Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_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: 3902382
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 18
Found at i:3603627 original size:23 final size:23
Alignment explanation
Indices: 3603571--3603636 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
3603561 GGTTCTACGC
3603571 GGTCCTTCGGGATAA-TCTATGT
1 GGTCCTTCGGGATAATTCTATGT
* *
3603593 GATCTTTCGGGATAATTCTATGT
1 GGTCCTTCGGGATAATTCTATGT
* *
3603616 GGTCCTTAGGGACAAATTCTA
1 GGTCCTTCGGGA-TAATTCTA
3603637 CGCGGTCCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.36
23 16 0.44
24 7 0.19
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (23 bp):
GGTCCTTCGGGATAATTCTATGT
Found at i:3603643 original size:24 final size:24
Alignment explanation
Indices: 3603606--3603662 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
3603596 CTTTCGGGAT
* * * *
3603606 AATTCTATGTGGTCCTTAGGGACA
1 AATTCTACGCGGTCCATAGAGACA
*
3603630 AATTCTACGCGGTCCATCGAGACA
1 AATTCTACGCGGTCCATAGAGACA
*
3603654 AATTATACG
1 AATTCTACG
3603663 TGGCACTTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AATTCTACGCGGTCCATAGAGACA
Found at i:3623098 original size:5 final size:5
Alignment explanation
Indices: 3623088--3623126 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
3623078 TTTCTATTGT
*
3623088 TATTA TATTA TATTA TATTA TAATA TA-TA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
3623127 CTCCTTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:3623135 original size:24 final size:23
Alignment explanation
Indices: 3623088--3623145 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
3623078 TTTCTATTGT
*
3623088 TATTATATTATATTATATTATAA
1 TATTATATTATATTATACTATAA
*
3623111 TATATATATTATATTACTCCT-TAA
1 TAT-TATATTATATTA-TACTATAA
*
3623135 TATTATTTTAT
1 TATTATATTAT
3623146 TAGTTTTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.33
24 18 0.60
25 2 0.07
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTATATTATATTATACTATAA
Found at i:3623287 original size:29 final size:27
Alignment explanation
Indices: 3623200--3623296 Score: 81
Period size: 29 Copynumber: 3.4 Consensus size: 27
3623190 TCGTGTATTA
3623200 TTATTATTATTTAT-TTATTTTATTTTT
1 TTATTATTATTTATATTATTTT-TTTTT
* *
3623227 TTATATATATATGTATA-TATTTTTTTCAT
1 TTAT-TAT-TATTTATATTATTTTTTT-TT
*
3623256 TTATTATTATTTCTATTATTTCTGTTTTT
1 TTATTATTATTTATATTATTT-T-TTTTT
*
3623285 TTAGTACTTATT
1 TTATTA-TTATT
3623297 ATACTTTTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
27 10 0.18
28 14 0.25
29 24 0.43
30 8 0.14
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (27 bp):
TTATTATTATTTATATTATTTTTTTTT
Found at i:3623506 original size:4 final size:4
Alignment explanation
Indices: 3623497--3623560 Score: 58
Period size: 4 Copynumber: 15.2 Consensus size: 4
3623487 TGTCTAGTTG
* **
3623497 TTAT TTAT TTAT TTAA TTAT TTACAT ACAT TT-T TTACT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TT--AT TTAT TTAT TTA-T TTAT TTAT TTAT
3623547 TTATT TTAT TTAT T
1 TTA-T TTAT TTAT T
3623561 CGTTTGTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
3 3 0.06
4 36 0.73
5 8 0.16
6 2 0.04
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:3624536 original size:4 final size:4
Alignment explanation
Indices: 3624529--3624560 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
3624519 TTTTTTTTCG
3624529 TTAT TTAT TTAT TTAT TTAT TTAT TTACT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTA
3624561 CTAACATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:3625197 original size:22 final size:23
Alignment explanation
Indices: 3625163--3625206 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 23
3625153 GGTAGTGGGG
3625163 AAGGAATTGAATG-GAACCACAT
1 AAGGAATTGAATGAGAACCACAT
3625185 AAGGCAATT-AATGAAGAACCAC
1 AAGG-AATTGAATG-AGAACCAC
3625207 CCTGATGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (23 bp):
AAGGAATTGAATGAGAACCACAT
Found at i:3634913 original size:109 final size:107
Alignment explanation
Indices: 3634721--3635129 Score: 346
Period size: 109 Copynumber: 3.9 Consensus size: 107
3634711 CAAACATCCA
* * *
3634721 CGATTTCAACTCCACGATGGAGGATATCGTGCCGCTCAAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACG
* * *
3634786 AAGGGACGGCTGGTTGTCAACGAACAACTTTCCAATTTCAA-AGC
66 AAGGGACGACTGGTTGTCAAC-AACAA-TTCCCAACTTCAAGA-C
* *
3634830 TGATTTCAACTCCACGACGGAGGATATCGTGCTACCCAAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACG
* *
3634895 AAGGGACGACTGGTTGTCAACAACAATTCCCAGCTTCAGGAC
66 AAGGGACGACTGGTTGTCAACAACAATTCCCAACTTCAAGAC
* * * * * *
3634937 CAATTTCAACTTCAC-AGCGGAGGATAT--TG-GACCCAAGACAGCACAAGCTCAACTTCACAGC
1 CGATTTCAACTCCACGA-CGGAGGATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAAC
* ** * * *
3634998 GAAAGGG-CGGCTGACTATCAAC-A-AA----CAATTTC-GGAGC
65 G-AAGGGACGACTGGTTGTCAACAACAATTCCCAACTTCAAGA-C
* * * * * * ** *
3635035 CAATCTCAACTTCACAACGAAGGATAT--TG-GAATCGAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACG
**
3635097 AAGGGACGGTTGGTTGTCAACAACAATTTCCCA
66 AAGGGACGACTGGTTGTCAACAACAA-TTCCCA
3635130 GTTCCAGGGC
Statistics
Matches: 252, Mismatches: 35, Indels: 30
0.79 0.11 0.09
Matches are distributed among these distances:
97 8 0.03
98 69 0.27
99 2 0.01
100 2 0.01
102 2 0.01
103 1 0.00
104 40 0.16
105 9 0.04
106 1 0.00
107 32 0.13
108 6 0.02
109 80 0.32
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (107 bp):
CGATTTCAACTCCACGACGGAGGATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACG
AAGGGACGACTGGTTGTCAACAACAATTCCCAACTTCAAGAC
Found at i:3635179 original size:105 final size:104
Alignment explanation
Indices: 3634757--3635277 Score: 508
Period size: 105 Copynumber: 5.0 Consensus size: 104
3634747 TCGTGCCGCT
* *
3634757 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTTCCAAT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAA-TTTCCCAG
* ** * * *
3634822 TTCAAAGCTGATTTCAACTCCAC-GACGGAGGATATCGTGCTACC
64 TTCAGAGCCAATTTCAACTTCACAG-CGAAGGATAT--TG-GACC
*
3634866 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAACAA-TTCCCAGCT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAG-T
*
3634930 TCAG-GACCAATTTCAACTTCACAGCGGAGGATATTGGACC
65 TCAGAG-CCAATTTCAACTTCACAGCGAAGGATATTGGACC
* * * ** *
3634970 CAAGACAGCACAAGCTCAACTTCACAGCGAAAGGG-CGGCTGACTATCAACAAACAATTT--C-G
1 CAAGACAACACAAGTTCAACTTCACAACG-AAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAG
* * **
3635031 ----GAGCCAATCTCAACTTCACAACGAAGGATATTGGAAT
64 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
* *
3635068 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAACAATTTCCCAGTT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
* * *
3635133 CCAGGGCCAGTTTCAACTTCATAGCGAAGGATATTGGACC
66 -CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
* * * * * ** * *
3635173 CAAGACAGCACAAGCTCAACTTCGCAGCGAAGGGGCGGCTGACTGTCAATAAACAATTTCCCGGT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA-CAACAATTTCCCAGT
* *
3635238 TCCAGAACCAATCTCAACTTCACAGC-AGAGGATATTGGAC
65 T-CAGAGCCAATTTCAACTTCACAGCGA-AGGATATTGGAC
3635278 TCAGAACAAT
Statistics
Matches: 343, Mismatches: 51, Indels: 39
0.79 0.12 0.09
Matches are distributed among these distances:
97 13 0.04
98 66 0.19
99 2 0.01
100 1 0.00
103 1 0.00
104 41 0.12
105 83 0.24
106 54 0.16
107 27 0.08
108 6 0.02
109 49 0.14
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (104 bp):
CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
Found at i:3635216 original size:203 final size:202
Alignment explanation
Indices: 3634868--3635232 Score: 615
Period size: 203 Copynumber: 1.8 Consensus size: 202
3634858 GTGCTACCCA
3634868 AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAACAATTCCCAGCTTCA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAACAATTCCCAGCTTCA
*
3634933 GGACCAATTTCAACTTCACAGCGGAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGC
66 GGACCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGC
3634998 GAAAGGGCGGCTGACTATCAACAAACAATTTCGGAGCCAATCTCAACTTCACAACGAAGGATATT
131 GAAAGGGCGGCTGACTATCAACAAACAATTTCGGAGCCAATCTCAACTTCACAACGAAGGATATT
3635063 GGAATCG
196 GGAATCG
**
3635070 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAACAATTTCCCAG-TTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAACAA-TTCCCAGCTT-
* * * *
3635134 CAGGGCCAGTTTCAACTTCATAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCGCA
64 CAGGACCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACA
* * *
3635199 GCGAAGGGGCGGCTGACTGTCAATAAACAATTTC
129 GCGAAAGGGCGGCTGACTATCAACAAACAATTTC
3635233 CCGGTTCCAG
Statistics
Matches: 151, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
202 53 0.35
203 98 0.65
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (202 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAACAATTCCCAGCTTCA
GGACCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGC
GAAAGGGCGGCTGACTATCAACAAACAATTTCGGAGCCAATCTCAACTTCACAACGAAGGATATT
GGAATCG
Found at i:3637143 original size:4 final size:4
Alignment explanation
Indices: 3637134--3637197 Score: 67
Period size: 4 Copynumber: 15.2 Consensus size: 4
3637124 TGTCTAGTTG
**
3637134 TTAT TTAT TTAT TTAT TTAT TTACAT ACAT TT-T TTACT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TT--AT TTAT TTAT TTA-T TTAT TTAT TTAT
3637184 TTATT TTAT TTAT T
1 TTA-T TTAT TTAT T
3637198 CGTTTGTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
3 3 0.06
4 38 0.75
5 8 0.16
6 2 0.04
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:3637207 original size:17 final size:17
Alignment explanation
Indices: 3637166--3637220 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
3637156 ACATACATTT
* *
3637166 TTTACTTTATTTATTTA
1 TTTATTTTATTTATTCA
*
3637183 TTTATTTTATTTATTCG
1 TTTATTTTATTTATTCA
* *
3637200 TTTGTTTTATCTTATTAA
1 TTTATTTTAT-TTATTCA
3637218 TTT
1 TTT
3637221 CTTATTATCT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 23 0.74
18 8 0.26
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTATTTTATTTATTCA
Found at i:3640077 original size:2 final size:2
Alignment explanation
Indices: 3640070--3640098 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3640060 TAACTTTGAT
3640070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3640099 TCATTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3642579 original size:35 final size:35
Alignment explanation
Indices: 3642519--3642588 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
3642509 AATCTTCATG
* *
3642519 GGGTATCGATACTAAAGTGATAGTATCGGTACCAT
1 GGGTATCGATACCAAAGTGATAGTATAGGTACCAT
* *
3642554 GGGTATCGATACCAATGTGGA-AGTATATGTACCAT
1 GGGTATCGATACCAAAGT-GATAGTATAGGTACCAT
3642589 TCTTGTGATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (35 bp):
GGGTATCGATACCAAAGTGATAGTATAGGTACCAT
Found at i:3643432 original size:21 final size:21
Alignment explanation
Indices: 3643390--3643485 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 21
3643380 TCGAGGGTTC
* * * *
3643390 TATGTGGTCCTTCGGGATATA
1 TATGTGATCCTTTGGAACATA
*
3643411 TATGTAATCCTTTGGAACATA
1 TATGTGATCCTTTGGAACATA
* * * * *
3643432 TATGCGGTTCTTCGGAACACA
1 TATGTGATCCTTTGGAACATA
* *
3643453 TATTTGATCCTTTGGAATATA
1 TATGTGATCCTTTGGAACATA
3643474 TATGTGATCCTT
1 TATGTGATCCTT
3643486 AAGGAGTGGT
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (21 bp):
