Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 42
Found at i:2776190 original size:18 final size:18
Alignment explanation
Indices: 2776175--2776231 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
2776165 ATTTTAATTT
*
2776175 TAATTGTTATAATAATAA
1 TAATAGTTATAATAATAA
*
2776193 TAATAGTTATAATATAATAT
1 TAATAGTTAT-A-ATAATAA
*
2776213 TAATAATTATAAT-ATAA
1 TAATAGTTATAATAATAA
2776230 TA
1 TA
2776232 TTTATAACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 5 0.15
18 11 0.33
19 2 0.06
20 15 0.45
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
TAATAGTTATAATAATAA
Found at i:2776232 original size:20 final size:20
Alignment explanation
Indices: 2776186--2776238 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2776176 AATTGTTATA
* *
2776186 ATAATAATAATAGTTATAAT
1 ATAATATTAATAATTATAAT
2776206 ATAATATTAATAATTATAAT
1 ATAATATTAATAATTATAAT
*
2776226 ATAATATTTATAA
1 ATAATATTAATAA
2776239 CACGGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTAATAATTATAAT
Found at i:2777752 original size:20 final size:22
Alignment explanation
Indices: 2777727--2777766 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2777717 AGTCGTATAT
2777727 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGCTTTTGG
2777747 AGCCGTTTGGGGATGCTTTT
1 AGCCGTTTGGGGATGCTTTT
2777767 TATGCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.10, C:0.12, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGCTTTTGG
Found at i:2777989 original size:21 final size:22
Alignment explanation
Indices: 2777965--2778012 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
2777955 TTTGAGCCTT
*
2777965 CATGGGGTATTGATACCCA-GG
1 CATGGGGTATCGATACCCAGGG
*
2777986 CATGGGGTATCGGTACCCAGGG
1 CATGGGGTATCGATACCCAGGG
2778008 CATGG
1 CATGG
2778013 ATACCCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (22 bp):
CATGGGGTATCGATACCCAGGG
Found at i:2780440 original size:24 final size:25
Alignment explanation
Indices: 2780413--2780475 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
2780403 AGCTCGTATA
*
2780413 AATTTGCACCGAAGTGTC-ACGTAG
1 AATTTGCACCGAAGTGACAACGTAG
*
2780437 AATTTATC-CCGAAG-GACAACGTAG
1 AATTT-GCACCGAAGTGACAACGTAG
2780461 AA-TTGCACCGAAGTG
1 AATTTGCACCGAAGTG
2780476 CCACAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 1 0.03
23 10 0.31
24 20 0.62
25 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (25 bp):
AATTTGCACCGAAGTGACAACGTAG
Found at i:2782302 original size:14 final size:14
Alignment explanation
Indices: 2782283--2782311 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2782273 CTGAATAAAG
2782283 CTTTATTTTCTTTT
1 CTTTATTTTCTTTT
2782297 CTTTATTTTCTTTT
1 CTTTATTTTCTTTT
2782311 C
1 C
2782312 AATTTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (14 bp):
CTTTATTTTCTTTT
Found at i:2790287 original size:20 final size:20
Alignment explanation
Indices: 2790262--2790331 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
2790252 AGACCAGTAG
*
2790262 ATTATTGTCGGCGCATATTT
1 ATTATTGTGGGCGCATATTT
2790282 ATTATTGTGGGCGCATATTT
1 ATTATTGTGGGCGCATATTT
* * *
2790302 ATTGTTGTGGGCACATATTC
1 ATTATTGTGGGCGCATATTT
*
2790322 ATAATTGTGG
1 ATTATTGTGG
2790332 ACACATTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTATTGTGGGCGCATATTT
Found at i:2790303 original size:17 final size:19
Alignment explanation
Indices: 2790262--2790347 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 19
2790252 AGACCAGTAG
2790262 ATTATTGTCGGCGCATATTT
1 ATTATTGTCGGCGCATA-TT
*
2790282 ATTATTGTGGGCGCATATTT
1 ATTATTGTCGGCGCATA-TT
* * *
2790302 ATTGTTGTGGGCACATATT
1 ATTATTGTCGGCGCATATT
* *
2790321 CATAATTGT-GGACACATTATT
1 -ATTATTGTCGG-CGCA-TATT
