size:59
Alignment explanation
Indices: 274501--274645 Score: 177
Period size: 60 Copynumber: 2.4 Consensus size: 59
274491 TTTAAAGGGT
*
274501 AAAG-TACAAAAATGGTCCCCGACTATAGGATGTTACTTTGTTGAGTCAC-CGACTAATA
1 AAAGTTAC-AAAATGGTCCCCGACTATAGGATATTACTTTGTTGAGTCACTCGACTAATA
* * * * * *
274559 AAAGTTATAAAATGGTCCTTCGACTATATGATATTGCTTTGTTGAGTCCCTCGACTATTA
1 AAAGTTACAAAATGGTCC-CCGACTATAGGATATTACTTTGTTGAGTCACTCGACTAATA
*
274619 AAAGTTACAAAATGGTCACCCAACTAT
1 AAAGTTACAAAATGGTC-CCCGACTAT
274646 TCACATGTTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 14 0.19
59 28 0.38
60 30 0.41
61 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (59 bp):
AAAGTTACAAAATGGTCCCCGACTATAGGATATTACTTTGTTGAGTCACTCGACTAATA
Found at i:278024 original size:42 final size:42
Alignment explanation
Indices: 277973--278069 Score: 99
Period size: 41 Copynumber: 2.3 Consensus size: 42
277963 GTTTAATCAA
* * *
277973 TAGCTGCGTTTATAGTAAAAATGTCGTAATAGAGTAG-ACATT
1 TAGCGGCGTTTATAGCAAAAATGTCGCAATAGAGTAGTA-ATT
** * *
278015 TAGCGGCGTTT-TAGCCTAAATGTCGCAATAGATTGGTAATT
1 TAGCGGCGTTTATAGCAAAAATGTCGCAATAGAGTAGTAATT
*
278056 TAGCGGCATTTATA
1 TAGCGGCGTTTATA
278070 CCACAAGCAC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 32 0.71
42 13 0.29
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (42 bp):
TAGCGGCGTTTATAGCAAAAATGTCGCAATAGAGTAGTAATT
Found at i:278037 original size:41 final size:40
Alignment explanation
Indices: 277991--278113 Score: 108
Period size: 41 Copynumber: 3.0 Consensus size: 40
277981 TTTATAGTAA
277991 AAATGTCGTAATAGAGTAGACATTTAGCGGCGTTTTAGCC
1 AAATGTCGTAATAGAGTAGACATTTAGCGGCGTTTTAGCC
* * * *
278031 TAAATGTCGCAATAGATTGGTA-ATTTAGCGGCATTTATA-CC
1 -AAATGTCGTAATAGAGTAG-ACATTTAGCGGCGTTT-TAGCC
* * *
278072 ACAA-GCACCGTAATAGAGTACACATTTAGCGGGGTTTTAGCC
1 A-AATG--TCGTAATAGAGTAGACATTTAGCGGCGTTTTAGCC
278114 CAAACTCCGC
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
40 2 0.03
41 36 0.56
42 26 0.41
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (40 bp):
AAATGTCGTAATAGAGTAGACATTTAGCGGCGTTTTAGCC
Found at i:278140 original size:41 final size:41
Alignment explanation
Indices: 278012--278191 Score: 118
Period size: 42 Copynumber: 4.3 Consensus size: 41
278002 TAGAGTAGAC
* *
278012 ATTTAGCGGCGTTTTAGCCTAAA-TGTCGCAATAGATTGGTA
1 ATTTAGCGGCGTTTTAGCCCAAACT-CCGCAATAGATTGGTA
* * * * * **
278053 ATTTAGCGGCATTTATA-CCACAAGCACCGTAATAGAGT-ACA
1 ATTTAGCGGCGTTT-TAGCC-CAAACTCCGCAATAGATTGGTA
*
278094 CATTTAGCGGGGTTTTAGCCCAAACTCCGCAATAGATTGGTA
1 -ATTTAGCGGCGTTTTAGCCCAAACTCCGCAATAGATTGGTA
* * * *
278136 ATTTAGTGGAGTTTATA-CCACAAACGT-CGTAATAGAATGGTA
1 ATTTAGCGGCGTTT-TAGCC-CAAAC-TCCGCAATAGATTGGTA
* *
278178 AATTAGTGGCGTTT
1 ATTTAGCGGCGTTT
278192 ATATCTAAAA
Statistics
Matches: 107, Mismatches: 23, Indels: 17
0.73 0.16 0.12
Matches are distributed among these distances:
41 46 0.43
42 60 0.56
43 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (41 bp):
ATTTAGCGGCGTTTTAGCCCAAACTCCGCAATAGATTGGTA
Found at i:278167 original size:83 final size:83
Alignment explanation
Indices: 277995--278171 Score: 250
Period size: 83 Copynumber: 2.1 Consensus size: 83
277985 TAGTAAAAAT
* * *
277995 GTCGTAATAGAGTAGACATTTAGCGGCGTTTTAGCCTAAATGTCGCAATAGATTGGTAATTTAGC
1 GTCGTAATAGAGTACACATTTAGCGGCGTTTTAGCCCAAATGCCGCAATAGATTGGTAATTTAGC
*
278060 GGCATTTATACCACAAGC
66 GGCATTTATACCACAAAC
** *
278078 ACCGTAATAGAGTACACATTTAGCGGGGTTTTAGCCCAAACT-CCGCAATAGATTGGTAATTTAG
1 GTCGTAATAGAGTACACATTTAGCGGCGTTTTAGCCCAAA-TGCCGCAATAGATTGGTAATTTAG
*
278142 TGG-AGTTTATACCACAAAC
65 CGGCA-TTTATACCACAAAC
278161 GTCGTAATAGA
1 GTCGTAATAGA
278172 ATGGTAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
82 1 0.01
83 80 0.98
84 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (83 bp):
GTCGTAATAGAGTACACATTTAGCGGCGTTTTAGCCCAAATGCCGCAATAGATTGGTAATTTAGC
GGCATTTATACCACAAAC
Found at i:278170 original size:42 final size:42
Alignment explanation
Indices: 278036--278194 Score: 121
Period size: 42 Copynumber: 3.8 Consensus size: 42
278026 TAGCCTAAAT
*
278036 GTCGCAATAGATTGGTAATTTAGCGGCA-TTTATACCACAAGC
1 GTCGCAATAGATTGGTAATTTAGCGG-AGTTTATACCACAAAC
** * * ** *
278078 ACCGTAATAGAGT-ACACATTTAGCGGGGTTT-TAGCC-CAAAC
1 GTCGCAATAGATTGGTA-ATTTAGCGGAGTTTATA-CCACAAAC
*
278119 -TCCGCAATAGATTGGTAATTTAGTGGAGTTTATACCACAAAC
1 GT-CGCAATAGATTGGTAATTTAGCGGAGTTTATACCACAAAC
* * * * *
278161 GTCGTAATAGAATGGTAAATTAGTGGCGTTTATA
1 GTCGCAATAGATTGGTAATTTAGCGGAGTTTATA
278195 TCTAAAACAC
Statistics
Matches: 90, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
41 30 0.33
42 59 0.66
43 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (42 bp):
GTCGCAATAGATTGGTAATTTAGCGGAGTTTATACCACAAAC
Found at i:278211 original size:42 final size:42
Alignment explanation
Indices: 278124--278212 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
278114 CAAACTCCGC
* * ** *
278124 AATAGATTGGTAATTTAGTGGAGTTTATACCACAAACGTCGT
1 AATAGAATGGTAAATTAGTGGAGTTTATACCACAAACACCAT
* *
278166 AATAGAATGGTAAATTAGTGGCGTTTATATCTA-AAACACCAT
1 AATAGAATGGTAAATTAGTGGAGTTTATA-CCACAAACACCAT
278208 AATAG
1 AATAG
278213 GTTTGTTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.31
Consensus pattern (42 bp):
AATAGAATGGTAAATTAGTGGAGTTTATACCACAAACACCAT
Found at i:279705 original size:43 final size:39
Alignment explanation
Indices: 279652--279754 Score: 107
Period size: 43 Copynumber: 2.5 Consensus size: 39
279642 GTTTTTCAAT
* *
279652 AAACGCCGCAATATATTTGTACTTTAGTGGCATTTTTAAACGC
1 AAACGCCGCAATATATTTG-ACATTAGTGGCATTTAT-AA--C
* * *
279695 AAACGCCGCAAAAAATTTAGACATTAGTGGCGTTTATAAC
1 AAACGCCGCAATATATTT-GACATTAGTGGCATTTATAAC
*
279735 AAACACCGCAATATATTTGA
1 AAACGCCGCAATATATTTGA
279755 ATAGATGCGG
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
39 2 0.04
40 16 0.31
42 2 0.04
43 30 0.59
44 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (39 bp):
AAACGCCGCAATATATTTGACATTAGTGGCATTTATAAC
Found at i:287128 original size:195 final size:197
Alignment explanation
Indices: 286796--287188 Score: 772
Period size: 195 Copynumber: 2.0 Consensus size: 197
286786 TTATTAAGGT
286796 AATAATGTCATTATAATAGATACTCTATAGAAATTCAATACTAATTTATACTTACGATGCACACT
1 AATAATGTCATTATAATAGATACTCTATAGAAATTCAATACTAATTTATACTTACGATGCACACT
286861 TATTTGCTGTATAGGAGAAATTTTCTTTAGAGGTCTCTGACGATTATGTGAAGCAAGCGTTAGGG
66 TATTTGCTGTATAGGAGAAATTTTCTTTAGAGGTCTCTGACGATTATGTGAAGCAAGCGTTAGGG
286926 AAGAGATGGAGGGACCAC-A-AGAGCTCCTTAAAGAAGAAATACTTCAAGAATGATCTCAGCCTT
131 AAGAGATGGAGGGACCACAAGAGAGCTCCTTAAAGAAGAAATACTTCAAGAATGATCTCAGCCTT
286989 GA
196 GA
286991 AATAATGTCATTATAATAGATACTCTATAGAAATTCAATACTAATTTATACTTACGATGCACACT
1 AATAATGTCATTATAATAGATACTCTATAGAAATTCAATACTAATTTATACTTACGATGCACACT
287056 TATTTGCTGTATAGGAGAAATTTTCTTTAGAGGTCTCTGACGATTATGTGAAGCAAGCGTTAGGG
66 TATTTGCTGTATAGGAGAAATTTTCTTTAGAGGTCTCTGACGATTATGTGAAGCAAGCGTTAGGG
287121 AAGAGATGGAGGGACCACAAGAGAGCTCCTTAAAGAAGAAATACTTCAAGAATGATCTCAGCCTT
131 AAGAGATGGAGGGACCACAAGAGAGCTCCTTAAAGAAGAAATACTTCAAGAATGATCTCAGCCTT
287186 GA
196 GA
287188 A
1 A
287189 GAGAAGTTGT
Statistics
Matches: 196, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
195 148 0.76
196 1 0.01
197 47 0.24
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (197 bp):
AATAATGTCATTATAATAGATACTCTATAGAAATTCAATACTAATTTATACTTACGATGCACACT
TATTTGCTGTATAGGAGAAATTTTCTTTAGAGGTCTCTGACGATTATGTGAAGCAAGCGTTAGGG
AAGAGATGGAGGGACCACAAGAGAGCTCCTTAAAGAAGAAATACTTCAAGAATGATCTCAGCCTT
GA
Found at i:288017 original size:21 final size:21
Alignment explanation
Indices: 287985--288095 Score: 89
Period size: 21 Copynumber: 5.3 Consensus size: 21
287975 GCGGGAAAAT
287985 GAAGCAAG-GGAAGCAGAGAGA
1 GAAGC-AGCGGAAGCAGAGAGA
* * * **
288006 GTAGCAGTGGAAGTAGCCAGA
1 GAAGCAGCGGAAGCAGAGAGA
* * *
288027 GCAGCAGCGGAAGAAGAGAAA
1 GAAGCAGCGGAAGCAGAGAGA
* * *
288048 GAAGCAGTGGCAGCACAGAGA
1 GAAGCAGCGGAAGCAGAGAGA
* *
288069 GAAGCAGCGGTAGCACAGAGA
1 GAAGCAGCGGAAGCAGAGAGA
288090 GAAGCA
1 GAAGCA
288096 ACAGCAACAC
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
20 2 0.03
21 69 0.97
ACGTcount: A:0.41, C:0.15, G:0.39, T:0.05
Consensus pattern (21 bp):
GAAGCAGCGGAAGCAGAGAGA
Found at i:288106 original size:21 final size:21
Alignment explanation
Indices: 288061--288113 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
288051 GCAGTGGCAG
* * * *
288061 CACAGAGAGAAGCAGCGGTAG
1 CACAGAGAGAAGCAACAGCAA
288082 CACAGAGAGAAGCAACAGCAA
1 CACAGAGAGAAGCAACAGCAA
*
288103 CACAAAGAGAA
1 CACAGAGAGAA
288114 ATATCATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.49, C:0.21, G:0.28, T:0.02
Consensus pattern (21 bp):
CACAGAGAGAAGCAACAGCAA
Found at i:288654 original size:43 final size:43
Alignment explanation
Indices: 288561--288753 Score: 136
Period size: 43 Copynumber: 4.5 Consensus size: 43
288551 ACTAAATCTG
** * **
288561 AAAACCTACTGCGATGTTTGTGGGAAAAACATCGCTAAAA-ATC
1 AAAACCTACTGCGGCGTTTGTAGGAAAAACGCCGC-AAAATATC
** * * *
288604 ATCACCTACTGAGGCGTTTGTGGGAAAAATGCCGCAAAATATC
1 AAAACCTACTGCGGCGTTTGTAGGAAAAACGCCGCAAAATATC
* * * * * * * * *
288647 AAAACCTACTACGACATTTTTAAGTAAAATGCCGCTAAATCTC
1 AAAACCTACTGCGGCGTTTGTAGGAAAAACGCCGCAAAATATC
* * * * *
288690 AATACATACTGCGGCGTTTTTAGGAAAAACGCCGCTAAATAAC
1 AAAACCTACTGCGGCGTTTGTAGGAAAAACGCCGCAAAATATC
* *
288733 AACACCTATTGCGGCGTTTGT
1 AAAACCTACTGCGGCGTTTGT
288754 TTTTAAAAAA
Statistics
Matches: 115, Mismatches: 34, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
42 4 0.03
43 111 0.97
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (43 bp):
AAAACCTACTGCGGCGTTTGTAGGAAAAACGCCGCAAAATATC
Found at i:293799 original size:21 final size:20
Alignment explanation
Indices: 293725--293799 Score: 53
Period size: 21 Copynumber: 3.6 Consensus size: 20
293715 GCATGCAAAG
* *
293725 TTCGTCAAGGGATTGATCTCT
1 TTCGGCAAGGGATCGAT-TCT
* * *
293746 TTGGGCAAGGGATCAATCCT
1 TTCGGCAAGGGATCGATTCT
* *
293766 TT-GCCTCAGGGATCGATTCT
1 TTCGGC-AAGGGATCGATTCT
293786 TTACGGCAAGGGAT
1 TT-CGGCAAGGGAT
293800 TGATCCATTT
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.05
20 17 0.43
21 19 0.47
22 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (20 bp):
TTCGGCAAGGGATCGATTCT
Found at i:298867 original size:170 final size:170
Alignment explanation
Indices: 298586--298925 Score: 664