TATGTGATCCTTTGGAACATA
Found at i:3643523 original size:20 final size:21
Alignment explanation
Indices: 3643498--3643547 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
3643488 GGAGTGGTTC
*
3643498 TTCGGGACATCTATG-GGTCA
1 TTCGGGACATATATGTGGTCA
*
3643518 TTCGGGACATATATGTGGTCT
1 TTCGGGACATATATGTGGTCA
3643539 TTCGGGACA
1 TTCGGGACA
3643548 AATTCTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (21 bp):
TTCGGGACATATATGTGGTCA
Found at i:3644228 original size:16 final size:17
Alignment explanation
Indices: 3644201--3644234 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3644191 CTTTTCATTC
3644201 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
3644218 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
3644234 T
1 T
3644235 GACACCTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:3648759 original size:30 final size:30
Alignment explanation
Indices: 3648688--3648770 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
3648678 CCCGAAGGGC
* * *
3648688 CTATCCAGAGGTCACAAAG-ACCCCGGTAA
1 CTATCCAGAGGTCATAAAGAACCTCGGCAA
3648717 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCATAAAGAACCTCGGCAA
* *
3648747 CTGTCCATAGGTC-TCAAAGAACCT
1 CTATCCAGAGGTCAT-AAAGAACCT
3648771 AGGTAAATTG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
29 19 0.40
30 28 0.60
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.18
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGAACCTCGGCAA
Found at i:3648786 original size:31 final size:31
Alignment explanation
Indices: 3648745--3648839 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 31
3648735 GAACCTCGGC
* *
3648745 AACTGTCCATAGGTCTCAAAGAACCTAGGTA
1 AACTGTCCATATGTCTCAAAGAACATAGGTA
* **
3648776 AATTGTCCATATGT-TCCTTAGAACATAGGTA
1 AACTGTCCATATGTCT-CAAAGAACATAGGTA
*
3648807 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTCTC-AAAGAACATAGGTA
3648838 AA
1 AA
3648840 ACCCTCGACT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
30 1 0.02
31 47 0.92
32 3 0.06
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (31 bp):
AACTGTCCATATGTCTCAAAGAACATAGGTA
Found at i:3649504 original size:2 final size:2
Alignment explanation
Indices: 3649497--3649529 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3649487 TACAAATTCC
*
3649497 TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3649530 CTAACTCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3650153 original size:64 final size:62
Alignment explanation
Indices: 3650020--3650180 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 62
3650010 TAATGAAGGT
* * *
3650020 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* * *
3650085 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTTGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
* *
3650149 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
3650181 CCTTAAACAA
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
63 1 0.01
64 57 0.68
65 23 0.27
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:3653505 original size:15 final size:15
Alignment explanation
Indices: 3653485--3653514 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3653475 TTGCTCTTTC
3653485 CTTTTTTCTTTGTTT
1 CTTTTTTCTTTGTTT
*
3653500 CTTTTTTTTTTGTTT
1 CTTTTTTCTTTGTTT
3653515 AGACATTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
CTTTTTTCTTTGTTT
Found at i:3653505 original size:16 final size:15
Alignment explanation
Indices: 3653481--3653514 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3653471 CACTTTGCTC
3653481 TTTCCTTTTTTCTTTG
1 TTTCCTTTTTT-TTTG
*
3653497 TTTCTTTTTTTTTTG
1 TTTCCTTTTTTTTTG
3653512 TTT
1 TTT
3653515 AGACATTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTCCTTTTTTTTTG
Found at i:3656120 original size:15 final size:16
Alignment explanation
Indices: 3656100--3656130 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
3656090 ACCCCCCCCC
3656100 GAAAAAAAGAA-AAAA
1 GAAAAAAAGAACAAAA
3656115 GAAAAAAAGAACAAAA
1 GAAAAAAAGAACAAAA
3656131 CTTTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
GAAAAAAAGAACAAAA
Found at i:3665144 original size:21 final size:23
Alignment explanation
Indices: 3665120--3665175 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
3665110 TTGAGTTTAC
3665120 TTTTAATTTTTATATTTAA-AA-
1 TTTTAATTTTTATATTTAATAAT
*
3665141 TTTTATATGTTT-TATTTAATAAT
1 TTTTA-ATTTTTATATTTAATAAT
*
3665164 TTTTCATTTTTA
1 TTTTAATTTTTA
3665176 ATAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 12 0.43
22 12 0.43
23 4 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTAATTTTTATATTTAATAAT
Found at i:3668834 original size:16 final size:16
Alignment explanation
Indices: 3668809--3668842 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3668799 AAAGTTGATT
3668809 TAGGGCTTTTAATAAC
1 TAGGGCTTTTAATAAC
*
3668825 TAGGGTTTTTAATAAC
1 TAGGGCTTTTAATAAC
3668841 TA
1 TA
3668843 AGTGGAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (16 bp):
TAGGGCTTTTAATAAC
Found at i:3668885 original size:2 final size:2
Alignment explanation
Indices: 3668878--3668902 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3668868 AATATCATGT
3668878 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3668903 GGGTTAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3670983 original size:16 final size:16
Alignment explanation
Indices: 3670962--3671004 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
3670952 AATTAAATTT
3670962 GGGTTATTTTCAGTTC
1 GGGTTATTTTCAGTTC
*
3670978 GGGTTAATTTT-AGTTT
1 GGGTT-ATTTTCAGTTC
*
3670994 GGGTTACTTTC
1 GGGTTATTTTC
3671005 GGATTAGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 4 0.17
16 14 0.61
17 5 0.22
ACGTcount: A:0.14, C:0.09, G:0.26, T:0.51
Consensus pattern (16 bp):
GGGTTATTTTCAGTTC
Found at i:3672349 original size:18 final size:18
Alignment explanation
Indices: 3672326--3672362 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3672316 CAGCTATGTT
*
3672326 ACCGGTTCAACCGGTCGA
1 ACCGGTCCAACCGGTCGA
*
3672344 ACCGGTCCGACCGGTCGA
1 ACCGGTCCAACCGGTCGA
3672362 A
1 A
3672363 AGAACCGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.35, G:0.30, T:0.14
Consensus pattern (18 bp):
ACCGGTCCAACCGGTCGA
Found at i:3672409 original size:22 final size:22
Alignment explanation
Indices: 3672387--3672427 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3672377 TCATAACTAT
3672387 TTAAAAA-ATTAAATAAAAATA
1 TTAAAAATATTAAATAAAAATA
*
3672408 TTAAAAATATTTAATAAAAA
1 TTAAAAATATTAAATAAAAA
3672428 ATAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAAATATTAAATAAAAATA
Found at i:3685528 original size:116 final size:116
Alignment explanation
Indices: 3685323--3685552 Score: 277
Period size: 116 Copynumber: 2.0 Consensus size: 116
3685313 ATACCTAACA
* * * * * *
3685323 ATTTATAATTAGGATCTCTAATTTTTGTATTTTCATAAAAACTTTAGTTTTTGACCTCTTTTTCC
1 ATTTATAATTAGGAGCCCTAATTTTTATAATATCATAAAAACTTTAGTTTTTGACCTCCTTTTCC
* * *
3685388 ATTTATGTTATTAATTCTTCCAATTTTGAATTAAATTTAACCAT-TTTTTAT
66 ATTTATCTTATTAATTCTTCCAATTTCGAATT-AATTTAAACATGTTTTTAT
* **
3685439 ATTTATAATTAGGGGCCCTAATTTTTATAATATCATAAAATGTTTAGTTTTT-ACCCTCCTTTTC
1 ATTTATAATTAGGAGCCCTAATTTTTATAATATCATAAAAACTTTAGTTTTTGA-CCTCCTTTTC
* * *
3685503 TATTTCTCTTATTTATTCATT-CAATTTCGAATTAATTTAAACATGTTTTT
65 CATTTATCTTATTAATTC-TTCCAATTTCGAATTAATTTAAACATGTTTTT
3685553 CTCTTTTTTC
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
115 11 0.11
116 83 0.86
117 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.07, T:0.52
Consensus pattern (116 bp):
ATTTATAATTAGGAGCCCTAATTTTTATAATATCATAAAAACTTTAGTTTTTGACCTCCTTTTCC
ATTTATCTTATTAATTCTTCCAATTTCGAATTAATTTAAACATGTTTTTAT
Found at i:3686397 original size:21 final size:19
Alignment explanation
Indices: 3686367--3686406 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
3686357 ATGCATGCAT
3686367 GCATGAATGTGTATGTATGTA
1 GCATGAATGTG--TGTATGTA
*
3686388 GCATGTATGTGTGTATGTA
1 GCATGAATGTGTGTATGTA
3686407 TACCGTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.25, C:0.05, G:0.30, T:0.40
Consensus pattern (19 bp):
GCATGAATGTGTGTATGTA
Found at i:3690174 original size:25 final size:25
Alignment explanation
Indices: 3690146--3690231 Score: 90
Period size: 24 Copynumber: 3.6 Consensus size: 25
3690136 GTCGAAACTA
* * *
3690146 CCACGTAGAATTTTTCACCGAAGTG
1 CCACATAGAATTATGCACCGAAGTG
3690171 CCACATAGAA-TATGCACCGAAGTG
1 CCACATAGAATTATGCACCGAAGTG
* *
3690195 CCACATAGAATTGT-C-CCGAAAG-A
1 CCACATAGAATTATGCACCG-AAGTG
3690218 CCACATAGAATTAT
1 CCACATAGAATTAT
3690232 CTCGAAGGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.30
24 26 0.49
25 11 0.21
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (25 bp):
CCACATAGAATTATGCACCGAAGTG
Found at i:3690237 original size:23 final size:23
Alignment explanation
Indices: 3690195--3690242 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
3690185 CACCGAAGTG
*
3690195 CCACATAGAATTGTCCCGAAAGA
1 CCACATAGAATTATCCCGAAAGA
* *
3690218 CCACATAGAATTATCTCGAAGGA
1 CCACATAGAATTATCCCGAAAGA
3690241 CC
1 CC
3690243 GCGTAAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.19
Consensus pattern (23 bp):
CCACATAGAATTATCCCGAAAGA
Found at i:3690920 original size:193 final size:193
Alignment explanation
Indices: 3690591--3690975 Score: 754
Period size: 193 Copynumber: 2.0 Consensus size: 193
3690581 CCTAACTATT
3690591 GTATTGATACCCCTAGTATCGATACTATCTCTTCAGTATCGATTATGTTCATCTGATTCATATAG
1 GTATTGATACCCCTAGTATCGATACTATCTCTTCAGTATCGATTATGTTCATCTGATTCATATAG
3690656 TATCAATATTGTTCTTCTAGTACCGATACCCTTGCCCAGAATTCACTTATTTTATTTCGAATTTG
66 TATCAATATTGTTCTTCTAGTACCGATACCCTTGCCCAGAATTCACTTATTTTATTTCGAATTTG
3690721 ACCCAAATTCACCTAAATCTCATACTTCTAACTCCATTCACGCCACTTAAACTCAAT-ACACTG
131 ACCCAAATTCACCTAAATCTCATACTTCTAACTCCATTCACGCC-CTTAAACTCAATAACACTG
3690784 GTATTGATACCCCTAGTATCGATACTATCTCTTCAGTATCGATTATGTTCATCTGATTCATATAG
1 GTATTGATACCCCTAGTATCGATACTATCTCTTCAGTATCGATTATGTTCATCTGATTCATATAG
3690849 TATCAATATTGTTCTTCTAGTACCGATACCCTTGCCCAGAATTCACTTATTTTATTTCGAATTTG
66 TATCAATATTGTTCTTCTAGTACCGATACCCTTGCCCAGAATTCACTTATTTTATTTCGAATTTG
3690914 ACCCAAATTCACCTAAATCTCATACTTCTAACTCCATTCACGCCCTTAAACTCAATAACACT
131 ACCCAAATTCACCTAAATCTCATACTTCTAACTCCATTCACGCCCTTAAACTCAATAACACT
3690976 TATCACAACC
Statistics
Matches: 191, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
192 12 0.06
193 179 0.94
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (193 bp):
GTATTGATACCCCTAGTATCGATACTATCTCTTCAGTATCGATTATGTTCATCTGATTCATATAG
TATCAATATTGTTCTTCTAGTACCGATACCCTTGCCCAGAATTCACTTATTTTATTTCGAATTTG
ACCCAAATTCACCTAAATCTCATACTTCTAACTCCATTCACGCCCTTAAACTCAATAACACTG
Found at i:3691988 original size:20 final size:20
Alignment explanation
Indices: 3691965--3692010 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
3691955 TACAGTGTCA
*
3691965 ATACCCTCTCTACA-GTATTG
1 ATACCCTCTCTA-AGGTATCG
*
3691985 ATACCCTTTCTAAGGTATCG
1 ATACCCTCTCTAAGGTATCG
3692005 ATACCC
1 ATACCC
3692011 CTACAACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (20 bp):
ATACCCTCTCTAAGGTATCG
Found at i:3692214 original size:19 final size:20
Alignment explanation
Indices: 3692173--3692227 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
3692163 CTAGCCCAAG
*
3692173 AGTATCGATACTTCTATAAA
1 AGTATCGATACTTTTATAAA
* *
3692193 AGTTTCGATA-TTTTATATA
1 AGTATCGATACTTTTATAAA