2790342 ATTATT
1 ATTATT
2790348 CTGATAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.07
20 49 0.86
21 4 0.07
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (19 bp):
ATTATTGTCGGCGCATATT
Found at i:2791662 original size:17 final size:18
Alignment explanation
Indices: 2791628--2791666 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2791618 AATAATATCA
*
2791628 TAATCACGTAATTTTATT
1 TAATCACGTAAATTTATT
2791646 TAATCAC-TAAATTTATT
1 TAATCACGTAAATTTATT
2791663 TAAT
1 TAAT
2791667 TTTAGTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (18 bp):
TAATCACGTAAATTTATT
Found at i:2798958 original size:16 final size:16
Alignment explanation
Indices: 2798928--2798973 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
2798918 TAAATTATTT
*
2798928 ATTAACATTATTTTAAA
1 ATTAA-ATTAATTTAAA
2798945 ATTAAATTAATTTAAA
1 ATTAAATTAATTTAAA
*
2798961 TTTAAATTAATTT
1 ATTAAATTAATTT
2798974 TTTCTCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAAATTAATTTAAA
Found at i:2799295 original size:19 final size:20
Alignment explanation
Indices: 2799251--2799295 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2799241 ATTTGATTTT
*
2799251 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
2799271 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
2799290 AATAAA
1 AATAAA
2799296 ATATTGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:2799818 original size:185 final size:185
Alignment explanation
Indices: 2799506--2799877 Score: 719
Period size: 185 Copynumber: 2.0 Consensus size: 185
2799496 TGACCATTAC
*
2799506 CAACTTTTACACTACCTGGGCTAGGATGAGTACTTCCAACTTGCAGATTGTTGAAGTCCATAGAG
1 CAACTTTTACACTACCTGGGATAGGATGAGTACTTCCAACTTGCAGATTGTTGAAGTCCATAGAG
2799571 AGATGATGAGAAGAAAATCTGAATACCAAGCATTATCATCCACTATTTCAAGAGTGGCTATGAGA
66 AGATGATGAGAAGAAAATCTGAATACCAAGCATTATCATCCACTATTTCAAGAGTGGCTATGAGA
2799636 GCTTAAGGTGTCGTTTGAGTATGAGCAGAAGGTTGGAGAGATAAAACAGGAACAA
131 GCTTAAGGTGTCGTTTGAGTATGAGCAGAAGGTTGGAGAGATAAAACAGGAACAA
2799691 CAACTTTTACACTACCTGGGATAGGATGAGTACTTCCAACTTGCAGATTGTTGAAGTCCATA-AT
1 CAACTTTTACACTACCTGGGATAGGATGAGTACTTCCAACTTGCAGATTGTTGAAGTCCATAGA-
2799755 GAGATGATGAGAAGAAAATCTGAATACCAAGCATTATCATCCACTATTTCAAGAGTGGCTATGAG
65 GAGATGATGAGAAGAAAATCTGAATACCAAGCATTATCATCCACTATTTCAAGAGTGGCTATGAG
2799820 AGCTTAAGGTGTCGTTTGAGTATGAGCAGAAGGTTGGAGAGATAAAACAGGAACAA
130 AGCTTAAGGTGTCGTTTGAGTATGAGCAGAAGGTTGGAGAGATAAAACAGGAACAA
2799876 CA
1 CA
2799878 GATGAAGCAG
Statistics
Matches: 185, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 1 0.01
185 184 0.99
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (185 bp):
CAACTTTTACACTACCTGGGATAGGATGAGTACTTCCAACTTGCAGATTGTTGAAGTCCATAGAG
AGATGATGAGAAGAAAATCTGAATACCAAGCATTATCATCCACTATTTCAAGAGTGGCTATGAGA
GCTTAAGGTGTCGTTTGAGTATGAGCAGAAGGTTGGAGAGATAAAACAGGAACAA
Found at i:2802687 original size:209 final size:210
Alignment explanation
Indices: 2802237--2803046 Score: 1177
Period size: 209 Copynumber: 3.8 Consensus size: 210
2802227 ATTTAAGAAT
* *
2802237 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAATAGCACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
2802302 GGATTAAATTGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAAGTACTAAATTATA
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-AAAAAAGTACTAAATTATA
* * * *
2802367 GCCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCA
130 CCCATTTAAAAAGTTATGGGCCAATT----TAATA-AA-T-AGAAATAAGTATGGGTCAATTTCA
*
2802432 TATGCAAATAAAATTTGGAGGAC
188 GATGCAAATAAAATTTGGAGGAC
*
2802455 TACATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * *
2802520 GGATCAAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACACAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
