Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_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: 4364108
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 17
Found at i:3788268 original size:104 final size:105
Alignment explanation
Indices: 3788136--3788352 Score: 314
Period size: 104 Copynumber: 2.1 Consensus size: 105
3788126 AAATATATAA
* *
3788136 AAATAAAATAAAAAAACGTTATTGGTTAGCAGAGTCT-GAACCATAATAATGTGGATCATACCCC
1 AAAT-AAATAAAAAAACGTTAGTGGTTAGCAGA-TCTCGAACCATAATAATGTGAATCATACCCC
* *
3788200 -GAATCTGATCACCACAAGGTCGAATCGAATATTAGAAACAAT
64 AG-ATCTGATCACCACAAGGTCAAATCAAATATTAGAAACAAT
* *
3788242 AAATAAAT-AAAAAAGGTTAGTGGTTAGCAGATTTCGAACCATAATAATGTGAATCATACCCCAG
1 AAATAAATAAAAAAACGTTAGTGGTTAGCAGATCTCGAACCATAATAATGTGAATCATACCCCAG
*
3788306 ATCTGGTCACCACAAGGTCAAATCAAATATTAGAAACAAT
66 ATCTGATCACCACAAGGTCAAATCAAATATTAGAAACAAT
*
3788346 ATATAAA
1 AAATAAA
3788353 AATAAAATAA
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
103 2 0.02
104 90 0.89
105 5 0.05
106 4 0.04
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (105 bp):
AAATAAATAAAAAAACGTTAGTGGTTAGCAGATCTCGAACCATAATAATGTGAATCATACCCCAG
ATCTGATCACCACAAGGTCAAATCAAATATTAGAAACAAT
Found at i:3788480 original size:128 final size:130
Alignment explanation
Indices: 3788239--3788492 Score: 379
Period size: 128 Copynumber: 2.0 Consensus size: 130
3788229 TATTAGAAAC
* *
3788239 AATAAATAAATAAAAAAGGTTAGTGGTTAGCAGATTTCGAACCATAATAATGTGAATCATACCCC
1 AATAAAAAAATAAAAAAGGTTAGTGGTTAGCAGATCTCGAACCATAATAATGTGAATCATACCCC
*
3788304 AGATCTGGTCACCACAAGGTCAAATCAAATATTAGAAACAATATAT-AA-AAATAAAATAAGTAA
66 AGATCTGGTCACCACAAGGTCAAATCAAATATTAGAAACAATAAATAAATAAATAAAATAAGTAA
* *
3788367 AATAAAAAAATAAAAAAGGTTAGTGGTTAGTAGAGTCT-GAACCATAATAATGTGGATCATACCC
1 AATAAAAAAATAAAAAAGGTTAGTGGTTAGCAGA-TCTCGAACCATAATAATGTGAATCATACCC
* ** * * *
3788431 CGGATCTGGTCACCACAAGGTTGAATCGAATATTATAAATAATAAATAAATAAATAAAATAA
65 CAGATCTGGTCACCACAAGGTCAAATCAAATATTAGAAACAATAAATAAATAAATAAAATAA
3788493 ACAAATAATG
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
128 97 0.87
129 4 0.04
130 11 0.10
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (130 bp):
AATAAAAAAATAAAAAAGGTTAGTGGTTAGCAGATCTCGAACCATAATAATGTGAATCATACCCC
AGATCTGGTCACCACAAGGTCAAATCAAATATTAGAAACAATAAATAAATAAATAAAATAAGTAA
Found at i:3799690 original size:23 final size:23
Alignment explanation
Indices: 3799664--3799732 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
3799654 TTATTACTTG
3799664 TTATGAAAAGTAATTCACAATTA
1 TTATGAAAAGTAATTCACAATTA
* *
3799687 TTAT-AGTAA-TAATT-GC--TTA
1 TTATGA-AAAGTAATTCACAATTA
**
3799706 TTATGGCAAGTAATTCACAATTA
1 TTATGAAAAGTAATTCACAATTA
3799729 TTAT
1 TTAT
3799733 AGTAATAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
19 9 0.26
20 5 0.14
21 2 0.06
22 6 0.17
23 13 0.37
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (23 bp):
TTATGAAAAGTAATTCACAATTA
Found at i:3801714 original size:2 final size:2
Alignment explanation
Indices: 3801707--3801733 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3801697 TGCAGATAAC
3801707 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
3801734 CCACATGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3802516 original size:29 final size:29
Alignment explanation
Indices: 3802386--3802542 Score: 138
Period size: 29 Copynumber: 5.4 Consensus size: 29
3802376 ATCTGTAAAC
* * *
3802386 AGTTGTGTACTTTATCGTAATTTAGAAAT
1 AGTTTTGTACTTTATTGTAATTTAAAAAT
* * * *
3802415 TGTTTTATATTTTATTGTAATCTAAAAAT
1 AGTTTTGTACTTTATTGTAATTTAAAAAT
* * * *
3802444 AGTTTTGCACGTTGTTGTATTTTAAAAAT
1 AGTTTTGTACTTTATTGTAATTTAAAAAT
* * *
3802473 AGTTGTATACCTTATTGTAATTTAATAAA-
1 AGTTTTGTACTTTATTGTAATTTAA-AAAT
* *
3802502 AGTTTTGTATTTTATTGTAATTTATAAAT
1 AGTTTTGTACTTTATTGTAATTTAAAAAT
*
3802531 ACTTTTGT-CTTT
1 AGTTTTGTACTTT
3802543 TGATGTAAAT
Statistics
Matches: 98, Mismatches: 28, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
28 6 0.06
29 89 0.91
30 3 0.03
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (29 bp):
AGTTTTGTACTTTATTGTAATTTAAAAAT
Found at i:3802520 original size:58 final size:59
Alignment explanation
Indices: 3802366--3802531 Score: 158
Period size: 58 Copynumber: 2.9 Consensus size: 59
3802356 TCGGACAAAC
* * * * * * *
3802366 CCTTATTATAATCT-GTAAACAGTTGTGTACTTTATCGTAATTTAGAAATTGTTTTATA
1 CCTTATTGTAATCTAATAAACAGTTTTGTACTTTATTGTAATTTAAAAATAGTTGTATA
** * * * * *
3802424 TTTTATTGTAATCTAA-AAATAGTTTTGCACGTTGTTGTATTTTAAAAATAGTTGTATA
1 CCTTATTGTAATCTAATAAACAGTTTTGTACTTTATTGTAATTTAAAAATAGTTGTATA
* * *
3802482 CCTTATTGTAATTTAATAAA-AGTTTTGTATTTTATTGTAATTTATAAATA
1 CCTTATTGTAATCTAATAAACAGTTTTGTACTTTATTGTAATTTAAAAATA
3802532 CTTTTGTCTT
Statistics
Matches: 83, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
58 80 0.96
59 3 0.04
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (59 bp):
CCTTATTGTAATCTAATAAACAGTTTTGTACTTTATTGTAATTTAAAAATAGTTGTATA
Found at i:3802616 original size:29 final size:29
Alignment explanation
Indices: 3802546--3802617 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
3802536 TGTCTTTTGA
* *
3802546 TGTAAATTCTAAAAAGATTTGCCCTTTAT
1 TGTAAATTCTAAAAAGATTTGTCATTTAT
*
3802575 TATAAATTCTAAAAAGATTTGTCATTTAT
1 TGTAAATTCTAAAAAGATTTGTCATTTAT
* *
3802604 TGTAATTTTTAAAA
1 TGTAAATTCTAAAA
3802618 TGTTTTACCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (29 bp):
TGTAAATTCTAAAAAGATTTGTCATTTAT
Found at i:3804648 original size:23 final size:23
Alignment explanation
Indices: 3804622--3804692 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
3804612 GGTTCTACGC
*
3804622 GGTCCTTTGGCACAATTCTATGT
1 GGTCCTTTGGGACAATTCTATGT
* **
3804645 GGTCCTTCGGGACAATTCTAAAT
1 GGTCCTTTGGGACAATTCTATGT
*
3804668 GGT-CTTTCGGGACAAATCTATGT
1 GGTCCTTT-GGGACAATTCTATGT
3804691 GG
1 GG
3804693 CACATCGATG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 3 0.08
23 36 0.92
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (23 bp):
GGTCCTTTGGGACAATTCTATGT
Found at i:3804716 original size:24 final size:24
Alignment explanation
Indices: 3804680--3804735 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
3804670 TCTTTCGGGA
3804680 CAAA-TCTATGTGGCACATCGATG
1 CAAATTCTATGTGGCACATCGATG
* * *
3804703 CATATTCTATGTGGCACTTCGGTG
1 CAAATTCTATGTGGCACATCGATG
3804727 CAAATTCTA
1 CAAATTCTA
3804736 CATGGCAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (24 bp):
CAAATTCTATGTGGCACATCGATG
Found at i:3804741 original size:24 final size:24
Alignment explanation
Indices: 3804690--3804742 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
3804680 CAAATCTATG
* **
3804690 TGGCACATCGATGCATATTCTATG
1 TGGCACATCGATGCAAATTCTACA
* *
3804714 TGGCACTTCGGTGCAAATTCTACA
1 TGGCACATCGATGCAAATTCTACA
3804738 TGGCA
1 TGGCA
3804743 GTTTCGACTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (24 bp):
TGGCACATCGATGCAAATTCTACA
Found at i:3806242 original size:32 final size:32
Alignment explanation
Indices: 3806201--3806295 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
3806191 ATACTAACAG
*
3806201 AGTGACACATTCAAATAATGCACAACAGTGTC
1 AGTGTCACATTCAAATAATGCACAACAGTGTC
* *
3806233 AGTGTCACATT-AAGATAATGCACAAAAGTGTT
1 AGTGTCACATTCAA-ATAATGCACAACAGTGTC
* ** * *
3806265 AGCGTCGTATTCAGATAATGCACATCAGTGT
1 AGTGTCACATTCAAATAATGCACAACAGTGT
3806296 GTCCTGTCCC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 2 0.04
32 49 0.94
33 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (32 bp):
AGTGTCACATTCAAATAATGCACAACAGTGTC
Found at i:3808187 original size:17 final size:17
Alignment explanation
Indices: 3808134--3808188 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
3808124 ATTTCATTCA
* *
3808134 AAGCATGTACTTCATTT
1 AAGCATGTAGTTCCTTT
* *
3808151 -AGCAAGTAG-TCCATTA
1 AAGCATGTAGTTCC-TTT
3808167 AAGCATGTAGTTCCTTT
1 AAGCATGTAGTTCCTTT
3808184 AAGCA
1 AAGCA
3808189 AGCTACTTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 2 0.07
16 9 0.31
17 15 0.52
18 3 0.10
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (17 bp):
AAGCATGTAGTTCCTTT
Found at i:3808202 original size:18 final size:17
Alignment explanation
Indices: 3808134--3808218 Score: 64
Period size: 18 Copynumber: 4.9 Consensus size: 17
3808124 ATTTCATTCA
* *
3808134 AAGCATGTACTTCATTT
1 AAGCAAGTAGTTCATTT
* *
3808151 -AGCAAGTAGTCCATTA
1 AAGCAAGTAGTTCATTT
* *
3808167 AAGCATGTAGTTCCTTT
1 AAGCAAGTAGTTCATTT
*
3808184 AAGCAAGCTACTTCATTT
1 AAGCAAG-TAGTTCATTT
* *
3808202 AAGTATGCTAGTTCATT
1 AAGCAAG-TAGTTCATT
3808219 CAATAAATTT
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
16 12 0.23
17 18 0.35
18 22 0.42
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (17 bp):
AAGCAAGTAGTTCATTT
Found at i:3809904 original size:61 final size:61
Alignment explanation
Indices: 3809803--3809989 Score: 320
Period size: 61 Copynumber: 3.1 Consensus size: 61
3809793 ATATGCACCG
* *
3809803 TAGTGCTATGACACATAAGGTCATGCTCACCACCTGTACTAAGTGTCTTGGGTATACACTC
1 TAGTACTATGACACATAAGGTCATGCCCACCACCTGTACTAAGTGTCTTGGGTATACACTC
* * *
3809864 TAGTATTATGATACATAAGATCATGCCCACCACCTGTACTAAGTGTCTTGGGTATACACTC
1 TAGTACTATGACACATAAGGTCATGCCCACCACCTGTACTAAGTGTCTTGGGTATACACTC
*
3809925 TAGTACTATGACACATAAGGTCATGCCCACCACCTGTACTAACTGTCTTGGGTATACACTC
1 TAGTACTATGACACATAAGGTCATGCCCACCACCTGTACTAAGTGTCTTGGGTATACACTC
3809986 TAGT
1 TAGT
3809990 GCTAATCTGG
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 117 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (61 bp):
TAGTACTATGACACATAAGGTCATGCCCACCACCTGTACTAAGTGTCTTGGGTATACACTC
Found at i:3812118 original size:11 final size:11
Alignment explanation
Indices: 3812082--3812119 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
3812072 TGGTCTCATG
3812082 AATTTCTAGTT
1 AATTTCTAGTT
*
3812093 AATATCTAGTT
1 AATTTCTAGTT
*
3812104 AATTTCAAGTT
1 AATTTCTAGTT
3812115 AATTT
1 AATTT
3812120 ATCTTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (11 bp):
AATTTCTAGTT
Found at i:3818154 original size:20 final size:20
Alignment explanation
Indices: 3818129--3818194 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
3818119 TAATAACCTC
3818129 AAAATCCATCATCAATCCAT
1 AAAATCCATCATCAATCCAT
* * *
3818149 AAAATCC-TAAT-ATGTTCAT
1 AAAATCCATCATCA-ATCCAT
3818168 --AATCCATCATCAATCCAT
1 AAAATCCATCATCAATCCAT
3818186 AAAATCCAT
1 AAAATCCAT
3818195 GATAAAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 5 0.14
18 8 0.23
19 8 0.23
20 14 0.40
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATCCATCATCAATCCAT
Found at i:3822517 original size:74 final size:74
Alignment explanation
Indices: 3822392--3822831 Score: 456
Period size: 74 Copynumber: 5.9 Consensus size: 74
3822382 CCCAAACAAT
* * * * * * * *
3822392 ATGATGTTTTCAAATAAATTTTTAAAGAAGCTCAGTCTAATTTTTAGAGGTTTCTTGATGATTAG
1 ATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTATGATTTTCAAAGGTTTCTTGATAATTAC
3822457 TTGATTGAC
66 TTGATTGAC
* *
3822466 ATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTCTGATTTTCAAAGGTTTCTTGATGATTAC
1 ATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTATGATTTTCAAAGGTTTCTTGATAATTAC
*
3822531 TTAATTGAC
66 TTGATTGAC
* * * * * * *
3822540 CTAATGCTTTCAAAT-GAATTTGTAAAGAAGCAAAGTATGATTTTCAGAGGGTTTATT-ATAATT
1 ATGATGTTTTCAAATAAAATTT-TAAAGAAGCTAAGTATGATTTTCA-AAGGTTTCTTGATAATT
3822603 ACTTGATTGAC
64 ACTTGATTGAC
* * * * * * *
3822614 ATGATGTTTTCAAATGAATTTTTAAAGAAGCTAGGTATGATTTTCGAAGGTTTCTTAACAATTAT
1 ATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTATGATTTTCAAAGGTTTCTTGATAATTAC
*
3822679 TTGATTAAC
66 TTGATTGAC
* * * * * * * * *
3822688 TTGATGTTTTCAAATTAATTTTTAAAGTAGCTAAG-ATTGATTTTTAGAGGTTCCTTGGTAAATA
1 ATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTA-TGATTTTCAAAGGTTTCTTGATAATTA
3822752 CTTGATTGAC
65 CTTGATTGAC
* * * * *
3822762 ATGATGTTTTCAAATGAAATTTTAATA-AATCTAAGTTTGATTTTCAGAGGTTTCTTGATGATTA
1 ATGATGTTTTCAAATAAAATTTTAA-AGAAGCTAAGTATGATTTTCAAAGGTTTCTTGATAATTA
3822826 CTTGAT
65 CTTGAT
3822832 GTTTTCAAAT
Statistics
Matches: 304, Mismatches: 55, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
73 14 0.05
74 277 0.91
75 13 0.04
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (74 bp):
ATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTATGATTTTCAAAGGTTTCTTGATAATTAC
TTGATTGAC
Found at i:3822646 original size:148 final size:145
Alignment explanation
Indices: 3822395--3822961 Score: 591
Period size: 148 Copynumber: 3.9 Consensus size: 145
3822385 AAACAATATG
* * * * * *
3822395 ATGTTTTCAAATAAATTTTTAAAGAAGCTCAGTCTAATTTTTAGAGGTTTCTTGATGATTAGTTG
1 ATGTTTTCAAATGAATTTTTAAAGAAGCTAAGTATGATTTTTAGAGGTTTCTTGATAATTACTTG
* *
3822460 ATTGACATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTCTGATTTTCAAAGGTTTCTTGAT
66 ATTGACATGATGTTTTCAAATGAAATTTTAAAGAAGCTAAGTTTGATTTTCAAAGGTTTCTTGAT