3692212 AGTATCGATACTTTTA
1 AGTATCGATACTTTTA
3692228 AACATTCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (20 bp):
AGTATCGATACTTTTATAAA
Found at i:3695127 original size:2 final size:2
Alignment explanation
Indices: 3695120--3695145 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3695110 TATTGAAAGC
3695120 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
3695146 TTAACAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3695900 original size:20 final size:20
Alignment explanation
Indices: 3695867--3695974 Score: 103
Period size: 20 Copynumber: 5.3 Consensus size: 20
3695857 AATTGGGAAA
*
3695867 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
3695887 ATCACAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
3695908 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
3695928 -TGCGCAACGCGATACTGACT
1 AT-CGCAACGCGATACTGACT
* *
3695948 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
3695968 TTCGCAA
1 ATCGCAA
3695975 TGAGATAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.04
20 54 0.74
21 14 0.19
22 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:3695909 original size:41 final size:40
Alignment explanation
Indices: 3695864--3695998 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 40
3695854 ACGAATTGGG
*
3695864 AAAATCGCAATGCGATACTGACTATCACAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACT-TCGCAACGCGATAATAC
*
3695905 AAAATCGCAATGCGATACTGACTTGCGCAACGCGATACTGAC
1 AAAATCGCAATGCGATACTGACTT-CGCAACGCGATAAT-AC
** * * * *
3695947 --TTTCGCAACGCGATTCTGACTTTCGCAATGAGATAATAC
1 AAAATCGCAATGCGATACTGAC-TTCGCAACGCGATAATAC
*
3695986 AGAATCGCAATGC
1 AAAATCGCAATGC
3695999 AATTTTCAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
39 2 0.03
40 28 0.36
41 45 0.58
42 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (40 bp):
AAAATCGCAATGCGATACTGACTTCGCAACGCGATAATAC
Found at i:3696156 original size:12 final size:12
Alignment explanation
Indices: 3696137--3696170 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
3696127 CTCTCCGGCG
3696137 ACATCCGTTCCT
1 ACATCCGTTCCT
*
3696149 ATATCCGTTCCT
1 ACATCCGTTCCT
3696161 ACATCC-TTCC
1 ACATCCGTTCC
3696171 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:3699329 original size:15 final size:14
Alignment explanation
Indices: 3699309--3699338 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3699299 TGCGATTCTG
3699309 TTGCGATAGTCATTT
1 TTGCGATAGTC-TTT
3699324 TTGCGATAGTCTTT
1 TTGCGATAGTCTTT
3699338 T
1 T
3699339 GCCTTCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (14 bp):
TTGCGATAGTCTTT
Found at i:3701308 original size:20 final size:20
Alignment explanation
Indices: 3701285--3701338 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
3701275 GAAACTTAAA
3701285 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* * *
3701305 ATCGCAACGCGGAAATGGCT
1 ATCGCAATGCGAAAATGACT
3701325 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
3701339 TGAAAATGCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:3701475 original size:32 final size:32
Alignment explanation
Indices: 3701414--3701503 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 32
3701404 CACAAATGCA
*
3701414 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGC-ATGCGATTTTGTCG
* *
3701447 TTGTGTTTTTCATTTCGCATGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATGCGATTTTGTCG
3701479 TTGCGATTTTCA-TTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCA-TGCGAT
3701504 AGCCATTTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
31 6 0.12
32 29 0.57
33 16 0.31
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCATGCGATTTTGTCG
Found at i:3702081 original size:18 final size:18
Alignment explanation
Indices: 3702055--3702096 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3702045 ATCAGGTGAG
3702055 GCTCCGGGTGAGGTGATA
1 GCTCCGGGTGAGGTGATA
* *
3702073 GCTCTGGGTGAGGTGATG
1 GCTCCGGGTGAGGTGATA
3702091 GCTCCG
1 GCTCCG
3702097 AAGTGGAGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.19, G:0.45, T:0.24
Consensus pattern (18 bp):
GCTCCGGGTGAGGTGATA
Found at i:3702180 original size:131 final size:132
Alignment explanation
Indices: 3701981--3702244 Score: 480
Period size: 132 Copynumber: 2.0 Consensus size: 132
3701971 GTGATGGTGG
*
3701981 AGAAGAGGCTCGATGATGTGACAGAATAGGTGATGGCTGTCGTTGTGGAGGTGTATAGTGGGTCA
1 AGAAGAGGCTCGATGATGTGACAGAATAGGTGATGGCTGTCGTTGTGGAGGTGTATAGTCGGTCA
3702046 TCAGGTGA-GGCTCCGGGTGAGGTGATAGCTCTGGGTGAGGTGATGGCT-CCGAAGTGGAGGCTG
66 TCAGGTGATGGCTCCGGGTGAGGTGATAGCTCTGGGTGAGGTGA-GGCTCCCGAAGTGGAGGCTG
3702109 CTC
130 CTC
3702112 AGAAGAGGCTCGATGATGTGACAGAATAGGTGAT-GCTGTCGTTGTGGAGGTGTATAGTCGGTCA
1 AGAAGAGGCTCGATGATGTGACAGAATAGGTGATGGCTGTCGTTGTGGAGGTGTATAGTCGGTC-
3702176 ATCAGGTGATGGCTCCGGGTGAGGTGATAGCTCTGGGTGAGGTGAGGCTCCCGAAGTGGAGGCTG
65 ATCAGGTGATGGCTCCGGGTGAGGTGATAGCTCTGGGTGAGGTGAGGCTCCCGAAGTGGAGGCTG
3702241 CTC
130 CTC
3702244 A
1 A
3702245 TCATCCGTTC
Statistics
Matches: 129, Mismatches: 1, Indels: 5
0.96 0.01 0.04
Matches are distributed among these distances:
130 28 0.22
131 47 0.36
132 54 0.42
ACGTcount: A:0.20, C:0.14, G:0.41, T:0.24
Consensus pattern (132 bp):
AGAAGAGGCTCGATGATGTGACAGAATAGGTGATGGCTGTCGTTGTGGAGGTGTATAGTCGGTCA
TCAGGTGATGGCTCCGGGTGAGGTGATAGCTCTGGGTGAGGTGAGGCTCCCGAAGTGGAGGCTGC
TC
Found at i:3702202 original size:18 final size:18
Alignment explanation
Indices: 3702179--3702226 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
3702169 TCGGTCAATC
3702179 AGGTGATGGCTCCGGGTG
1 AGGTGATGGCTCCGGGTG
* *
3702197 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCCGGGTG
3702215 AGGTGA-GGCTCC
1 AGGTGATGGCTCC
3702227 CGAAGTGGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.15, C:0.17, G:0.46, T:0.23
Consensus pattern (18 bp):
AGGTGATGGCTCCGGGTG
Found at i:3703551 original size:20 final size:20
Alignment explanation
Indices: 3703518--3703575 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
3703508 AATAGTTTCT
** *
3703518 GAAAATGAAAATCGCAATAC
1 GAAAATGACTATCGCAACAC
*
3703538 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACAC
**
3703558 GAATTTGACTATCGCAAC
1 GAAAATGACTATCGCAAC
3703576 GAGAGAATCG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:3704103 original size:20 final size:20
Alignment explanation
Indices: 3704077--3704149 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
3704067 GATTATGTAT
*
3704077 TATCGCGTTGCAAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3704097 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
3704117 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3704137 TATCTCGTTGCGA
1 TATCGCGTTGCGA
3704150 TTTTGTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:3704176 original size:41 final size:41
Alignment explanation
Indices: 3704057--3704192 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
3704047 CGCTTTGAAA
* * *
3704057 ATCGCATTGCGATTATGTATTATCGCGTTGCAAAAGTCAGA
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* *
3704098 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * *
3704138 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* *
3704179 ATCGCATTACGATT
1 ATCGCGTTGCGATT
3704193 TTTCCAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 42 0.54
42 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (41 bp):
ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:3704191 original size:20 final size:20
Alignment explanation
Indices: 3704077--3704183 Score: 108
Period size: 20 Copynumber: 5.3 Consensus size: 20
3704067 GATTATGTAT
* *
3704077 TATCGCGTTGCAAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
3704097 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
3704117 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
3704137 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
3704158 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
3704178 TATCGC
1 TATCGC
3704184 ATTACGATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.04
20 56 0.77
21 12 0.16
22 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:3704210 original size:41 final size:41
Alignment explanation
Indices: 3704117--3704212 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 41
3704107 CGAAAGTCAG
* * * * *
3704117 TATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCGCATTACGATTTTGTAA
*
3704158 TATCGCATTGCGATAGTCAGTATCGCATTACGATTTT-TCCAA
1 TATCGCGTTGCGATAGTCAGTATCGCATTACGATTTTGT--AA
3704200 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
3704213 TTACTTATGC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 1 0.02
41 43 0.93
42 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCGCATTACGATTTTGTAA
Found at i:3704298 original size:19 final size:20
Alignment explanation
Indices: 3704257--3704298 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3704247 ACGACACTGT
* *
3704257 AACTATCGCAACGCGATTTC
1 AACTATCGCAACGCGAATGC
3704277 AACTAT-GCAACGCGAATGC
1 AACTATCGCAACGCGAATGC
3704296 AAC
1 AAC
3704299 ACGAATTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.19
Consensus pattern (20 bp):
AACTATCGCAACGCGAATGC
Found at i:3704871 original size:20 final size:20
Alignment explanation
Indices: 3704832--3704871 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3704822 TTTCATTTTA
*
3704832 CATTCACATCTTTGCATTTG
1 CATTCACATCTTTACATTTG
* *
3704852 CATTCGCATCTTTACGTTTG
1 CATTCACATCTTTACATTTG
3704872 TATTTACATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.45
Consensus pattern (20 bp):
CATTCACATCTTTACATTTG
Found at i:3709491 original size:33 final size:31
Alignment explanation
Indices: 3709454--3709529 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
3709444 GAAGGGCATT
*
3709454 TTGAAGGTCCATATTATCAATGATTGGGACATC
1 TTGAAGGTCCATATCATC-ATG-TTGGGACATC
* * *
3709487 TTGAAGATTCATATCATCATGTTGGGACATT
1 TTGAAGGTCCATATCATCATGTTGGGACATC
3709518 TTGAAGGTCCAT
1 TTGAAGGTCCAT
3709530 TTTGACCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 19 0.51
32 3 0.08
33 15 0.41
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (31 bp):
TTGAAGGTCCATATCATCATGTTGGGACATC
Found at i:3711562 original size:136 final size:137
Alignment explanation
Indices: 3711317--3711832 Score: 635
Period size: 137 Copynumber: 3.8 Consensus size: 137
3711307 GTGTTCATCA
* * * * * *
3711317 ACATCAACCTTAGATAGCCATACGTCCTCATAACGAAGGAACCGTGTTATCTCAAATATCTTTAA
1 ACATCATCCTTAGACAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTCAA
* * *
3711382 AGATGGCCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCAAGA
66 AGATGGCAAAATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCAAGA
3711447 AGGAGTC
131 AGGAGTC
* *
3711454 ACATCATCCTTAGACAACCAGATGTCCTCATCACGAAGGAACCGTGTTATC-CTAAATGTCTT-A
1 ACATCATCCTTAGACAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTC-AAATATCTTCA
*
3711517 AAGATGGCAAAATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCATG
65 AAGATGGCAAAATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCAAG
3711582 AAGGAGTC
130 AAGGAGTC
* * * *
3711590 ACATCATCCTTAGACAGCCAGACGTCCTCATCACGAATGAACTGTGTTATCTCAAATATTTTCAA
1 ACATCATCCTTAGACAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTCAA
* * * * * * * *
3711655 AGATGATCAGAA-CTCCTCATCACGAAGGAAAAATGGCATCCACCGATCAGAACTCCTCATCACG
66 AGATG-GCAAAATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCAAG
*
3711719 AATGAG-C
130 AAGGAGTC
* * * * * * *
3711726 AACATCATTCTTAGATAACCAGATGTACTCATCATGAAAGAACAGTGTTATCTCAAATATCTTCA
1 -ACATCATCCTTAGACAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTCA
* * * * * *
3711791 AAGATGGCCAGATGTCCTCATCATGAAAGAATAATGTTATCT
65 AAGATGGCAAAATGTCCTCATCACGAAGGAACAATGTCATCT
3711833 CAAATATCTT
Statistics
Matches: 327, Mismatches: 46, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
136 128 0.39
137 195 0.60
138 4 0.01
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (137 bp):
ACATCATCCTTAGACAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTCAA
AGATGGCAAAATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCAAGA
AGGAGTC
Found at i:3711829 original size:54 final size:54
Alignment explanation
Indices: 3711744--3711881 Score: 213
Period size: 54 Copynumber: 2.6 Consensus size: 54
3711734 TCTTAGATAA
* *
3711744 CCAGATGTACTCATCATGAAAGAACAGTGTTATCTCAAATATCTTCAAAGATGG
1 CCAGATGTCCTCATCATGAAAGAACAATGTTATCTCAAATATCTTCAAAGATGG
* *
3711798 CCAGATGTCCTCATCATGAAAGAATAATGTTATCTCAAATATCTTTAAAGATGG
1 CCAGATGTCCTCATCATGAAAGAACAATGTTATCTCAAATATCTTCAAAGATGG
* * *
3711852 CCAGACGTCCTCATCACGAAGGAACAATGT
1 CCAGATGTCCTCATCATGAAAGAACAATGT
3711882 CATCCACCGA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (54 bp):
CCAGATGTCCTCATCATGAAAGAACAATGTTATCTCAAATATCTTCAAAGATGG
Found at i:3711865 original size:191 final size:191
Alignment explanation
Indices: 3711606--3712018 Score: 607
Period size: 191 Copynumber: 2.2 Consensus size: 191
3711596 TCCTTAGACA
* * *
3711606 GCCAGACGTCCTCATCACGAATGAACT-GTGTTATCTCAAATATTTTCAAAGATGATCAGAACTC
1 GCCAGACGTCCTCATCACGAAAGAA-TAATGTTATCTCAAATATTTTCAAAGATGACCAGAACTC
*
3711670 CTCATCACGAAGGAAAAATGGCATCCACCGATCAGAACTCCTCATCACGAATGAGCAACATCATT
65 CTCATCACGAAGGAAAAATGGCATCCACCGATCAGAACTCCTCATCACGAAGGAGCAACATCATT
*
3711735 CTTAGATAACCAGATGTACTCATCATGAAAGAACAGTGTTATCTCAAATATCTTCAAAGATG
130 CTTAGATAACCAGATGTACTCATCACGAAAGAACAGTGTTATCTCAAATATCTTCAAAGATG
* * *
3711797 GCCAGATGTCCTCATCATGAAAGAATAATGTTATCTCAAATATCTTT-AAAGATGGCCAG-ACGT
1 GCCAGACGTCCTCATCACGAAAGAATAATGTTATCTCAAATAT-TTTCAAAGATGACCAGAAC-T
* *
3711860 CCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGGAGCAACATCAT
64 CCTCATCACGAAGGAAAAATGGCATCCACCGATCAGAACTCCTCATCACGAAGGAGCAACATCAT
* * * * *
3711925 TCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATG
129 TCTTAGATAACCAGATGTACTCATCACGAAAGAACAGTGTTATCTCAAATATCTTCAAAGATG
* * * *
3711988 GCTAAACGTCCTCATCACGAAGGAACAATGT
1 GCCAGACGTCCTCATCACGAAAGAATAATGT
3712019 CATCCACTGA
Statistics
Matches: 198, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
190 3 0.02
191 192 0.97
192 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (191 bp):
GCCAGACGTCCTCATCACGAAAGAATAATGTTATCTCAAATATTTTCAAAGATGACCAGAACTCC
TCATCACGAAGGAAAAATGGCATCCACCGATCAGAACTCCTCATCACGAAGGAGCAACATCATTC
TTAGATAACCAGATGTACTCATCACGAAAGAACAGTGTTATCTCAAATATCTTCAAAGATG
Found at i:3711939 original size:328 final size:327
Alignment explanation
Indices: 3711471--3712126 Score: 905
Period size: 328 Copynumber: 2.0 Consensus size: 327
3711461 CCTTAGACAA
* ** * *
3711471 CCAGATGTCCTCATCACGAAGGAACCGTGTTATCCTAAATGTCTTAAAGATGGCAAAATGTCCTC
1 CCAGATGTCCTCATCACGAAAGAACAATGTTATCCTAAATATCTTAAAGATGGCAAAACGTCCTC
* *
3711536 ATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCATGAAGGAGTCACATCATCCTT
66 ATCACGAAGGAACAATGTCATCCACCAATCAGAACTCCTCATCACGAAGGAGTCACATCATCCTT
* * *
3711601 AGACAGCCAGACGTCCTCATCACGAATGAACTGTGTTATCTCAAATAT-TTTCAAAGAT-GATCA
131 AGACAGCCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTT-AAAGATGGCT-A
* *
3711664 GAAC-TCCTCATCACGAAGGAAAAATGGCATCCACCGATCAGAACTCCTCATCACGAATGAGCAA
194 -AACGTCCTCATCACGAAGGAAAAATGGCATCCACCGACCAGAACTCCTCATCACGAAGGAGC--
* * * *
3711728 C-A-TCATTCTTAGATAACCAGATGTACTCATCATGAAA-GAACAGTGTTATCTCAAATATCTTC
256 CGAGTCATCCTCAGATAACCAGACGTACTCATCA-CAAAGGAACAGTGTTATCTCAAATATCTTC
3711790 AAAGATGG
320 AAAGATGG
* * * *
3711798 CCAGATGTCCTCATCATGAAAGAATAATGTTAT-CTCAAATATCTTTAAAGATGGCCAGACGTCC
1 CCAGATGTCCTCATCACGAAAGAACAATGTTATCCT-AAATATC-TTAAAGATGGCAAAACGTCC
* *
3711862 TCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGGAG-CAACATCATT
64 TCATCACGAAGGAACAATGTCATCCACCAATCAGAACTCCTCATCACGAAGGAGTC-ACATCATC
* *
3711926 CTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCT
128 CTTAGACAGCCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCT
* * * *
3711991 AAACGTCCTCATCACGAAGGAACAATGTCATCCACTGACCAGAACTCCTCATCACGTAGGAGCCG
193 AAACGTCCTCATCACGAAGGAAAAATGGCATCCACCGACCAGAACTCCTCATCACGAAGGAGCCG
* *
3712056 AGTCATCCTCAGATAACCAGACGTCCTCATCACAAAGGAACCGTGTTATCTCAAATATCTTCAAA
258 AGTCATCCTCAGATAACCAGACGTACTCATCACAAAGGAACAGTGTTATCTCAAATATCTTCAAA
3712121 GATGG
323 GATGG
3712126 C
1 C
3712127 TAAACGTTCT
Statistics
Matches: 290, Mismatches: 30, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
326 3 0.01
327 42 0.14
328 240 0.83
329 5 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (327 bp):
CCAGATGTCCTCATCACGAAAGAACAATGTTATCCTAAATATCTTAAAGATGGCAAAACGTCCTC
ATCACGAAGGAACAATGTCATCCACCAATCAGAACTCCTCATCACGAAGGAGTCACATCATCCTT
AGACAGCCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCTAAA
CGTCCTCATCACGAAGGAAAAATGGCATCCACCGACCAGAACTCCTCATCACGAAGGAGCCGAGT
CATCCTCAGATAACCAGACGTACTCATCACAAAGGAACAGTGTTATCTCAAATATCTTCAAAGAT
GG
Found at i:3712043 original size:137 final size:137
Alignment explanation
Indices: 3711792--3712158 Score: 522
Period size: 137 Copynumber: 2.7 Consensus size: 137
3711782 ATATCTTCAA
* * * *** * *
3711792 AGATGGCCAGATGTCCTCATCATGAAAGAATAATGTTATCTCAAATATCTTTAAAGATGGCCAGA
1 AGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCTAAA
*
3711857 CGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGGAGCAAC-A
66 CGTCCTCATCACGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCACGAAGGAGC--CGA
* *
3711921 -TCATTCTT
129 GTCATCCTC
3711929 AGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCTAAA
1 AGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCTAAA
* *
3711994 CGTCCTCATCACGAAGGAACAATGTCATCCACTGACCAGAACTCCTCATCACGTAGGAGCCGAGT
66 CGTCCTCATCACGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCACGAAGGAGCCGAGT
3712059 CATCCTC
131 CATCCTC
* * * *
3712066 AGATAACCAGACGTCCTCATCACAAAGGAACCGTGTTATCTCAAATATCTTCAAAGATGGCTAAA
1 AGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCTAAA
* **
3712131 CGTTCTCATCATAAAGGAACAATGTCAT
66 CGTCCTCATCACGAAGGAACAATGTCAT
3712159 ATACCAGTTG
Statistics
Matches: 208, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
135 1 0.00
136 1 0.00
137 206 0.99
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (137 bp):
AGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCTAAA
CGTCCTCATCACGAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCACGAAGGAGCCGAGT
CATCCTC
Found at i:3713474 original size:118 final size:119
Alignment explanation
Indices: 3713352--3713565 Score: 258
Period size: 118 Copynumber: 1.8 Consensus size: 119
3713342 ATATTTTATA
* *
3713352 ATATTTTGAATTAAGACCATTAATTTAT-ATATTTTTACAA-TTTAATCAC-TGAGATTTAATAT
1 ATATTTAGAATTAAGACCATTAATTT-TGATA-TTTTACAATTTTAATC-CTTGAGATTTAAAAT
**
3713414 TTTAATTTTAAATAATA-TTTTAGGAA-TATTTACACTAATAATACCTAGATTTCATG
63 AATAATTTTAAATAATATTTTTA-GAATTATTTACACTAATAATACCTAGATTTCATG
* *** * *
3713470 ATATTTAGAATTAGGATTTTTAATTTTGATATTTTACAATTTTAATCCTTTAGTTTTAAAATAAT
1 ATATTTAGAATTAAGACCATTAATTTTGATATTTTACAATTTTAATCCTTGAGATTTAAAATAAT
*
3713535 AATTTTAAATATTATTTTTAGAATTATTTAC
66 AATTTTAAATAATATTTTTAGAATTATTTAC
3713566 TATTATAGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
117 10 0.12
118 58 0.73
119 12 0.15
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (119 bp):
ATATTTAGAATTAAGACCATTAATTTTGATATTTTACAATTTTAATCCTTGAGATTTAAAATAAT
AATTTTAAATAATATTTTTAGAATTATTTACACTAATAATACCTAGATTTCATG
Found at i:3721010 original size:60 final size:61
Alignment explanation
Indices: 3720936--3721074 Score: 176
Period size: 60 Copynumber: 2.3 Consensus size: 61
3720926 TAAATGTTTT
* * *
3720936 AATTTCATCCCTAAACTATGA-CTATCATTCTAAATTAGTCCTCAAA-ATTTTGAACATTTC
1 AATTTCATTCCTAAACTATGATCT-TCATTCTAAATTAGTCCCCAAACATTTTGAACATTCC
* * *
3720996 AATTTCATTCCTAAACTACGATCTTTATTCTAAATTAGTCCCCAAACTTTTTGAACATTCC
1 AATTTCATTCCTAAACTATGATCTTCATTCTAAATTAGTCCCCAAACATTTTGAACATTCC
* *
3721057 AAATTCA-TCCCAAACTAT
1 AATTTCATTCCTAAACTAT
3721075 ACGTATATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 48 0.71
61 20 0.29
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (61 bp):
AATTTCATTCCTAAACTATGATCTTCATTCTAAATTAGTCCCCAAACATTTTGAACATTCC
Found at i:3721225 original size:29 final size:29
Alignment explanation
Indices: 3721193--3721280 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
3721183 GGATGAATTT
3721193 GGGATGGAATTAGAATATTCAAAAGTTTG
1 GGGATGGAATTAGAATATTCAAAAGTTTG
* * **
3721222 GGGAT-CAATTTAGAATTAAGATC-ATGGTTTG
1 GGGATGGAA-TTAGAA-T-A-TTCAAAAGTTTG
*
3721253 GGGATGGAATTAAAATATTCAAAAGTTT
1 GGGATGGAATTAGAATATTCAAAAGTTT
3721281 AAGGATAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
28 4 0.09
29 17 0.39
30 2 0.05
31 17 0.39
32 4 0.09
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (29 bp):
GGGATGGAATTAGAATATTCAAAAGTTTG
Found at i:3721292 original size:60 final size:59
Alignment explanation
Indices: 3721190--3721344 Score: 195
Period size: 60 Copynumber: 2.6 Consensus size: 59
3721180 TTTGGATGAA
** * *
3721190 TTTGGGATGGAATTAGAATATTCAAAAGTTTGGGGATCAATTTAGAATTAAG-ATCATGG
1 TTTGGGATGGAATTAGAATATTCAAAAGTTTAAGGATAAATTTAGAA-TAAGAATCATAG
* * *
3721249 TTTGGGGATGGAATTAAAATATTCAAAAGTTTAAGGATAAATTTAGAATGAGAATTATAG
1 TTT-GGGATGGAATTAGAATATTCAAAAGTTTAAGGATAAATTTAGAATAAGAATCATAG
* **
3721309 TTTGAGATCAAATTAGAATATTCAAAAGTTTAAGGA
1 TTTGGGATGGAATTAGAATATTCAAAAGTTTAAGGA
3721345 CCAATTTAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
59 35 0.42
60 48 0.58
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.34
Consensus pattern (59 bp):
TTTGGGATGGAATTAGAATATTCAAAAGTTTAAGGATAAATTTAGAATAAGAATCATAG
Found at i:3731885 original size:181 final size:182
Alignment explanation
Indices: 3731593--3732238 Score: 947
Period size: 182 Copynumber: 3.6 Consensus size: 182
3731583 TACAAATGAA
* * * *
3731593 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGATAAAACCGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGA-AATGATAA
** *
3731657 AACCGGTAAACTGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
65 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTC
*
3731722 GTAATTTAAAAGAAAAGAAGTTATAGCGCCT-AAAAGTGTCGATACTTTATAC
130 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
3731774 AAATGTATCGATCCATAGCAATATAACATGTAATAATATGACAAAACATGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* * *
3731839 ACTGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATACATTAATAAAAGTATCGACACTTTCG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
* *
3731904 TAATTTAAAAGAGAAGAAGTAATAGCGCCTAAAAAGTATCGATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* *
3731956 AAATGTATCGATCTATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* * *
3732021 ACCGGTAAAAAGATACCTGATATATTGAAAGTGTCGATAAATTAATATAAGTATTGACACTTTCG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
*
3732086 TAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAGTGTCGATACTTTATGA-
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-AC
* * * * * * *
3732138 AAACGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACTGATATCGAAATGACAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* ** * *
3732203 ACTGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCG
3732239 GTACTTTAAT
Statistics
Matches: 418, Mismatches: 44, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
181 143 0.34
182 274 0.66
183 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
Found at i:3733212 original size:19 final size:19
Alignment explanation
Indices: 3733188--3733237 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
3733178 AAATGTACAG
3733188 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
3733207 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
3733226 ATAATTTTGTAT
1 TTAATTTTGTAT
3733238 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:3734040 original size:198 final size:198
Alignment explanation
Indices: 3733513--3734390 Score: 1362
Period size: 198 Copynumber: 4.4 Consensus size: 198
3733503 TTGTCCAAGT
*
3733513 ATACTTTGTGTCCAGAATGATTTCCTTACTAAGGTCACCATAATGTGTCGATACATTTATAAAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAA
3733578 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
* * * *
3733643 GTTTAAATACATCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTTAATTTGTG
131 GTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTG
3733708 TCG
196 TCG
* *
3733711 ATCCCATACTTTGTGTCCACAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATCTAT
1 -----ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTAT
*
3733776 AAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATAAATCT
61 AAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCT
* * * *
3733841 AACCGGTCTAATTATATCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGAAACTTTTTGAAT
126 AACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAAT
*
3733906 TTATGTCG
191 TTGTGTCG
*
3733914 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAT
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAA
3733979 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
* * * *
3734044 GTCTAATTACACCGGTTTATGAGAAAACATGTGTACATGATGTATCGACACTTTTTTAATTTGTG
131 GTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTG
3734109 TCG
196 TCG
* * * *
3734112 ATACTTTGTGTCCATAATGATTTCCTTACGAAGGTCACTATAAGGTGTCGATACATTTATAAAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAA
3734177 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
* *
3734242 GTCTAAATACACCGGTTTATAAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTA
131 GTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTG
3734307 TCG
196 TCG
* ** ** * * * * * *
3734310 ATACTTTTTGTCCAGAATGTAAATGGTCA-AAAAGTGCACAAAAAAGTGTCGATACATTTATAAA
1 ATACTTTGTGTCCAGAATG-ATTTCCTTACCAAGGT-CACCATAATGTGTCGATACATTTATAAA
*
3734374 AAGTATCGATCCTAAAA
64 AAGTATCGATCCAAAAA
3734391 CAATGAAATT
Statistics
Matches: 627, Mismatches: 46, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
198 395 0.63
199 45 0.07
203 187 0.30
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (198 bp):
ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAA
GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
GTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTG
TCG
Found at i:3734485 original size:396 final size:394
Alignment explanation
Indices: 3733513--3734511 Score: 1308
Period size: 396 Copynumber: 2.5 Consensus size: 394
3733503 TTGTCCAAGT
** * ** * * *
3733513 ATACTTTGTGTCCAGAATGATTTCCTTACTAAGGTCACCATAATGTGTCGATACATTTATAAAAA
1 ATACTTTGTGTCCAGAATGAAATCCTCAAAAAGGTCACAAAAAAGTGTCGATACATTTATAAAAA
3733578 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
* * *
3733643 GTTTAAATACATCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTTAATTTGTG
131 GTATAAATACACCGGTTTATGAGAAAACA-G-GTACATAATGTATCGACACTTTTTTAATTTGTG
*
3733708 TCGATCCCATACTTTGTGTCCACAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATC
194 TCG-----ATACTTTGTGTCCACAATGATTTCCTTACCAAGGTCACCATAAGGTGTCGATACATC
3733773 TATAAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATAAA
254 TATAAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATAAA
* * * *
3733838 TCTAACCGGTCTAATTATATCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGAAACTTTTTG
319 TCTAACCGGTCTAAATACACCGGTTTATAAGAAAACAGGTGTACATGAAGTATCGAAACTTTTTG
*
3733903 AATTTATGTCG
384 AATTTATATCG
** * ** * * * *
3733914 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAT
1 ATACTTTGTGTCCAGAATGAAATCCTCAAAAAGGTCACAAAAAAGTGTCGATACATTTATAAAAA
3733979 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
* * *
3734044 GTCTAATTACACCGGTTTATGAGAAAACATGTGTACATGATGTATCGACACTTTTTTAATTTGTG
131 GTATAAATACACCGGTTTATGAGAAAACA-G-GTACATAATGTATCGACACTTTTTTAATTTGTG
* * * *
3734109 TCGATACTTTGTGTCCATAATGATTTCCTTACGAAGGTCACTATAAGGTGTCGATACATTTATAA
194 TCGATACTTTGTGTCCACAATGATTTCCTTACCAAGGTCACCATAAGGTGTCGATACATCTATAA
*
3734174 AAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAA
259 AAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATAAATCTAA
*
3734239 CCGGTCTAAATACACCGGTTTATAAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTT
324 CCGGTCTAAATACACCGGTTTATAAGAAAACAGGTGTACATGAAGTATCGAAACTTTTTGAATTT
*
3734304 GTATCG
389 ATATCG
* **
3734310 ATACTTTTTGTCCAGAATGTAAATGGTCAAAAA-GTGCACAAAAAAGTGTCGATACATTTATAAA
1 ATACTTTGTGTCCAGAATG-AAATCCTCAAAAAGGT-CACAAAAAAGTGTCGATACATTTATAAA
* * ** * * * *
3734374 AAGTATCGATCC-TAAAACAAT-GAAATTCATAATT-TGAATGTAATAGGT-CATTTTGCATTGT
64 AAGTATCGATCCAAAAAAC-ATCGAGACCCATAATTAT-AATGTAATAGGTAAATTAT-CAATCT
* ** ** * *
3734435 AACCGGTATAAATATACCTATTTAATTTG-AAACAGGTCACCATAATGTATCGACACATTTTAAA
126 AACCGGTATAAATACACCGGTTT-ATGAGAAAACAGGT-A-CATAATGTATCGACACTTTTTTAA
*
3734499 GTTGTGTCGATAC
188 TTTGTGTCGATAC
3734512 ATTTTTAAAT
Statistics
Matches: 538, Mismatches: 52, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
394 2 0.00
395 7 0.01
396 292 0.54
397 47 0.09
401 190 0.35
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (394 bp):
ATACTTTGTGTCCAGAATGAAATCCTCAAAAAGGTCACAAAAAAGTGTCGATACATTTATAAAAA
GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
GTATAAATACACCGGTTTATGAGAAAACAGGTACATAATGTATCGACACTTTTTTAATTTGTGTC
GATACTTTGTGTCCACAATGATTTCCTTACCAAGGTCACCATAAGGTGTCGATACATCTATAAAA
AGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATAAATCTAACC
GGTCTAAATACACCGGTTTATAAGAAAACAGGTGTACATGAAGTATCGAAACTTTTTGAATTTAT
ATCG
Found at i:3734487 original size:198 final size:200
Alignment explanation
Indices: 3733557--3734517 Score: 847
Period size: 198 Copynumber: 4.8 Consensus size: 200
3733547 TCACCATAAT
*
3733557 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
3733622 GGTAAATTATCAATCTAACCGGTTTAAATACATCGGTTTATGAGAAAACAGGTGTACATAAAGTA
66 GGTAAATTATCAATCTAACCGGTATAAATACACCGATTTATAAGAAAACAGGTGCACATGAAGTA
* * * * * * ** ** * **
3733687 TCGACACTTTTTTAATTTGTGTCGATCCCATACTTTGTGTCCACAATG-ATTTCCTTACCAAG-G
131 TCGACACATTTTAAAGTTGTATCGAT-ACAT--TTT-TGTCCAGAATGTAAATGGTCAAAAAGTG
* * *
3733750 TCACCATAAT
192 -CACAAAAAA
* *
3733760 GTGTCGATACATCTATAAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * * *
3733825 GGTAAATTATAAATCTAACCGGTCTAATTATATCGGTTTATGAGAAAACAGGTGTACATGAAGTA
66 GGTAAATTATCAATCTAACCGGTATAAATACACCGATTTATAAGAAAACAGGTGCACATGAAGTA
* * * * * * * ** ** * **
3733890 TCGAAACTTTTTGAATTTATGTCGATAC-TTTGTGTCCAGAATG-ATTTCCTTACCAAG-GTCAC
131 TCGACACATTTTAAAGTTGTATCGATACATTTTTGTCCAGAATGTAAATGGTCAAAAAGTG-CAC
* * *
3733952 CATAAT
195 AAAAAA
* *
3733958 GTGTCGATACATTTATAAAATGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
3734023 GGTAAATTATCAATCTAACCGGTCTAATTACACCGGTTTATGAGAAAACATGTGTACATGATGTA
66 GGTAAATTATCAATCTAACCGGTATAAATACACCGATTTATAAGAAAACAGGTGCACATGAAGTA
* * * * * * ** ** * **
3734088 TCGACACTTTTTTAATTTGTGTCGATAC-TTTGTGTCCATAATG-ATTTCCTTACGAAG-GTCAC
131 TCGACACATTTTAAAGTTGTATCGATACATTTTTGTCCAGAATGTAAATGGTCAAAAAGTG-CAC
* * *
3734150 TATAAG
195 AAAAAA
*
3734156 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
3734221 GGTAAATTATCAATCTAACCGGTCTAAATACACCGGTTTATAAGAAAACAGGTGTACATGAAGTA
66 GGTAAATTATCAATCTAACCGGTATAAATACACCGATTTATAAGAAAACAGGTGCACATGAAGTA
* * *
3734286 TCGACACTTTTTGAATTTGTATCGATAC-TTTTTGTCCAGAATGTAAATGGTCAAAAAGTGCACA
131 TCGACACATTTTAAAGTTGTATCGATACATTTTTGTCCAGAATGTAAATGGTCAAAAAGTGCACA
3734350 AAAAA
196 AAAAA
* **
3734355 GTGTCGATACATTTATAAAAAGTATCGATCC-TAAAACAAT-GAAATTCATAATT-TGAATGTAA
1 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAAC-ATCGAAACCCATAATTAT-AATGTAA
* * * * * * **
3734417 TAGGT-CATTTTGCATTGTAACCGGTATAAATATACCTATTTAATTTG-AAACAGGT-CACCAT-
64 TAGGTAAATTAT-CAATCTAACCGGTATAAATACACCGATTT-ATAAGAAAACAGGTGCA-CATG
*
3734478 AATGTATCGACACATTTTAAAGTTGTGTCGATACATTTTT
126 AA-GTATCGACACATTTTAAAGTTGTATCGATACATTTTT
3734518 AAATTACTCG
Statistics
Matches: 685, Mismatches: 64, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
197 8 0.01
198 471 0.69
199 56 0.08
200 1 0.00
201 1 0.00
202 1 0.00
203 147 0.21
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTATCAATCTAACCGGTATAAATACACCGATTTATAAGAAAACAGGTGCACATGAAGTA
TCGACACATTTTAAAGTTGTATCGATACATTTTTGTCCAGAATGTAAATGGTCAAAAAGTGCACA
AAAAA
Found at i:3734836 original size:15 final size:16
Alignment explanation
Indices: 3734814--3734856 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
3734804 AATTCGGGGC
3734814 TCTTCTCAACCCAAT-
1 TCTTCTCAACCCAATA
*
3734829 TTTTCTCAACCC-ATA
1 TCTTCTCAACCCAATA
3734844 TCTTCTCAACCCA
1 TCTTCTCAACCCA
3734857 GCTCTTCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.26, C:0.40, G:0.00, T:0.35
Consensus pattern (16 bp):
TCTTCTCAACCCAATA
Found at i:3734862 original size:15 final size:15
Alignment explanation
Indices: 3734812--3734864 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
3734802 CAAATTCGGG
3734812 GCTCTTCTCAACCCA
1 GCTCTTCTCAACCCA
** *
3734827 ATTTTTCTCAACCCA
1 GCTCTTCTCAACCCA
**
3734842 TATCTTCTCAACCCA
1 GCTCTTCTCAACCCA
3734857 GCTCTTCT
1 GCTCTTCT
3734865 GAGGAAATCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.21, C:0.40, G:0.04, T:0.36
Consensus pattern (15 bp):
GCTCTTCTCAACCCA
Found at i:3735594 original size:64 final size:64
Alignment explanation
Indices: 3735526--3735682 Score: 194
Period size: 64 Copynumber: 2.5 Consensus size: 64
3735516 TTGAAGGTGT
**
3735526 ATCGATGCATCAGTAATGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCA-ATTAGT
1 ATCGATGCATCAGTAATGCATCGATGCATCTC-AGTAATAAT-AAAACATCGAATGCATATTA-T
3735588 GC
63 GC
* * * *
3735590 ATCGATGCATAAGTCATGCATCGATGCATCTCAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATCAGTAATGCATCGATGCATCTCAGTAATAATAAAACATCGAATGCATATTATGC
* *
3735654 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATCAGTAATGCATCGATGCAT
3735683 ACCTTTATTA
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
64 71 0.89
65 9 0.11
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (64 bp):
ATCGATGCATCAGTAATGCATCGATGCATCTCAGTAATAATAAAACATCGAATGCATATTATGC
Found at i:3736846 original size:22 final size:21
Alignment explanation
Indices: 3736792--3736855 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
3736782 AGTCGAGGGT
3736792 TTCATAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
3736813 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
*