2802585 CCATTTAAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTATGGGTCAATTTCAGATGTAAA
131 CCATTTAAAAAGTTATGGGCCAATTTAATAAATAGAAATAAGTATGGGTCAATTTCAGATGCAAA
2802649 TAAAATTTGGAGGAC
196 TAAAATTTGGAGGAC
* * *
2802664 TAAACTGAATAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
2802729 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAGTTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* *
2802794 CCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGG
131 CCATTTAAAAAGTTATGGGCCAATTT----A-ATAAAT-AGAAATAAGTATGGGTCAATTTCAGA
2802859 TGCAAATAAAATTTGGAGGAC
190 TGCAAATAAAATTTGGAGGAC
* *
2802880 TAAATTGAACAAATATGAAATTATAAATAAAAATTTAAATATATTAAACAACACA-A---A--AG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * * *
2802939 GGATCAAATCGAAATATTTTTAAATTTTGAGGTTGAAATTAATATAAAAATGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* *
2803004 TCATTTAAAAAGTTATGGACCAA-TTAATAAATAGAAATAAGTA
131 CCATTTAAAAAGTTATGGGCCAATTTAATAAATAGAAATAAGTA
2803047 ATAAGTTGAG
Statistics
Matches: 549, Mismatches: 36, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
203 10 0.02
204 6 0.01
205 1 0.00
209 194 0.35
210 83 0.15
211 2 0.00
212 2 0.00
213 3 0.01
214 1 0.00
215 5 0.01
216 96 0.17
217 43 0.08
218 103 0.19
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (210 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
CCATTTAAAAAGTTATGGGCCAATTTAATAAATAGAAATAAGTATGGGTCAATTTCAGATGCAAA
TAAAATTTGGAGGAC
Found at i:2803165 original size:2 final size:2
Alignment explanation
Indices: 2803076--2803145 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
2803066 AAAACAACTA
*
2803076 AT AT AG 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
2803118 AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2803146 AACTATATAG
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2803268 original size:31 final size:32
Alignment explanation
Indices: 2803205--2803270 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
2803195 ATGTATAAAC
* * *
2803205 TATAATACTATATAGTTTATATTTGAACTATA
1 TATAATACTACATAGTTTATATATAAACTATA
*
2803237 TATAA-ACTACATAGTTTATATATAAATTATA
1 TATAATACTACATAGTTTATATATAAACTATA
2803268 TAT
1 TAT
2803271 GAATTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (32 bp):
TATAATACTACATAGTTTATATATAAACTATA
Found at i:2803297 original size:42 final size:43
Alignment explanation
Indices: 2803221--2803321 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
2803211 ACTATATAGT
* * * * *
2803221 TTATATTTGAACTATATATAAACTACATAGTTTATA-TATAAA
1 TTATATATGAATTATATACAAACTACAGAATTTATATTATAAA
* *
2803263 TTATATATGAATTATATACAAACTATAGAATTTATATTTATATA
1 TTATATATGAATTATATACAAACTACAGAATTTATA-TTATAAA
*
2803307 TTATGTAT-AATTATA
1 TTATATATGAATTATA
2803322 AATAATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.61
43 7 0.14
44 12 0.24
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (43 bp):
TTATATATGAATTATATACAAACTACAGAATTTATATTATAAA
Found at i:2803363 original size:15 final size:15
Alignment explanation
Indices: 2803326--2803371 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2803316 ATTATAAATA
* *
2803326 ATATATATTGTATAA
1 ATATATATAGTATAT
*
2803341 AT-TATATAGTTTAT
1 ATATATATAGTATAT
2803355 ATATATATAGTATAT
1 ATATATATAGTATAT
2803370 AT
1 AT
2803372 GGTATAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
ATATATATAGTATAT
Found at i:2803491 original size:33 final size:32
Alignment explanation
Indices: 2803445--2803511 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
2803435 ATGTATATAC
*
2803445 TATATTTTATACTATTTACATAAACTATAGTT
1 TATATTTTATACTATATACATAAACTATAGTT