3822525 GATTACTTAATTGACCT
131 GATTACTT-ATTGA-CT
* * * * *
3822542 AATGCTTTCAAATGAATTTGTAAAGAAGCAAAGTATGATTTTCAGAGGGTTTATT-ATAATTACT
1 -ATGTTTTCAAATGAATTTTTAAAGAAGCTAAGTATGATTTTTAGA-GGTTTCTTGATAATTACT
* * * * *
3822606 TGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCTAGGTATGATTTTCGAAGGTTTCTTA
64 TGATTGACATGATGTTTTCAAATGAAATTTTAAAGAAGCTAAGTTTGATTTTCAAAGGTTTCTTG
** * *
3822671 ACAATTATTTGATTAACTT
129 ATGATTACTT-ATTGAC-T
* * * * *
3822690 GATGTTTTCAAATTAATTTTTAAAGTAGCTAAG-ATTGATTTTTAGAGGTTCCTTGGTAAATACT
1 -ATGTTTTCAAATGAATTTTTAAAGAAGCTAAGTA-TGATTTTTAGAGGTTTCTTGATAATTACT
* *
3822754 TGATTGACATGATGTTTTCAAATGAAATTTTAATA-AATCTAAGTTTGATTTTCAGAGGTTTCTT
64 TGATTGACATGATGTTTTCAAATGAAATTTTAA-AGAAGCTAAGTTTGATTTTCAAAGGTTTCTT
3822818 GATGATTAC---TTG---
128 GATGATTACTTATTGACT
* * * *
3822830 ATGTTTTCAAATGAGA-TTTTAAAGAAGCTAAGTCT-AGTCTTAAGAGGTTTCTTGATGATTACT
1 ATGTTTTCAAATGA-ATTTTTAAAGAAGCTAAGTATGA-TTTTTAGAGGTTTCTTGATAATTACT
* * * * * *
3822893 TGACTGATATAATGTTTTCAAATG-AATTTGTAAAGAAACCAAGTTTGATTTTCAAAGGTTTCTC
64 TGATTGACATGATGTTTTCAAATGAAATTT-TAAAGAAGCTAAGTTTGATTTTCAAAGGTTTCTT
3822957 GATGA
128 GATGA
3822962 ATAAATCCTC
Statistics
Matches: 349, Mismatches: 60, Indels: 29
0.80 0.14 0.07
Matches are distributed among these distances:
138 7 0.02
139 103 0.30
140 1 0.00
144 2 0.01
147 8 0.02
148 220 0.63
149 8 0.02
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (145 bp):
ATGTTTTCAAATGAATTTTTAAAGAAGCTAAGTATGATTTTTAGAGGTTTCTTGATAATTACTTG
ATTGACATGATGTTTTCAAATGAAATTTTAAAGAAGCTAAGTTTGATTTTCAAAGGTTTCTTGAT
GATTACTTATTGACT
Found at i:3822778 original size:222 final size:222
Alignment explanation
Indices: 3822392--3822831 Score: 532
Period size: 222 Copynumber: 2.0 Consensus size: 222
3822382 CCCAAACAAT
* * * **
3822392 ATGATGTTTTCAAATAAATTTTTAAAGAAGCTCAGTCTAATTTTTAGAGGTTTCTTGATGATTAG
1 ATGATGTTTTCAAATAAATTTTTAAAGAAGCTCAGTATAATTTTGAGAGGTTTCTTAACAATTAG
* *
3822457 TTGATTGACATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTCTGATTTTCAAAGGTTTCTT
66 TTGATTAACATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTCTGATTTTCAAAGGTTCCTT
* * *
3822522 GATGATTACTTAATTGACCTAATGCTTTCAAATG-AATTTGTAA-AGAAGCAAAGTATGATTTTC
131 GATAAATACTTAATTGACATAATGCTTTCAAATGAAATTT-TAATA-AAGCAAAGTATGATTTTC
3822585 AGAGGGTTTATT-ATAATTACTTGATTGAC
194 AGA-GGTTTATTGATAATTACTTGATTGAC
* *
3822614 ATGATGTTTTCAAATGAATTTTTAAAGAAGCT-AGGTATGATTTTCGA-AGGTTTCTTAACAATT
1 ATGATGTTTTCAAATAAATTTTTAAAGAAGCTCA-GTATAATTTT-GAGAGGTTTCTTAACAATT
* * * * * * *
3822677 ATTTGATTAACTTGATGTTTTCAAATTAATTTTTAAAGTAGCTAAGAT-TGATTTTTAGAGGTTC
64 AGTTGATTAACATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAG-TCTGATTTTCAAAGGTTC
* * * * * * *
3822741 CTTGGTAAATACTTGATTGACATGATGTTTTCAAATGAAATTTTAATAAATCTAAGTTTGATTTT
128 CTTGATAAATACTTAATTGACATAATGCTTTCAAATGAAATTTTAATAAAGCAAAGTATGATTTT
* *
3822806 CAGAGGTTTCTTGATGATTACTTGAT
193 CAGAGGTTTATTGATAATTACTTGAT
3822832 GTTTTCAAAT
Statistics
Matches: 184, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
221 8 0.04
222 168 0.91
223 8 0.04
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (222 bp):
ATGATGTTTTCAAATAAATTTTTAAAGAAGCTCAGTATAATTTTGAGAGGTTTCTTAACAATTAG
TTGATTAACATGATGTTTTCAAATAAAATTTTAAAGAAGCTAAGTCTGATTTTCAAAGGTTCCTT
GATAAATACTTAATTGACATAATGCTTTCAAATGAAATTTTAATAAAGCAAAGTATGATTTTCAG
AGGTTTATTGATAATTACTTGATTGAC
Found at i:3822876 original size:65 final size:65
Alignment explanation
Indices: 3822754--3822895 Score: 189
Period size: 65 Copynumber: 2.2 Consensus size: 65
3822744 GGTAAATACT
* * * * *
3822754 TGATTGACATGATGTTTTCAAATGAAATTTTAATAAATCTAAGTTTGATTTTCAGAGGTTTCTTG
1 TGATT-ACTTGATGTTTTCAAATGAAATTTTAATAAAGCTAAGTTAGATCTTAAGAGGTTTCTTG
3822819 A
65 A
*
3822820 TGATTACTTGATGTTTTCAAATGAGATTTTAA-AGAAGCTAAGTCTAG-TCTTAAGAGGTTTCTT
1 TGATTACTTGATGTTTTCAAATGAAATTTTAATA-AAGCTAAGT-TAGATCTTAAGAGGTTTCTT
3822883 GA
64 GA
3822885 TGATTACTTGA
1 TGATTACTTGA
3822896 CTGATATAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
64 1 0.01
65 60 0.88
66 7 0.10
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (65 bp):
TGATTACTTGATGTTTTCAAATGAAATTTTAATAAAGCTAAGTTAGATCTTAAGAGGTTTCTTGA
Found at i:3822937 original size:139 final size:140
Alignment explanation
Indices: 3822680--3822961 Score: 342
Period size: 139 Copynumber: 2.0 Consensus size: 140
3822670 AACAATTATT
* * * *
3822680 TGATTAACTTGATGTTTTCAAATTAATTTTTAAAGTAGCTAAGATTGATTTTTAGAGGTTCCTTG
1 TGATTAACTTGATGTTTTCAAATGAATTTTTAAAGAAGCTAAGATTGATCTTAAGAGGTTCCTTG
* * * * * *
3822745 GTAAATACTTGATTGACATGATGTTTTCAAATGAAATTTTAATAAATCTAAGTTTGATTTTCAGA
66 ATAAATACTTGACTGACATAATGTTTTCAAATGAAATTTTAATAAAACCAAGTTTGATTTTCAAA
*
3822810 GGTTTCTTGA
131 GGTTTCTCGA
*
3822820 TGATT-ACTTGATGTTTTCAAATGAGA-TTTTAAAGAAGCTAAG-TCT-AGTCTTAAGAGGTTTC
1 TGATTAACTTGATGTTTTCAAATGA-ATTTTTAAAGAAGCTAAGAT-TGA-TCTTAAGAGGTTCC
* * *
3822881 TTGATGATTACTTGACTGATATAATGTTTTCAAATG-AATTTGTAA-AGAAACCAAGTTTGATTT
63 TTGATAAATACTTGACTGACATAATGTTTTCAAATGAAATTT-TAATA-AAACCAAGTTTGATTT
3822944 TCAAAGGTTTCTCGA
126 TCAAAGGTTTCTCGA
3822959 TGA
1 TGA
3822962 ATAAATCCTC
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
138 8 0.07
139 108 0.89
140 6 0.05
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (140 bp):
TGATTAACTTGATGTTTTCAAATGAATTTTTAAAGAAGCTAAGATTGATCTTAAGAGGTTCCTTG
ATAAATACTTGACTGACATAATGTTTTCAAATGAAATTTTAATAAAACCAAGTTTGATTTTCAAA
GGTTTCTCGA
Found at i:3823186 original size:32 final size:32
Alignment explanation
Indices: 3823150--3823215 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
3823140 AATCCTTTGG
*
3823150 GTCCTTTGTAAGTCTTTTGAACATTGTGATAA
1 GTCCTCTGTAAGTCTTTTGAACATTGTGATAA
3823182 GTCCTCTGTAAGTCTTTTGAACATTGTGATAA
1 GTCCTCTGTAAGTCTTTTGAACATTGTGATAA
3823214 GT
1 GT
3823216 TTTTCGAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (32 bp):
GTCCTCTGTAAGTCTTTTGAACATTGTGATAA
Found at i:3823231 original size:21 final size:21
Alignment explanation
Indices: 3823190--3823241 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
3823180 AAGTCCTCTG
*
3823190 TAAGTCTTTTGAACATTGTGA
1 TAAGTCTTTTGAACATCGTGA
*
3823211 TAAGT-TTTTCGAGCATCGTGA
1 TAAGTCTTTT-GAACATCGTGA
*
3823232 TTAAATCTTT
1 -TAAGTCTTT
3823242 CAGGTCCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 4 0.16
21 14 0.56
22 4 0.16
23 3 0.12
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (21 bp):
TAAGTCTTTTGAACATCGTGA
Found at i:3830073 original size:23 final size:23
Alignment explanation
Indices: 3830039--3830093 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
3830029 TTTTATAAGG
*
3830039 TTGAATCAAGGTTGATTTCATGC
1 TTGAATCGAGGTTGATTTCATGC
3830062 TTGAATCGAGGTTGATTTCATGC
1 TTGAATCGAGGTTGATTTCATGC
3830085 TTGAATCGA
1 TTGAATCGA
3830094 ATCGAAATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (23 bp):
TTGAATCGAGGTTGATTTCATGC
Found at i:3837745 original size:15 final size:16
Alignment explanation
Indices: 3837725--3837761 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3837715 AAAAATAATT
3837725 TAATAAAGTAA-ATAA
1 TAATAAAGTAATATAA
*
3837740 TAATAATGTAATATAA
1 TAATAAAGTAATATAA
3837756 T-ATAAA
1 TAATAAA
3837762 TACATGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAATATAA
Found at i:3838486 original size:35 final size:36
Alignment explanation
Indices: 3838416--3838515 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
3838406 GTGCTTGTGG
* * *
3838416 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
3838453 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
3838488 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
3838516 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:3839279 original size:106 final size:102
Alignment explanation
Indices: 3838976--3839477 Score: 539
Period size: 106 Copynumber: 4.9 Consensus size: 102
3838966 AATATTGTTC
* * * *
3838976 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAAT-TGAAA-T-TTTGTTGACA
* * * *
3839041 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
62 ATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
* * * * *
3839082 CGAGTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTG-AA-CGAAATCTTGTTGACAATCA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAATTTTGTTGACAATCA
* *
3839145 GCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
*
3839182 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTG--AAAT-TTTGTTGACA
* *
3839247 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
62 ATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
** * * * *
3839288 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGTTTGGCTCCGAAATTG---CTTT-TCGACAGTCA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAATTTTGTTGACAATCA
* * * *
3839349 GTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
* * * * *
3839386 TGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-T-TGAAATT-TTGTTGACAA
* * *
3839451 CCAGCTGTCTCTTCGTTGTGAAGTTGA
63 TCAGCCGTCCCTTCGTTGTGAAGTTGA
3839478 GATTGGCTCC
Statistics
Matches: 331, Mismatches: 52, Indels: 27
0.81 0.13 0.07
Matches are distributed among these distances:
98 76 0.23
99 4 0.01
100 82 0.25
101 3 0.01
102 4 0.01
103 2 0.01
104 3 0.01
105 34 0.10
106 123 0.37
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (102 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAATTTTGTTGACAATCA
GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
Found at i:3839493 original size:160 final size:160
Alignment explanation
Indices: 3839300--3839637 Score: 590
Period size: 160 Copynumber: 2.1 Consensus size: 160
3839290 AGTCCAATAT
* * *
3839300 CCTTCGCTGTGAAGTTGAGTTTGGCTCCGAAATTGCTTT-TCGACAGTCAGTCGCCCCTTCGCTG
1 CCTTCGTTGTGAAGTTGAGATTGGCTCCGAAATTG-TTTGTCGACAGTCAGCCGCCCCTTCGCTG
3839364 TGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAA
65 TGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAA
3839429 ACTGGGAAATTATTGTTGACAACCAG-CTGTC
130 ACTGGGAAATTATTGTTGACAACCAGTC-GTC
* *
3839460 TCTTCGTTGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGT
1 CCTTCGTTGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTCGACAGTCAGCCGCCCCTTCGCTGT
*
3839525 GAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCCCTGAAA
66 GAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAA
3839590 CTGGGAAATTATTGTTGACAACCAGTCGTC
131 CTGGGAAATTATTGTTGACAACCAGTCGTC
3839620 CCTTCGTTGTGAAGTTGA
1 CCTTCGTTGTGAAGTTGA
3839638 ACTTGTGTTG
Statistics
Matches: 169, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
159 3 0.02
160 165 0.98
161 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.33
Consensus pattern (160 bp):
CCTTCGTTGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTCGACAGTCAGCCGCCCCTTCGCTGT
GAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAA
CTGGGAAATTATTGTTGACAACCAGTCGTC
Found at i:3839684 original size:105 final size:105
Alignment explanation
Indices: 3839496--3839685 Score: 272
Period size: 105 Copynumber: 1.8 Consensus size: 105
3839486 CCGAAATTGT
** * * *
3839496 TTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCT
1 TTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCAATATCCT
* *
3839561 TCGTTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATTA
66 TCGCTGTGAAGTCAAAATTGGCCCTGAAACTGGGAAATTA
* * * *
3839601 TTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCT
1 TTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCAATATCCT
*
3839666 TCGCTGTGAAGTCGAAATTG
66 TCGCTGTGAAGTCAAAATTG
3839686 ACTCTAGCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
105 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (105 bp):
TTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCAATATCCT
TCGCTGTGAAGTCAAAATTGGCCCTGAAACTGGGAAATTA
Found at i:3840120 original size:104 final size:103
Alignment explanation
Indices: 3840004--3840232 Score: 257
Period size: 103 Copynumber: 2.2 Consensus size: 103
3839994 ATTTTGTTTT
* * * *
3840004 AAGA-AAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCACGGGGAGATGA
1 AAGAGAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCA-AGAGAGACGA
3840068 AATT-AGTTTCAAGGAAAACATATTCAAAGATGATGCTTC
65 AATTCA-TTTCAAGGAAAACATATTCAAAGATGATGCTTC
* * * * *
3840107 AAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAACAGAAACTGTCTCAAGAGAGACGAA
1 AAGAGAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAGACGAA
* ** * * * * *
3840172 ATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTC
66 ATTCATTTCAAGGAAAACATATTCAAAGATGATGCTTC
*
3840210 AAGAG-AAACTATCTCAAGAGAGA
1 AAGAGAAAACTGTCTCAAGAGAGA
3840233 TGAAATTTAT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
102 16 0.15
103 45 0.43
104 44 0.42
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (103 bp):
AAGAGAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAGACGAA
ATTCATTTCAAGGAAAACATATTCAAAGATGATGCTTC
Found at i:3840245 original size:65 final size:65
Alignment explanation
Indices: 3840139--3840298 Score: 275
Period size: 65 Copynumber: 2.5 Consensus size: 65
3840129 GACAAAATTT
*
3840139 TGTTTCAACAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * *
3840204 TGTTTCAAGAGAAACTATCTCAAGAGAGATGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
3840269 TGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC
3840299 AAAAATTTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 88 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:3840341 original size:102 final size:103
Alignment explanation
Indices: 3840204--3840661 Score: 753
Period size: 102 Copynumber: 4.5 Consensus size: 103
3840194 TCAATGTTTA
* ** *
3840204 TGTTTCAAGAGAAACTATCTCAAGAGAGATGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
3840269 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTT
*
3840307 T-TTTCGAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
3840371 TGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTT
* *
3840408 TTTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
** *
3840473 TGTTTCAAGAGAAACTGTCTCACTGGAGAC-AGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTT
*
3840510 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
3840575 TGTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTT
* * **
3840612 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
3840662 CTGTCTCAAG
Statistics
Matches: 332, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
101 8 0.02
102 323 0.97
103 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (103 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTT
Found at i:3840343 original size:167 final size:169
Alignment explanation
Indices: 3840104--3840421 Score: 516
Period size: 167 Copynumber: 1.9 Consensus size: 169
3840094 AAGATGATGC
*
3840104 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAACAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAACAGAAACTATCTCAAGAGAGAC
* *
3840169 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAT
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
3840234 GAAA-TTTATTTCAAGGGAAATGTTTTCAATGTTTATGT
131 AAAATTTTATTTCAAGGGAAATGTTTTCAATGTTTATGT
* **
3840272 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAAATTTT-TTTCGAGGGAAACTATCTCAAGAGAGA
1 TTCAAGAGAAAACTGTCTCAAGGGAGAC-AAAATTTTGTTTCAACAGAAACTATCTCAAGAGAGA
* *
3840335 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
65 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
*
3840400 CAAAATTTTTTTTCAAGGGAAA
130 CAAAATTTTATTTCAAGGGAAA
3840422 CTATCTCAAG
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
167 107 0.78
168 31 0.22
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAACAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTTTATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:3840423 original size:37 final size:37
Alignment explanation
Indices: 3840371--3840679 Score: 223
Period size: 37 Copynumber: 8.9 Consensus size: 37
3840361 TCAATGTTTA
* *
3840371 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
3840408 TTTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * **
3840444 CATTTCAAGGGAAA-TGTTTC--------CAATGTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
3840472 ATGTTTCAAGAGAAACTGTCTCACTG-GAGACAGAATTT
1 -TGTTTCAAGGGAAACTGTCTCA-AGAGAGACAAAATTT
* *
3840510 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
3840546 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
3840574 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
3840612 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
3840648 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
3840680 TGGTGAGCAC
Statistics
Matches: 208, Mismatches: 38, Indels: 52
0.70 0.13 0.17
Matches are distributed among these distances:
27 3 0.01
28 3 0.01
29 25 0.12
30 8 0.04
32 1 0.00
33 1 0.00
34 1 0.00
35 6 0.03
36 66 0.32
37 86 0.41
38 8 0.04
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:3840657 original size:36 final size:36
Alignment explanation
Indices: 3840575--3840679 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
3840565 TCAATGTTTA
* * * *
3840575 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAGTT
3840612 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
3840648 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
3840680 TGGTGAGCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 38 0.59
37 26 0.41
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:3841501 original size:22 final size:22
Alignment explanation
Indices: 3841476--3841526 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
3841466 TTGTGTTTGG
*
3841476 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTAATGC
*
3841498 TCAAAGGTTTGGTATTTAATGC
1 TCAAAGGTTTGGCATTTAATGC
3841520 TCAAAGG
1 TCAAAGG
3841527 ATTGATGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTAATGC
Found at i:3842163 original size:20 final size:20
Alignment explanation
Indices: 3842136--3842187 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3842126 CTTTTTGTCC
*
3842136 CTTT-TTTTTTATTTTTGTT
1 CTTTCTTTTTTATTATTGTT
*
3842155 CTTTCTTTTTTGTTATTGTT
1 CTTTCTTTTTTATTATTGTT
*
3842175 TTTTCCTTTTTTA
1 CTTT-CTTTTTTA
3842188 CTTCTTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.15
20 16 0.59
21 7 0.26
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.79
Consensus pattern (20 bp):
CTTTCTTTTTTATTATTGTT
Found at i:3845272 original size:21 final size:22
Alignment explanation
Indices: 3845231--3845274 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3845221 AGAGTAAATG
*
3845231 AAATAAAGAAAATAGAAGAAAA
1 AAATAAAAAAAATAGAAGAAAA
*
3845253 AAATAAAAAAAAT-GATGAAAA
1 AAATAAAAAAAATAGAAGAAAA
3845274 A
1 A
3845275 CTAAAAGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (22 bp):
AAATAAAAAAAATAGAAGAAAA
Found at i:3845574 original size:16 final size:16
Alignment explanation
Indices: 3845553--3845590 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3845543 AATAATAATT
3845553 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
3845569 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
3845585 T-ATAAA
1 TAATAAA
3845591 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:3845782 original size:15 final size:15
Alignment explanation
Indices: 3845762--3845804 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
3845752 TTAATAGTAC
3845762 AATAATAATAAATAT
1 AATAATAATAAATAT
*
3845777 AATAATTATAAATAT
1 AATAATAATAAATAT
3845792 ATATATATAATAA
1 A-ATA-ATAATAA
3845805 CTTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 15 0.62
16 3 0.12
17 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAATAATAAATAT
Found at i:3846291 original size:36 final size:35
Alignment explanation
Indices: 3846241--3846322 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
3846231 GTGCTTGTGG
3846241 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAG-TTAAAACATAGCAAAATTCT
* * * *
3846278 ATCCTATTTTAGGAGTTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTAAAACATAGCAAAATTCT
3846313 ATCCTATTTT
1 ATCCTATTTT
3846323 TTAGAGTTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 26 0.63
36 8 0.20
37 7 0.17
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (35 bp):
ATCCTATTTTAGGAGTTAAAACATAGCAAAATTCT
Found at i:3846311 original size:35 final size:36
Alignment explanation
Indices: 3846241--3846340 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 36
3846231 GTGCTTGTGG
* * *
3846241 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
3846278 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
3846313 ATCCTATTTTTTA-GAGTTTGAATCCTAG
1 ATCCTA--TTTTAGGAGTTTGAATCCTAG
3846341 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
35 22 0.39
36 11 0.20
37 23 0.41
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:3854417 original size:21 final size:22
Alignment explanation
Indices: 3854391--3854431 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
3854381 CCAGGATAGG
*
3854391 GAGTATTGGTA-CTCCTTTAAT
1 GAGTATCGGTATCTCCTTTAAT
*
3854412 GAGTATCGGTATTTCCTTTA
1 GAGTATCGGTATCTCCTTTA
3854432 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (22 bp):
GAGTATCGGTATCTCCTTTAAT
Found at i:3854796 original size:45 final size:45
Alignment explanation
Indices: 3854745--3854845 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 45
3854735 TACACTTTGA
*
3854745 ATTTTTTTTAAAAACTTCGAACAAATTCAATTCAAATTCAAAAAC
1 ATTTTTTTTAAAAACTTCGAACAAATTCAATTCAAATCCAAAAAC
* * * * *
3854790 A-TTTTTTTGAAAATTTTGAACAAATTTAATTCAAGTCCAAAAAC
1 ATTTTTTTTAAAAACTTCGAACAAATTCAATTCAAATCCAAAAAC
3854834 ATTTTGTTTTAA
1 ATTTT-TTTTAA
3854846 TTTGTTATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
44 38 0.81
45 4 0.09
46 5 0.11
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.41
Consensus pattern (45 bp):
ATTTTTTTTAAAAACTTCGAACAAATTCAATTCAAATCCAAAAAC
Found at i:3855287 original size:46 final size:46
Alignment explanation
Indices: 3855236--3855329 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
3855226 AGTTTTTCAT
*
3855236 ATTTATTATAGTTTGGTTCTAACATCTTATACTATTATCAAATCAC
1 ATTTATTATAGCTTGGTTCTAACATCTTATACTATTATCAAATCAC
*
3855282 ATTTATTATAGCTTGGTTCTAACATCTTATACTATTATCTAATCAC
1 ATTTATTATAGCTTGGTTCTAACATCTTATACTATTATCAAATCAC
3855328 AT
1 AT
3855330 AATTGTAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.46
Consensus pattern (46 bp):
ATTTATTATAGCTTGGTTCTAACATCTTATACTATTATCAAATCAC
Found at i:3855345 original size:46 final size:46
Alignment explanation
Indices: 3855248--3855345 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 46
3855238 TTATTATAGT
* **
3855248 TTGGTTCTAACATCTTATACTATTATCAAATCACATTTATTATAGC
1 TTGGTTCTAACATCTTATACTATTATCAAATCACATTAATTATAAA
* *
3855294 TTGGTTCTAACATCTTATACTATTATCTAATCACA-TAATTGTAAA
1 TTGGTTCTAACATCTTATACTATTATCAAATCACATTAATTATAAA
3855339 TGTGGTT
1 T-TGGTT
3855346 TTGATTTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 7 0.15
46 39 0.85
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (46 bp):
TTGGTTCTAACATCTTATACTATTATCAAATCACATTAATTATAAA
Found at i:3857234 original size:391 final size:391
Alignment explanation
Indices: 3856500--3857279 Score: 1418
Period size: 392 Copynumber: 2.0 Consensus size: 391
3856490 ACATGCAAAT
*
3856500 TCAAAATGGCAATATTTTCCAATCTATGATTTTGATATTGATAATATCAATGAATATCAATATCT
1 TCAAAATGACAATATTTTCCAATCTATGATTTTGATATTGATAATATCAATGAATATCAATATCT
* * *
3856565 GCATCATAAGTATTGCTATCATGATTAAGCATCGAAACAATGAACTAAGTTATATATTTGTAAAA
66 ACATCATAAGCATTGATATCATGATTAAGCATCGAAACAATGAACTAAGTTATATATTTGTAAAA
3856630 AAAAATTATTTGGTATCGATAACCTATAGTGAGGTATTTTGTGTTAATCTACTTTAGTCGACGTG
131 AAAAATTATTTGGTATCGATAACCTATAGTGAGGTATTTTGTGTTAATCTACTTTAGTCGACGTG
3856695 TTTGTCGTATTCGCATATATTAATTGTTTATATTTTGAATATGATTCTAATGAAATGATTGGAAC
196 TTTGTCGTATTCGCATATATTAATTGTTTATATTTTGAATATGATTCTAATGAAATGATTGGAAC
* * *
3856760 ATGCTCGTTCATGTACAAGTGTGACATTTGTCAATCATAAGACCCTAAAATTTGGAATCTCAAAC
261 ATGCTCGTTCATGTAAAAGTGTGACATGTGTCAATCATAAGACCCTAAAATTTGAAATCTCAAAC
*
3856825 TTTGAAAAAAATTTGCTAACCAAAAAAAAAACTATTTTCTCTACTATAGCACGCGTGAAAAAAAA
326 TTTGAAAAAAAATTGCTAACCAAAAAAAAAACTATTTTCTCTACTATAGCACGCGTGAAAAAAAA
3856890 C
391 C
* *
3856891 TCAAAATGACAATATTTTCCAATCTATGATTTTGATATTGATAATATCACTGAGTATCAATATCT
1 TCAAAATGACAATATTTTCCAATCTATGATTTTGATATTGATAATATCAATGAATATCAATATCT
3856956 ACATCATAAGCATTGATATCATGATTAAGCATCGAAACAATGAACTAAGTTATATATTTGTAAAA
66 ACATCATAAGCATTGATATCATGATTAAGCATCGAAACAATGAACTAAGTTATATATTTGT-AAA
* *
3857021 AAAAAATTATTTGGTATCGATAACCTATAGTGAGGTGTTTTGTGTTAATTTACTTTAGTCGACGT
130 AAAAAATTATTTGGTATCGATAACCTATAGTGAGGTATTTTGTGTTAATCTACTTTAGTCGACGT
3857086 GTTTGTCGTATTCGCATATATTAATTGTTTATATTTTGAATATGATTCTAATGAAATGATTGGAA
195 GTTTGTCGTATTCGCATATATTAATTGTTTATATTTTGAATATGATTCTAATGAAATGATTGGAA
3857151 CATGCTCGTTCATGTAAAAGTGTGACATGTGTCAATCATAAGACCCTAAAATTTGAAATCTCAAA
260 CATGCTCGTTCATGTAAAAGTGTGACATGTGTCAATCATAAGACCCTAAAATTTGAAATCTCAAA
* *
3857216 CTTT-AAAAAAAATTGCTAACCCAGAAAAAAACTATTTTCTCTACTATAGCACGCGTGAAAAAAA
325 CTTTGAAAAAAAATTGCTAACCAAAAAAAAAACTATTTTCTCTACTATAGCACGCGTGAAAAAAA
3857280 TTCAGGGAAA
Statistics
Matches: 374, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
391 177 0.47
392 197 0.53
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (391 bp):
TCAAAATGACAATATTTTCCAATCTATGATTTTGATATTGATAATATCAATGAATATCAATATCT
ACATCATAAGCATTGATATCATGATTAAGCATCGAAACAATGAACTAAGTTATATATTTGTAAAA
AAAAATTATTTGGTATCGATAACCTATAGTGAGGTATTTTGTGTTAATCTACTTTAGTCGACGTG
TTTGTCGTATTCGCATATATTAATTGTTTATATTTTGAATATGATTCTAATGAAATGATTGGAAC
ATGCTCGTTCATGTAAAAGTGTGACATGTGTCAATCATAAGACCCTAAAATTTGAAATCTCAAAC