3736835 TTCACAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
3736856 AATTTCATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:3738847 original size:199 final size:197
Alignment explanation
Indices: 3738567--3739091 Score: 546
Period size: 199 Copynumber: 2.6 Consensus size: 197
3738557 ATTAGATTTT
* * ** *
3738567 GTGTCGATACATTTATAACAAGTATCGATCCT-AAAATCAAAGAGACTGATAATTATAATGTAAT
1 GTGTCGATACATTT-TAAAAAGTATCGATCCTCGAAA-CATCGAAACTGATAATTATAATGTAAT
* * *
3738631 AGGTAAATTTTCAATGTAACCGGTAGAAATATACCGGGTTCTTGAGAGAATAGGTCAATATAAAG
64 AGGTAAATTTACAATGTAACCGGTA-AAATATACC-GGTTATTGAGA-AATAGGTCAAAATAAAG
* * * * *
3738696 TATCGACACTTTTTTAATTTGTGTCGATA-CATTTTTT-CAAAATGAATG-GCAAACGAAG-TGT
126 TATCGACACTCTTTAAATATGTGTCGATATCATTTTTTCCAAAAT-AAAGCACAAACG-AGTTGT
3738757 ACGCATAAA
189 ACGCATAAA
* * *
3738766 GTGTCGATACATTTGTAAAAAGTATCGATCCTCGAAACATCGAAATTGATAATTATTATGTAACA
1 GTGTCGATACATTT-TAAAAAGTATCGATCCTCGAAACATCGAAACTGATAATTATAATGTAATA
* * * *
3738831 GGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATT-AGCAAATAGGTCTACATTATGT
65 GGTAAATTTACAATGTAACCGG-TAAAATATACCGGTT-ATTGAG-AAATAGGTCAAAATAAAGT
**
3738895 ATCGACACTCTTTAAATATGTGTCGATATTTTTTTTTCCAAAATAAAGCACAAACGAGTTGTACG
127 ATCGACACTCTTTAAATATGTGTCGATATCATTTTTTCCAAAATAAAGCACAAACGAGTTGTACG
3738960 CATAAA
192 CATAAA
* * * *
3738966 ATGTCGATACA-TTTAAAATTGTATCGATCC-CGAAAACATCGAAACCGAT-ATACATAATGTAA
1 GTGTCGATACATTTTAAAA-AGTATCGATCCTCG-AAACATCGAAACTGATAAT-TATAATGTAA
* * * * * *
3739028 TTGGTCAATTTATAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAAAATAA
63 TAGGTAAATTTACAATGTAACCGG-TAAAATATACCGGTTAT-TGAG-AAATAGGTCAAAATAA
3739092 GCGCTACCTA
Statistics
Matches: 274, Mismatches: 39, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
198 55 0.20
199 165 0.60
200 54 0.20
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (197 bp):
GTGTCGATACATTTTAAAAAGTATCGATCCTCGAAACATCGAAACTGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTAAAATATACCGGTTATTGAGAAATAGGTCAAAATAAAGTATCG
ACACTCTTTAAATATGTGTCGATATCATTTTTTCCAAAATAAAGCACAAACGAGTTGTACGCATA
AA
Found at i:3739180 original size:64 final size:63
Alignment explanation
Indices: 3739106--3739229 Score: 194
Period size: 64 Copynumber: 2.0 Consensus size: 63
3739096 TACCTATTAC
* * *
3739106 ATTATATAAGCGCTACCTAATTTGTTAATGTACTTGATAATATTTCCGGTTAAATGCATATTTT
1 ATTATATAAGCGCTACCTAATATATTAATGTACTTAATAATATTTCCGGTTAAATG-ATATTTT
* *
3739170 ATTATATAAGCGCTACCTAATATATTATTGTGCTTAATAATATTTCCGGTTAAATGATAT
1 ATTATATAAGCGCTACCTAATATATTAATGTACTTAATAATATTTCCGGTTAAATGATAT
3739230 AACATAACCG
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
63 4 0.07
64 51 0.93
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (63 bp):
ATTATATAAGCGCTACCTAATATATTAATGTACTTAATAATATTTCCGGTTAAATGATATTTT
Found at i:3741220 original size:21 final size:21
Alignment explanation
Indices: 3741196--3741268 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
3741186 TGCATTTCGT
3741196 GTTGCGATAGTTGAAAATCGC
1 GTTGCGATAGTTGAAAATCGC
* ** **
3741217 GTTGCGAT-TTTCCATTTCGC
1 GTTGCGATAGTTGAAAATCGC
3741237 GTTGCGATAGTTGAAAATCGC
1 GTTGCGATAGTTGAAAATCGC
3741258 GTTGCGATAGT
1 GTTGCGATAGT
3741269 CTACAGTTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 15 0.37
21 26 0.63
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.34
Consensus pattern (21 bp):
GTTGCGATAGTTGAAAATCGC
Found at i:3741233 original size:41 final size:41
Alignment explanation
Indices: 3741188--3741265 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
3741178 ATTCGCGTTG
*
3741188 CATTTCGTGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
3741229 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
3741266 AGTCTACAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:3742455 original size:22 final size:22
Alignment explanation
Indices: 3742425--3742558 Score: 102
Period size: 22 Copynumber: 6.4 Consensus size: 22
3742415 AATTTGGAAA
3742425 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* ** *
3742447 ATCGTAACGA-ATTTGTAAACT
1 ATCGCAACGACAACTGTAGACT
*
3742468 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
3742490 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
** **
3742509 ATCGCAACGA-ATTTG-A-AAA
1 ATCGCAACGACAACTGTAGACT
3742528 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
3742550 ATCGCAACG
1 ATCGCAACG
3742559 CGAAATGAAA
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
19 26 0.31
20 6 0.07
21 18 0.21
22 35 0.41
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:3742481 original size:43 final size:41
Alignment explanation
Indices: 3742407--3742516 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 41
3742397 CAACGAATTT
*
3742407 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACAACAACTGTAGACTA
* *
3742448 TCGTAACGAATTTGTAAACTATCGCAACAACAACTGTAGACTA
1 TCGCAACGAATTTGGAAA--ATCGCAACAACAACTGTAGACTA
3742491 TCGCAACGAATTTGGAAAATCGCAAC
1 TCGCAACGAATTTGGAAAATCGCAAC
3742517 GAATTTGAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 24 0.39
43 38 0.61
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACAACAACTGTAGACTA
Found at i:3742512 original size:19 final size:19
Alignment explanation
Indices: 3742490--3742537 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
3742480 ACTGTAGACT
*
3742490 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGAAAA
3742509 ATCGCAACGAATTTGAAAA
1 ATCGCAACGAATTTGAAAA
3742528 ATCGCAACGA
1 ATCGCAACGA
3742538 CAACTGTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGAAAA
Found at i:3742569 original size:60 final size:63
Alignment explanation
Indices: 3742447--3742578 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 63
3742437 ACTGTAGACT
* * *
3742447 ATCGTAACGAATTTGTAAACTATCGCAACAACAACTGTAGACTATCGCAACGAATTTGG-AAA
1 ATCGCAACGAATTTGTAAACAATCGCAACAACAACTGTAGACTATCGCAACGAATATGGAAAA
*
3742509 ATCGCAACGAATTTG-AAA-AATCGCAACGACAACTGTAGACTATCGCAACGCGAA-AT-GAAAA
1 ATCGCAACGAATTTGTAAACAATCGCAACAACAACTGTAGACTATCGCAA--CGAATATGGAAAA
3742570 ATCGCAACG
1 ATCGCAACG
3742579 CGAATTTGCG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
60 29 0.46
61 16 0.25
62 18 0.29
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (63 bp):
ATCGCAACGAATTTGTAAACAATCGCAACAACAACTGTAGACTATCGCAACGAATATGGAAAA
Found at i:3742821 original size:13 final size:13
Alignment explanation
Indices: 3742803--3742827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3742793 TAGTTCAAAT
3742803 TTATTATATAAAG
1 TTATTATATAAAG
3742816 TTATTATATAAA
1 TTATTATATAAA
3742828 ATAATTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTATTATATAAAG
Found at i:3749344 original size:318 final size:318
Alignment explanation
Indices: 3748767--3749406 Score: 1262
Period size: 318 Copynumber: 2.0 Consensus size: 318
3748757 TGTGGAGACC
3748767 GATGGAGAAGTGAAATCTAAAACTGATTTGGTTAAGGATTCGAGAGAAGAGGATGAATCTTGTAT
1 GATGGAGAAGTGAAATCTAAAACTGATTTGGTTAAGGATTCGAGAGAAGAGGATGAATCTTGTAT
3748832 TGAAATTGTGGATCAGGACAAGGAATCGATGGAATTGTGCCACGTGGACGCTCCTGTTGATGAAC
66 TGAAATTGTGGATCAGGACAAGGAATCGATGGAATTGTGCCACGTGGACGCTCCTGTTGATGAAC
3748897 AAAATTCAGTGGATCTTGTTCGGAGTGGTCCTGTTTTTGCAATTAATGCTGAAAATGGTGTGCCA
131 AAAATTCAGTGGATCTTGTTCGGAGTGGTCCTGTTTTTGCAATTAATGCTGAAAATGGTGTGCCA
3748962 GAAACTGCCACGACTGATCAGAATGAAGTCTCTGAATCAGCTGAAGATGTTTCTGATGCTAACAA
196 GAAACTGCCACGACTGATCAGAATGAAGTCTCTGAATCAGCTGAAGATGTTTCTGATGCTAACAA
3749027 TATAGGTGAACACACTGGTTCAGAAGCTGCTGCTGTTGACTCCAGTGATAAACAGAGT
261 TATAGGTGAACACACTGGTTCAGAAGCTGCTGCTGTTGACTCCAGTGATAAACAGAGT
3749085 GATGGAGAAGTGAAATCTAAAACTGATTTGGTTAAGGATTCGAGAGAAGAGGATGAATCTTGTAT
1 GATGGAGAAGTGAAATCTAAAACTGATTTGGTTAAGGATTCGAGAGAAGAGGATGAATCTTGTAT
*
3749150 TGAAATTGTGGATCAGGACAAGGAATCGATGGAATTGTGCCACGTGGAGGCTCCTGTTGATGAAC
66 TGAAATTGTGGATCAGGACAAGGAATCGATGGAATTGTGCCACGTGGACGCTCCTGTTGATGAAC
3749215 AAAATTCAGTGGATCTTGTTCGGAGTGGTCCTGTTTTTGCAATTAATGCTGAAAATGGTGTGCCA
131 AAAATTCAGTGGATCTTGTTCGGAGTGGTCCTGTTTTTGCAATTAATGCTGAAAATGGTGTGCCA
*
3749280 GAAACTGCCACGGCTGATCAGAATGAAGTCTCTGAATCAGCTGAAGATGTTTCTGATGCTAACAA
196 GAAACTGCCACGACTGATCAGAATGAAGTCTCTGAATCAGCTGAAGATGTTTCTGATGCTAACAA
3749345 TATAGGTGAACACACTGGTTCAGAAGCTGCTGCTGTTGACTCCAGTGATAAACAGAGT
261 TATAGGTGAACACACTGGTTCAGAAGCTGCTGCTGTTGACTCCAGTGATAAACAGAGT
3749403 GATG
1 GATG
3749407 AGATTTCTTC
Statistics
Matches: 320, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
318 320 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (318 bp):
GATGGAGAAGTGAAATCTAAAACTGATTTGGTTAAGGATTCGAGAGAAGAGGATGAATCTTGTAT
TGAAATTGTGGATCAGGACAAGGAATCGATGGAATTGTGCCACGTGGACGCTCCTGTTGATGAAC
AAAATTCAGTGGATCTTGTTCGGAGTGGTCCTGTTTTTGCAATTAATGCTGAAAATGGTGTGCCA
GAAACTGCCACGACTGATCAGAATGAAGTCTCTGAATCAGCTGAAGATGTTTCTGATGCTAACAA
TATAGGTGAACACACTGGTTCAGAAGCTGCTGCTGTTGACTCCAGTGATAAACAGAGT
Found at i:3749690 original size:120 final size:119
Alignment explanation
Indices: 3749456--3750542 Score: 1100
Period size: 120 Copynumber: 9.1 Consensus size: 119
3749446 CTAATGGTGT
* * * ** *
3749456 TGAAGCCAATGTTCTCGATTTCAGGTCTAAAGGGAATGAGGAATCTGAAATGGTTGTAGCTGATG
1 TGAA-CCAATGTTCTCGATTCCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGCTGTAGCTGATG
* * * * * * *
3749521 ATAGTGATTACAATGTAAATGGTCTAGCTAATGATAGTGCTAAAGCCCCTGCCTC
65 ATGGTGATTGCAATGGAAATGGTTTAGCTAATGATAGTGCTAAGGCCACTGTCTC
* * * * * * *
3749576 CGTAA-CATATGATGTTGATTCCAGGTCAAAAGAAAATGAGGGCTCTGAAACGGCTGTAGCTAAT
1 TG-AACCA-ATGTTCTCGATTCCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGCTGTAGCTGAT
* * * * * * *
3749640 TATAGTGATTACAATGGAAATGATATAGCTAATGATAGTGCTAAGGCCCCTGCCTC
64 GATGGTGATTGCAATGGAAATGGTTTAGCTAATGATAGTGCTAAGGCCACTGTCTC
* * * * * * * *
3749696 CGTAGCATATGATGTTGATTCCAGGTCAAAAGAAAATGAGGGCTCTGAAATGGCTGTAGCTGATT
1 TGAACCA-ATGTTCTCGATTCCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGCTGTAGCTGATG
* * * * *
3749761 CTGGTGATTGCAATGGAGATGGCTTAGCTAATGGTAGTGCTAAGGCCAGTGTCTC
65 ATGGTGATTGCAATGGAAATGGTTTAGCTAATGATAGTGCTAAGGCCACTGTCTC
* * * * *
3749816 TGAAGCCAATTTTCTCGATTTCAGATCAAAAGAGAATAAGGGCTCTGAAATGGCTGTAGCTGCTG
1 TGAA-CCAATGTTCTCGATTCCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGCTGTAGCTGATG
* * * *
3749881 ATGGTGATTGCAATGGAGATGGTTTAGCTAATGATGGTGCCAAGGCCACTGTGTC
65 ATGGTGATTGCAATGGAAATGGTTTAGCTAATGATAGTGCTAAGGCCACTGTCTC
* * *
3749936 TGAAGCCAATGTTCTCGATTCCAGGTCAACAGAGAATGAGGACTCTGAAATGGGTGTAGCTGATG
1 TGAA-CCAATGTTCTCGATTCCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGCTGTAGCTGATG
*
3750001 ATGGTGATTGCAGTGGAGAA-GGTTTAGCTAATGATAGTGCTAAGGCCACTGTCTC
65 ATGGTGATTGCAATGGA-AATGGTTTAGCTAATGATAGTGCTAAGGCCACTGTCTC
* * * *
3750056 TGAAGCCAATGTTATCGATTCCAAGTCAAAAGAGAACG-GAGGCTCTGAAATGGTTGTAGCTGAT
1 TGAA-CCAATGTTCTCGATTCCAGGTCAAAAGAGAATGAG-GGCTCTGAAATGGCTGTAGCTGAT
* *
3750120 GATGGTGATTGCAATGGAAATGCTTTAGCTAATGATAATG-TCAAGGCCACTGTCTC
64 GATGGTGATTGCAATGGAAATGGTTTAGCTAATGATAGTGCT-AAGGCCACTGTCTC
* * * * * * *
3750176 TGACGCCGATGTTATCAATACCAGGTTAAAAGAGAACG-GAGGCTCTGAAATGGCTGTAGCTGAT
1 TGA-ACCAATGTTCTCGATTCCAGGTCAAAAGAGAATGAG-GGCTCTGAAATGGCTGTAGCTGAT
* * *
3750240 GATGGTGATTGCAATGG-AATTGTGTTAGCTAATGATAGTG-TCAAGTCCACTGTCTT
64 GATGGTGATTGCAATGGAAATGGT-TTAGCTAATGATAGTGCT-AAGGCCACTGTCTC
* ** *** * *
3750296 TGAAGCCAATGTTATTTATTCCAGGTCAAAAGAGACCAAGGGCTCTGAAATAGTTGTAGCTGATG
1 TGAA-CCAATGTTCTCGATTCCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGCTGTAGCTGATG
* ** * * *
3750361 ATGGCGATCCCAATGGAGATGGTTTAGCTAGTGATAGTGCTAAGGCCACTGCCTC
65 ATGGTGATTGCAATGGAAATGGTTTAGCTAATGATAGTGCTAAGGCCACTGTCTC
** *
3750416 TG----AA-GTTCTCGATTCCAGGTTGAAAGAGAACGAGGGCTCTGAAATGGCTGTAGCTGATGA
1 TGAACCAATGTTCTCGATTCCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGCTGTAGCTGATGA
** * * * * * *
3750476 TGGCAACTGCAATGGAGATGATTTAGTTAATGTTAGTTCTAAGGCCACTGTCTC
66 TGGTGATTGCAATGGAAATGGTTTAGCTAATGATAGTGCTAAGGCCACTGTCTC
3750530 TGAAGCCAATGTT
1 TGAA-CCAATGTT
3750543 AGTGCTAAGG
Statistics
Matches: 823, Mismatches: 124, Indels: 40
0.83 0.13 0.04
Matches are distributed among these distances:
114 93 0.11
115 2 0.00
119 13 0.02
120 704 0.86
121 11 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (119 bp):
TGAACCAATGTTCTCGATTCCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGCTGTAGCTGATGA
TGGTGATTGCAATGGAAATGGTTTAGCTAATGATAGTGCTAAGGCCACTGTCTC
Found at i:3750551 original size:33 final size:33
Alignment explanation
Indices: 3750504--3750609 Score: 203
Period size: 33 Copynumber: 3.2 Consensus size: 33
3750494 TGATTTAGTT
*
3750504 AATGTTAGTTCTAAGGCCACTGTCTCTGAAGCC
1 AATGTTAGTGCTAAGGCCACTGTCTCTGAAGCC
3750537 AATGTTAGTGCTAAGGCCACTGTCTCTGAAGCC
1 AATGTTAGTGCTAAGGCCACTGTCTCTGAAGCC
3750570 AATGTTAGTGCTAAGGCCACTGTCTCTGAAGCC
1 AATGTTAGTGCTAAGGCCACTGTCTCTGAAGCC
3750603 AATGTTA
1 AATGTTA
3750610 TCGATTCCAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (33 bp):
AATGTTAGTGCTAAGGCCACTGTCTCTGAAGCC
Found at i:3750828 original size:300 final size:295
Alignment explanation
Indices: 3750286--3750835 Score: 692
Period size: 300 Copynumber: 1.8 Consensus size: 295
3750276 AGTGTCAAGT
* ** * * * **
3750286 CCACTGTCTTTGAAGCCAATGTTATTTATTCCAGGTCAAAAGAGACCAAGGGCTCTGAAATAGTT
1 CCACTGTCTCTGAAGCCAATGTTATCGATTCCAAGCCAAAAGAGAACAAGGGCTCTGAAATAGCC
* *
3750351 GTAGCTGATGATGGCGATCCCAATGGAGATGGTTTAGCTAGTGATAGTGCTAAGGCCACTGCCTC
66 GTAGCTGATGATGACGATCCCAATGGAGATGGTTTAGCTAATGATAGTGCTAAGGCCACTGCCTC
** *
3750416 TGAAGTTCTCGATTCCAGGTTGAAAGAGAACGAGGGCTCTGAAATGGCTGTAGCTGATGATGGCA
131 TGAAGTTCTCGATTCCAGGTCAAAAGAGAACGAGAGCTCTGAAATGGCTGTAGCTGATGAT----
* * *
3750481 ACTGCAATGGAGATGATTTAGTTAATGTTAGTTCTAAGGCCACTGTCTCTGAAGCCAATGTTAGT
192 A-TGCAATGGAGATGATTTAGTTAATGATAGTGCTAAGACCACTGTCTCTGAAGCCAATGTTAGT
3750546 GCTAAGGCCACTGTCTCTGAAGCCAATGTTAGTGCTAAGG
256 GCTAAGGCCACTGTCTCTGAAGCCAATGTTAGTGCTAAGG
* **
3750586 CCACTGTCTCTGAAGCCAATGTTATCGATTCCAAGCCAGAAGAGAATGAGGGCTCTGAAATAGCC
1 CCACTGTCTCTGAAGCCAATGTTATCGATTCCAAGCCAAAAGAGAACAAGGGCTCTGAAATAGCC
* * **
3750651 GTAGCTGATGATGACAGTTGCC-ATGGAGATGGTTTAGCTAATGATAGTGCTAAGGCCACTGTTT
66 GTAGCTGATGATGAC-GATCCCAATGGAGATGGTTTAGCTAATGATAGTGCTAAGGCCACTGCCT
* * ** *
3750715 CTGAAGCCAATGTTCTCGATTTCAGGTCAAAAGAGAATGAGATTTCTGAAATGGTTGTAGCTGAT
130 CT---G--AA-GTTCTCGATTCCAGGTCAAAAGAGAACGAGAGCTCTGAAATGGCTGTAGCTGAT
* *
3750780 GAT-TGCGATGGAGATGGTTTAGCTT-ATGATAGTGCTAAGACCACTGTCTCTGAAGC
189 GATATGCAATGGAGATGATTTAG-TTAATGATAGTGCTAAGACCACTGTCTCTGAAGC
3750836 TGCTGTAGAT
Statistics
Matches: 212, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
300 154 0.73
301 6 0.03
303 1 0.00
305 2 0.01
306 49 0.23
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (295 bp):
CCACTGTCTCTGAAGCCAATGTTATCGATTCCAAGCCAAAAGAGAACAAGGGCTCTGAAATAGCC
GTAGCTGATGATGACGATCCCAATGGAGATGGTTTAGCTAATGATAGTGCTAAGGCCACTGCCTC
TGAAGTTCTCGATTCCAGGTCAAAAGAGAACGAGAGCTCTGAAATGGCTGTAGCTGATGATATGC
AATGGAGATGATTTAGTTAATGATAGTGCTAAGACCACTGTCTCTGAAGCCAATGTTAGTGCTAA
GGCCACTGTCTCTGAAGCCAATGTTAGTGCTAAGG
Found at i:3754094 original size:21 final size:21
Alignment explanation
Indices: 3754068--3754117 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
3754058 AACACGAGAG
*
3754068 AAAACAGCTCCCGCAAAAGCT
1 AAAACAGCTCCCACAAAAGCT
*
3754089 AAAACAGCTCCCACGAAAGCT
1 AAAACAGCTCCCACAAAAGCT
*
3754110 GAAACAGC
1 AAAACAGC
3754118 AAAGGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.44, C:0.32, G:0.16, T:0.08
Consensus pattern (21 bp):
AAAACAGCTCCCACAAAAGCT
Found at i:3757456 original size:96 final size:99
Alignment explanation
Indices: 3757299--3757486 Score: 240
Period size: 96 Copynumber: 1.9 Consensus size: 99
3757289 CCACCGATGT
* * *
3757299 TTGAGTAAGTTTTTTCTTTTCTCCATTGATATTTTAGAAGTAACGATTTAAACACTAATATTATC
1 TTGAGTAAGATTTATCTTTTCTCCATTGATATTTTAAAAGTAACGATTTAAACACTAATATTATC
* * *
3757364 GATTTATAACAAATCGATCATTCACCGCTGATAC
66 AATTTACAACAAATCGACCATTCACCGCTGATAC
* * * *
3757398 TTGAGTAA-ATTTATCTTTT-T-CATTGATATTTTAAAATTAA-GTATTTAAATATTGATATTAT
1 TTGAGTAAGATTTATCTTTTCTCCATTGATATTTTAAAAGTAACG-ATTTAAACACTAATATTAT
*
3757459 CAATTTACAATAAATCGACCATTCACCG
65 CAATTTACAACAAATCGACCATTCACCG
3757487 TTAATAATCA
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
95 1 0.01
96 58 0.75
97 1 0.01
98 9 0.12
99 8 0.10
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (99 bp):
TTGAGTAAGATTTATCTTTTCTCCATTGATATTTTAAAAGTAACGATTTAAACACTAATATTATC
AATTTACAACAAATCGACCATTCACCGCTGATAC
Found at i:3769165 original size:19 final size:21
Alignment explanation
Indices: 3769143--3769183 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3769133 TAAGAATACT
3769143 TATTTT-TATTT-AGAATTAA
1 TATTTTATATTTAAGAATTAA
3769162 TATTTTAATATTTAAGAATTAA
1 TATTTT-ATATTTAAGAATTAA
3769184 GTTAATACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 5 0.26
22 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
TATTTTATATTTAAGAATTAA
Found at i:3771680 original size:2 final size:2
Alignment explanation
Indices: 3771673--3771702 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
3771663 TAAATAATGT
3771673 TA TA TA TA TA TA TA TA TA TA GTA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
3771703 TTTTGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3774948 original size:109 final size:110
Alignment explanation
Indices: 3774753--3774970 Score: 298
Period size: 109 Copynumber: 2.0 Consensus size: 110
3774743 GGGTGTATGA
* * * *
3774753 GAGTTGAAGCAGCAAATGAACACTGGCATGATTCTGGGGAAGCATCTGCACTGGAGTAGAAGTTG
1 GAGTTGAAGCAGCAAATGAACACTGGCATGATTCTGAGGAAGCATCCGAACTGGACTAGAAGTTG
* * *
3774818 AAATACCAGAACAAACAGGATCTTGGTGAATGTCTGTTGCAGTGG
66 AAACACCAGAACAAACAGGATCTTCGTGAATGACTGTTGCAGTGG
* *
3774863 GAGTTGGAGCGGCAAATGAAC-CATGGCATGATTCT-AGGAA-CATCCGTAACTGGACTAGAAGT
1 GAGTTGAAGCAGCAAATGAACAC-TGGCATGATTCTGAGGAAGCATCCG-AACTGGACTAGAAGT
* *
3774925 TGAAACACCAGAACAAACTGGATCTTCGTGAATGAGTGTTGCAGTG
64 TGAAACACCAGAACAAACAGGATCTTCGTGAATGACTGTTGCAGTG
3774971 CGCCTTTCAC
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
108 5 0.05
109 59 0.62
110 31 0.33
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (110 bp):
GAGTTGAAGCAGCAAATGAACACTGGCATGATTCTGAGGAAGCATCCGAACTGGACTAGAAGTTG
AAACACCAGAACAAACAGGATCTTCGTGAATGACTGTTGCAGTGG
Found at i:3784047 original size:14 final size:14
Alignment explanation
Indices: 3784015--3784058 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
3784005 TTACCCGTCT
*
3784015 CGCATCCGCCCACCC
1 CGCATCCGCCC-GCC
3784030 CGCATCCGCCCGCC
1 CGCATCCGCCCGCC
*
3784044 CGCATCCGCCTGCC
1 CGCATCCGCCCGCC
3784058 C
1 C
3784059 CAACATCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.09, C:0.64, G:0.18, T:0.09
Consensus pattern (14 bp):
CGCATCCGCCCGCC
Found at i:3789715 original size:74 final size:73
Alignment explanation
Indices: 3789582--3789860 Score: 360
Period size: 74 Copynumber: 3.8 Consensus size: 73
3789572 GACAACTAAG
*
3789582 TTTAAGAACTTTCAGCTCAAACCAAGCAATACCCAGGAAACAAGAACACTTCAAAAACTTCGAAG
1 TTTAAGCACTTTCAGCTCAAACCAAGCAATACCCA-GAAACAAGAACACTTCAAAAACTTCGAAG
3789647 AAATGAAGAA
65 AAAT-AAGAA
* * * * * *
3789657 TTTGAGCACTTTCCGCTCAAACCAAACAATACTCAGAAACAAGGACACTTCAAAAACTTCAAAGA
1 TTTAAGCACTTTCAGCTCAAACCAAGCAATACCCAGAAACAAGAACACTTCAAAAACTTCGAAGA
3789722 AACTAAGAA
66 AA-TAAGAA
* *
3789731 TTTAAGCACTTTCAGATCAAACCAAGCAATACCCAGAAACAAGAAAACTTCAAAAACTTCGAAGA
1 TTTAAGCACTTTCAGCTCAAACCAAGCAATACCCAGAAACAAGAACACTTCAAAAACTTCGAAGA
3789796 AATTAAGAA
66 AA-TAAGAA
* * * * * * * *
3789805 TTTCAGCACTTTCAACCCGAACAAAGCAATACCCAGATTAGAAGAACACTCCAAAA
1 TTTAAGCACTTTCAGCTCAAACCAAGCAATACCCAGA-AACAAGAACACTTCAAAA
3789861 TATGAACAAC
Statistics
Matches: 176, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
74 131 0.74
75 45 0.26
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.18
Consensus pattern (73 bp):
TTTAAGCACTTTCAGCTCAAACCAAGCAATACCCAGAAACAAGAACACTTCAAAAACTTCGAAGA
AATAAGAA
Found at i:3789835 original size:148 final size:147
Alignment explanation
Indices: 3789575--3789841 Score: 403
Period size: 148 Copynumber: 1.8 Consensus size: 147
3789565 CAAATTGGAC
* *
3789575 AACTAAGTTTAAGAACTTTCAGCTCAAACCAAGCAATACCCAGGAAACAAGAACACTTCAAAAAC
1 AACTAAGTTTAAGAACTTTCAGATCAAACCAAGCAATACCCAGGAAACAAGAAAACTTCAAAAAC
* ** * *
3789640 TTCGAAGAAATGAAGAATTTGAGCACTTTCCGCTCAAACCAAACAATACTCAGAAACAAGGACAC
66 TTCGAAGAAATGAAGAATTTCAGCACTTTCAACCCAAACCAAACAATACCCAGAAACAAGGACAC
3789705 TTCAAAAACTTCAAAGA
131 TTCAAAAACTTCAAAGA
*
3789722 AACTAAGAATTTAAGCACTTTCAGATCAAACCAAGCAATACCCA-GAAACAAGAAAACTTCAAAA
1 AACTAAG--TTTAAGAACTTTCAGATCAAACCAAGCAATACCCAGGAAACAAGAAAACTTCAAAA
* *
3789786 ACTTCGAAGAAATTAAGAATTTCAGCACTTTCAACCCGAA-CAAAGCAATACCCAGA
64 ACTTCGAAGAAATGAAGAATTTCAGCACTTTCAACCCAAACCAAA-CAATACCCAGA
3789842 TTAGAAGAAC
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
147 11 0.10
148 63 0.59
149 33 0.31
ACGTcount: A:0.47, C:0.23, G:0.12, T:0.18
Consensus pattern (147 bp):
AACTAAGTTTAAGAACTTTCAGATCAAACCAAGCAATACCCAGGAAACAAGAAAACTTCAAAAAC
TTCGAAGAAATGAAGAATTTCAGCACTTTCAACCCAAACCAAACAATACCCAGAAACAAGGACAC
TTCAAAAACTTCAAAGA
Found at i:3793362 original size:2 final size:2
Alignment explanation
Indices: 3793351--3793413 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
3793341 CTTTACGTCA
3793351 AT AT -T AT AT AT AT 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 AT AT AT AT
3793392 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
3793414 GGAGGAGAGG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3793594 original size:74 final size:73
Alignment explanation
Indices: 3793474--3793610 Score: 229
Period size: 74 Copynumber: 1.9 Consensus size: 73
3793464 AAAACCCCAT
*
3793474 AACTTTTGATTCCAGACCCTTAACATAGCATTCTCAATTTCCTCCAATTAATTTGTTTTTTTTTT
1 AACTTTTGATTCCAGACCCTTAACATAGCATTCTCAATTTCCTCCAACTAATTTGTTTTTTTTTT
3793539 CTTTCAGA
66 CTTTCAGA
* * *
3793547 AACTTTTGATTACCGGACCCTTAACGTATCATTCTCAATTTCCTCCAACTAATTTGTTTTTTTT
1 AACTTTTGATT-CCAGACCCTTAACATAGCATTCTCAATTTCCTCCAACTAATTTGTTTTTTTT
3793611 CTTTGAGAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
73 11 0.19
74 48 0.81
ACGTcount: A:0.24, C:0.23, G:0.07, T:0.46
Consensus pattern (73 bp):
AACTTTTGATTCCAGACCCTTAACATAGCATTCTCAATTTCCTCCAACTAATTTGTTTTTTTTTT
CTTTCAGA
Found at i:3797988 original size:16 final size:18
Alignment explanation
Indices: 3797953--3797990 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
3797943 TGATTAAATC
*
3797953 AATATTTTTTTTATTTAA
1 AATATTTTTTTTATTGAA
3797971 AATA-TTTTTTTA-TGAA
1 AATATTTTTTTTATTGAA
3797987 AATA
1 AATA
3797991 GAATATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
AATATTTTTTTTATTGAA
Found at i:3798307 original size:25 final size:25
Alignment explanation
Indices: 3798279--3798327 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
3798269 GTTTTGAGGG
*