Period size: 170 Copynumber: 2.0 Consensus size: 170
298576 ATGACTACAC
298586 CGATCATAGGAGCGACCGATATTGATCAGAGTCTACTGGAGTTGCATTGGATGAGAATTTTAGTA
1 CGATCATAGGAGCGACCGATATTGATCAGAGTCTACTGGAGTTGCATTGGATGAGAATTTTAGTA
298651 GACAGTTTCTGCAGTTAATACAGGGAGCAGTTAGAGCTACTGGTGTTGTATCTGAGGTTCCTATT
66 GACAGTTTCTGCAGTTAATACAGGGAGCAGTTAGAGCTACTGGTGTTGTATCTGAGGTTCCTATT
298716 TCACAGACGTTGA-TTCCAATGGAGTTAGAACTTTTGGGG
131 TCACAGACGTTGATTTCCAATGGAGTTAGAACTTTTGGGG
298755 CGATCATAGGAGCGACCGATATTGAGTCAGAGTCTACTGGAGTTGCATTGGATGAGAATTTTAGT
1 CGATCATAGGAGCGACCGATATTGA-TCAGAGTCTACTGGAGTTGCATTGGATGAGAATTTTAGT
298820 AGACAGTTTCTGCAGTTAATACAGGGAGCAGTTAGAGCTACTGGTGTTGTATCTGAGGTTCCTAT
65 AGACAGTTTCTGCAGTTAATACAGGGAGCAGTTAGAGCTACTGGTGTTGTATCTGAGGTTCCTAT
298885 TTCACAGACGTTGATTTCCAATGGAGTTAGAACTTTTGGGG
130 TTCACAGACGTTGATTTCCAATGGAGTTAGAACTTTTGGGG
298926 GACAGATTGG
Statistics
Matches: 169, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
169 25 0.15
170 118 0.70
171 26 0.15
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (170 bp):
CGATCATAGGAGCGACCGATATTGATCAGAGTCTACTGGAGTTGCATTGGATGAGAATTTTAGTA
GACAGTTTCTGCAGTTAATACAGGGAGCAGTTAGAGCTACTGGTGTTGTATCTGAGGTTCCTATT
TCACAGACGTTGATTTCCAATGGAGTTAGAACTTTTGGGG
Found at i:303811 original size:10 final size:10
Alignment explanation
Indices: 303796--303848 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
303786 AACCGATTTG
303796 ACCGGTTCGA
1 ACCGGTTCGA
*
303806 ACCGGTTTG-
1 ACCGGTTCGA
303815 ACCGGTTCGA
1 ACCGGTTCGA
*
303825 ACCGGTTTG-
1 ACCGGTTCGA
303834 ACCGGTAT-GA
1 ACCGGT-TCGA
303844 ACCGG
1 ACCGG
303849 GTTGACCCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 15 0.41
10 22 0.59
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (10 bp):
ACCGGTTCGA
Found at i:303814 original size:19 final size:19
Alignment explanation
Indices: 303786--303855 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
303776 GCTGCTGGAA
*
303786 AACCGATTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
303805 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
303824 AACCGGTTTGACCGGTAT-G
1 AACCGGTTTGACCGGT-TCG
*
303843 AACCGGGTTGACC
1 AACCGGTTTGACC
303856 CGACCCGACT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 47 0.98
20 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:303818 original size:9 final size:9
Alignment explanation
Indices: 303787--303855 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
303777 CTGCTGGAAA
*
303787 ACCGATTTG
1 ACCGGTTTG
*
303796 ACCGGTTCG
1 ACCGGTTTG
303805 AACCGGTTTG
1 -ACCGGTTTG
*
303815 ACCGGTTCG
1 ACCGGTTTG
303824 AACCGGTTTG
1 -ACCGGTTTG
*
303834 ACCGGTATG
1 ACCGGTTTG
*
303843 AACCGGGTTG
1 -ACCGGTTTG
303853 ACC
1 ACC
303856 CGACCCGACT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
9 26 0.53
10 23 0.47
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.25
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:303871 original size:17 final size:17
Alignment explanation
Indices: 303849--303889 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
303839 TATGAACCGG
*
303849 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
303866 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
303883 GTTGACC
1 GTTGACC
303890 GTTGACTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:303891 original size:7 final size:7
Alignment explanation
Indices: 303879--303928 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
303869 GACCCGACCC
303879 GACCGTT
1 GACCGTT
303886 GACCGTT
1 GACCGTT
*
303893 GACTG-T
1 GACCGTT
303899 GACCGTT
1 GACCGTT
303906 GACCG-T
1 GACCGTT
303912 GACCGTT
1 GACCGTT
303919 GACCGTT
1 GACCGTT
303926 GAC
1 GAC
303929 TTTCCTTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 11 0.28
7 28 0.72
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:303903 original size:13 final size:13
Alignment explanation
Indices: 303879--303924 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
303869 GACCCGACCC
303879 GACCGTTGACCGTT
1 GACCG-TGACCGTT
*
303893 GACTGTGACCGTT
1 GACCGTGACCGTT
303906 GACCGTGACCGTT
1 GACCGTGACCGTT
303919 GACCGT
1 GACCGT
303925 TGACTTTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 26 0.87
14 4 0.13
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.26
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:303904 original size:20 final size:20
Alignment explanation
Indices: 303879--303928 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
303869 GACCCGACCC
*
303879 GACCGTTGACCGTTGACTG-T
1 GACCGTTGACCG-TGACCGTT
303899 GACCGTTGACCGTGACCGTT
1 GACCGTTGACCGTGACCGTT
303919 GACCGTTGAC
1 GACCGTTGAC
303929 TTTCCTTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (20 bp):
GACCGTTGACCGTGACCGTT
Found at i:308716 original size:283 final size:284
Alignment explanation
Indices: 308206--308773 Score: 840
Period size: 283 Copynumber: 2.0 Consensus size: 284
308196 CTCATCTTTC
* *
308206 AAACCATATATTGAATAAGCTCCAACTCTAGAATTGAAACCTTTTCCCAACAATCTTAAGTATGC
1 AAACCATATATTGAATAAGCTCCAACTCTAGAATTGAAACCTTTTCCCAACAATATGAAGTATGC
* *
308271 TTTTTTGGAGACAACAACACTTTTCTAGTTATTATCAATGCAATGTTGGACGCAATATAAGAGAA
66 TTTTTTGGAG--AACAACACTTTTCTAGTTATTATCAATGCAATGTTGGACGCAAGACAAGAGAA
*
308336 GAAATTGATCCATATTTTGAAACATCACAAAAAGGCCATTTCCTGGAGTATTTCTGACATTCAAA
129 GAAATTGATCCATATTTTGAAACATCACAAAAAGGCCATTGCCTGGAGTATTTCTGACATTCAAA
* *
308401 GCATTAGTCCATCCTTTTCACGCACAAAATCAAGCTGGAGAACG-AAGACTAACAATCTATAAAG
194 GCATTAGTACATCCTTTTCACGCACAAAATCAAGATGGAGAACGAAAG-CTAACAATCTATAAAG
308465 CAACAACGAAGGTAAAATCCAAAGATA
258 CAACAACGAAGGTAAAATCCAAAGATA
* * * * *
308492 AAACCATATGTTGAATAAGTTCCAACTCTAGAATTGAAATCTTTTCCCAATAATATGAAGTAT-T
1 AAACCATATATTGAATAAGCTCCAACTCTAGAATTGAAACCTTTTCCCAACAATATGAAGTATGC
* * ** * *
308556 TTTTCTTGGAG-ACAACACTGTTT-TAGTTGTTGTCTCTGCAATGTTGGATGCAAGACAAGAGGA
66 TTTT-TTGGAGAACAACACT-TTTCTAGTTATTATCAATGCAATGTTGGACGCAAGACAAGAGAA
**
308619 GAAATTGATCCATATTTTGAAACATCAC-AAAAGGCCATTGGTTGGAGTATTTCTGACATTCAAA
129 GAAATTGATCCATATTTTGAAACATCACAAAAAGGCCATTGCCTGGAGTATTTCTGACATTCAAA
* * *
308683 GCATTAGTACATCCTTTTGCATGCACAAAATCAAGATGGAGGACGAAAGCTAACAATCTATAGAG
194 GCATTAGTACATCCTTTT-CACGCACAAAATCAAGATGGAGAACGAAAGCTAACAATCTATAAAG
308748 CAACAACGAAGGTAAAATCCAAAGAT
258 CAACAACGAAGGTAAAATCCAAAGAT
308774 GAAGGAAGTA
Statistics
Matches: 255, Mismatches: 23, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
282 50 0.20
283 132 0.52
284 6 0.02
285 4 0.02
286 63 0.25
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (284 bp):
AAACCATATATTGAATAAGCTCCAACTCTAGAATTGAAACCTTTTCCCAACAATATGAAGTATGC
TTTTTTGGAGAACAACACTTTTCTAGTTATTATCAATGCAATGTTGGACGCAAGACAAGAGAAGA
AATTGATCCATATTTTGAAACATCACAAAAAGGCCATTGCCTGGAGTATTTCTGACATTCAAAGC
ATTAGTACATCCTTTTCACGCACAAAATCAAGATGGAGAACGAAAGCTAACAATCTATAAAGCAA
CAACGAAGGTAAAATCCAAAGATA
Found at i:312573 original size:29 final size:28
Alignment explanation
Indices: 312460--312555 Score: 192
Period size: 28 Copynumber: 3.4 Consensus size: 28
312450 TTATAGAGTG
312460 ATTAAAAAAATTTAATGTCAGTGAATAA
1 ATTAAAAAAATTTAATGTCAGTGAATAA
312488 ATTAAAAAAATTTAATGTCAGTGAATAA
1 ATTAAAAAAATTTAATGTCAGTGAATAA
312516 ATTAAAAAAATTTAATGTCAGTGAATAA
1 ATTAAAAAAATTTAATGTCAGTGAATAA
312544 ATTAAAAAAATT
1 ATTAAAAAAATT
312556 AAAAGTAAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.32
Consensus pattern (28 bp):
ATTAAAAAAATTTAATGTCAGTGAATAA
Found at i:312580 original size:56 final size:56
Alignment explanation
Indices: 312462--312581 Score: 177
Period size: 56 Copynumber: 2.1 Consensus size: 56
312452 ATAGAGTGAT
* * * * *
312462 TAAAAAAATTTAATGTCAGTGAATAAATTAAAAAAATTTAATGTCAGTGAATAAAT
1 TAAAAAAATTTAATGTCAGTGAATAAATTAAAAAAATTAAAAGTAAATGAATAAAA
*
312518 TAAAAAAATTTAATGTCAGTGAATAAATTAAAAAAATTAAAAGTAAAATGAGTAAAA
1 TAAAAAAATTTAATGTCAGTGAATAAATTAAAAAAATTAAAAGT-AAATGAATAAAA
312575 TAAAAAA
1 TAAAAAA
312582 GAAAATATAG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 42 0.74
57 15 0.26
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (56 bp):
TAAAAAAATTTAATGTCAGTGAATAAATTAAAAAAATTAAAAGTAAATGAATAAAA
Found at i:319125 original size:17 final size:19
Alignment explanation
Indices: 319086--319125 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
319076 AAAATAAAAG
*
319086 AAGAGAAACAAGTAGAAGG
1 AAGAGAAACAAGTAGAAGC
319105 AAGAGAAA-AAG-AGAAGC
1 AAGAGAAACAAGTAGAAGC
319122 AAGA
1 AAGA
319126 AGGAGAAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 3 0.15
19 8 0.40
ACGTcount: A:0.62, C:0.05, G:0.30, T:0.03
Consensus pattern (19 bp):
AAGAGAAACAAGTAGAAGC
Found at i:319270 original size:17 final size:17
Alignment explanation
Indices: 319244--319297 Score: 81
Period size: 17 Copynumber: 3.2 Consensus size: 17
319234 ACAATTGTCG
*
319244 TTGCAATCATTTTTTCA
1 TTGCATTCATTTTTTCA
*
319261 TTGCATTCATATTTTCA
1 TTGCATTCATTTTTTCA
*
319278 TTGCATGCATTTTTTCA
1 TTGCATTCATTTTTTCA
319295 TTG
1 TTG
319298 AATTTTTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (17 bp):
TTGCATTCATTTTTTCA
Found at i:319314 original size:35 final size:34
Alignment explanation
Indices: 319251--319334 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
319241 TCGTTGCAAT
* * *
319251 CATTTTTTCATTGCATTCATATTTTCATTGCATG
1 CATTTTTTCATTGAATTCATATTATCATTACATG
** *
319285 CATTTTTTCATTGAATTTTTAGTTATCATTACATT
1 CATTTTTTCATTGAATTCATA-TTATCATTACATG
319320 CATTTTGTT-ATTGAA
1 CATTTT-TTCATTGAA
319335 AAACACCCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 18 0.43
35 22 0.52
36 2 0.05
ACGTcount: A:0.24, C:0.13, G:0.08, T:0.55
Consensus pattern (34 bp):
CATTTTTTCATTGAATTCATATTATCATTACATG
Found at i:321727 original size:11 final size:11
Alignment explanation
Indices: 321711--321735 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
321701 ATGACCATAT
321711 AAAATGAGTAG
1 AAAATGAGTAG
321722 AAAATGAGTAG
1 AAAATGAGTAG
321733 AAA
1 AAA
321736 GGAAGCTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAAATGAGTAG
Found at i:328122 original size:10 final size:10
Alignment explanation
Indices: 328107--328158 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
328097 CAGTCAATGC
328107 CCGGTCAACG
1 CCGGTCAACG
*
328117 CCGGTCAAAG
1 CCGGTCAACG
*
328127 TTCTGGTCAACG
1 --CCGGTCAACG
**
328139 GTGGTCAACG
1 CCGGTCAACG
328149 CCGGTCAACG
1 CCGGTCAACG