TTTGAAAAAAAATTGCTAACCAAAAAAAAAACTATTTTCTCTACTATAGCACGCGTGAAAAAAAA
C
Found at i:3859212 original size:23 final size:24
Alignment explanation
Indices: 3859181--3859227 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
3859171 TCAAATTAAA
3859181 AGGGAAGATCTGAAGAAAA-AAAG
1 AGGGAAGATCTGAAGAAAAGAAAG
* *
3859204 AGGGGAGATTTGAAGAAAAGAAAG
1 AGGGAAGATCTGAAGAAAAGAAAG
3859228 TAGAGAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.53, C:0.02, G:0.34, T:0.11
Consensus pattern (24 bp):
AGGGAAGATCTGAAGAAAAGAAAG
Found at i:3860162 original size:2 final size:2
Alignment explanation
Indices: 3860150--3860182 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3860140 TATAAATAAG
3860150 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3860183 TATTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3860243 original size:14 final size:15
Alignment explanation
Indices: 3860214--3860253 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
3860204 AAACTTTTAT
3860214 TATAAATATGTAATA
1 TATAAATATGTAATA
* *
3860229 T-TAATTATGTGATA
1 TATAAATATGTAATA
3860243 TATAAATATGT
1 TATAAATATGT
3860254 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
TATAAATATGTAATA
Found at i:3860500 original size:21 final size:22
Alignment explanation
Indices: 3860460--3860501 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3860450 TGCATTGTGA
**
3860460 TTTTCTAAATTCGCGTTGCGAT
1 TTTTCTAAATTCGCAATGCGAT
3860482 TTTTC-AAATTCGCAATGCGA
1 TTTTCTAAATTCGCAATGCGA
3860502 ATATGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (22 bp):
TTTTCTAAATTCGCAATGCGAT
Found at i:3860531 original size:41 final size:41
Alignment explanation
Indices: 3860477--3860558 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
3860467 AATTCGCGTT
* * * *
3860477 GCGATTTTTCAAATTCGCAATGCGAATAT-GTAAATCGCAAC
1 GCGAATTTGCAAA-TCGCAACGCGAATATAGAAAATCGCAAC
*
3860518 GCGAATTTGCAAATCGCAACGCGAATTTAGAAAATCGCAAC
1 GCGAATTTGCAAATCGCAACGCGAATATAGAAAATCGCAAC
3860559 AAAGAAGTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 13 0.37
41 22 0.63
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (41 bp):
GCGAATTTGCAAATCGCAACGCGAATATAGAAAATCGCAAC
Found at i:3860554 original size:21 final size:20
Alignment explanation
Indices: 3860491--3860558 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
3860481 TTTTTCAAAT
* * *
3860491 TCGCAATGCGAATATGTAAA
1 TCGCAACGCGAATTTGAAAA
*
3860511 TCGCAACGCGAATTTGCAAA
1 TCGCAACGCGAATTTGAAAA
3860531 TCGCAACGCGAATTTAGAAAA
1 TCGCAACGCGAATTT-GAAAA
3860552 TCGCAAC
1 TCGCAAC
3860559 AAAGAAGTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 32 0.74
21 11 0.26
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATTTGAAAA
Found at i:3860627 original size:20 final size:20
Alignment explanation
Indices: 3860483--3860637 Score: 90
Period size: 20 Copynumber: 7.7 Consensus size: 20
3860473 CGTTGCGATT
*
3860483 TTTCAAATTCGCAATGCGAA
1 TTTCAAATTCGCAACGCGAA
3860503 TATGT-AAA-TCGCAACGCGAA
1 T-T-TCAAATTCGCAACGCGAA
3860523 TTTGCAAA-TCGCAACGCGAA
1 TTT-CAAATTCGCAACGCGAA
* * **
3860543 TTTAGAAAATCGCAACAAAGAA
1 TTT-CAAATTCGCAAC-GCGAA
* * *
3860565 -GTCAAATTTGCAATGCG--
1 TTTCAAATTCGCAACGCGAA
*
3860582 TTTGCCAAATTCGCAACACTGAA
1 TTT--CAAATTCGCAACGC-GAA
*
3860605 TTTCAAATTCGCAACACGAA
1 TTTCAAATTCGCAACGCGAA
*
3860625 TTT-AATTTCGCAA
1 TTTCAAATTCGCAA
3860638 TAGGTTTTAG
Statistics
Matches: 106, Mismatches: 17, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
18 2 0.02
19 11 0.10
20 59 0.56
21 27 0.25
22 4 0.04
23 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (20 bp):
TTTCAAATTCGCAACGCGAA
Found at i:3860636 original size:19 final size:21
Alignment explanation
Indices: 3860587--3860637 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
3860577 ATGCGTTTGC
3860587 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACACTGAATTT
3860608 CAAATTCGCAACAC-GAATTT
1 CAAATTCGCAACACTGAATTT
*
3860628 -AATTTCGCAA
1 CAAATTCGCAA
3860638 TAGGTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 9 0.31
20 6 0.21
21 14 0.48
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (21 bp):
CAAATTCGCAACACTGAATTT
Found at i:3863907 original size:12 final size:12
Alignment explanation
Indices: 3863890--3863923 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
3863880 AGCAAAAGGA
3863890 AATCAAAATCGT
1 AATCAAAATCGT
3863902 AATCAAAATCGT
1 AATCAAAATCGT
3863914 AATCAAAATC
1 AATCAAAATC
3863924 AAAATCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (12 bp):
AATCAAAATCGT
Found at i:3863929 original size:12 final size:12
Alignment explanation
Indices: 3863888--3863929 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
3863878 TAAGCAAAAG
3863888 GAAATCAAAATC
1 GAAATCAAAATC
*
3863900 GTAATCAAAATC
1 GAAATCAAAATC
*
3863912 GTAATCAAAATC
1 GAAATCAAAATC
*
3863924 AAAATC
1 GAAATC
3863930 CCAATCACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (12 bp):
GAAATCAAAATC
Found at i:3863935 original size:18 final size:18
Alignment explanation
Indices: 3863902--3863936 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3863892 TCAAAATCGT
**
3863902 AATCAAAATCGTAATCAA
1 AATCAAAATCCCAATCAA
3863920 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
3863937 CAACCGGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:3864270 original size:13 final size:15
Alignment explanation
Indices: 3864249--3864284 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
3864239 GTCAAATTTG
3864249 AAACGCG-AAATCGC
1 AAACGCGAAAATCGC
3864263 AAAC-CGAAAATCGC
1 AAACGCGAAAATCGC
3864277 -AACGCGAA
1 AAACGCGAA
3864285 TTTGACTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.47, C:0.28, G:0.19, T:0.06
Consensus pattern (15 bp):
AAACGCGAAAATCGC
Found at i:3864366 original size:40 final size:40
Alignment explanation
Indices: 3864272--3864391 Score: 132
Period size: 40 Copynumber: 3.0 Consensus size: 40
3864262 CAAACCGAAA
* * *
3864272 ATCGCAACGCGAATTTGACTTTCGCGTTACGAATTTGACT
1 ATCGCAACGCGAATTTGACTATCGCATTGCGAATTTGACT
* ** *** *
3864312 TTAACGTTGAGAATTTGACTATCGCATTGCGAATTTGACT
1 ATCGCAACGCGAATTTGACTATCGCATTGCGAATTTGACT
**
3864352 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACTATCGCATTGCGAATTTGACT
3864392 TTCACGTTGC
Statistics
Matches: 61, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (40 bp):
ATCGCAACGCGAATTTGACTATCGCATTGCGAATTTGACT
Found at i:3864377 original size:20 final size:20
Alignment explanation
Indices: 3864322--3864391 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
3864312 TTAACGTTGA
**
3864322 GAATTTGACTATCGCATTGC
1 GAATTTGACTATCGCAACGC
3864342 GAATTTGACTATCGCAACGC
1 GAATTTGACTATCGCAACGC
3864362 GAATTTGACTATCGCAACGC
1 GAATTTGACTATCGCAACGC
3864382 GAATTTGACT
1 GAATTTGACT
3864392 TTCACGTTGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (20 bp):
GAATTTGACTATCGCAACGC
Found at i:3864404 original size:20 final size:20
Alignment explanation
Indices: 3864280--3864391 Score: 116
Period size: 20 Copynumber: 5.6 Consensus size: 20
3864270 AAATCGCAAC
* *
3864280 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTATCGCATT
* * ** *
3864300 ACGAATTTGACTTTAACGTT
1 GCGAATTTGACTATCGCATT
*
3864320 GAGAATTTGACTATCGCATT
1 GCGAATTTGACTATCGCATT
**
3864340 GCGAATTTGACTATCGCAAC
1 GCGAATTTGACTATCGCATT
**
3864360 GCGAATTTGACTATCGCAAC
1 GCGAATTTGACTATCGCATT
3864380 GCGAATTTGACT
1 GCGAATTTGACT
3864392 TTCACGTTGC
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (20 bp):
GCGAATTTGACTATCGCATT
Found at i:3864404 original size:40 final size:40
Alignment explanation
Indices: 3864301--3864404 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
3864291 TTTCGCGTTA
* * **
3864301 CGAATTTGACTTTAACGTTGAGAATTTGACTATCGCATTG
1 CGAATTTGACTTTCACGTTGCGAATTTGACTATCGCAACG
* * ***
3864341 CGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
1 CGAATTTGACTTTCACGTTGCGAATTTGACTATCGCAACG
3864381 CGAATTTGACTTTCACGTTGCGAA
1 CGAATTTGACTTTCACGTTGCGAA
3864405 AGTGTACCTT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (40 bp):
CGAATTTGACTTTCACGTTGCGAATTTGACTATCGCAACG
Found at i:3864554 original size:62 final size:64
Alignment explanation
Indices: 3864459--3864614 Score: 271
Period size: 64 Copynumber: 2.5 Consensus size: 64
3864449 TTGAATAAAC
3864459 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAA-AATTCTTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
* *
3864521 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
3864585 AACAAATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
3864615 ATTCAATTAA
Statistics
Matches: 89, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
62 34 0.38
63 5 0.06
64 46 0.52
65 4 0.04
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
Found at i:3866017 original size:21 final size:21
Alignment explanation
Indices: 3866007--3866105 Score: 126
Period size: 21 Copynumber: 4.7 Consensus size: 21
3865997 GTGGGAGGAA
*
3866007 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
3866028 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
3866049 CCTCTTGAATGATGAGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* * *
3866070 CCTCTTGAACGATAAAAGGCG
1 CCTCTTGAACGATGAGAGGGG
*
3866091 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
3866106 CAGGTGCATC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.22
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:3866046 original size:42 final size:42
Alignment explanation
Indices: 3865987--3866080 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
3865977 GTGAATCGGG
*
3865987 CTCTTAAACGGTGGGAGGAACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGAACCTCTTGAACGATGACAGGGGC
** * *
3866029 CTCTTGAACGGTGGGAGGGGCCTCTTGAATGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGAACCTCTTGAACGATGACAGGGGC
3866071 CTCTTGAACG
1 CTCTTGAACG
3866081 ATAAAAGGCG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGAACCTCTTGAACGATGACAGGGGC
Found at i:3866094 original size:42 final size:42
Alignment explanation
Indices: 3866007--3866109 Score: 143
Period size: 42 Copynumber: 2.5 Consensus size: 42
3865997 GTGGGAGGAA
* * *** *
3866007 CCTCTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAAAAGGCG
*
3866049 CCTCTTGAATGATGAGAGGGGCCTCTTGAACGATAAAAGGCG
1 CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAAAAGGCG
3866091 CCTCTTGAATGATGACAGG
1 CCTCTTGAATGATGACAGG
3866110 TGCATCGGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.21
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAAAAGGCG
Found at i:3868257 original size:14 final size:14
Alignment explanation
Indices: 3868240--3868270 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3868230 CGAAACTAAA
3868240 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
*
3868254 TTCGTGTTGCGATT
1 TTCGCGTTGCGATT
3868268 TTC
1 TTC
3868271 ATTTTCGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.26, T:0.48
Consensus pattern (14 bp):
TTCGCGTTGCGATT
Found at i:3868296 original size:20 final size:20
Alignment explanation
Indices: 3868253--3868296 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3868243 GCGTTGCGAT
* * *
3868253 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGAATTTAAG
3868273 TTTCGTGTTGCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
3868293 TTTC
1 TTTC
3868297 AAAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:3868653 original size:22 final size:22
Alignment explanation
Indices: 3868619--3868661 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3868609 GAGATAGACG
*
3868619 GATTTCGTCGGAGATGGGGACA
1 GATTTCATCGGAGATGGGGACA
*
3868641 GATTTCATTGGAGATGGGGAC
1 GATTTCATCGGAGATGGGGAC
3868662 GGATGTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.26
Consensus pattern (22 bp):
GATTTCATCGGAGATGGGGACA
Found at i:3868844 original size:20 final size:20
Alignment explanation
Indices: 3868819--3868861 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3868809 TGACTTCTTT
3868819 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
**
3868839 GTTGCGATTTACTTATTCGC
1 GTTGCGATTTACAAATTCGC
3868859 GTT
1 GTT
3868862 ACGAATTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:3879798 original size:25 final size:24
Alignment explanation
Indices: 3879762--3879810 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
3879752 ATTAAAAAAA
3879762 AATATTTATCTAATGACAAATATTT
1 AATATTTATCTAATGA-AAATATTT
*
3879787 AATATATT-TCTAATGATAATATTT
1 AATAT-TTATCTAATGAAAATATTT
3879811 GTAATAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 13 0.59
26 2 0.09
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (24 bp):
AATATTTATCTAATGAAAATATTT
Found at i:3879972 original size:21 final size:21
Alignment explanation
Indices: 3879942--3880030 Score: 79
Period size: 21 Copynumber: 3.9 Consensus size: 21