3798279 TTATTTTTATTTCTGAAGTATATTT
1 TTATTTTTATTTCTGAACTATATTT
*
3798304 TTATTTTTATTTCTGTACTATATT
1 TTATTTTTATTTCTGAACTATATT
3798328 CAGTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.65
Consensus pattern (25 bp):
TTATTTTTATTTCTGAACTATATTT
Found at i:3798370 original size:15 final size:14
Alignment explanation
Indices: 3798333--3798366 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
3798323 ATATTCAGTT
3798333 TATTATTTTTATTTG
1 TATTATTTTT-TTTG
*
3798348 TATGATTTTTTTTG
1 TATTATTTTTTTTG
3798362 TATTA
1 TATTA
3798367 ATTTATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (14 bp):
TATTATTTTTTTTG
Found at i:3800275 original size:65 final size:63
Alignment explanation
Indices: 3800202--3800357 Score: 181
Period size: 65 Copynumber: 2.4 Consensus size: 63
3800192 AATTAAATTG
*
3800202 AACATCGAATGCATTTCATGCATCGATACA-CATACCATGCACCGATGCACTGAGGAT-TTTATG
1 AACATCGAATGCATTT-ATGCATCGATACACCA-ACCATGCACCGATGCACTCAGGATATTT-TG
3800265 AA
63 -A
* * * * * *
3800267 AACATCGAATGTATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTT-ATGCATCGATACACCAACCATGCACCGATGCACTCAGGATATTTTGA
3800331 AACATCGAATGCACTTTATGCATCGAT
1 AACATCGAATGCA-TTTATGCATCGAT
3800358 GCACTCTTAG
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
64 23 0.29
65 51 0.65
66 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTATGCATCGATACACCAACCATGCACCGATGCACTCAGGATATTTTGA
Found at i:3800376 original size:19 final size:19
Alignment explanation
Indices: 3800339--3800400 Score: 101
Period size: 19 Copynumber: 3.4 Consensus size: 19
3800329 GAAACATCGA
*
3800339 ATGCACT-TTA-TGCATCG
1 ATGCACTCTTAGTGCACCG
3800356 ATGCACTCTTAGTGCACCG
1 ATGCACTCTTAGTGCACCG
3800375 ATGCACTCTTAGTGCACCG
1 ATGCACTCTTAGTGCACCG
3800394 ATGCACT
1 ATGCACT
3800401 AAGGGTCCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
17 7 0.17
18 3 0.07
19 32 0.76
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (19 bp):
ATGCACTCTTAGTGCACCG
Found at i:3808272 original size:2 final size:2
Alignment explanation
Indices: 3808265--3808299 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3808255 CAGCTTAAGC
3808265 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3808300 TTAATCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3808895 original size:46 final size:45
Alignment explanation
Indices: 3808837--3808942 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
3808827 TGCACAAACC
* *
3808837 ATGCACCGATGCACTAAGGAT-TTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTAAGGATATTT-TG-AAACATCGAATGCACTTG
* ** *
3808883 ATGCATCTATGCACTCTGGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCACTTG
3808928 ATGCATCGATGCACT
1 ATGCATCGATGCACT
3808943 CTTAGTGCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 31 0.60
46 18 0.35
47 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (45 bp):
ATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCACTTG
Found at i:3808941 original size:17 final size:19
Alignment explanation
Indices: 3808913--3808961 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3808903 TATTTTGAAA
3808913 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
3808931 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
3808950 CACCGATGCACT
1 CATCGATGCACT
3808962 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:3812427 original size:21 final size:21
Alignment explanation
Indices: 3812403--3812452 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
3812393 CAACATATTT
* *
3812403 ATCTCATCCTACAATAACTTC
1 ATCTCAGCCTACAACAACTTC
* *
3812424 ATCTCAGCTTACAACACCTTC
1 ATCTCAGCCTACAACAACTTC
3812445 ATCTCAGC
1 ATCTCAGC
3812453 TTGTAAGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.36, G:0.04, T:0.30
Consensus pattern (21 bp):
ATCTCAGCCTACAACAACTTC
Found at i:3813007 original size:33 final size:33
Alignment explanation
Indices: 3812943--3813007 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
3812933 AAAGTCAAAA
* * * *
3812943 CCAACACTAGCAACACTTCAATGGCATTCATAG
1 CCAACACTAGCAACACATAAATGGAAATCATAG
*
3812976 CCAACAGTAGCAACACATAAATGGAAATCATA
1 CCAACACTAGCAACACATAAATGGAAATCATA
3813008 TAAAATAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.43, C:0.26, G:0.12, T:0.18
Consensus pattern (33 bp):
CCAACACTAGCAACACATAAATGGAAATCATAG
Found at i:3816092 original size:2 final size:2
Alignment explanation
Indices: 3816085--3816115 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3816075 AACCACCTAA
3816085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3816116 ATTAATCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3819082 original size:2 final size:2
Alignment explanation
Indices: 3819075--3819126 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
3819065 ATTAATACAA
3819075 AT AT AT AT AT AT AT 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 AT AT AT AT
3819117 AT AT AT AT AT
1 AT AT AT AT AT
3819127 TTGGGTAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3823142 original size:15 final size:15
Alignment explanation
Indices: 3823080--3823161 Score: 52
Period size: 13 Copynumber: 5.9 Consensus size: 15
3823070 AAAATAATTA
3823080 TTATATATATATAAT
1 TTATATATATATAAT
* *
3823095 ATTA-ATAAATTTAAT
1 -TTATATATATATAAT
* *
3823110 TTAAAT-TA-AAAAT
1 TTATATATATATAAT
*
3823123 ATATATATA-AT-AT
1 TTATATATATATAAT
3823136 TTATATAT-T-TAAT
1 TTATATATATATAAT
*
3823149 TTAAATATATATA
1 TTATATATATATA
3823162 CCCGGCCCGA
Statistics
Matches: 50, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
12 1 0.02
13 25 0.50
14 8 0.16
15 13 0.26
16 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATATATATATAAT
Found at i:3823392 original size:29 final size:30
Alignment explanation
Indices: 3823323--3823398 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
3823313 ACTAAACCCG
3823323 TCCCCGTCCCCGTTTAACATAAACGATTTT
1 TCCCCGTCCCCGTTTAACATAAACGATTTT
* *
3823353 TCTCCGTCCCCGTTTAGCATAAACGA-TTT
1 TCCCCGTCCCCGTTTAACATAAACGATTTT
*
3823382 TCCCCATCCCCGTTTAA
1 TCCCCGTCCCCGTTTAA
3823399 TTCGATTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 17 0.41
30 24 0.59
ACGTcount: A:0.21, C:0.36, G:0.11, T:0.33
Consensus pattern (30 bp):
TCCCCGTCCCCGTTTAACATAAACGATTTT
Found at i:3830293 original size:23 final size:23
Alignment explanation
Indices: 3830267--3830316 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
3830257 ATAAGCATAC
3830267 AGTAAAAATTAAAATATGAATAA
1 AGTAAAAATTAAAATATGAATAA
3830290 AGTAAAAATTAAAATATGAATAA
1 AGTAAAAATTAAAATATGAATAA
3830313 AGTA
1 AGTA
3830317 GGGTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (23 bp):
AGTAAAAATTAAAATATGAATAA
Found at i:3832843 original size:22 final size:22
Alignment explanation
Indices: 3832815--3832883 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
3832805 TCAGGTCGGG
3832815 TCTCGGGTGGAGGATTCCTTGA
1 TCTCGGGTGGAGGATTCCTTGA
* * *
3832837 TCTCGGGT-CAGG--T-C-GGG
1 TCTCGGGTGGAGGATTCCTTGA
*
3832854 TCTCGGGTGGAGGATTCTTTGA
1 TCTCGGGTGGAGGATTCCTTGA
3832876 TCTCGGGT
1 TCTCGGGT
3832884 CGGGTCGGGC
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
17 9 0.26
18 4 0.11
19 1 0.03
20 1 0.03
21 3 0.09
22 17 0.49
ACGTcount: A:0.10, C:0.19, G:0.39, T:0.32
Consensus pattern (22 bp):
TCTCGGGTGGAGGATTCCTTGA
Found at i:3832848 original size:39 final size:39
Alignment explanation
Indices: 3832803--3832892 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 39
3832793 ATCTTGTTTT
3832803 GGTCAGGTCGGGTCTCGGGTGGAGGATTCCTTGATCTCG
1 GGTCAGGTCGGGTCTCGGGTGGAGGATTCCTTGATCTCG
*
3832842 GGTCAGGTCGGGTCTCGGGTGGAGGATTCTTTGATCTCG
1 GGTCAGGTCGGGTCTCGGGTGGAGGATTCCTTGATCTCG
*
3832881 GGTCGGGTCGGG
1 GGTCAGGTCGGG
3832893 CCAACCCGAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.09, C:0.19, G:0.44, T:0.28
Consensus pattern (39 bp):
GGTCAGGTCGGGTCTCGGGTGGAGGATTCCTTGATCTCG
Found at i:3842113 original size:155 final size:155
Alignment explanation
Indices: 3841831--3842136 Score: 517
Period size: 155 Copynumber: 2.0 Consensus size: 155
3841821 GTCGGTCGCA
* *
3841831 CCCTTAAAATTTTTAAATTATCACATATTTTAGATATTTTCTTTATATTTTTTATTGATAGTCTA
1 CCCTTAAAATTTTCAAATTATCACATATTTTAGATATTTTCTTTATATTTTTTATTGATAATCTA
* * *
3841896 TTTTCACCCTTAGAATTTTATAAATTTGCCTTCTTTTAAAATTTTAAAAATTCGCTTTCTTCCAC
66 TTTTCACCCTTAGAATTTTATAAATTTACCTTCTTCTAAAATTTTAAAAATTCGCTCTCTTCCAC
*
3841961 GCATGTCC-CTGTTAATATCTATGTG
131 ACATGTCCAC-GTTAATATCTATGTG
3841986 CCCTTAAAATTTTCAAATTATCACATATTTTAGATATTTTCTTTATATTTTTTTATTGATAATCT
1 CCCTTAAAATTTTCAAATTATCACATATTTTAGATATTTTCTTTATA-TTTTTTATTGATAATCT
*
3842051 ATTTTCACCC-TAGAATTTTATAAATTTACCTTCTTCTAAAATTTTAAAAGTTCGCTCTCTTCCA
65 ATTTTCACCCTTAGAATTTTATAAATTTACCTTCTTCTAAAATTTTAAAAATTCGCTCTCTTCCA
3842115 CACATGTCCACGTTAATATCTA
130 CACATGTCCACGTTAATATCTA
3842137 CATTTCATTA
Statistics
Matches: 142, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
155 115 0.81
156 27 0.19
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (155 bp):
CCCTTAAAATTTTCAAATTATCACATATTTTAGATATTTTCTTTATATTTTTTATTGATAATCTA
TTTTCACCCTTAGAATTTTATAAATTTACCTTCTTCTAAAATTTTAAAAATTCGCTCTCTTCCAC
ACATGTCCACGTTAATATCTATGTG
Found at i:3843130 original size:53 final size:53
Alignment explanation
Indices: 3843067--3843176 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
3843057 TATAGAAAAA
* *
3843067 TAGGATATTTAATGGAGAAGAAAGGAAAGTTTTTTCTTTATCCGATTTAAGGT
1 TAGGATATTTAATGGAGAAGAAAGGAAAGCTTTTTCTTTATCCGAATTAAGGT
3843120 TAGGATATTTAATGGAGAAGAAAGGAAAGCTTTTTCTTTATCCGAATTAAGGT
1 TAGGATATTTAATGGAGAAGAAAGGAAAGCTTTTTCTTTATCCGAATTAAGGT
3843173 TAGG
1 TAGG
3843177 TTTATATGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (53 bp):
TAGGATATTTAATGGAGAAGAAAGGAAAGCTTTTTCTTTATCCGAATTAAGGT
Found at i:3847161 original size:29 final size:29
Alignment explanation
Indices: 3847127--3847185 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
3847117 CCTAAATTAA
3847127 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
3847156 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
3847185 T
1 T
3847186 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:3851842 original size:29 final size:29
Alignment explanation
Indices: 3851808--3851866 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
3851798 CCTAAATTAA
3851808 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
3851837 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
3851866 T
1 T
3851867 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:3855321 original size:18 final size:18
Alignment explanation
Indices: 3855298--3855334 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3855288 TATTGATACT
3855298 TACTCCATTCGGTATCGA
1 TACTCCATTCGGTATCGA
* *
3855316 TACTCCCTTGGGTATCGA
1 TACTCCATTCGGTATCGA
3855334 T
1 T
3855335 TCCAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (18 bp):
TACTCCATTCGGTATCGA
Found at i:3855434 original size:18 final size:19
Alignment explanation
Indices: 3855390--3855434 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
3855380 CCCCTACTGG
3855390 GAGTATCGATACTACCCCTT
1 GAGTATCGATACTA-CCCTT
3855410 G-GTATCGATACT-CCCTT
1 GAGTATCGATACTACCCTT
3855427 GAGTATCG
1 GAGTATCG
3855435 GTGCTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.25
18 6 0.25
19 11 0.46
20 1 0.04
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (19 bp):
GAGTATCGATACTACCCTT
Done.