328159 ATCAACGCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 26 0.76
12 8 0.24
ACGTcount: A:0.21, C:0.31, G:0.31, T:0.17
Consensus pattern (10 bp):
CCGGTCAACG
Found at i:328165 original size:17 final size:16
Alignment explanation
Indices: 328143--328180 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
328133 TCAACGGTGG
328143 TCAACGCCGGTCAACGA
1 TCAACG-CGGTCAACGA
*
328160 TCAACGCTGTCAACGA
1 TCAACGCGGTCAACGA
328176 TCAAC
1 TCAAC
328181 AGTTTTACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (16 bp):
TCAACGCGGTCAACGA
Found at i:329209 original size:25 final size:24
Alignment explanation
Indices: 329172--329218 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
329162 TTTTTTTGGA
*
329172 AAATAATATTTTTTGAATAAATATG
1 AAATAATATTTTTT-AAAAAATATG
329197 AAATAA-ATATTTTTAAAAAATA
1 AAATAATAT-TTTTTAAAAAATA
329219 ATAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATAATATTTTTTAAAAAATATG
Found at i:329988 original size:13 final size:13
Alignment explanation
Indices: 329970--329996 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
329960 CACAAAAAAA
329970 TATTCATTGTTAT
1 TATTCATTGTTAT
329983 TATTCATTGTTAT
1 TATTCATTGTTAT
329996 T
1 T
329997 GGCTATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (13 bp):
TATTCATTGTTAT
Found at i:338981 original size:4 final size:4
Alignment explanation
Indices: 338972--339002 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
338962 ACCGCTAATT
338972 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
339003 TATGTTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:339167 original size:30 final size:30
Alignment explanation
Indices: 339098--339167 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
339088 TAATACTAAC
* *
339098 TTTATTTTTATTGCACTTTTTATTTATGTTA
1 TTTA-TTTTATTGCACTTTTAATTTACGTTA
339129 TTTAATTTTA-TGCACTTTTAAATTTACGTCT-
1 TTT-ATTTTATTGCACTTTT-AATTTACGT-TA
339160 TTTATTTT
1 TTTATTTT
339168 TCTTTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
30 14 0.41
31 18 0.53
32 2 0.06
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (30 bp):
TTTATTTTATTGCACTTTTAATTTACGTTA
Found at i:342246 original size:17 final size:18
Alignment explanation
Indices: 342217--342250 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
342207 TAACACAGAC
342217 CAATTTTTGTCTTAAAAA
1 CAATTTTTGTCTTAAAAA
342235 CAATTTTT-TCTTAAAA
1 CAATTTTTGTCTTAAAA
342251 TTGTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (18 bp):
CAATTTTTGTCTTAAAAA
Found at i:342327 original size:10 final size:10
Alignment explanation
Indices: 342312--342341 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
342302 TGGCAGCTCC
342312 AATTCAAAAT
1 AATTCAAAAT
*
342322 AATTCAAACT
1 AATTCAAAAT
342332 AATTCAAAAT
1 AATTCAAAAT
342342 CCTGATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (10 bp):
AATTCAAAAT
Found at i:348043 original size:66 final size:65
Alignment explanation
Indices: 347946--348186 Score: 281
Period size: 66 Copynumber: 3.6 Consensus size: 65
347936 GTTGAGAGAT
* *
347946 TTTCTCT-TGAAACAAATTTGGTCTCGCTTGAGACAATTTCTCTTGACTCATAAACCTTTGAGAT
1 TTTCTCTATGAAACAAATTTCGTCTCGCTTGAGACAGTTTCTCTTGA--CATAAACCTTTGAGAT
*
348010 TA
64 TG
*
348012 TTTCTCT-TGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGAT
1 TTTCTCTATGAAACAAATTTCGTCTCGCTTGAGACAGTTTCTCTTG--ACATAAACCTTTGAGAT
348076 TG
64 TG
** * * * * * *
348078 TTTCTCTCAAAAAAAAAAGTTCGTCTCGCTGGAGACAGTGTCTCTTGAAATACAAGGCTTTGAGA
1 TTTCTCT-ATGAAACAAATTTCGTCTCGCTTGAGACAGTTTCTCTTGACATA-AA-CCTTTGAGA
348143 TTG
63 TTG
348146 TTTCTCTAT-AAACAAAGTTTCGTCTCGCTTGAGACAGTTTC
1 TTTCTCTATGAAACAAA-TTTCGTCTCGCTTGAGACAGTTTC
348187 CTTTGAAGCC
Statistics
Matches: 151, Mismatches: 17, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
66 77 0.51
67 24 0.16
68 50 0.33
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (65 bp):
TTTCTCTATGAAACAAATTTCGTCTCGCTTGAGACAGTTTCTCTTGACATAAACCTTTGAGATTG
Found at i:348316 original size:100 final size:101
Alignment explanation
Indices: 348212--348467 Score: 266
Period size: 101 Copynumber: 2.5 Consensus size: 101
348202 TTATGAGTTA
* * * *
348212 TTTCAATTTAAAGAAAATCGATCTCACTTGAGATTGTTTTCCTAAAAA-AAATTCAT-T-TCGCT
1 TTTCAATTGAAACAAAATCGATCTCACTTGAGATAG-TTTCCTAAAAACAAATT-ATGTCTCACT
*
348274 TGAGACAATTTTCCCTCAAAACACAAATTTTGAAATTG
64 TGAGACAATTTTCACTCAAAACACAAATTTTGAAATTG
* * *
348312 TTTCACTTGAAACAAAATTGATCTCACTTGAGATAGTTTCCTAAAAACAAATTTTGTCTCACTTG
1 TTTCAATTGAAACAAAATCGATCTCACTTGAGATAGTTTCCTAAAAACAAATTATGTCTCACTTG
* * * **
348377 AGATAGTTTTCATTTGAAACACAAATTTTGAAATTG
66 AGACAATTTTCACTCAAAACACAAATTTTGAAATTG
** * ** ** *
348413 TTTCTCTCGAAACAAAATTTTATCTCACTTGAGATAACTTCTCTTAAAACAAATT
1 TTTCAATTGAAACAAAA-TCGATCTCACTTGAGATAGTTTC-CTAAAAACAAATT
348468 TCCTTTCACT
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
99 12 0.09
100 37 0.28
101 51 0.39
102 20 0.15
103 12 0.09
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (101 bp):
TTTCAATTGAAACAAAATCGATCTCACTTGAGATAGTTTCCTAAAAACAAATTATGTCTCACTTG
AGACAATTTTCACTCAAAACACAAATTTTGAAATTG
Found at i:348410 original size:101 final size:102
Alignment explanation
Indices: 348137--348468 Score: 336
Period size: 100 Copynumber: 3.3 Consensus size: 102
348127 ATACAAGGCT
* * * * *
348137 TTGAGATTGTTTCTCTATAAACAAAGTTTCGTCTCGCTTGAGACAG-TTTCCTTTGAAGCCCAAA
1 TTGAGATAGTTTCTCTAAAAACAAA-TTTTGTCTCGCTTGAGACAGTTTTCCTTTGAAACACAAA
* * * * * *
348201 TTTATG-AGTTATTTCAATTTAAAGAAAATCGATCTCAC
65 TTT-TGAAATTGTTTCACTTGAAACAAAATTGATCTCAC
* * * * **
348239 TTGAGATTGTTT-TCCTAAAAA-AAATTCAT-T-TCGCTTGAGACAATTTTCCCTCAAAACACAA
1 TTGAGATAGTTTCT-CTAAAAACAAATT-TTGTCTCGCTTGAGACAGTTTTCCTTTGAAACACAA
348300 ATTTTGAAATTGTTTCACTTGAAACAAAATTGATCTCAC
64 ATTTTGAAATTGTTTCACTTGAAACAAAATTGATCTCAC
* * *
348339 TTGAGATAGTTTC-CTAAAAACAAATTTTGTCTCACTTGAGATAGTTTTCATTTGAAACACAAAT
1 TTGAGATAGTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAGTTTTCCTTTGAAACACAAAT
* * *
348403 TTTGAAATTGTTTCTCTCGAAACAAAATTTTATCTCAC
66 TTTGAAATTGTTTCACTTGAAACAAAA-TTGATCTCAC
** *
348441 TTGAGATAACTTCTCTTAAAACAAATTT
1 TTGAGATAGTTTCTCTAAAAACAAATTT
348469 CCTTTCACTC
Statistics
Matches: 190, Mismatches: 30, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
99 22 0.12
100 62 0.33
101 55 0.29
102 38 0.20
103 13 0.07
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (102 bp):
TTGAGATAGTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAGTTTTCCTTTGAAACACAAAT
TTTGAAATTGTTTCACTTGAAACAAAATTGATCTCAC
Found at i:348991 original size:139 final size:139
Alignment explanation
Indices: 348823--349076 Score: 337
Period size: 139 Copynumber: 1.8 Consensus size: 139
348813 AAACCATCTC
* * ** * ** *
348823 AATATGACTATACGTCCTCAACATGAAGGAAAAATGTCTTCCATTGATTAGATCTCCTCAACGCA
1 AATACGACTAGACGTCCTCAACACAAAGGAAAAATGTCGTCCACCGACTAGATCTCCTCAACGCA
* * * * * *
348888 AAAGAGTAGTGTCATCCTTAGATAATCAGACTTCCTCAACGCGAAGGAACCGTGTTGTGTCCAAA
66 AAAGAGTAGGGTCACCCTCAAACAATCAGACTTCCTCAACACGAAGGAACCGTGTTGTGTCCAAA
348953 TTATCTCCA
131 TTATCTCCA
* *
348962 AATACGACTAGACGTCCTCAACACAAAGGAACAATGTCGTCCACCGACTAGATCTCCTCAATGCA
1 AATACGACTAGACGTCCTCAACACAAAGGAAAAATGTCGTCCACCGACTAGATCTCCTCAACGCA
* * *
349027 TAGGAGTAGGGTCACCCTCAAACAATCAGACTTCCTCAATACGAAGGAAC
66 AAAGAGTAGGGTCACCCTCAAACAATCAGACTTCCTCAACACGAAGGAAC
349077 TATATTATCT
Statistics
Matches: 96, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
139 96 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (139 bp):
AATACGACTAGACGTCCTCAACACAAAGGAAAAATGTCGTCCACCGACTAGATCTCCTCAACGCA
AAAGAGTAGGGTCACCCTCAAACAATCAGACTTCCTCAACACGAAGGAACCGTGTTGTGTCCAAA
TTATCTCCA
Found at i:349090 original size:139 final size:137
Alignment explanation
Indices: 348823--349163 Score: 331
Period size: 139 Copynumber: 2.5 Consensus size: 137
348813 AAACCATCTC
* * ** * * ** * *
348823 AATATGACTATACGTCCTCAACATGAAGGAAAAATGTCTTCCATTGATTAGATCTCCTCAACGCA
1 AATACGACTAGACGTCCTCAACAAAAAGGAACAATGTCGTCCACCGACTAGATCTCCTCAATGCA
* * * * * * * * * *
348888 AAAGAGTAGTGTCATCCTTAGATAATCAGACTTCCTCAACGCGAAGGAACCGTGTTGTGTCCAAA
66 AAAGAGTAGGGTCACCCTCAAACAATCAGACTTCCTCAACACGAAGGAACCATATTATCTCCAAA
348953 TTATCTCCA
131 TTA--TCCA
*
348962 AATACGACTAGACGTCCTCAACACAAAGGAACAATGTCGTCCACCGACTAGATCTCCTCAATGCA
1 AATACGACTAGACGTCCTCAACAAAAAGGAACAATGTCGTCCACCGACTAGATCTCCTCAATGCA
* * * *
349027 TAGGAGTAGGGTCACCCTCAAACAATCAGACTTCCTCAATACGAAGGAACTATATTATCTCCAAA
66 AAAGAGTAGGGTCACCCTCAAACAATCAGACTTCCTCAACACGAAGGAACCATATTATCTCCAAA
349092 TTATCCA
131 TTATCCA
** * * ** * * * *
349099 AATACTTCTAGACATCCTCATTGCAAAAAAAAACAATGTTGTCCACCAACCAAATCTCCTCAATG
1 AATACGACTAGACGTCCTCA--ACAAAAAGGAACAATGTCGTCCACCGACTAGATCTCCTCAATG
349164 TGAAGGAATA
Statistics
Matches: 165, Mismatches: 35, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
137 21 0.13
139 144 0.87
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (137 bp):
AATACGACTAGACGTCCTCAACAAAAAGGAACAATGTCGTCCACCGACTAGATCTCCTCAATGCA
AAAGAGTAGGGTCACCCTCAAACAATCAGACTTCCTCAACACGAAGGAACCATATTATCTCCAAA
TTATCCA
Found at i:349191 original size:139 final size:138
Alignment explanation
Indices: 348874--349218 Score: 334
Period size: 139 Copynumber: 2.5 Consensus size: 138
348864 CATTGATTAG
* * * * * * *
348874 ATCTCCTCAACGCAAAAGAGTAGTGTCATCCTTAGATAATCAGACTTCCTCAACGCGAAGGAACC
1 ATCTCCTCAATGCATAGGAATAGTGTCATCCTCAGACAATCAGACTTCCTCAATGCGAAGGAACC
* * * * * * **
348939 GTGTTGTGTCCAAATTATCTCCAAATACGACTAGACGTCCTCAACACAAAGGAACAATGTCGTCC
66 ATATTATCTCCAAATTA-CTCCAAATACGACTAGACATCCTCAACAAAAAAAAACAATGTCGTCC
* * *
349004 ACCGACTAG
130 ACCAACCAA
* * * * * *
349013 ATCTCCTCAATGCATAGGAGTAGGGTCACCCTCAAACAATCAGACTTCCTCAATACGAAGGAACT
1 ATCTCCTCAATGCATAGGAATAGTGTCATCCTCAGACAATCAGACTTCCTCAATGCGAAGGAACC
** * *
349078 ATATTATCTCCAAATTA-TCCAAATACTTCTAGACATCCTCATTGCAAAAAAAAACAATGTTGTC
66 ATATTATCTCCAAATTACTCCAAATACGACTAGACATCCTCA--ACAAAAAAAAACAATGTCGTC
349142 CACCAACCAA
129 CACCAACCAA
* * * * * *
349152 ATCTCCTCAATGTGA-AGGAATAGTGTCATACTGAGACAATCAAACTTCCTGAATGTGAAGGAAC
1 ATCTCCTCAATG-CATAGGAATAGTGTCATCCTCAGACAATCAGACTTCCTCAATGCGAAGGAAC
349216 CAT
65 CAT
349219 GCTATTTTTA
Statistics
Matches: 165, Mismatches: 38, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
137 21 0.13
139 143 0.87