3879932 ATGTGATAAG
* *
3879942 GTTTATGATTTAGGGTTTAGA
1 GTTTAGGATTTAAGGTTTAGA
3879963 GTTTAGGATTTAAGGTTTAGA
1 GTTTAGGATTTAAGGTTTAGA
3879984 GTTTATGCAATAGGATTTAAGGTTTAGA
1 G--T-T----TAGGATTTAAGGTTTAGA
* *
3880012 ATTTAGAATTTAAGGTTTA
1 GTTTAGGATTTAAGGTTTA
3880031 TGTGTTAGGG
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
21 35 0.61
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
28 18 0.32
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.44
Consensus pattern (21 bp):
GTTTAGGATTTAAGGTTTAGA
Found at i:3879987 original size:28 final size:28
Alignment explanation
Indices: 3879950--3880063 Score: 85
Period size: 28 Copynumber: 4.1 Consensus size: 28
3879940 AGGTTTATGA
*
3879950 TTTAGGGTTTAGAGTTTAGGATTTAAGG
1 TTTAGAGTTTAGAGTTTAGGATTTAAGG
*
3879978 TTTAGAGTTTATGCA--ATAGGATTTAAGG
1 TTTAGAGTTTA-G-AGTTTAGGATTTAAGG
* * *
3880006 TTTAGAATTTAGAATTTAAGG-TTT-ATG
1 TTTAGAGTTTAGAGTTT-AGGATTTAAGG
* *
3880033 TGTTAGGGGTTAGAGTTTA-GAGTTTAAGG
1 T-TTAGAGTTTAGAGTTTAGGA-TTTAAGG
3880062 TT
1 TT
3880064 CAAGTTATTC
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
26 2 0.03
27 5 0.07
28 52 0.78
29 7 0.10
30 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (28 bp):
TTTAGAGTTTAGAGTTTAGGATTTAAGG
Found at i:3883167 original size:17 final size:17
Alignment explanation
Indices: 3883142--3883201 Score: 93
Period size: 17 Copynumber: 3.5 Consensus size: 17
3883132 GTTTGAGTTT
3883142 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
*
3883159 GAGTACGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
*
3883176 GAGTTCAAGCTTGAATC
1 GAGTTCGAGCTTGAATC
*
3883193 GAGCTCGAG
1 GAGTTCGAG
3883202 TCTCTAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:3883216 original size:24 final size:23
Alignment explanation
Indices: 3883174--3883222 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
3883164 CGAGCTTGAA
*
3883174 TCGAGTTCAAGCTTGAATCGAGC
1 TCGAGTTCAAGCTTCAATCGAGC
*
3883197 TCGAGTCTCTAGCTTCAATCGAGC
1 TCGAGT-TCAAGCTTCAATCGAGC
3883221 TC
1 TC
3883223 TTAATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (23 bp):
TCGAGTTCAAGCTTCAATCGAGC
Found at i:3884314 original size:20 final size:20
Alignment explanation
Indices: 3884289--3884328 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3884279 AGCAGAAATG
3884289 TAAAATTACCGTGTTTGGTT
1 TAAAATTACCGTGTTTGGTT
3884309 TAAAATTACCGTGTTTGGTT
1 TAAAATTACCGTGTTTGGTT
3884329 AAAGGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (20 bp):
TAAAATTACCGTGTTTGGTT
Found at i:3890209 original size:16 final size:16
Alignment explanation
Indices: 3890188--3890221 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3890178 ATCCTGGGTT
3890188 TTTACAGCCTTTTCCA
1 TTTACAGCCTTTTCCA
3890204 TTTACAGCCTTTTCCA
1 TTTACAGCCTTTTCCA
3890220 TT
1 TT
3890222 ACCACAACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTACAGCCTTTTCCA
Found at i:3892346 original size:23 final size:25
Alignment explanation
Indices: 3892317--3892372 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
3892307 AATTTCCATG
3892317 TTTGATTAATAA-ATTATT-AATAA
1 TTTGATTAATAATATTATTAAATAA
* *
3892340 TTTGATT-ATAATTTTTTTAAATAA
1 TTTGATTAATAATATTATTAAATAA
3892364 TTTG-TTAAT
1 TTTGATTAAT
3892373 TGATTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 4 0.14
23 13 0.46
24 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (25 bp):
TTTGATTAATAATATTATTAAATAA
Found at i:3892350 original size:11 final size:12
Alignment explanation
Indices: 3892317--3892372 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
3892307 AATTTCCATG
3892317 TTTGATTAATAA
1 TTTGATTAATAA
*
3892329 ATT-ATTAATAA
1 TTTGATTAATAA
3892340 TTTGATT-ATAA
1 TTTGATTAATAA
**
3892351 TTTTTTTAAATAA
1 TTTGATT-AATAA
3892364 TTTG-TTAAT
1 TTTGATTAAT
3892373 TGATTAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
11 22 0.61
12 7 0.19
13 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (12 bp):
TTTGATTAATAA
Found at i:3892970 original size:52 final size:52
Alignment explanation
Indices: 3892855--3892959 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
3892845 TAGCTGTATT
* *
3892855 GCGACCTTTTTAGTTATATATAACAGGGTGACATCCTTTTCAAATTATGTGA
1 GCGACCTTTTTAGTTATATATAACAGGGTGACATCATTTTAAAATTATGTGA
*
3892907 GCGACCTTTTTAGTTGTATATAACAGGGTGACATCATTTTAAAATTATGTGA
1 GCGACCTTTTTAGTTATATATAACAGGGTGACATCATTTTAAAATTATGTGA
3892959 G
1 G
3892960 TTTACTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (52 bp):
GCGACCTTTTTAGTTATATATAACAGGGTGACATCATTTTAAAATTATGTGA
Found at i:3894801 original size:41 final size:44
Alignment explanation
Indices: 3894756--3894845 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
3894746 TTATATATAT
* *
3894756 ATTAAATTATAAT-TAATA-AATATATA-TAATATTATATTGTA
1 ATTAAATTACAATATAATATAATATATATTAATATTAGATTGTA
* * *
3894797 ATTAATTTACAATATAATATTATATATATTCATATTAGATTGTA
1 ATTAAATTACAATATAATATAATATATATTAATATTAGATTGTA
3894841 ATTAA
1 ATTAA
3894846 TAAATAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 11 0.27
42 5 0.12
43 7 0.17
44 18 0.44
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (44 bp):
ATTAAATTACAATATAATATAATATATATTAATATTAGATTGTA
Found at i:3898887 original size:19 final size:19
Alignment explanation
Indices: 3898863--3898913 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
3898853 TCCTTCACTA
**
3898863 TGGTATCGATATTGTGCTT
1 TGGTATCGATACCGTGCTT
3898882 TGGTATCGATACCGTGCTT
1 TGGTATCGATACCGTGCTT
3898901 TGGTATCGATACC
1 TGGTATCGATACC
3898914 CTTTTCCAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (19 bp):
TGGTATCGATACCGTGCTT
Found at i:3903854 original size:21 final size:21
Alignment explanation
Indices: 3903807--3903862 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
3903797 GGTGTCAAAG
* *
3903807 TACATCCATGCACCCCTGTAG
1 TACATCCATGCACCCCTGCAA
* *
3903828 TGCATCTATGCACCCCTGCAA
1 TACATCCATGCACCCCTGCAA
*
3903849 TACATCCATACACC
1 TACATCCATGCACC
3903863 TGCAACTAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.39, G:0.11, T:0.23
Consensus pattern (21 bp):
TACATCCATGCACCCCTGCAA
Found at i:3907417 original size:20 final size:20
Alignment explanation
Indices: 3907392--3907444 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
3907382 AATGTAATTA
*
3907392 GTGCATCAATGCATCATGTT
1 GTGCATCAATGCATCATGCT
* *
3907412 GTGCATCGATGCATCTTGCT
1 GTGCATCAATGCATCATGCT
*
3907432 GTGCATCCATGCA
1 GTGCATCAATGCA
3907445 CCAAGGCTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (20 bp):
GTGCATCAATGCATCATGCT
Found at i:3910811 original size:19 final size:20
Alignment explanation
Indices: 3910787--3910834 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
3910777 AACGATTTTC
*
3910787 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
3910806 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
3910826 TTTTGAAAA
1 TTTTGAAAA
3910835 AGGATATAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:3912671 original size:31 final size:32
Alignment explanation
Indices: 3912636--3912700 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
3912626 GTTTACATTT
*
3912636 CTTAT-CCTTTTATAAAG-GGGAAAGGTTCTAG
1 CTTATCCCTTGTA-AAAGAGGGAAAGGTTCTAG
3912667 CTTATCCCTTGTAAAAGCTAGGGAAAGGTTCTAG
1 CTTATCCCTTGTAAAAG--AGGGAAAGGTTCTAG
3912701 TTTAGCCCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 9 0.31
32 6 0.21
34 14 0.48
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (32 bp):
CTTATCCCTTGTAAAAGAGGGAAAGGTTCTAG
Found at i:3915642 original size:134 final size:133
Alignment explanation
Indices: 3915402--3915649 Score: 347
Period size: 134 Copynumber: 1.8 Consensus size: 133
3915392 TTATGGTTCA
* * * *
3915402 GACACCTAAAAGTGTAATGTTGGAAAAGTTAGGCACCTATATTTAGCGAAAAATTCTTTAGGCAT
1 GACACCTAAAAGTGTAATG-TGGAAAAATTAGACACCTATATTTAACGAAAAATTCTTTAGGCAC
* ** * *
3915467 CAAAAGTTAATTTGAGGTATAGTTTAGACATCTAAAAGTGTATTAAGCCTTAAAAAAAAAAATAA
65 CAAAAGTCAATGCGAAGTATAGTTTAGACACCTAAAAGTGTATTAAGCCTTAAAAAAAAAAATAA
3915532 CGGT
130 CGGT
*
3915536 GACACCTAAAAGTGTAATG-GAGAAAACATTAGACACCTATTTTTAACGAAAAATTCTTTAGGCA
1 GACACCTAAAAGTGTAATGTG-GAAAA-ATTAGACACCTATATTTAACGAAAAATTCTTTAGGCA
*
3915600 CCAAAAGTCAATGCGAAGTATA-TTATAGGCACCTAAAAGTGTATTAAGCC
64 CCAAAAGTCAATGCGAAGTATAGTT-TAGACACCTAAAAGTGTATTAAGCC
3915650 ATTTTTTGGA
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
132 1 0.01
133 7 0.07
134 92 0.92
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (133 bp):
GACACCTAAAAGTGTAATGTGGAAAAATTAGACACCTATATTTAACGAAAAATTCTTTAGGCACC
AAAAGTCAATGCGAAGTATAGTTTAGACACCTAAAAGTGTATTAAGCCTTAAAAAAAAAAATAAC
GGT
Found at i:3917481 original size:17 final size:17
Alignment explanation
Indices: 3917459--3917508 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
3917449 TCAATAAAGA
**
3917459 TAGTTCACTAATTTTAC
1 TAGTTCACTAATTAAAC
* *
3917476 TAGTTCATTCATTAAAC
1 TAGTTCACTAATTAAAC
3917493 TAGTTCACTAATTAAA
1 TAGTTCACTAATTAAA
3917509 TTAGCTCCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGTTCACTAATTAAAC
Found at i:3925599 original size:2 final size:2
Alignment explanation
Indices: 3925584--3925645 Score: 56
Period size: 2 Copynumber: 31.5 Consensus size: 2
3925574 AAAAATGTAA
* * * * *
3925584 AT AT AT AA AA AT AT AT AT AT A- AT GT GT ACT -T AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
3925625 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
3925646 CATACAGACA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
1 2 0.04
2 48 0.94
3 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:3928205 original size:29 final size:29
Alignment explanation
Indices: 3928163--3928244 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
3928153 AAACTAAATT
3928163 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
* *
3928192 GATGTTATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
3928221 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
3928245 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:3932303 original size:54 final size:54
Alignment explanation
Indices: 3932267--3932821 Score: 304
Period size: 54 Copynumber: 10.5 Consensus size: 54
3932257 GCCTATATGG
* *
3932267 TCATTCATAAACATATTATGAATTCCATGGTTTGCACACATAGTGCCGAAACGA
1 TCATTCATAAACATATGATGAATTCCATGATTTGCACACATAGTGCCGAAACGA
* * * * * * *
3932321 TTATTCATCAACATATGATGAATTCCGTGATTTGCACACTTAGTGTCGAAATGG
1 TCATTCATAAACATATGATGAATTCCATGATTTGCACACATAGTGCCGAAACGA
** * * * *
3932375 TTTTTCATCAATATATGATGAATTCCGT-ACTTTGCACACTTAGTGCCGAAAC-A
1 TCATTCATAAACATATGATGAATTCCATGA-TTTGCACACATAGTGCCGAAACGA
* * * * * * *
3932428 --GTTCATCAATATATGAGGAATT-C-TGTACTTTGCACACTTAGTGCTGAAACGG
1 TCATTCATAAACATATGATGAATTCCATG-A-TTTGCACACATAGTGCCGAAACGA
* * * * *
3932480 TTATTCCTCAACATATGATGAATTTCAT-ACTTTGCACACTTAGTGCCGAAACG-
1 TCATTCATAAACATATGATGAATTCCATGA-TTTGCACACATAGTGCCGAAACGA
* * * * *
3932533 GCTATTCATCAACATATGATGAATTCCGTGATTTGCACGCTTAGTGCCGAAAC-A
1 TC-ATTCATAAACATATGATGAATTCCATGATTTGCACACATAGTGCCGAAACGA
* * * * * * *
3932587 GTTATTCATCAACATATGATGAATTCCGTGATTTACACGCTTAGTG-CTAAA--A
1 -TCATTCATAAACATATGATGAATTCCATGATTTGCACACATAGTGCCGAAACGA
* * * * * * * * *
3932639 -C---CGTCAACATATGATAAATT-TAGT-ACTTCGTACACTTAGTGCCAAAACGG
1 TCATTCATAAACATATGATGAATTCCA-TGA-TTTGCACACATAGTGCCGAAACGA
* * * * * * * *
3932689 TTATTCATCAATATATGATGAATTCCGTGATTTGCACGCTTAGTGCCAAAACGG
1 TCATTCATAAACATATGATGAATTCCATGATTTGCACACATAGTGCCGAAACGA
* * * * * *
3932743 TTATTCATCAACATATGATGAATTTCGT-ACTTTGCACACTTAGTGTCGAAAC-A
1 TCATTCATAAACATATGATGAATTCCATGA-TTTGCACACATAGTGCCGAAACGA
* *
3932796 GTTATTCATCAACATATGATGAATTC
1 -TCATTCATAAACATATGATGAATTC
3932822 TGTACTTTGC
Statistics
Matches: 416, Mismatches: 60, Indels: 50
0.79 0.11 0.10
Matches are distributed among these distances:
46 1 0.00
47 29 0.07
48 4 0.01
49 1 0.00
50 1 0.00
51 43 0.10
52 1 0.00
53 6 0.01
54 326 0.78
55 3 0.01
56 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (54 bp):
TCATTCATAAACATATGATGAATTCCATGATTTGCACACATAGTGCCGAAACGA
Found at i:3932585 original size:108 final size:107
Alignment explanation
Indices: 3932269--3932840 Score: 646
Period size: 108 Copynumber: 5.4 Consensus size: 107
3932259 CTATATGGTC
* * * ** * *
3932269 ATTCATAAACATATTATGAATTCCATGGTTTGCACACATAGTGCCGAAACGATTATTCATCAACA
1 ATTCATCAACATATGATGAATTCCGTACTTTGCACACTTAGTGCCGAAACG-GTATTCATCAACA
* *
3932334 TATGATGAATTCCGTGA-TTTGCACACTTAGTGTCGAAATGGTT
65 TATGATGAATTCCGT-ACTTTGCACACTTAGTGCCGAAACGGTT
* * * *
3932377 TTTCATCAATATATGATGAATTCCGTACTTTGCACACTTAGTGCCGAAACAG--TTCATCAATAT
1 ATTCATCAACATATGATGAATTCCGTACTTTGCACACTTAGTGCCGAAACGGTATTCATCAACAT
* * *
3932440 ATGAGGAATTCTGTACTTTGCACACTTAGTGCTGAAACGGTT
66 ATGATGAATTCCGTACTTTGCACACTTAGTGCCGAAACGGTT
* * *
3932482 ATTCCTCAACATATGATGAATTTCATACTTTGCACACTTAGTGCCGAAACGGCTATTCATCAACA
1 ATTCATCAACATATGATGAATTCCGTACTTTGCACACTTAGTGCCGAAACGG-TATTCATCAACA
* *
3932547 TATGATGAATTCCGTGA-TTTGCACGCTTAGTGCCGAAACAGTT
65 TATGATGAATTCCGT-ACTTTGCACACTTAGTGCCGAAACGGTT
* * * * *
3932590 ATTCATCAACATATGATGAATTCCGTGA-TTTACACGCTTAGTG-CTAAA----A-CCGTCAACA
1 ATTCATCAACATATGATGAATTCCGT-ACTTTGCACACTTAGTGCCGAAACGGTATTCATCAACA
* ** * * *
3932648 TATGATAAATTTAGTACTTCGTACACTTAGTGCCAAAACGGTT
65 TATGATGAATTCCGTACTTTGCACACTTAGTGCCGAAACGGTT
* * *
3932691 ATTCATCAATATATGATGAATTCCGTGA-TTTGCACGCTTAGTGCCAAAACGGTTATTCATCAAC
1 ATTCATCAACATATGATGAATTCCGT-ACTTTGCACACTTAGTGCCGAAACGG-TATTCATCAAC
* * *
3932755 ATATGATGAATTTCGTACTTTGCACACTTAGTGTCGAAACAGTT
64 ATATGATGAATTCCGTACTTTGCACACTTAGTGCCGAAACGGTT
*
3932799 ATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAGT
1 ATTCATCAACATATGATGAATTCCGTACTTTGCACACTTAGT
3932841 AGATGAATTA
Statistics
Matches: 390, Mismatches: 59, Indels: 30
0.81 0.12 0.06
Matches are distributed among these distances:
100 1 0.00
101 81 0.21
102 5 0.01
104 1 0.00
105 91 0.23
107 6 0.02
108 203 0.52
109 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (107 bp):
ATTCATCAACATATGATGAATTCCGTACTTTGCACACTTAGTGCCGAAACGGTATTCATCAACAT
ATGATGAATTCCGTACTTTGCACACTTAGTGCCGAAACGGTT
Found at i:3932698 original size:101 final size:102
Alignment explanation
Indices: 3932325--3933544 Score: 516
Period size: 108 Copynumber: 11.7 Consensus size: 102
3932315 AAACGATTAT
* ** * * ** * *
3932325 TCATCAACATATGATGAATTCCGTGA-TTTGCACACTTAGTGTCGAAATGGTTTTTCATCAATAT
1 TCATCAACATATGATAAATTTAGT-ACTTCGCACACTTAGTGCCGAAACAGTTATTCATCAACAT
* * *
3932389 ATGATGAATTCCGT-ACTTTGCACACTTAGTGCCGAAACAGT
65 ATGATGAATTCCGTGA-TTTACACGCTTAGTGCC-AAA-A-C
* ** * * * *
3932430 TCATCAATATATGAGGAATTCT-GTACTTTGCACACTTAGTGCTGAAACGGTTATTCCTCAACAT
1 TCATCAACATATGATAAATT-TAGTACTTCGCACACTTAGTGCCGAAACAGTTATTCATCAACAT
* * * * *
3932494 ATGATGAATTTCAT-ACTTTGCACACTTAGTGCCGAAACGGCTAT
65 ATGATGAATTCCGTGA-TTTACACGCTTAGTGCC-AAA-----AC
* ** * *
3932538 TCATCAACATATGATGAATTCCGTGA-TTTGCACGCTTAGTGCCGAAACAGTTATTCATCAACAT
1 TCATCAACATATGATAAATTTAGT-ACTTCGCACACTTAGTGCCGAAACAGTTATTCATCAACAT
*
3932602 ATGATGAATTCCGTGATTTACACGCTTAGTGCTAAAAC
65 ATGATGAATTCCGTGATTTACACGCTTAGTGCCAAAAC
* * * * *
3932640 -CGTCAACATATGATAAATTTAGTACTTCGTACACTTAGTGCCAAAACGGTTATTCATCAATATA
1 TCATCAACATATGATAAATTTAGTACTTCGCACACTTAGTGCCGAAACAGTTATTCATCAACATA
*
3932704 TGATGAATTCCGTGATTTGCACGCTTAGTGCCAAAAC
66 TGATGAATTCCGTGATTTACACGCTTAGTGCCAAAAC
* * * *
3932741 GGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGTCGAAACAGTTATTCATC
1 ------TCATCAACATATGATAAATTTAGTACTTCGCACACTTAGTGCCGAAACAGTTATTCATC
* * * *
3932806 AACATATGATGAATTCTGT-ACTTTGCACACTTAGTAG--ATGAA-
60 AACATATGATGAATTCCGTGA-TTTACACGCTTAGT-GCCA-AAAC
* *** * * * * * *** * *
3932848 TTAT-GTGATTTGCAT--GTTTAGT--GTCG-AAACGGTTA-TTCATCAACA--TA-TGAT-GA-
1 TCATCAACATATG-ATAAATTTAGTACTTCGCACAC--TTAGTGCCGAAACAGTTATTCATCAAC
* * * * * * ** **** *
3932901 ATTTCG-T-ACTT-TGTACACTT--A-G-TGTCGAAACTGTTAT
63 ATAT-GATGAATTCCGT-GATTTACACGCT-TAG-TGCCAAAAC
* * * ** **
3932938 TCATCAACATATGAT-GATTCT-GTAATTTGCACACTTAGTGTTGAAATGGTTATTCATCAACAT
1 TCATCAACATATGATAAATT-TAGTACTTCGCACACTTAGTGCCGAAACAGTTATTCATCAACAT
* * *
3933001 ATGATGAATTTCGT-ACTTTGCACACTTAGTG-CAGAAAC
65 ATGATGAATTCCGTGA-TTTACACGCTTAGTGCCA-AAAC
* * * * *
3933039 GGTTATTCATCAACATATGATGAATTTCA-TACTTTGCACACATAGTACTGAAAC-GATTATTCA
1 ------TCATCAACATATGATAAATTT-AGTACTTCGCACACTTAGTGCCGAAACAG-TTATTCA
* * * **
3933102 TCAACATATGATGAATTCCGTGATTTGCACACTTAGTGTCGAAATGGTTTT
58 TCAACATATGATGAATTCCGTGATTTACACGCTTAGTG-CCAAA-----AC
* * ** * * * * * *
3933153 TCATCAATATATGATGAATTCCGTACTTTGTACACTTAGTGCTGAAACGGTTATTCCTTAACATA
1 TCATCAACATATGATAAATTTAGTACTTCGCACACTTAGTGCCGAAACAGTTATTCATCAACATA
* * * * *
3933218 TGATGAATTTCAT-ACTTTGCACACTTAGTGCCGAAACGGTTAT
66 TGATGAATTCCGTGA-TTTACACGCTTAGTGCC-AAA-----AC
* ** ** *
3933261 TCATCAACATATGATGAATTCCGTGTTTTGCACACTTAGTGCCGAAACAGTTATTCATCAACATA
1 TCATCAACATATGATAAATTTAGTACTTCGCACACTTAGTGCCGAAACAGTTATTCATCAACATA
**
3933326 TGATGAATTCCGTGATTTACACGCTTAGTGCTGAAAC
66 TGATGAATTCCGTGATTTACACGCTTAGTGCCAAAAC
* * * * *
3933363 -CGTCAACATATGATGAATTTAGTACTTCGCACACTTAATGCCAAAACGGTTATTCATCAACATA
1 TCATCAACATATGATAAATTTAGTACTTCGCACACTTAGTGCCGAAACAGTTATTCATCAACATA
*
3933427 TGATGAATTCCGTGATTTGCACGCTTAGTGCCAAAAC
66 TGATGAATTCCGTGATTTACACGCTTAGTGCCAAAAC
* * ** *
3933464 GGTTATTCATCAACATATGATGAATTTCGTACTTTACACACTTAGTGTCGAAACAGTTATTCATC
1 ------TCATCAACATATGATAAATTTAGTACTTCGCACACTTAGTGCCGAAACAGTTATTCATC
3933529 AACATATGATGAATTC
60 AACATATGATGAATTC
3933545 TGTACTTTGC
Statistics
Matches: 868, Mismatches: 165, Indels: 161
0.73 0.14 0.13
Matches are distributed among these distances:
87 1 0.00
88 2 0.00
89 2 0.00
90 8 0.01
91 13 0.01
92 9 0.01
93 7 0.01
94 6 0.01
95 4 0.00
96 6 0.01
97 9 0.01
98 8 0.01
99 10 0.01
100 7 0.01
101 183 0.21
102 4 0.00
103 1 0.00
104 1 0.00
105 87 0.10
107 26 0.03
108 464 0.53
109 9 0.01
110 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (102 bp):
TCATCAACATATGATAAATTTAGTACTTCGCACACTTAGTGCCGAAACAGTTATTCATCAACATA
TGATGAATTCCGTGATTTACACGCTTAGTGCCAAAAC
Found at i:3932698 original size:155 final size:157
Alignment explanation
Indices: 3932328--3932787 Score: 553
Period size: 155 Copynumber: 2.9 Consensus size: 157
3932318 CGATTATTCA
* * * * * * *
3932328 TCAACATATGATGAATTCCGTGA-TTTGCACACTTAGTGTCGAAATGGTTTTTCATCAATATATG
1 TCAACATATGATAAATTTCAT-ACTTCGCACACTTAGTGCCGAAACGGTTATTCATCAATATATG
* * * *
3932392 ATGAATTCCGT-ACTTTGCACACTTAGTGCCGAAACAG---TTCATCAATATATGAGGAATTCTG
65 ATGAATTCCGTGA-TTTGCACGCTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTCCG
*
3932453 TACTTTGCACACTTAGTGCTGAAACGGTTATTCC
129 TACTTTACACACTTAGTGCTGAAA--G--A-TCC
* * * *
3932487 TCAACATATGATGAATTTCATACTTTGCACACTTAGTGCCGAAACGGCTATTCATCAACATATGA
1 TCAACATATGATAAATTTCATACTTCGCACACTTAGTGCCGAAACGGTTATTCATCAATATATGA
3932552 TGAATTCCGTGATTTGCACGCTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTCCGTG
66 TGAATTCCGTGATTTGCACGCTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTCCGT-
*
3932617 A-TTTACACGCTTAGTGCT-AAA-A-CC
130 ACTTTACACACTTAGTGCTGAAAGATCC
* *
3932641 GTCAACATATGATAAATTT-AGTACTTCGTACACTTAGTGCCAAAACGGTTATTCATCAATATAT
1 -TCAACATATGATAAATTTCA-TACTTCGCACACTTAGTGCCGAAACGGTTATTCATCAATATAT
* * *
3932705 GATGAATTCCGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCG
64 GATGAATTCCGTGATTTGCACGCTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTCCG
*
3932770 TACTTTGCACACTTAGTG
129 TACTTTACACACTTAGTG
3932788 TCGAAACAGT
Statistics
Matches: 268, Mismatches: 24, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
154 4 0.01
155 131 0.49
156 1 0.00
158 1 0.00
159 89 0.33
160 1 0.00
161 3 0.01
162 37 0.14
163 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (157 bp):
TCAACATATGATAAATTTCATACTTCGCACACTTAGTGCCGAAACGGTTATTCATCAATATATGA
TGAATTCCGTGATTTGCACGCTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTCCGTA
CTTTACACACTTAGTGCTGAAAGATCC
Found at i:3932926 original size:54 final size:54
Alignment explanation
Indices: 3932865--3933563 Score: 847
Period size: 54 Copynumber: 13.1 Consensus size: 54
3932855 ATTTGCATGT
*
3932865 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGTACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
* *
3932919 TTAGTGTCGAAACTGTTATTCATCAACATATGATG-A-TTCTGTAATTTGCACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTC-GTACTTTGCACAC
* *
3932972 TTAGTGTTGAAATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
*
3933026 TTAGTG-CAGAAACGGTTATTCATCAACATATGATGAATTTCATACTTTGCACAC
1 TTAGTGTC-GAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
* * * *
3933080 ATAGT-ACTGAAACGATTATTCATCAACATATGATGAATTCCGTGA-TTTGCACAC
1 TTAGTGTC-GAAACGGTTATTCATCAACATATGATGAATTTCGT-ACTTTGCACAC
* * * * *
3933134 TTAGTGTCGAAATGGTTTTTCATCAATATATGATGAATTCCGTACTTTGTACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
* * *
3933188 TTAGTG-CTGAAACGGTTATTCCTTAACATATGATGAATTTCATACTTTGCACAC
1 TTAGTGTC-GAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
* * **
3933242 TTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGTTTTGCACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
* * * * *
3933296 TTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTCCGTGA-TTTACACGC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGT-ACTTTGCACAC
* * *
3933350 TTAGTG-CTGAAAC-------CGTCAACATATGATGAATTTAGTACTTCGCACAC
1 TTAGTGTC-GAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
* * * * *
3933397 TTAATGCCAAAACGGTTATTCATCAACATATGATGAATTCCGTGA-TTTGCACGC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGT-ACTTTGCACAC
* * *
3933451 TTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTACACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
*
3933505 TTAGTGTCGAAACAGTTATTCATCAACATATGATGAA-TTCTGTACTTTGCACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTC-GTACTTTGCACAC
3933559 TTAGT
1 TTAGT
3933564 AGATGAATTA
Statistics
Matches: 560, Mismatches: 61, Indels: 48
0.84 0.09 0.07
Matches are distributed among these distances:
46 1 0.00
47 35 0.06
48 1 0.00
52 3 0.01
53 51 0.09
54 462 0.82
55 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (54 bp):
TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
Found at i:3932951 original size:137 final size:136
Alignment explanation
Indices: 3932705--3932976 Score: 454
Period size: 137 Copynumber: 2.0 Consensus size: 136
3932695 ATCAATATAT
*
3932705 GATGAATTCCGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCG
1 GATGAATTACGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCG
*
3932770 TACTTTGCACACTTAGTGTCGAAACAGTTATTCATCAACATATGATGAATTCTGTACTTTGCACA
66 TACTTTGCACACTTAGTGTCGAAACAGTTATTCATCAACATATGATG-ATTCTGTAATTTGCACA
3932835 CTTAGTA
130 CTTAGTA
* * * * *
3932842 GATGAATTATGTGATTTGCATGTTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCG
1 GATGAATTACGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCG
* *
3932907 TACTTTGTACACTTAGTGTCGAAACTGTTATTCATCAACATATGATGATTCTGTAATTTGCACAC
66 TACTTTGCACACTTAGTGTCGAAACAGTTATTCATCAACATATGATGATTCTGTAATTTGCACAC
3932972 TTAGT
131 TTAGT
3932977 GTTGAAATGG
Statistics
Matches: 126, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
136 22 0.17
137 104 0.83
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (136 bp):
GATGAATTACGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCG
TACTTTGCACACTTAGTGTCGAAACAGTTATTCATCAACATATGATGATTCTGTAATTTGCACAC
TTAGTA
Found at i:3933649 original size:54 final size:54
Alignment explanation
Indices: 3933588--3933862 Score: 407
Period size: 54 Copynumber: 5.1 Consensus size: 54
3933578 ATTTGCATGT
*
3933588 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGTACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
* *
3933642 TTAGTGTCGAAACTGTTATTCATCAACATATGATG-A-TTCTGTAATTTGCACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTC-GTACTTTGCACAC
* *
3933695 TTAGTGTTGAAATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
1 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
*
3933749 TTAGTG-CAGAAACGGTTATTCATCAACATATGATGAATTCCGTACTTTGCACAC
1 TTAGTGTC-GAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
* *
3933803 ATAGT-ACTGAAACGGTTATTCATCAACATATGATGAA-TTCTGTACTTTGCACAC
1 TTAGTGTC-GAAACGGTTATTCATCAACATATGATGAATTTC-GTACTTTGCACAC
3933857 TTAGTG
1 TTAGTG
3933863 CCTATTTGGT
Statistics
Matches: 200, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
52 3 0.01
53 46 0.23
54 148 0.74
55 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (54 bp):
TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACAC
Found at i:3933659 original size:723 final size:720
Alignment explanation
Indices: 3932263--3933864 Score: 2814
Period size: 723 Copynumber: 2.2 Consensus size: 720
3932253 TAGTGCCTAT
* * * * * ** * * *
3932263 ATGGTCATTCATAAACATATTATGAATTCCATGGTTTGCACACATAGTGCCGAAACGATTATTCA
1 ATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCAGAAACGGTTATTCA
* * * * *
3932328 TCAACATATGATGAATTCCGTGA-TTTGCACACTTAGT-GTCGAAATGGTTTTTCATCAATATAT
66 TCAACATATGATGAATTCCGT-ACTTTGCACACATAGTACT-GAAACGGTTATTCATCAACATAT
*
3932391 GATGAATTCCGTACTTTGCACACTTAGTGCCGAAACAGTTCATCAATATATGAGGAATTCTGTAC
129 GATGAATTCCGTACTTTGCACACTTAGTGCCGAAACAGTTCATCAATATATGAGGAATTCCGTAC
3932456 TTTGCACACTTAGTGCTGAAACGGTTATTCCTCAACATATGATGAATTTCATACTTTGCACACTT
194 TTTGCACACTTAGTGCTGAAACGGTTATTCCTCAACATATGATGAATTTCATACTTTGCACACTT
*
3932521 AGTGCCGAAACGGCTATTCATCAACATATGATGAATTCCGTGATTTGCACGCTTAGTGCCGAAAC
259 AGTGCCGAAACGGCTATTCATCAACATATGATGAATTCCGTGATTTGCACACTTAGTGCCGAAAC
3932586 AGTTATTCATCAACATATGATGAATTCCGTGATTTACACGCTTAGTGCTAAAACCGTCAACATAT
324 AGTTATTCATCAACATATGATGAATTCCGTGATTTACACGCTTAGTGCTAAAACCGTCAACATAT
* * *