140 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (138 bp):
ATCTCCTCAATGCATAGGAATAGTGTCATCCTCAGACAATCAGACTTCCTCAATGCGAAGGAACC
ATATTATCTCCAAATTACTCCAAATACGACTAGACATCCTCAACAAAAAAAAACAATGTCGTCCA
CCAACCAA
Found at i:349427 original size:104 final size:104
Alignment explanation
Indices: 349291--349486 Score: 259
Period size: 104 Copynumber: 1.9 Consensus size: 104
349281 AAGCGGCCAT
** * *
349291 AACTCTTCAACATGGATGAGCAATATCATCTTCAAAAGTAGATTATCTCGAGATTGA-CTCAACT
1 AACTCTTCAACATGGATGAGCAATATCATCTTCAAAACCAAATTATCTCCAGATTGACCT-AACT
*
349355 TCCTCAACAAGAAGGAACATTGTCATCTAAAAGTTTCCAA
65 TCCTCAACAAGAAGGAACATCGTCATCTAAAAGTTTCCAA
* * * * * *
349395 AACTCTTCAACATGGATGATCATTTTCGTCTTCAATACCAAATTATCTCCAGATTGACCTTACTT
1 AACTCTTCAACATGGATGAGCAATATCATCTTCAAAACCAAATTATCTCCAGATTGACCTAACTT
**
349460 CCTCAATGAGAAGGAACATCGTCATCT
66 CCTCAACAAGAAGGAACATCGTCATCT
349487 TTAGCAAACA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 76 0.97
105 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (104 bp):
AACTCTTCAACATGGATGAGCAATATCATCTTCAAAACCAAATTATCTCCAGATTGACCTAACTT
CCTCAACAAGAAGGAACATCGTCATCTAAAAGTTTCCAA
Found at i:349608 original size:123 final size:123
Alignment explanation
Indices: 349393--349806 Score: 557
Period size: 122 Copynumber: 3.4 Consensus size: 123
349383 AAAAGTTTCC
* * * * *
349393 AAAACTCTTCAACATGGATGATCATTTTCGTCTTCAATAC-CAAATTATCTCCAGATTGACCTTA
1 AAAACTCTTCAACATGGATGAACAGTGTCGTCTTCAACACTCAAATTATCTCCAGATTGACCTGA
* * *
349457 CTTCCTCAATGAGAAGGAACATCGTCATCTTTAGCAAACAATTTACCTGAAAGTGACT
66 CTTCCTCAATGAGAAGGAACAACGTCATCTTCAGCAAACAATTTACCTGAAAGCGACT
* * * *
349515 AAAACTCTTCAACGTGGATGAACATTATCGTCTTCAACACTAAAATTATCTCCAGATTGACCTGA
1 AAAACTCTTCAACATGGATGAACAGTGTCGTCTTCAACACTCAAATTATCTCCAGATTGACCTGA
* * *
349580 CTTCCTCAATGAGATA-GAACAACATCATCTTCAGCAAACAATTTACTTGAAAGCGTCT
66 CTTCCTCAATGAGA-AGGAACAACGTCATCTTCAGCAAACAATTTACCTGAAAGCGACT
* *
349638 AGAACTCTTCAACATGGATGAATAGTGTCGTCTTCAACACT-AAATTATCTCCAGATTGACCTGA
1 AAAACTCTTCAACATGGATGAACAGTGTCGTCTTCAACACTCAAATTATCTCCAGATTGACCTGA
* * * * * *
349702 CTTGCTCAATGAGAAGGAATAATGTTATCTTCAGAAAACAATTTACCTGAAAGCGACC
66 CTTCCTCAATGAGAAGGAACAACGTCATCTTCAGCAAACAATTTACCTGAAAGCGACT
* * *
349760 ATAACTCTTCAACATGGATGAGCAGTGTCATCTTCAACA-TCAAATTA
1 AAAACTCTTCAACATGGATGAACAGTGTCGTCTTCAACACTCAAATTA
349807 CCTCAAAAAA
Statistics
Matches: 258, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
121 2 0.01
122 147 0.57
123 108 0.42
124 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (123 bp):
AAAACTCTTCAACATGGATGAACAGTGTCGTCTTCAACACTCAAATTATCTCCAGATTGACCTGA
CTTCCTCAATGAGAAGGAACAACGTCATCTTCAGCAAACAATTTACCTGAAAGCGACT
Found at i:350760 original size:54 final size:54
Alignment explanation
Indices: 350699--351051 Score: 438
Period size: 54 Copynumber: 6.5 Consensus size: 54
350689 GGACATACAA
*
350699 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACATAG
1 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
* ** * * * *
350753 TGACAATATAAAAATTAATAAAATCATTATTAATTTCTTAAGTTGCACACATGG
1 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
* * * *
350807 TGTCAATACGGAAATTCATAAACTCATTATGAATTACTTAAGTTGCACACACAG
1 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
* ** * **
350861 TGCCAATACGGAAATTCATAAACTCAGAATGAATTTCTTAGGTTAAACACAT-G
1 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
* * * *
350914 ATGCCAATACAAAAATTCGTAAACTCGTTATGAATTTCTTAGGTTGCACACATAG
1 -TGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
* * * *
350969 TGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCATACACAT
1 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
* *
351023 TGCCAATACGAAAATTCATTAATTCATTA
1 TGCCAATACGAAAATTCATAAACTCATTA
351052 AACAACATGC
Statistics
Matches: 252, Mismatches: 45, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
53 1 0.00
54 250 0.99
55 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (54 bp):
TGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
Found at i:350895 original size:162 final size:162
Alignment explanation
Indices: 350699--351041 Score: 490
Period size: 162 Copynumber: 2.1 Consensus size: 162
350689 GGACATACAA
* ** ** *
350699 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAT-AGTGACAATATA
1 TGCCAATACGAAAATTCATAAACTCAGAATGAATTTCTTAAGTTAAACACATGA-TGACAATACA
* * *
350763 AAAATTAATAAAATCATTATTAATTTCTTAAGTTGCACACATGGTGTCAATACGGAAATTCATAA
65 AAAATTAATAAAATCATTATGAATTTCTTAAGTTGCACACATAGTGCCAATACGGAAATTCATAA
350828 ACTCATTATGAATTACTTAAGTTGCACACACAG
130 ACTCATTATGAATTACTTAAGTTGCACACACAG
* * *
350861 TGCCAATACGGAAATTCATAAACTCAGAATGAATTTCTTAGGTTAAACACATGATGCCAATACAA
1 TGCCAATACGAAAATTCATAAACTCAGAATGAATTTCTTAAGTTAAACACATGATGACAATACAA
** * * *
350926 AAATTCGTAAACTCGTTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAA
66 AAATTAATAAAATCATTATGAATTTCTTAAGTTGCACACATAGTGCCAATACGGAAATTCATAAA
* * *
350991 CTCATTATGAATTTCTTAAGTTGCATACACAT
131 CTCATTATGAATTACTTAAGTTGCACACACAG
351023 TGCCAATACGAAAATTCAT
1 TGCCAATACGAAAATTCAT
351042 TAATTCATTA
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
162 158 0.99
163 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (162 bp):
TGCCAATACGAAAATTCATAAACTCAGAATGAATTTCTTAAGTTAAACACATGATGACAATACAA
AAATTAATAAAATCATTATGAATTTCTTAAGTTGCACACATAGTGCCAATACGGAAATTCATAAA
CTCATTATGAATTACTTAAGTTGCACACACAG
Found at i:351507 original size:94 final size:95
Alignment explanation
Indices: 351370--351564 Score: 275
Period size: 94 Copynumber: 2.1 Consensus size: 95
351360 ACCATGGTAT
* * * * *
351370 CGATACTTTTATACTATGGTACCGATATTCCCTTTCAGTATCGATACCATTTCTACATTCTAG-A
1 CGATACTTCTATAATATGGTACCGATACTCCATTACAGTATCGATACCATTTCTACATTCTAGAA
* * * * *
351434 TCCATGGTATCGATACTTTTCTCCTAGTAC
66 TCAATGGTATCAATACCTTCCTCATAGTAC
*
351464 CGATACTTCTATAATATGGTACCGATACTCCATTACAGTATCGATACCATTTCTGCATTCTAGAA
1 CGATACTTCTATAATATGGTACCGATACTCCATTACAGTATCGATACCATTTCTACATTCTAGAA
*
351529 TCAATGGTATCAATACCTTCCTCATAGTAT
66 TCAATGGTATCAATACCTTCCTCATAGTAC
351559 CGATAC
1 CGATAC
351565 CCACATCAGT
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 57 0.65
95 31 0.35
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (95 bp):
CGATACTTCTATAATATGGTACCGATACTCCATTACAGTATCGATACCATTTCTACATTCTAGAA
TCAATGGTATCAATACCTTCCTCATAGTAC
Found at i:353641 original size:17 final size:16
Alignment explanation
Indices: 353609--353646 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
353599 AATATCTTTT
353609 TAAAATATTTTTAAGA
1 TAAAATATTTTTAAGA
353625 -AAAATCATTTTTAAAGA
1 TAAAAT-ATTTTT-AAGA
353642 TAAAA
1 TAAAA
353647 AGCTGATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.26
16 6 0.32
17 4 0.21
18 4 0.21
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (16 bp):
TAAAATATTTTTAAGA
Found at i:357659 original size:44 final size:44
Alignment explanation
Indices: 357557--357881 Score: 303
Period size: 44 Copynumber: 7.2 Consensus size: 44
357547 ACATAAGTTC
*
357557 CATTTGTGGCACCTTTCTGCCAA-AATGCACCGTTATGCATTTAATTTT
1 CATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGC-----ATTTT
* *
357605 CA-TTAGTGGCACCTTTCTACCAATAATGCATCGTTATGCATTTT
1 CATTTA-TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTT
* * * * *
357649 CATTTATGGCACATTTCTACCAATAATTCAACATTATGCATTTT
1 CATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTT
*
357693 CATTTATGACACCTTTCTGCCAATAATGCACCGTTATGCATTTAATTTT
1 CATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGC-----ATTTT
** ** * *
357742 CATTCGTGGCATATTTCTTCCAATAATGCATCGTTATGCATTTT
1 CATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTT
* * * *
357786 CATTTATGGCACATTTTTGCCACTACTGCACCGTTATGCATTTTT
1 CATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCA-TTTT
* * * * *
357831 TATTTATGGAACCTTTCTGCCAATAATGTAACGTTATGTATTTT
1 CATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTT
*
357875 AATTTAT
1 CATTTAT
357882 TTATTCATTT
Statistics
Matches: 230, Mismatches: 38, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
44 121 0.53
45 38 0.17
47 2 0.01
48 18 0.08
49 51 0.22
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (44 bp):
CATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTT
Found at i:357765 original size:93 final size:92
Alignment explanation
Indices: 357600--357881 Score: 292
Period size: 93 Copynumber: 3.1 Consensus size: 92
357590 TATGCATTTA
* * *
357600 ATTTTCA-TTAGTGGCACCTTTCTACCAATAATGCATCGTTATGC----ATTTTCATTTATGGCA
1 ATTTTCATTTA-TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTATTTTCATTCATGGCA
*
357660 CATTTCTACCAATAATTCAACATTATGC
65 CATTTCTACCAATAATGCAACATTATGC
* *
357688 ATTTTCATTTATGACACCTTTCTGCCAATAATGCACCGTTATGCATTTAATTTTCATTCGTGGCA
1 ATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTT-ATTTTCATTCATGGCA
* * * *
357753 TATTTCTTCCAATAATGCATCGTTATGC
65 CATTTCTACCAATAATGCAACATTATGC
* * * * * *
357781 ATTTTCATTTATGGCACATTTTTGCCACTACTGCACCGTTATGCA-TT-TTTT-ATTTATGGAAC
1 ATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTATTTTCATTCATGGCAC
* * * * *
357843 CTTTCTGCCAATAATGTAACGTTATGT
66 ATTTCTACCAATAATGCAACATTATGC
*
357870 ATTTTAATTTAT
1 ATTTTCATTTAT
357882 TTATTCATTT
Statistics
Matches: 163, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
88 37 0.23
89 43 0.26
90 4 0.02
92 2 0.01
93 77 0.47
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (92 bp):
ATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTATTTTCATTCATGGCAC
ATTTCTACCAATAATGCAACATTATGC
Found at i:357823 original size:137 final size:138
Alignment explanation
Indices: 357557--357879 Score: 454
Period size: 137 Copynumber: 2.3 Consensus size: 138
357547 ACATAAGTTC
* * *
357557 CATTTGTGGCACCTTTCTGCCAA-AATGCACCGTTATGCATTTAATTTTCATTAGTGGCACCTTT
1 CATTTATGACACCTTTCTGCCAATAATGCACCGTTATGCATTTAATTTTCATTAGTGGCACATTT
*
357621 CTACCAATAATGCATCGTTATGCATTTTCATTTATGGCACATTTCTACCAATAATTCAACATTAT
66 CTACCAATAATGCATCGTTATGCATTTTCATTTATGGCACATTTCTACCAATAATGCAACATTAT
357686 GCA-TTTT
131 GCATTTTT
* *
357693 CATTTATGACACCTTTCTGCCAATAATGCACCGTTATGCATTTAATTTTCATTCGTGGCATATTT
1 CATTTATGACACCTTTCTGCCAATAATGCACCGTTATGCATTTAATTTTCATTAGTGGCACATTT
* * * * * * *
357758 CTTCCAATAATGCATCGTTATGCATTTTCATTTATGGCACATTTTTGCCACTACTGCACCGTTAT
66 CTACCAATAATGCATCGTTATGCATTTTCATTTATGGCACATTTCTACCAATAATGCAACATTAT