3932651 GATAAATTTAGTACTTCGTACACTTAGTGCCAAAACGGTTATTCATCAATATATGATGAATTCCG
389 GATAAATTTAGTACTTCGCACACTTAATGCCAAAACGGTTATTCATCAACATATGATGAATTCCG
*
3932716 TGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACA
454 TGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTACACA
3932781 CTTAGTGTCGAAACAGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAGTAGATG
519 CTTAGTGTCGAAACAGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAGTAGATG
3932846 AATTATGTGATTTGCATGTTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACT
584 AATTATGTGATTTGCATGTTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACT
3932911 TTGTACACTTAGTGTCGAAACTGTTATTCATCAACATATGATGATTCTGTAATTTGCACACTTAG
649 TTGTACACTTAGTGTCGAAACTGTTATTCATCAACATATGATGATTCTGTAATTTGCACACTTAG
3932976 TGTTGAA
714 TGTTGAA
3932983 ATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCAGAAACGGTTATTCA
1 ATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCAGAAACGGTTATTCA
* * *
3933048 TCAACATATGATGAATTTCATACTTTGCACACATAGTACTGAAACGATTATTCATCAACATATGA
66 TCAACATATGATGAATTCCGTACTTTGCACACATAGTACTGAAACGGTTATTCATCAACATATGA
* ** *
3933113 TGAATTCCGTGA-TTTGCACACTTAGTGTCGAAATGGTTTTTCATCAATATATGATGAATTCCGT
131 TGAATTCCGT-ACTTTGCACACTTAGTGCCGAAACAG---TTCATCAATATATGAGGAATTCCGT
* *
3933177 ACTTTGTACACTTAGTGCTGAAACGGTTATTCCTTAACATATGATGAATTTCATACTTTGCACAC
192 ACTTTGCACACTTAGTGCTGAAACGGTTATTCCTCAACATATGATGAATTTCATACTTTGCACAC
* *
3933242 TTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGTTTTGCACACTTAGTGCCGAA
257 TTAGTGCCGAAACGGCTATTCATCAACATATGATGAATTCCGTGATTTGCACACTTAGTGCCGAA
*
3933307 ACAGTTATTCATCAACATATGATGAATTCCGTGATTTACACGCTTAGTGCTGAAACCGTCAACAT
322 ACAGTTATTCATCAACATATGATGAATTCCGTGATTTACACGCTTAGTGCTAAAACCGTCAACAT
*
3933372 ATGATGAATTTAGTACTTCGCACACTTAATGCCAAAACGGTTATTCATCAACATATGATGAATTC
387 ATGATAAATTTAGTACTTCGCACACTTAATGCCAAAACGGTTATTCATCAACATATGATGAATTC
3933437 CGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTACA
452 CGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTACA
3933502 CACTTAGTGTCGAAACAGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAGTAGA
517 CACTTAGTGTCGAAACAGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAGTAGA
3933567 TGAATTATGTGATTTGCATGTTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTA
582 TGAATTATGTGATTTGCATGTTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTA
3933632 CTTTGTACACTTAGTGTCGAAACTGTTATTCATCAACATATGATGATTCTGTAATTTGCACACTT
647 CTTTGTACACTTAGTGTCGAAACTGTTATTCATCAACATATGATGATTCTGTAATTTGCACACTT
3933697 AGTGTTGAA
712 AGTGTTGAA
3933706 ATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCAGAAACGGTTATTCA
1 ATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCAGAAACGGTTATTCA
3933771 TCAACATATGATGAATTCCGTACTTTGCACACATAGTACTGAAACGGTTATTCATCAACATATGA
66 TCAACATATGATGAATTCCGTACTTTGCACACATAGTACTGAAACGGTTATTCATCAACATATGA
*
3933836 TGAATTCTGTACTTTGCACACTTAGTGCC
131 TGAATTCCGTACTTTGCACACTTAGTGCC
3933865 TATTTGGTGA
Statistics
Matches: 836, Mismatches: 39, Indels: 11
0.94 0.04 0.01
Matches are distributed among these distances:
719 1 0.00
720 139 0.17
721 2 0.00
722 1 0.00
723 693 0.83
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (720 bp):
ATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCAGAAACGGTTATTCA
TCAACATATGATGAATTCCGTACTTTGCACACATAGTACTGAAACGGTTATTCATCAACATATGA
TGAATTCCGTACTTTGCACACTTAGTGCCGAAACAGTTCATCAATATATGAGGAATTCCGTACTT
TGCACACTTAGTGCTGAAACGGTTATTCCTCAACATATGATGAATTTCATACTTTGCACACTTAG
TGCCGAAACGGCTATTCATCAACATATGATGAATTCCGTGATTTGCACACTTAGTGCCGAAACAG
TTATTCATCAACATATGATGAATTCCGTGATTTACACGCTTAGTGCTAAAACCGTCAACATATGA
TAAATTTAGTACTTCGCACACTTAATGCCAAAACGGTTATTCATCAACATATGATGAATTCCGTG
ATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTACACACT
TAGTGTCGAAACAGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAGTAGATGAA
TTATGTGATTTGCATGTTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTT
GTACACTTAGTGTCGAAACTGTTATTCATCAACATATGATGATTCTGTAATTTGCACACTTAGTG
TTGAA
Found at i:3933674 original size:137 final size:136
Alignment explanation
Indices: 3933428--3933699 Score: 445
Period size: 137 Copynumber: 2.0 Consensus size: 136
3933418 ATCAACATAT
*
3933428 GATGAATTCCGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCG
1 GATGAATTACGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCG
*
3933493 TACTTTACACACTTAGTGTCGAAACAGTTATTCATCAACATATGATGAATTCTGTACTTTGCACA
66 TACTTTACACACTTAGTGTCGAAACAGTTATTCATCAACATATGATG-ATTCTGTAATTTGCACA
3933558 CTTAGTA
130 CTTAGTA
* * * * *
3933565 GATGAATTATGTGATTTGCATGTTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCG
1 GATGAATTACGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCG
** *
3933630 TACTTTGTACACTTAGTGTCGAAACTGTTATTCATCAACATATGATGATTCTGTAATTTGCACAC
66 TACTTTACACACTTAGTGTCGAAACAGTTATTCATCAACATATGATGATTCTGTAATTTGCACAC
3933695 TTAGT
131 TTAGT
3933700 GTTGAAATGG
Statistics
Matches: 125, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
136 22 0.18
137 103 0.82
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (136 bp):
GATGAATTACGTGATTTGCACGCTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCG
TACTTTACACACTTAGTGTCGAAACAGTTATTCATCAACATATGATGATTCTGTAATTTGCACAC
TTAGTA
Found at i:3933767 original size:107 final size:107
Alignment explanation
Indices: 3933588--3933863 Score: 430
Period size: 107 Copynumber: 2.6 Consensus size: 107
3933578 ATTTGCATGT
* *
3933588 TTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGTACACTTAGTGTCGAA
1 TTAGTGTTGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTG-CGAA
* *
3933653 ACTGTTATTCATCAACATATGATG-ATTCTGTAATTTGCACAC
65 ACGGTTATTCATCAACATATGATGAATTCCGTAATTTGCACAC
*
3933695 TTAGTGTTGAAATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCAGAA
1 TTAGTGTTGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGC-GAA
*
3933760 ACGGTTATTCATCAACATATGATGAATTCCGTACTTTGCACAC
65 ACGGTTATTCATCAACATATGATGAATTCCGTAATTTGCACAC
* **
3933803 ATAGTACTGAAACGGTTATTCATCAACATATGATGAA-TTCTGTACTTTGCACACTTAGTGC
1 TTAGTGTTGAAACGGTTATTCATCAACATATGATGAATTTC-GTACTTTGCACACTTAGTGC
3933864 CTATTTGGTG
Statistics
Matches: 156, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
106 1 0.01
107 86 0.55
108 69 0.44
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (107 bp):
TTAGTGTTGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCGAAA
CGGTTATTCATCAACATATGATGAATTCCGTAATTTGCACAC
Found at i:3934335 original size:20 final size:20
Alignment explanation
Indices: 3934312--3934368 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
3934302 TCCATGCCAT
*
3934312 CCTCATAGTATTGATACTCC
1 CCTCATAGTATCGATACTCC
* *
3934332 CCTCTTGGTATCGATACTCC
1 CCTCATAGTATCGATACTCC
* *
3934352 CCTCTTGGTATCGATAC
1 CCTCATAGTATCGATAC
3934369 CACTTGAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.35
Consensus pattern (20 bp):
CCTCATAGTATCGATACTCC
Found at i:3948802 original size:54 final size:53
Alignment explanation
Indices: 3948743--3949570 Score: 764
Period size: 54 Copynumber: 15.5 Consensus size: 53
3948733 TTTCTTTTAA
* * *
3948743 ATGAATTCCATACTTTGCACACTTAGTGTCGAAATGATTATTCATCAACATATG
1 ATGAATTCCGTA-TTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * * * *
3948797 ATGAATTTCTTACTTTGCACACTTAGTGCAGAAAAGGTTATTCATCAACATATG
1 ATGAATTCCGTA-TTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * *
3948851 ATGAATTCCGTGATTTGCACGCTTAGTGTCGAAACGGTTATTCATCAACATATG
1 ATGAATTCCGT-ATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
*** * * * *
3948905 ATGAATTATATATTTTGCACACTTAGTGTCGAAATGGTTATTCATCAACATATT
1 ATGAATTCCGTA-TTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * *
3948959 ATGAATTCTGTGATTTGCACACTTAGTACCGAAACAATTATTCATCAACATATG
1 ATGAATTCCGT-ATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * * * ** * *
3949013 ATGAATTTCATAATTTGCACACTTAATTCTAAAACGGTTATTCATCAATATATG
1 ATGAATTCCGT-ATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * * *
3949067 ATGATTTCCGTGATTTGCACACTTAGTGCTGAAATGGTTATTCATCAACATATG
1 ATGAATTCCGT-ATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
** *
3949121 ATGAA----G-ATTTGCATGCTTAGTCCCGAAACGATTATTCAT---CATATG
1 ATGAATTCCGTATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * ** * *
3949166 ATAAATTCCGTATATTGTACACTTAGTTACAAAATGATTATTCATCAACATATG
1 ATGAATTCCGTAT-TTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * * * *
3949220 ATGATTTTCGTGATTTGTACACTTAGTGCTGAAACGGTTATTCATCAACATATG
1 ATGAATTCCGT-ATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * *
3949274 ATGAATTCCCTGATTTGCACGCTTAGTGCCGAAACG-GTATTCATCAACATATG
1 ATGAATTCCGT-ATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * * *
3949327 ATGAATTACGTACTTTGCACACTTAGGGCCGAAACAATTATTCATCAACTTATG
1 ATGAATTCCGTA-TTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
** * * *
3949381 ATGAATTTAGTACTTCGCACACTTA--GCTGAAACGATTATTTCATCAACATATT
1 ATGAATTCCGTA-TTTGCACACTTAGTGCCGAAACGATTA-TTCATCAACATATG
* * * *
3949434 ATGAATTCTGTGA-TTGACACACTTCGTGCCGAAATGA-TATTCATCAACATATT
1 ATGAATTCCGT-ATTTG-CACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * * * **
3949487 ATGAATTTCATACTTTGCACACTTAGTGCCAAAAAGGGTATTCATCAACATATG
1 ATGAATTCCGTA-TTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
** *
3949541 ATGAATTTTGTACTTTGCACATTTAGTGCC
1 ATGAATTCCGTA-TTTGCACACTTAGTGCC
3949571 TATTTGGTAA
Statistics
Matches: 643, Mismatches: 108, Indels: 46
0.81 0.14 0.06
Matches are distributed among these distances:
45 10 0.02
48 27 0.04
49 1 0.00
50 3 0.00
51 24 0.04
52 15 0.02
53 112 0.17
54 439 0.68
55 12 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (53 bp):
ATGAATTCCGTATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
Found at i:3953914 original size:13 final size:13
Alignment explanation
Indices: 3953898--3953942 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
3953888 GATATATATA
3953898 TATATTATAATTT
1 TATATTATAATTT
3953911 TATATTAT-A---
1 TATATTATAATTT
3953920 TATATTATAATTT
1 TATATTATAATTT
3953933 TATATTATAA
1 TATATTATAA
3953943 AGGTACAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 8 0.29
10 1 0.04
12 1 0.04
13 18 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATTATAATTT
Found at i:3953920 original size:22 final size:22
Alignment explanation
Indices: 3953889--3953941 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
3953879 TCCGCTCATG
3953889 ATATATATATATATTATAATTTT
1 ATAT-TATATATATTATAATTTT
3953912 ATATTATATATATTATAATTTT
1 ATATTATATATATTATAATTTT
3953934 ATATTATA
1 ATATTATA
3953942 AAGGTACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTATATATATTATAATTTT
Found at i:3969916 original size:92 final size:91
Alignment explanation
Indices: 3969759--3970024 Score: 331
Period size: 91 Copynumber: 2.9 Consensus size: 91
3969749 TAGACCAATA
* * * * * *
3969759 AACATTTACAGCGGTGAGTTTAAAATGAGAAAAACTCATTCGACGAGGGAGAAGAA-TATCATAA
1 AACATTTCCAGCGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGT-TCATAA
*
3969823 TGAGAAGAGCTTGTTCGAACATT-CCATC
65 TGAGAAGAACTTGTTC-AACATTGCC-TC
*
3969851 AACATTTCCAGCGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAAAAGAAGTTCATAAT
1 AACATTTCCAGCGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAAT
* * *
3969916 GAGAATAACTTGTTCAACCTTGGCTC
66 GAGAAGAACTTGTTCAACATTGCCTC
* ** * *
3969942 AATATTTCCAATGGCA-AGTTCATAATGAGAAGAACTCGTCCGATGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAGCGG-AGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAA
3970006 TGAGAAGAACTTGTTCAAC
65 TGAGAAGAACTTGTTCAAC
3970025 CTTAGCTCGT
Statistics
Matches: 153, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
91 81 0.53
92 71 0.46
93 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (91 bp):
AACATTTCCAGCGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACATTGCCTC
Found at i:3970021 original size:20 final size:19
Alignment explanation
Indices: 3969959--3970022 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
3969949 CCAATGGCAA
3969959 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
* **
3969978 CGTCCGATGAGGGAGAAGAA--
1 -GTTC-AT-AATGAGAAGAACT
3969998 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
3970018 GTTCA
1 GTTCA
3970023 ACCTTAGCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 9 0.27
18 2 0.06
19 3 0.09
20 8 0.24
21 2 0.06
22 9 0.27
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:3970508 original size:18 final size:18
Alignment explanation
Indices: 3970485--3970521 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3970475 CGCCTAGCAT
3970485 CCGACCCGGATCCAAGAC
1 CCGACCCGGATCCAAGAC
*
3970503 CCGACCTGGATCCAAGAC
1 CCGACCCGGATCCAAGAC
3970521 C
1 C
3970522 TGGCCCAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.43, G:0.22, T:0.08
Consensus pattern (18 bp):