357823 GCATTTTT
131 GCATTTTT
* * * *
357831 TATTTATGGA-ACCTTTCTGCCAATAATGTAACGTTATGTATTTTAATTT
1 CATTTAT-GACACCTTTCTGCCAATAATGCACCGTTATGCA-TTTAATTT
357880 ATTTATTCAT
Statistics
Matches: 166, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
136 21 0.13
137 98 0.59
138 37 0.22
139 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (138 bp):
CATTTATGACACCTTTCTGCCAATAATGCACCGTTATGCATTTAATTTTCATTAGTGGCACATTT
CTACCAATAATGCATCGTTATGCATTTTCATTTATGGCACATTTCTACCAATAATGCAACATTAT
GCATTTTT
Found at i:358866 original size:2 final size:2
Alignment explanation
Indices: 358859--358918 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
358849 ATAATACTAG
358859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
358901 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
358919 ACAACTTATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:358950 original size:3 final size:3
Alignment explanation
Indices: 358944--358989 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
358934 GGTATAAAAA
* *
358944 AAT AAT AGT AAT AAT AAGT ATT AA- AAT AA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
358988 AA
1 AA
358990 ATAAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:358969 original size:26 final size:26
Alignment explanation
Indices: 358935--358999 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
358925 TATAAACAAG
*
358935 GTATAAAAA-AATAATAGTAATAATAA
1 GTATAAAAATAA-AATAATAATAATAA
*
358961 GTATTAAAATAAAATAATAATAATAA
1 GTATAAAAATAAAATAATAATAATAA
358987 -TA-AATAAATAAAA
1 GTATAA-AAATAAAA
359000 AGAAATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 1 0.03
25 10 0.29
26 21 0.62
27 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (26 bp):
GTATAAAAATAAAATAATAATAATAA
Found at i:358976 original size:17 final size:17
Alignment explanation
Indices: 358944--358990 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
358934 GGTATAAAAA
*
358944 AATAATAGTAATAATAAGT
1 AATAATAATAA-AATAA-T
*
358963 ATTAA-AATAAAATAAT
1 AATAATAATAAAATAAT
358979 AATAATAATAAA
1 AATAATAATAAA
358991 TAAATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 11 0.46
18 4 0.17
19 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (17 bp):
AATAATAATAAAATAAT
Found at i:358997 original size:20 final size:23
Alignment explanation
Indices: 358942--358994 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
358932 AAGGTATAAA
* *
358942 AAAATAATAGTAATAATAAGTATT
1 AAAATAA-AATAATAATAAGTAAT
358966 AAAATAAAATAATAATAA-TAAT
1 AAAATAAAATAATAATAAGTAAT
358988 -AAATAAA
1 AAAATAAA
358995 TAAAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 3 0.11
23 10 0.37
24 7 0.26
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAATAAAATAATAATAAGTAAT
Found at i:359611 original size:35 final size:35
Alignment explanation
Indices: 359572--359643 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
359562 TAAAAAAGCC
359572 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
359607 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
359642 CT
1 CT
359644 TCTTTGTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:360332 original size:159 final size:160
Alignment explanation
Indices: 360082--360425 Score: 469
Period size: 159 Copynumber: 2.2 Consensus size: 160
360072 TGAGAATTGG
* * *
360082 ATATCCTTCG-TCGTGAAATTGAAATCCAATGTAAGTTGCGTTGCGCCGAGTCCAATATCCTCCG
1 ATATCCTTCGCT-GTGAAGTTGAAATCCAATGTAAGTTGCATTGCGCCGAGTCCAATATCCTCCA
* ** * **
360146 TCGTGAAATTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAGTTAGTCGAC-CCTTCGT
65 TCGTGAAATTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTAACAGCCAATCG-CTCCTTCAC
* * *
360210 TGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTA
129 CGTGAAGTTGAGCTTATGCTGTCTCGAGTCCA
* * *
360242 ATATCCTTCGCTGTGAAGTTGAAATCCAA-GTAAGTTGTATTGCTCCGAGTCTAATATCCTCCAT
1 ATATCCTTCGCTGTGAAGTTGAAATCCAATGTAAGTTGCATTGCGCCGAGTCCAATATCCTCCAT
* *
360306 CGTGAAGTTGAAATTGGCTTTGGAACTGGGAAATTGTTTGTTAACAGCCAATCGCTCCTTCACCG
66 CGTGAAATTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTAACAGCCAATCGCTCCTTCACCG
* * *
360371 TGAAGTTGAGCTTATGTTGTCTTGATTCCA
131 TGAAGTTGAGCTTATGCTGTCTCGAGTCCA
360401 ATATCCTTCGCTGTGAAGTTGAAAT
1 ATATCCTTCGCTGTGAAGTTGAAAT
360426 TGGCTTTGAA
Statistics
Matches: 162, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
158 1 0.01
159 134 0.83
160 26 0.16
161 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (160 bp):
ATATCCTTCGCTGTGAAGTTGAAATCCAATGTAAGTTGCATTGCGCCGAGTCCAATATCCTCCAT
CGTGAAATTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTAACAGCCAATCGCTCCTTCACCG
TGAAGTTGAGCTTATGCTGTCTCGAGTCCA
Found at i:360719 original size:120 final size:119
Alignment explanation
Indices: 360502--360720 Score: 293
Period size: 120 Copynumber: 1.8 Consensus size: 119
360492 GTTATCTCGA
* * *
360502 GTGGCACGATATCCTTCGTCGTGGAGTTGAAATCGCGGATGGCCCCTTCATCATGAAGTTGAGCC
1 GTGGCACGATATCCTTCGCCGTGGAGTTGAAACCGCGGATGACCCCTTCATCATGAAGTTGAGCC
*
360567 TTGACTTGAATATCCTTCGTCGTGAAGTTGAAATGCAAGTATTATATGTTGCGG
66 TTGACTAGAATATCCTTCGTCGTGAAGTTGAAATGCAAGTATTATATGTTGCGG
* * **
360621 GTGGACACGAT-TCCCTTCGCCGTGGAGTTGAAACCGTGGATGACCCCTTTATTGTGAAGTTTG-
1 GTGG-CACGATAT-CCTTCGCCGTGGAGTTGAAACCGCGGATGACCCCTTCATCATGAAG-TTGA
360684 G-CTTCGAGCTAG-ATATCCTTCGTCGTGAAGTTGAAAT
63 GCCTT-GA-CTAGAATATCCTTCGTCGTGAAGTTGAAAT
360721 CTATCGAGCA
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
119 8 0.09
120 73 0.84
121 6 0.07
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (119 bp):
GTGGCACGATATCCTTCGCCGTGGAGTTGAAACCGCGGATGACCCCTTCATCATGAAGTTGAGCC
TTGACTAGAATATCCTTCGTCGTGAAGTTGAAATGCAAGTATTATATGTTGCGG
Found at i:365118 original size:21 final size:21
Alignment explanation
Indices: 365094--365143 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
365084 TCTGAAAGAA
365094 GGGAAAATGTGCATGCATGAG
1 GGGAAAATGTGCATGCATGAG
365115 GGGAAAATGTGCATGCATGAG
1 GGGAAAATGTGCATGCATGAG
365136 GGGAAAAT
1 GGGAAAAT
365144 ATCCCACACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.08, G:0.38, T:0.18
Consensus pattern (21 bp):
GGGAAAATGTGCATGCATGAG
Found at i:369388 original size:29 final size:28
Alignment explanation
Indices: 369334--369395 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
369324 AACAAGGTAT
* *
369334 AAAAAATAGTAATAATAAGTATTAAAATA
1 AAAAAATAATAATAATAAGTAATAAAA-A
*
369363 AAAAAATAATAATAGTAA-TAAATAAAAA
1 AAAAAATAATAATAATAAGT-AATAAAAA
369391 AAAAA
1 AAAAA
369396 GAAATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (28 bp):
AAAAAATAATAATAATAAGTAATAAAAA
Found at i:369393 original size:26 final size:27
Alignment explanation
Indices: 369332--369394 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
369322 TAAACAAGGT
* * *
369332 ATAAAAAATAGTAATAATAAGTATTAA
1 ATAAAAAAAAATAATAATAAGTAATAA
*
369359 A-ATAAAAAAATAATAAT-AGTAATAA
1 ATAAAAAAAAATAATAATAAGTAATAA
369384 ATAAAAAAAAA
1 ATAAAAAAAAA
369395 AGAAATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 8 0.27
26 21 0.70
27 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (27 bp):
ATAAAAAAAAATAATAATAAGTAATAA
Found at i:370011 original size:35 final size:35
Alignment explanation
Indices: 369972--370043 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
369962 TAAAAAAACC
*
369972 CTATTTTATACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
370007 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
370042 CT
1 CT
370044 TCTTTGTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.42
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:376876 original size:21 final size:21
Alignment explanation
Indices: 376852--376919 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
376842 ACTATCGCAT
376852 TGCGATTTCCCAAATTCGCGA
1 TGCGATTTCCCAAATTCGCGA
376873 TGCGATTTCCCAAATTCGCGA
1 TGCGATTTCCCAAATTCGCGA
* * *
376894 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTCCCAAATTCGCGA
376915 TGCGA
1 TGCGA
376920 ATACGTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (21 bp):
TGCGATTTCCCAAATTCGCGA
Found at i:376934 original size:20 final size:20
Alignment explanation
Indices: 376909--377055 Score: 215
Period size: 20 Copynumber: 7.3 Consensus size: 20
376899 TTTTCCTAAT
376909 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
376929 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
376950 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
376970 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
376990 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
377010 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
377030 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
377050 TCGCAA
1 TCGCAA
377056 CGAGATTCTG
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 1 0.01
20 99 0.86
21 15 0.13
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:377073 original size:60 final size:59
Alignment explanation
Indices: 376909--377076 Score: 191
Period size: 60 Copynumber: 2.8 Consensus size: 59
376899 TTTTCCTAAT
* *
376909 TCGCAATGCGAATACGTAAATCGCAACGCGAATT-TGGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGAG-ATTCT-G-AAATCGCAATGCGAATACGTAAA
* *
376970 TCGCAATGCGATTACGTAAATCGCAATGCGA-ATAC-GTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAA--CGAGATTCTG-AAATCGCAATGCGAATACGTAAA
*
377030 TCGCAATGCGAAT-CTGTAAATCGCAACGAGATTCTGACTATCGCAAT
1 TCGCAATGCGAATAC-GTAAATCGCAACGAGATTCTGA-AATCGCAAT
377077 ACTGAATTTC
Statistics
Matches: 92, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
58 3 0.03
59 5 0.05
60 55 0.60
61 27 0.29
63 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (59 bp):
TCGCAATGCGAATACGTAAATCGCAACGAGATTCTGAAATCGCAATGCGAATACGTAAA
Found at i:377947 original size:24 final size:24
Alignment explanation
Indices: 377920--377973 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
377910 GTATTCAAAA
377920 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
377944 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
377968 TTTGAT
1 TTTGAT
377974 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:380405 original size:20 final size:20
Alignment explanation
Indices: 380380--380468 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
380370 CAACGCGGAA
380380 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
380400 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
380420 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
380440 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
380460 ATCGCAACG
1 ATCGCAACG
380469 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 59 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:380500 original size:19 final size:19
Alignment explanation
Indices: 380473--380560 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
380463 GCAACGAGAG
380473 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
380492 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
380511 AATCGCAAT--G-AGTG--
1 AATCGCAATGCGAAATGAA
*
380525 AATCGCAATGCAAAAATGAA
1 AATCGCAATGC-GAAATGAA
*
380545 AATCGCAAAGCGAAAT
1 AATCGCAATGCGAAAT
380561 TAGTTTCGCG
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 9 0.16
16 3 0.05
17 1 0.02
18 3 0.05
19 30 0.54
20 10 0.18
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:380516 original size:52 final size:53
Alignment explanation
Indices: 380451--380560 Score: 150
Period size: 52 Copynumber: 2.1 Consensus size: 53
380441 TCGCAACGCG
** * *
380451 GAAATGACTATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCACAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAAATGAAAATCACAAAGC
* * *
380503 GAAATGAAAATCGCAATGAGTGAATCGCAATGCAAAAATGAAAATCGCAAAGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAAATGAAAATCACAAAGC
380556 GAAAT
1 GAAAT
380561 TAGTTTCGCG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 29 0.58
53 21 0.42
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.15
Consensus pattern (53 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAAATGAAAATCACAAAGC
Found at i:380612 original size:34 final size:34
Alignment explanation
Indices: 380569--380664 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
380559 ATTAGTTTCG
380569 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
380603 CGTTGCGATTTTCA-TTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
380636 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
380665 AGTCTGTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.54
34 25 0.46
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:380785 original size:14 final size:14
Alignment explanation
Indices: 380766--380802 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
380756 CATCAATTAA
380766 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
380780 ACAAATCATCTTTT
1 ACAAATCAACATTT
380794 ACAAATCAA
1 ACAAATCAA
380803 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:382262 original size:42 final size:42
Alignment explanation
Indices: 382164--382266 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
382154 TTGGGATGGA
* * * * *
382164 CCTCTTCAACGATGACAGTGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAAAGATGGGAGAGG
* ** *
382206 ACTCTTGAGGGATGATAGGGGCCTCTTGAAAGATAGGG-GAGG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAAAGAT-GGGAGAGG
382248 CCTCTTGAACGATGACAGG
1 CCTCTTGAACGATGACAGG
382267 TGAGTCGGGC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 44 0.94
43 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (42 bp):
CCTCTTGAACGATGACAGGGGCCTCTTGAAAGATGGGAGAGG
Found at i:382872 original size:34 final size:33
Alignment explanation
Indices: 382826--382919 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 33
382816 GAATTTGACT
* * * *
382826 ATCGCAACGCGAATTTGACTATCGCAACGAGAGA
1 ATCGCAACGCGAA-ATGACTATCGCAACAACAAA
* **
382860 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAATGACTATCGCAACAACAAA
382893 ATCGCAACGCGAAAATGACTATCGCAA
1 ATCGCAACGCG-AAATGACTATCGCAA
382920 TGCGAATTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
33 24 0.49
34 25 0.51
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.15
Consensus pattern (33 bp):
ATCGCAACGCGAAATGACTATCGCAACAACAAA
Found at i:382940 original size:20 final size:20
Alignment explanation
Indices: 382746--382941 Score: 168
Period size: 20 Copynumber: 10.4 Consensus size: 20
382736 GAAACTTAAA
*
382746 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
382766 ATCGCAATGTGAAAATGACT
1 ATCGCAATGCGAAAATGACT
382786 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
382806 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
* **
382826 ATCGCAACGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
*
382846 ATCGCAA--CG-AGA-GA--
1 ATCGCAATGCGAAAATGACT
**
382860 ATCGCAATGCG-AAATGAAA
1 ATCGCAATGCGAAAATGACT
382879 ATCGCAA--C-AACAA--A--
1 ATCGCAATGCGAA-AATGACT
*
382893 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
382913 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
382933 ATCGCAATG
1 ATCGCAATG
382942 AGAGAATCGC
Statistics
Matches: 150, Mismatches: 12, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
14 14 0.09
16 10 0.07
17 7 0.05
18 5 0.03
19 7 0.05
20 107 0.71
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:383035 original size:20 final size:20
Alignment explanation
Indices: 382986--383149 Score: 187
Period size: 20 Copynumber: 8.5 Consensus size: 20
382976 GATTCTTTCG
**
382986 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
383006 TTGCAATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* * *
383026 TTGTGTTAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
*
383046 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
383066 TTGCGATATTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
383086 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
383100 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
383120 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
383140 TTGCGATAGT
1 TTGCGATAGT
383150 AAACTATTAT
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
14 7 0.06
16 6 0.05
18 6 0.05
20 102 0.84
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:383079 original size:40 final size:40
Alignment explanation
Indices: 382965--383149 Score: 187
Period size: 40 Copynumber: 4.9 Consensus size: 40
382955 GCAATTTTCA
*
382965 TTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAA
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* * * *
382999 ATTCGCATTGCAATAGTCATTTTCGCATTGTGTTAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* * *
383039 TTTCACATTGCGATAGTCATTTTTGCATTGCGATATTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
*
383079 TTTCGCATTGCGAT--TC--TCTCG--TTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* *
383113 TTTCGCGTTGCGATAGTCATTTTCACATTGCGATAGT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGT
383150 AAACTATTAT
Statistics
Matches: 120, Mismatches: 19, Indels: 18
0.76 0.12 0.11
Matches are distributed among these distances:
34 37 0.31
36 7 0.06
38 10 0.08
40 66 0.55
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (40 bp):
TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
Found at i:383110 original size:54 final size:54
Alignment explanation
Indices: 382965--383146 Score: 202
Period size: 54 Copynumber: 3.3 Consensus size: 54
382955 GCAATTTTCA
* ** *
382965 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCATTGCAATAGTCAT
1 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* * * * * *
383019 TTTCGCATTGTGTTAGTCATTTTCACATTGCGATAGTCATTTTTGCATTGCGATATTCAT
1 TTTCGCA-T-TG--CG--ATTCTCTCGTTGCGATAGTCATTTTCGCATTGCGATAGTCAT
*
383079 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAT
1 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCATTGCGATAGTCAT
*
383133 TTTCACATTGCGAT
1 TTTCGCATTGCGAT
383147 AGTAAACTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
54 56 0.54
55 1 0.01
56 3 0.03
58 3 0.03
59 1 0.01
60 40 0.38
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (54 bp):
TTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCATTGCGATAGTCAT
Found at i:385082 original size:20 final size:20
Alignment explanation
Indices: 385024--385093 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
385014 GAAACTTTAA
**
385024 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
385044 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
385064 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
385084 ATCGTAACAC
1 ATCGCAACAC
385094 AAGAATCGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.17
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:385779 original size:20 final size:20
Alignment explanation
Indices: 385754--385845 Score: 95
Period size: 20 Copynumber: 4.6 Consensus size: 20
385744 GCTATGTAAA
385754 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
*
385774 TCGCATTGCGAT--TTACGTAT
1 TCGCATTGCGATAGTCA-G-AT
385794 TCGCATTGCGATTTACGT-A-A-
1 TCGCATTGCGA--TA-GTCAGAT
385814 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
385834 TCGCATTGCGAT
1 TCGCATTGCGAT
385846 TTACGTAATC
Statistics
Matches: 61, Mismatches: 1, Indels: 20
0.74 0.01 0.24
Matches are distributed among these distances:
17 2 0.03
18 5 0.08
19 2 0.03
20 48 0.79
21 1 0.02
22 1 0.02
24 1 0.02
25 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (20 bp):
TCGCATTGCGATAGTCAGAT
Found at i:385845 original size:60 final size:60
Alignment explanation
Indices: 385752--385927 Score: 280
Period size: 60 Copynumber: 2.9 Consensus size: 60
385742 GCGCTATGTA
*
385752 AATCGCATTGCGATAGTCAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATAGTCAGATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACGT
385812 AATCGCATTGCGATAGTCAGATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACGT
1 AATCGCATTGCGATAGTCAGATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACGT
** * * *
385872 AATCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGTAAATCGCAATGCGAT
1 AATCGCATTGCGATAGT-CAGATTCGCATTGCGATTTACGT-AATCGCATTGCGAT
385928 AGTCAGAATC
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
60 74 0.69
61 21 0.19
62 13 0.12
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (60 bp):
AATCGCATTGCGATAGTCAGATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACGT
Found at i:385857 original size:20 final size:20
Alignment explanation
Indices: 385774--385927 Score: 188
Period size: 20 Copynumber: 7.6 Consensus size: 20
385764 ATAGTCAGAT
*
385774 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAA
385794 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
385814 TCGCATTGCGA--TA-GTCAGA
1 TCGCATTGCGATTTACGT-A-A
385833 TTCGCATTGCGATTTACGTAA
1 -TCGCATTGCGATTTACGTAA
385854 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
* **
385874 TCGCATTGCGATTTTCCAAA
1 TCGCATTGCGATTTACGTAA
*
385894 TTCGCGTTGCGATTTACGTAAA
1 -TCGCATTGCGATTTACGT-AA
*
385916 TCGCAATGCGAT
1 TCGCATTGCGAT
385928 AGTCAGAATC
Statistics
Matches: 116, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.02
18 3 0.03
19 1 0.01
20 78 0.67
21 25 0.22
22 5 0.04
23 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:385998 original size:19 final size:19
Alignment explanation
Indices: 385974--386024 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
385964 CGATACCGGA
385974 GATCGCGTTGCGAATTATC
1 GATCGCGTTGCGAATTATC
385993 GATCGCGTTGCGAATTATC
1 GATCGCGTTGCGAATTATC
*
386012 GATCGCATTGCGA
1 GATCGCGTTGCGA
386025 TTTAGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (19 bp):
GATCGCGTTGCGAATTATC
Found at i:388453 original size:31 final size:31
Alignment explanation
Indices: 388417--388516 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
388407 GGTACATAAG
388417 GAATTACCAGTCGATGTTGAACCTATACAAA
1 GAATTACCAGTCGATGTTGAACCTATACAAA
* *** * *
388448 GAATTACCA-TTGAACCT--ACC-AGAGAAA
1 GAATTACCAGTCGATGTTGAACCTATACAAA
* *
388475 GGAATTACCAGTCGGTGTTGAACCTATACAAG
1 -GAATTACCAGTCGATGTTGAACCTATACAAA
388507 GAATTACCAG
1 GAATTACCAG
388517 CAGCGATTGA
Statistics
Matches: 50, Mismatches: 14, Indels: 10
0.68 0.19 0.14
Matches are distributed among these distances:
27 5 0.10
28 12 0.24
29 3 0.06
30 4 0.08
31 22 0.44
32 4 0.08
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (31 bp):
GAATTACCAGTCGATGTTGAACCTATACAAA
Found at i:390364 original size:11 final size:11
Alignment explanation
Indices: 390347--390380 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
390337 ACCCGAAAAA
*
390347 AGTCAACGGTC
1 AGTCAACGATC
*
390358 GGTCAACGATC
1 AGTCAACGATC
390369 AGTCAACGATC
1 AGTCAACGATC
390380 A
1 A
390381 ACGGTCAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (11 bp):
AGTCAACGATC
Found at i:391682 original size:23 final size:21
Alignment explanation
Indices: 391632--391688 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 21
391622 TTTTAAAAAA
391632 ATAATAAATATTATTAATTAT
1 ATAATAAATATTATTAATTAT
*
391653 ATCAATAATTTATTATGT-ATTATT
1 AT-AATAA-ATATTAT-TAATTA-T
391677 ATAATATAATAT
1 ATAATA-AATAT
391689 AATAATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 2 0.07
22 5 0.17
23 17 0.59
24 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATAATAAATATTATTAATTAT
Found at i:392795 original size:37 final size:35
Alignment explanation
Indices: 392754--392839 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
392744 TAGATAAAAT
* *
392754 TTTAGTCATGACACAATGAAAATGTCGTAGATCGAAC
1 TTTAGACATGACACAATG--AATATCGTAGATCGAAC
** * *
392791 TTTAGACATGACACTTTGATTATCGTGGATCGAAC
1 TTTAGACATGACACAATGAATATCGTAGATCGAAC
392826 TTTAGACATGACAC
1 TTTAGACATGACAC
392840 TTTGATTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 28 0.65
37 15 0.35
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (35 bp):
TTTAGACATGACACAATGAATATCGTAGATCGAAC
Found at i:392829 original size:35 final size:35
Alignment explanation
Indices: 392778--392848 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
392768 AATGAAAATG
392778 TCGTAGATCGAACTTTAGACATGACACTTTGATTA
1 TCGTAGATCGAACTTTAGACATGACACTTTGATTA
*
392813 TCGTGGATCGAACTTTAGACATGACACTTTGATTA
1 TCGTAGATCGAACTTTAGACATGACACTTTGATTA
392848 T
1 T
392849 GTCGTGAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (35 bp):
TCGTAGATCGAACTTTAGACATGACACTTTGATTA
Found at i:397513 original size:9 final size:11
Alignment explanation
Indices: 397486--397515 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
397476 TAAAACTAAG
397486 TAATATATAAA
1 TAATATATAAA
397497 TAATATATAAA
1 TAATATATAAA
397508 TAATATAT
1 TAATATAT
397516 TAATTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAATATATAAA
Found at i:399537 original size:4 final size:4
Alignment explanation
Indices: 399528--399561 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
399518 GATATGCATA
399528 TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
399562 GGGAAAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:400596 original size:21 final size:22
Alignment explanation
Indices: 400551--400597 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
400541 TAATATAAAG
*
400551 AAAAAAACTAACATCCATTTCA
1 AAAAAAACTAACATCCATTTAA
* *
400573 AAAAAAATTGACATCC-TTTAA
1 AAAAAAACTAACATCCATTTAA
400594 AAAA
1 AAAA
400598 TGGATGTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAAAACTAACATCCATTTAA
Found at i:402313 original size:17 final size:17
Alignment explanation
Indices: 402291--402325 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
402281 CTAATGAGTT
402291 AACCTTAATTGATGATC
1 AACCTTAATTGATGATC
402308 AACCTTAATTGATGATC
1 AACCTTAATTGATGATC
402325 A
1 A
402326 CCGCTGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (17 bp):
AACCTTAATTGATGATC
Found at i:402643 original size:26 final size:26
Alignment explanation
Indices: 402614--402671 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
402604 TTAGTAATTA
* *
402614 TTCATTAATTTCATTTATGAC-ATCCT
1 TTCATGAATTTCAGTTAT-ACTATCCT
* *
402640 TTCATGCATTTTAGTTATACTATCCT
1 TTCATGAATTTCAGTTATACTATCCT
402666 TTCATG
1 TTCATG
402672 CCTTAATGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.50
Consensus pattern (26 bp):
TTCATGAATTTCAGTTATACTATCCT
Found at i:402740 original size:26 final size:26
Alignment explanation
Indices: 402688--402744 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
402678 TGCATCATTA
** **
402688 CATGCATTTTAGTTATGGTTTTTTTT
1 CATGCATTTTAGTTATGGCATACTTT
402714 CATGCATTTTAGTTATGGCATACTTT
1 CATGCATTTTAGTTATGGCATACTTT
402740 CATGC
1 CATGC
402745 CTTAATGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (26 bp):
CATGCATTTTAGTTATGGCATACTTT
Found at i:402785 original size:45 final size:46
Alignment explanation
Indices: 402711--402809 Score: 164
Period size: 45 Copynumber: 2.2 Consensus size: 46
402701 TATGGTTTTT
*
402711 TTTCATGCATTTTAGTTATGGCATACTTTCATGCCTTAATGCATCA
1 TTTCATGCATTTTAGTTATGACATACTTTCATGCCTTAATGCATCA
* *
402757 TTT-ATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCC
1 TTTCATGCATTTTAGTTATGACATACTTTCATGCCTTAATGCATCA
402802 TTTCATGC
1 TTTCATGC
402810 CTTAATGCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
45 42 0.86
46 7 0.14
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.44
Consensus pattern (46 bp):
TTTCATGCATTTTAGTTATGACATACTTTCATGCCTTAATGCATCA
Found at i:402802 original size:20 final size:20
Alignment explanation
Indices: 402731--402921 Score: 123
Period size: 20 Copynumber: 8.7 Consensus size: 20
402721 TTTAGTTATG
*
402731 GCATACTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
402751 GCATCATTT-ATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
402775 GACATCCTTTCATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
402796 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
402816 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
*
402841 GACATCCTTTTATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
* *
402862 GTATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
*
402887 GGAATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
**
402908 GCATTATTTCATGC
1 GCATCCTTTCATGC
402922 ATTTTAGTTA
Statistics
Matches: 136, Mismatches: 16, Indels: 38
0.72 0.08 0.20
Matches are distributed among these distances:
19 4 0.03
20 62 0.46
21 11 0.08
22 6 0.04
24 12 0.09
25 12 0.09
26 29 0.21
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:402846 original size:66 final size:66
Alignment explanation
Indices: 402661--402875 Score: 270
Period size: 66 Copynumber: 3.2 Consensus size: 66
402651 TAGTTATACT
* *** ** *
402661 ATCCTTTCATGCCTTAATGCATCATTACATGCATTTTAGTTATGGTTTTTTTTCATGCATTTTAG
1 ATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGACATCCTTTCATGC--CTTA-
402726 TTATGGC
63 --AT-GC
*
402733 ATACTTTCATGCCTTAATGCATCATTT-ATGCATTTTAGTTATGACATCCTTTCATGCCTTAATG
1 ATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATG
402797 C
66 C
* *
402798 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCCTTTTATGCCTTAATG
1 ATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATG
*
402863 T
66 C
402864 ATCCTTTCATGC
1 ATCCTTTCATGC
402876 ATTTTAGTTA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
65 27 0.21
66 50 0.38
69 3 0.02
71 25 0.19
72 25 0.19
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.46
Consensus pattern (66 bp):
ATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATG
C
Found at i:402868 original size:46 final size:47
Alignment explanation
Indices: 402797--402932 Score: 222
Period size: 46 Copynumber: 2.9 Consensus size: 47
402787 TGCCTTAATG
402797 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT-GA
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGA
* *
402843 CATCCTTTTATGCCTTAATGTATCCTTTCATGCATTTTAGTTATGGA
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGA
**
402890 -ATCCTTTCATGCCTTAATGCATTATTTCATGCATTTTAGTTAT
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT
402933 AAATTCATTT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
46 81 0.98
47 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (47 bp):
CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGA
Found at i:413088 original size:8 final size:8
Alignment explanation
Indices: 413075--413105 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
413065 TATATGCTCC
413075 TTATTTTA
1 TTATTTTA
413083 TTATTTTA
1 TTATTTTA
*
413091 TTATTTCA
1 TTATTTTA
413099 TTATTTT
1 TTATTTT
413106 TTCATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:417284 original size:152 final size:153
Alignment explanation
Indices: 417008--417313 Score: 596
Period size: 152 Copynumber: 2.0 Consensus size: 153
416998 GCAGACTAAG
417008 AGGTGGGCCGACCGAAAATGTAGGGATGTAAAATTTGAAGTTGGTGATCCTATCCTTGAAAAGTT
1 AGGTGGGCCGACCGAAAATGTAGGGATGTAAAATTTGAAGTTGGTGATCCTATCCTTGAAAAGTT
417073 AACCAATGTTTTGCGCAACAAGGATGTGCACAAAGGGCTTGTGCGGAGGTACGAGGGTATGTTTC