CCGACCCGGATCCAAGAC
Found at i:3974040 original size:21 final size:20
Alignment explanation
Indices: 3974007--3974045 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
3973997 AATTAGTTAA
3974007 AAAAGTAAAGGCAAATTATTT
1 AAAAGTAAAGGC-AATTATTT
* *
3974028 AAAATTAACGGCAATTAT
1 AAAAGTAAAGGCAATTAT
3974046 AAAAATGATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (20 bp):
AAAAGTAAAGGCAATTATTT
Found at i:3978333 original size:28 final size:28
Alignment explanation
Indices: 3978288--3978354 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
3978278 CACAAAATAT
3978288 CCAAATCCAAAGTATGATGAAACAATGA
1 CCAAATCCAAAGTATGATGAAACAATGA
* *
3978316 CTAAATCCAAAGTTTGATGAAACAATGA
1 CCAAATCCAAAGTATGATGAAACAATGA
3978344 CCAAATCCAAA
1 CCAAATCCAAA
3978355 AATAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.19
Consensus pattern (28 bp):
CCAAATCCAAAGTATGATGAAACAATGA
Found at i:3979912 original size:22 final size:22
Alignment explanation
Indices: 3979880--3979925 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
3979870 CCAAAGTAAC
*
3979880 ATTCATAATAAACATCATATAT
1 ATTCATAATAAAAATCATATAT
*
3979902 ATTCATGATAAAAATCATATAT
1 ATTCATAATAAAAATCATATAT
3979924 AT
1 AT
3979926 AATAACCAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTCATAATAAAAATCATATAT
Found at i:3988172 original size:30 final size:30
Alignment explanation
Indices: 3988138--3988196 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3988128 AACAATCTAC
3988138 AACTTTCT-AAAATTAC-TAATTTGGTCCCCT
1 AACTTTCTAAAAATTACATAA--TGGTCCCCT
*
3988168 AACTTTTTAAAAATTACATAATGGTCCCC
1 AACTTTCTAAAAATTACATAATGGTCCCC
3988197 AAAAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 15 0.58
31 8 0.31
32 3 0.12
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTCTAAAAATTACATAATGGTCCCCT
Found at i:3999422 original size:4 final size:4
Alignment explanation
Indices: 3999413--3999897 Score: 924
Period size: 4 Copynumber: 122.2 Consensus size: 4
3999403 ATGTAAAATA
* *
3999413 ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999461 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999509 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999557 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999605 ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999651 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999699 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999747 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999793 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999841 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3999889 ACAT ACAT A
1 ACAT ACAT A
3999898 TATTAGAAAG
Statistics
Matches: 473, Mismatches: 4, Indels: 8
0.98 0.01 0.02
Matches are distributed among these distances:
2 4 0.01
4 469 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:4009544 original size:20 final size:20
Alignment explanation
Indices: 4009515--4009552 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4009505 CCTATTCAAA
*
4009515 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
4009535 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
4009553 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:4022431 original size:45 final size:45
Alignment explanation
Indices: 4022383--4022799 Score: 448
Period size: 45 Copynumber: 9.3 Consensus size: 45
4022373 TCATTGATAT
** * * *
4022383 CATCCATTCATGCTTAAAATGCACCTATATGCATTTCAATTATGT
1 CATCCATTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
* * *
4022428 CAT-CATTTCATACCGAGAATGCATCTATATGCATTTCAATTATGG
1 CATCCA-TTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
* * * *
4022473 CATCCTTTCATGTCGATAATTCACCCATATGCATTTCAATTATGG
1 CATCCATTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
* * * *
4022518 CAT-CATTTCATGTCGATAATTCACCCATATGAATTTCAATTATGG
1 CATCCA-TTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
* * * *
4022563 CAT-CATTTCATGCTGAGAATGCACCTATATGAATTTCAATTATAG
1 CATCCA-TTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
* * *
4022608 CAT-CATTTCATACCGATAA-GGATCCCATATGCATTTCAATTATGG
1 CATCCA-TTCATGCCGAGAATGCA-CCCATATGCATTTCAATTATGG
*
4022653 CATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
1 CATCCATTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
* ** * * *
4022698 CATCCTTTTGTGCCAATAATGCACCCATATGCATTTCAATTATGA
1 CATCCATTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
* * *
4022743 CATCCTTTTATGCCGAGAATACACCCATATGCATTTCAATTATGG
1 CATCCATTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
*
4022788 CATCCTTTCATG
1 CATCCATTCATG
4022800 TCTTTTATAC
Statistics
Matches: 323, Mismatches: 43, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
44 5 0.02
45 314 0.97
46 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (45 bp):
CATCCATTCATGCCGAGAATGCACCCATATGCATTTCAATTATGG
Found at i:4022524 original size:90 final size:90
Alignment explanation
Indices: 4022400--4022798 Score: 539
Period size: 90 Copynumber: 4.4 Consensus size: 90
4022390 TCATGCTTAA
* * * * *
4022400 AATGCACCTATATGCATTTCAATTATGTCATCATTTCATACCGAGAATGCATCTATATGCATTTC
1 AATGCACCCATATGCATTTCAATTATGGCATCATTTCATACCGATAATGCACCCATATGCATTTC
* *
4022465 AATTATGGCATCCTTTCATGTCGAT
66 AATTATGGCATCCTTTCATGCCGAG
* ** * *
4022490 AATTCACCCATATGCATTTCAATTATGGCATCATTTCATGTCGATAATTCACCCATATGAATTTC
1 AATGCACCCATATGCATTTCAATTATGGCATCATTTCATACCGATAATGCACCCATATGCATTTC
* *
4022555 AATTATGGCATCATTTCATGCTGAG
66 AATTATGGCATCCTTTCATGCCGAG
* * * *
4022580 AATGCACCTATATGAATTTCAATTATAGCATCATTTCATACCGATAA-GGATCCCATATGCATTT
1 AATGCACCCATATGCATTTCAATTATGGCATCATTTCATACCGATAATGCA-CCCATATGCATTT
4022644 CAATTATGGCATCCTTTCATGCCGAG
65 CAATTATGGCATCCTTTCATGCCGAG
* ** * *
4022670 AATGCACCCATATGCATTTCAATTATGGCATCCTTTTGTGCCAATAATGCACCCATATGCATTTC
1 AATGCACCCATATGCATTTCAATTATGGCATCATTTCATACCGATAATGCACCCATATGCATTTC
* *
4022735 AATTATGACATCCTTTTATGCCGAG
66 AATTATGGCATCCTTTCATGCCGAG
* *
4022760 AATACACCCATATGCATTTCAATTATGGCATCCTTTCAT
1 AATGCACCCATATGCATTTCAATTATGGCATCATTTCAT
4022799 GTCTTTTATA
Statistics
Matches: 268, Mismatches: 39, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
89 1 0.00
90 265 0.99
91 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (90 bp):
AATGCACCCATATGCATTTCAATTATGGCATCATTTCATACCGATAATGCACCCATATGCATTTC
AATTATGGCATCCTTTCATGCCGAG
Found at i:4022617 original size:135 final size:134
Alignment explanation
Indices: 4022400--4022801 Score: 536
Period size: 135 Copynumber: 3.0 Consensus size: 134
4022390 TCATGCTTAA
* * * *
4022400 AATGCACCTATATGCATTTCAATTATGTCATCATTTCATACCGAGAATGCATCTATATGCATTTC
1 AATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGAGAATGCACCTATATGCATTTC
* * *
4022465 AATTATGGCATCCTTTCATGTCGATAATTCACCCATATGCATTTCAATTATGGCATCATTTCATG
66 AATTAT-GCATCCTTTCATGCCGATAATACACCCATATGCATTTCAATTATGGCATCCTTTCATG
*
4022530 TCGAT
130 TCGAG
* * * *
4022535 AATTCACCCATATGAATTTCAATTATGGCATCATTTCATGCTGAGAATGCACCTATATGAATTTC
1 AATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGAGAATGCACCTATATGCATTTC
* * * *
4022600 AATTATAGCATCATTTCATACCGATAAGGA-TCCCATATGCATTTCAATTATGGCATCCTTTCAT
66 AATTAT-GCATCCTTTCATGCCGATAA-TACACCCATATGCATTTCAATTATGGCATCCTTTCAT
*
4022664 GCCGAG
129 GTCGAG
* ** * * *
4022670 AATGCACCCATATGCATTTCAATTATGGCATCCTTTTGTGCCAATAATGCACCCATATGCATTTC
1 AATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGAGAATGCACCTATATGCATTTC
* *
4022735 AATTATGACATCCTTTTATGCCGAGAATACACCCATATGCATTTCAATTATGGCATCCTTTCATG
66 AATTATG-CATCCTTTCATGCCGATAATACACCCATATGCATTTCAATTATGGCATCCTTTCATG
4022800 TC
130 TC
4022802 TTTTATACAT
Statistics
Matches: 229, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
134 2 0.01
135 227 0.99
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (134 bp):
AATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGAGAATGCACCTATATGCATTTC
AATTATGCATCCTTTCATGCCGATAATACACCCATATGCATTTCAATTATGGCATCCTTTCATGT
CGAG
Found at i:4022823 original size:45 final size:45
Alignment explanation
Indices: 4022774--4022945 Score: 213
Period size: 45 Copynumber: 3.8 Consensus size: 45
4022764 CACCCATATG
*
4022774 CATTTCAATTATGGCATCCTTTCATGTCTTTTATACATTATTATA
1 CATTTCAATTATGGCATCCTTTCATGCCTTTTATACATTATTATA
* * * *
4022819 CATTTTATTTATGGGA-CCTTTTCATGCCTTTTATACACTATTATA
1 CATTTCAATTATGGCATCC-TTTCATGCCTTTTATACATTATTATA
* * *
4022864 CATTTC-ATTCGTGGCATTCTTTCATGCCTTTTATACATTATTACA
1 CATTTCAATT-ATGGCATCCTTTCATGCCTTTTATACATTATTATA
* * *
4022909 CATTTCATTTATGGCATCCTTTTATGCATTTTATACA
1 CATTTCAATTATGGCATCCTTTCATGCCTTTTATACA
4022946 ACGTTATGCG
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
44 4 0.04
45 99 0.93
46 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.48
Consensus pattern (45 bp):
CATTTCAATTATGGCATCCTTTCATGCCTTTTATACATTATTATA
Found at i:4022823 original size:90 final size:89
Alignment explanation
Indices: 4022404--4022935 Score: 392
Period size: 90 Copynumber: 5.9 Consensus size: 89
4022394 GCTTAAAATG
* * * * * ** * *
4022404 CACCTATATGCATTTCAATTATGTCATCATTTCATACCGAGAATGCATCTATATGCATTTCAATT
1 CACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTATTATACATC-ATATACATTTCAATT
* * *
4022469 ATGGCATCCTTTCATGTCGATAATT
65 ATGGCATCCTTTCATGCCGAGAATA
* * * * * *
4022494 CACCCATATGCATTTCAATTATGGCATCATTTCATGTCGATAATTCACCCATATGA-ATTTCAAT
1 CACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTATTATACA-TCATAT-ACATTTCAAT
* * *
4022558 TATGGCATCATTTCATGCTGAGAATG
64 TATGGCATCCTTTCATGCCGAGAATA
* * * * * * * *
4022584 CACCTATATGAATTTCAATTATAGCATCATTTCATACCGA-TA-AGGATCCCATATGCATTTCAA
1 CACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTATTATA-CAT--CATATACATTTCAA
*
4022647 TTATGGCATCCTTTCATGCCGAGAATG
63 TTATGGCATCCTTTCATGCCGAGAATA
** * * * * *
4022674 CACCCATATGCATTTCAATTATGGCATCCTTTTGTGCCAATAATGCACCCATATGCATTTCAATT
1 CACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTATTATACA-TCATATACATTTCAATT
* *
4022739 ATGACATCCTTTTATGCCGAGAATA
65 ATGGCATCCTTTCATGCCGAGAATA
* * * * *
4022764 CACCCATATGCATTTCAATTATGGCATCCTTTCATGTCTTTTATACATTATTATACATTTTATTT
1 CACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTATTATACATCA-TATACATTTCAATT
* ****
4022829 ATGGGA-CCTTTTCATGCCTTTTATA
65 ATGGCATCC-TTTCATGCCGAGAATA
* * * * * * * *
4022854 CA-CTATTATACATTTC-ATTCGTGGCATTCTTTCATGCCTTTTATACATTATTACACATTTCAT
1 CACCCA-TATGCATTTCAATT-ATGGCATCCTTTCATGCCTATTATACATCA-TATACATTTCAA
*
4022917 TTATGGCATCCTTTTATGC
63 TTATGGCATCCTTTCATGC
4022936 ATTTTATACA
Statistics
Matches: 360, Mismatches: 68, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
89 10 0.03
90 345 0.96
91 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (89 bp):
CACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTATTATACATCATATACATTTCAATTA
TGGCATCCTTTCATGCCGAGAATA
Found at i:4023087 original size:68 final size:68
Alignment explanation
Indices: 4022978--4023590 Score: 743
Period size: 68 Copynumber: 9.0 Consensus size: 68
4022968 TAGTCTTTTA
* * * * **
4022978 CTCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTTTTAAATGCACATATA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
*
4023043 GAC
66 GGC
* *
4023046 CTCAAAGGCACTTAGCCTTTCATCTAGA-TCGCATTAA-TGACACCTTTCAGTCAAATGCACAGC
1 CTCAAAGGCACTTAGCCTTTCATCTA-ACTGGCA-TAATTGACACCTTTCTGTCAAATGCACAGC
4023109 TAGGC
64 TAGGC
* * * * * *
4023114 CTCAAAGGAACTTAACCTTTCATCTAACTAGCATAACTGACACCTTTCTGTCAATTACACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
*
4023179 GGT
66 GGC
* * * *
4023182 CTCAAAGGCACTTAGCCTTTCATCTAACT-GCATAATTGACACCTTTTTGTCAAACGCATATCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
*
4023246 GGT
66 GGC
* * * *
4023249 CTCAGAGGCACTTAGCCTTTCATCTAACTGGCATTAA-TGACACCTTTCTGCCAAATACACAACT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCA-TAATTGACACCTTTCTGTCAAATGCACAGCT
4023313 AGGC
65 AGGC
* * * *
4023317 CTCAAAGGCACTTAGCTTTTCATTTAACTGGCATAATTGACACCTTTCTTTCAAATGCACAGCCA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
*
4023382 AGC
66 GGC
* * *
4023385 CTCAAAGGCGCTTAGCCTTTCATCTAACTCGCATAATTGACACCTTTCAT-TCAAATACACAGCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTC-TGTCAAATGCACAGCT
4023449 AGGC
65 AGGC
* * * * *
4023453 CTGAAAGGCACATAGCCTTTCACCTAACTGGAATTAA-TGACACCTTTCTGTCAAATGCACGGCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCA-TAATTGACACCTTTCTGTCAAATGCACAGCT
4023517 AGGC
65 AGGC
* * * * *
4023521 GTCAAAGGCAACTTAGCCTTTTATCTAACTGGCATAATTGACACATTTCTGTGAAATGCACAACT
1 CTCAAAGGC-ACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCT
4023586 AGGC
65 AGGC
4023590 C
1 C
4023591 ATTAATCTTT
Statistics
Matches: 465, Mismatches: 68, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
67 67 0.14
68 340 0.73
69 58 0.12
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
GGC
Done.