66 AACCAATGTTTTGCGCAACAAGGATGTGCACAAAGGGCTTGTGCGGAGGTACGAGGGTATGTTTC
417138 GAGTTGTGAAGC-GGTAGGCACC
131 GAGTTGTGAAGCGGGTAGGCACC
417160 AGGTGGGCCGACCGAAAATGTAGGGATGTAAAATTTGAAGTTGGTGATCCTATCCTTGAAAAGTT
1 AGGTGGGCCGACCGAAAATGTAGGGATGTAAAATTTGAAGTTGGTGATCCTATCCTTGAAAAGTT
*
417225 AACCAATGTTTTGCGCAACACGGATGTGCACAAAGGGCTTGTGCGGAGGTACGAGGGTATGTTTC
66 AACCAATGTTTTGCGCAACAAGGATGTGCACAAAGGGCTTGTGCGGAGGTACGAGGGTATGTTTC
417290 GAGTTGTGAAGCGGGTAGGCACC
131 GAGTTGTGAAGCGGGTAGGCACC
417313 A
1 A
417314 TAGCCTATAG
Statistics
Matches: 152, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
152 141 0.93
153 11 0.07
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (153 bp):
AGGTGGGCCGACCGAAAATGTAGGGATGTAAAATTTGAAGTTGGTGATCCTATCCTTGAAAAGTT
AACCAATGTTTTGCGCAACAAGGATGTGCACAAAGGGCTTGTGCGGAGGTACGAGGGTATGTTTC
GAGTTGTGAAGCGGGTAGGCACC
Found at i:419554 original size:2 final size:2
Alignment explanation
Indices: 419547--419591 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
419537 GTTGATATGC
*
419547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
419589 AT A
1 AT A
419592 GCGAAAGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:421450 original size:14 final size:14
Alignment explanation
Indices: 421431--421458 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
421421 ATTAAATTGA
421431 ACAAACGTGAAATT
1 ACAAACGTGAAATT
421445 ACAAACGTGAAATT
1 ACAAACGTGAAATT
421459 TAAATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
ACAAACGTGAAATT
Found at i:421743 original size:14 final size:14
Alignment explanation
Indices: 421724--421760 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
421714 ATTAAATTGA
421724 ATAAATATAAAATT
1 ATAAATATAAAATT
421738 ATAAAT-TAAAATT
1 ATAAATATAAAATT
*
421751 -TAAAAATAAA
1 ATAAATATAAA
421761 TTAAACAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 4 0.19
13 11 0.52
14 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATATAAAATT
Found at i:423121 original size:14 final size:13
Alignment explanation
Indices: 423099--423133 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
423089 TTTAATGATG
*
423099 ATAATTAAGGTTT
1 ATAATTAAGGATT
423112 ATAATATAAGGATT
1 ATAAT-TAAGGATT
423126 ATAATTAA
1 ATAATTAA
423134 TATAAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (13 bp):
ATAATTAAGGATT
Found at i:423841 original size:15 final size:15
Alignment explanation
Indices: 423831--424092 Score: 104
Period size: 16 Copynumber: 17.1 Consensus size: 15
423821 TATTATCTTA
423831 TTATATATTATATAT
1 TTATATATTATATAT
423846 TTATATATTATATA-
1 TTATATATTATATAT
*
423860 GTACTTATATTATATAGT
1 TTA--TATATTATATA-T
423878 ATT-TATATTATAT-T
1 -TTATATATTATATAT
* * *
423892 ATATTTATTATATGGT
1 TTATATATTATAT-AT
423908 ATT-TATATTATATTAT
1 -TTATATATTATA-TAT
423924 ATTATAT-TTATTATAT
1 -TTATATATTA-TATAT
423940 TATATTATATT-TATA-
1 T-TA-TATATTATATAT
*
423955 TTATATAGTATA-AT
1 TTATATATTATATAT
* *
423969 ATATATGTTATATAT
1 TTATATATTATATAT
* *
423984 GTA-GTATTATATAT
1 TTATATATTATATAT
*
423998 TATATAGCATT-TATAGT
1 T-TATA-TATTATATA-T
*
424015 TTATACGTAGTATATATAA
1 TTATA--TA-T-TATATAT
* *
424034 TAATATTATTATATAA
1 TTATA-TATTATATAT
*
424050 TAATAT-TTAT-TAT
1 TTATATATTATATAT
*
424063 TTATATATTACAT-T
1 TTATATATTATATAT
424077 ATTA-ATATTAT-TAT
1 -TTATATATTATATAT
424091 TT
1 TT
424093 TGGTTTTGCT
Statistics
Matches: 192, Mismatches: 25, Indels: 62
0.69 0.09 0.22
Matches are distributed among these distances:
13 17 0.09
14 49 0.26
15 27 0.14
16 66 0.34
17 18 0.09
18 5 0.03
19 6 0.03
20 4 0.02
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (15 bp):
TTATATATTATATAT
Found at i:423842 original size:5 final size:5
Alignment explanation
Indices: 423811--423960 Score: 136
Period size: 5 Copynumber: 29.8 Consensus size: 5
423801 TGAAGTTTTC
* * *
423811 ATATT ATA-T GTATT ATCTT AT-TAT ATATT ATA-T ATTTAT ATATT ATA-T
1 ATATT ATATT ATATT ATATT ATAT-T ATATT ATATT ATAT-T ATATT ATATT
423859 AGTACTT ATATT ATA-T AGTATTT ATATT ATATT ATATT -TATT ATATGGT
1 A-TA-TT ATATT ATATT A-TA-TT ATATT ATATT ATATT ATATT ATAT--T
423908 AT-TT ATATT ATATT ATATT ATATT -TATT ATATT ATATT ATATTT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA-TT ATATT
423957 ATAT
1 ATAT
423961 AGTATAATAT
Statistics
Matches: 123, Mismatches: 5, Indels: 34
0.76 0.03 0.21
Matches are distributed among these distances:
4 22 0.18
5 79 0.64
6 15 0.12
7 7 0.06
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:423870 original size:16 final size:15
Alignment explanation
Indices: 423811--423995 Score: 131
Period size: 14 Copynumber: 13.3 Consensus size: 15
423801 TGAAGTTTTC
423811 ATATTATAT-GTATT
1 ATATTATATAGTATT
*
423825 ATCTTATTATA-TATT
1 ATATTA-TATAGTATT
423840 ATA-TAT-T--TA-T
1 ATATTATATAGTATT
423850 ATATTATATAGTACTT
1 ATATTATATAGTA-TT
423866 ATATTATATAGTATTT
1 ATATTATATAGTA-TT
423882 ATATTATATTA-TATT
1 ATATTATA-TAGTATT
*
423897 -TATTATATGGTATT
1 ATATTATATAGTATT
423911 -TA-TAT-TA-TATT
1 ATATTATATAGTATT
*
423922 ATATTATAT-TTATT
1 ATATTATATAGTATT
423936 ATATTATATTA-TATTT
1 ATATTATA-TAGTA-TT
423952 ATATTATATAGTA-T
1 ATATTATATAGTATT
*
423966 A-A-TATATA-TGTT
1 ATATTATATAGTATT
*
423978 ATA-TATGTAGTATT
1 ATATTATATAGTATT
423992 ATAT
1 ATAT
423996 ATTATATAGC
Statistics
Matches: 141, Mismatches: 8, Indels: 43
0.73 0.04 0.22
Matches are distributed among these distances:
10 4 0.03
11 10 0.07
12 13 0.09
13 15 0.11
14 43 0.30
15 16 0.11
16 38 0.27
17 2 0.01
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (15 bp):
ATATTATATAGTATT
Found at i:423902 original size:19 final size:19
Alignment explanation
Indices: 423811--423953 Score: 124
Period size: 19 Copynumber: 7.7 Consensus size: 19
423801 TGAAGTTTTC
* *
423811 ATATTATATGTATTAT-CT
1 ATATTATATTTATTATATT
423829 -TATTATA--TATTATA-T
1 ATATTATATTTATTATATT
423844 AT-TTATATATTATATAGTACTT
1 ATATTATAT-TTAT-TA-TA-TT
*
423866 ATATTATATAGTATTTATATT
1 ATATTATAT-TTA-TTATATT
*
423887 ATATTATATTTATTATATG
1 ATATTATATTTATTATATT
*
423906 GTATT-TA--TATTATATT
1 ATATTATATTTATTATATT
423922 ATATTATATTTATTATATT
1 ATATTATATTTATTATATT
423941 ATATTATATTTAT
1 ATATTATATTTAT
423954 ATTATATAGT
Statistics
Matches: 105, Mismatches: 6, Indels: 27
0.76 0.04 0.20
Matches are distributed among these distances:
15 12 0.11
16 13 0.12
17 9 0.09
18 5 0.05
19 34 0.32
20 4 0.04
21 11 0.10
22 5 0.05
23 11 0.10
24 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (19 bp):
ATATTATATTTATTATATT
Found at i:423919 original size:35 final size:35
Alignment explanation
Indices: 423834--423960 Score: 156
Period size: 35 Copynumber: 3.6 Consensus size: 35
423824 TATCTTATTA
*
423834 TATATTATATATT-TA-TATATTATATAGTACTTATAT
1 TATATTATAT-TTATATTATATTATAT-TTA-TTATAT
423870 TATA-TAGTATTTATATTATATTATATTTATTATAT
1 TATATTA-TATTTATATTATATTATATTTATTATAT
423905 GGTAT-TTATA-TTATATTATATTATATTTATTATAT
1 --TATATTATATTTATATTATATTATATTTATTATAT
423940 TATATTATATTTATATTATAT
1 TATATTATATTTATATTATAT
423961 AGTATAATAT
Statistics
Matches: 82, Mismatches: 1, Indels: 17
0.82 0.01 0.17
Matches are distributed among these distances:
33 3 0.04
34 5 0.06
35 46 0.56
36 13 0.16
37 15 0.18
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (35 bp):
TATATTATATTTATATTATATTATATTTATTATAT
Found at i:423974 original size:35 final size:35
Alignment explanation
Indices: 423832--424001 Score: 114
Period size: 35 Copynumber: 5.0 Consensus size: 35
423822 ATTATCTTAT
*
423832 TATATATTATA-TAT-TTATATATTATATAGTACTTA
1 TATATATTATATTATATT-TATATTATATAGTA-TAA
* *
423867 TAT-TATATAGTATT-TATATTATATTATAT-TTATTA
1 TATATAT-TA-TATTATAT-TTATATTATATAGTATAA
*
423902 TATGGTATTTATATTATA-TTATATTATAT--T-T-A
1 TAT-ATA-TTATATTATATTTATATTATATAGTATAA
423934 T-TATATTATATTATATTTATATTATATAGTATAA
1 TATATATTATATTATATTTATATTATATAGTATAA
* *
423968 TATATATGT-TA-TATATGTAGTATTATATATTATA
1 TATATAT-TATATTATATTTA-TATTATATAGTATA
424002 TAGCATTTAT
Statistics
Matches: 114, Mismatches: 4, Indels: 34
0.75 0.03 0.22
Matches are distributed among these distances:
29 10 0.09
30 13 0.11
31 1 0.01
32 3 0.03
33 2 0.02
34 13 0.11
35 42 0.37
36 10 0.09
37 18 0.16
38 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (35 bp):
TATATATTATATTATATTTATATTATATAGTATAA
Found at i:423996 original size:16 final size:15
Alignment explanation
Indices: 423811--424003 Score: 129
Period size: 16 Copynumber: 12.9 Consensus size: 15
423801 TGAAGTTTTC
*
423811 ATAT-TATATGTATT
1 ATATATATATATATT
*
423825 ATCT-TATTATATATT
1 ATATATA-TATATATT
*
423840 ATATATTTATATATT
1 ATATATATATATATT
423855 ATATAGTACT-TATATT
1 ATATA-TA-TATATATT
*
423871 ATATAGTATTTATATT
1 ATATA-TATATATATT
*
423887 ATAT-TATATTTATT
1 ATATATATATATATT
* *
423901 ATATGGTATTTATATT
1 ATAT-ATATATATATT
423917 ATAT-TATATTATATT
1 ATATATATA-TATATT
423932 -TAT-TATATTATATT
1 ATATATATA-TATATT
*
423946 ATATTTATAT-TA-T
1 ATATATATATATATT
423959 ATAGTATAATATATATGT
1 ATA-TAT-ATATATAT-T
*
423977 -TATATATGTAGTATT
1 ATATATATATA-TATT
423992 ATATAT-TATATA
1 ATATATATATATA
424004 GCATTTATAG
Statistics
Matches: 149, Mismatches: 13, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
13 4 0.03
14 40 0.27
15 46 0.31
16 55 0.37
17 3 0.02
18 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (15 bp):
ATATATATATATATT
Found at i:425254 original size:18 final size:19
Alignment explanation
Indices: 425209--425255 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
425199 ATTTTTAAAG
* *
425209 TTGGTTGTTTCTTGAATTT
1 TTGGTTGGTTCTTGAATCT
425228 TTGGGTTGGTT-TTGAATCT
1 TT-GGTTGGTTCTTGAATCT
425247 TTGGTTGGT
1 TTGGTTGGT
425256 ATAGAAGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.28
19 11 0.44
20 7 0.28
ACGTcount: A:0.09, C:0.04, G:0.30, T:0.57
Consensus pattern (19 bp):
TTGGTTGGTTCTTGAATCT
Found at i:426251 original size:15 final size:15
Alignment explanation
Indices: 426231--426301 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
426221 GAATTTATTA
*
426231 ATATGTGAATATTTT
1 ATATGTGAATATGTT
*
426246 ATATGTAAATATGTT
1 ATATGTGAATATGTT
* * *
426261 CTATATGAAAATGTT
1 ATATGTGAATATGTT
* *
426276 TTATGTGAATGTGTT
1 ATATGTGAATATGTT
*
426291 CTATGTGAATA
1 ATATGTGAATA
426302 AATGATACTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (15 bp):
ATATGTGAATATGTT
Done.