* *
2803477 TATATTTATATACTATATATATGAACTATAGTT
1 TATATTT-TATACTATATACATAAACTATAGTT
2803510 TA
1 TA
2803512 CATATAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 7 0.23
33 24 0.77
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.49
Consensus pattern (32 bp):
TATATTTTATACTATATACATAAACTATAGTT
Found at i:2803493 original size:20 final size:20
Alignment explanation
Indices: 2803421--2803604 Score: 79
Period size: 20 Copynumber: 9.3 Consensus size: 20
2803411 TATAAACTAC
* *
2803421 ATACTATAATTTATATGTAT
1 ATACTATAGTTTATATTTAT
*
2803441 ATACTATATTTTATACTATTTACAT
1 ATACTATA-GTT-TA-TATTT--AT
*
2803466 AAACTATAGTTTATATTTAT
1 ATACTATAGTTTATATTTAT
*
2803486 ATACTATA---TATA--T-G
1 ATACTATAGTTTATATTTAT
* * *
2803500 A-ACTATAGTTTACATATAA
1 ATACTATAGTTTATATTTAT
2803519 ACTA-TATAGTTTATA--TACT
1 A-TACTATAGTTTATATTTA-T
*
2803538 A-ACTATAGTTTACA--TAT
1 ATACTATAGTTTATATTTAT
* *
2803555 AAACTATAGTTGATATTTACAT
1 ATACTATAGTTTATATTT--AT
2803577 ATGAACTATAGTTTATATTTAT
1 AT--ACTATAGTTTATATTTAT
2803599 ATACTA
1 ATACTA
2803605 CATACTATAT
Statistics
Matches: 127, Mismatches: 15, Indels: 44
0.68 0.08 0.24
Matches are distributed among these distances:
13 6 0.05
14 1 0.01
15 1 0.01
16 3 0.02
17 7 0.06
18 26 0.20
19 2 0.02
20 32 0.25
21 3 0.02
22 14 0.11
23 6 0.05
24 17 0.13
25 9 0.07
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (20 bp):
ATACTATAGTTTATATTTAT
Found at i:2803516 original size:18 final size:18
Alignment explanation
Indices: 2803495--2803565 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 18
2803485 TATACTATAT
*
2803495 ATATGAACTATAGTTTAC
1 ATATAAACTATAGTTTAC
*
2803513 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAGTTTAC
2803533 ATACT-AACTATAGTTTAC
1 ATA-TAAACTATAGTTTAC
2803551 ATATAAACTATAGTT
1 ATATAAACTATAGTT
2803566 GATATTTACA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 1 0.02
18 29 0.63
20 15 0.33
21 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (18 bp):
ATATAAACTATAGTTTAC
Found at i:2803534 original size:38 final size:38
Alignment explanation
Indices: 2803483--2803591 Score: 130
Period size: 38 Copynumber: 2.8 Consensus size: 38
2803473 AGTTTATATT
* *
2803483 TATATACTATATATATGAACTATAGTTTACATATAAAC
1 TATATAATTTATATATGAACTATAGTTTACATATAAAC
*
2803521 TATATAGTTTATATACT-AACTATAGTTTACATATAAAC
1 TATATAATTTATATA-TGAACTATAGTTTACATATAAAC
*
2803559 TATAGTTGATATTTACATATGAACTATAGTTTA
1 TATA--T-A-ATTTATATATGAACTATAGTTTA
2803592 TATTTATATA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
38 38 0.62
39 1 0.02
40 1 0.02
41 2 0.03
42 19 0.31
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.42
Consensus pattern (38 bp):
TATATAATTTATATATGAACTATAGTTTACATATAAAC
Found at i:2803577 original size:24 final size:24
Alignment explanation
Indices: 2803541--2803624 Score: 96
Period size: 24 Copynumber: 3.3 Consensus size: 24
2803531 ATATACTAAC
2803541 TATAGTTTACATATAAACTATAGTT
1 TATA-TTTACATATAAACTATAGTT
* *
2803566 GATATTTACATATGAACTATAGTT
1 TATATTTACATATAAACTATAGTT
* *
2803590 TATATTTATATACTACATACTATATTT
1 TATATTTACATA-TA-A-ACTATAGTT
2803617 TATATTTA
1 TATATTTA
2803625 TATACTATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 29 0.58
25 4 0.08
26 1 0.02
27 16 0.32
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (24 bp):
TATATTTACATATAAACTATAGTT
Found at i:2803618 original size:27 final size:27
Alignment explanation
Indices: 2803581--2803641 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
2803571 TTACATATGA
*
2803581 ACTATAGTTTATATTTATATACTACAT
1 ACTATATTTTATATTTATATACTACAT
*
2803608 ACTATATTTTATATTTATATACTATAT
1 ACTATATTTTATATTTATATACTACAT
*
2803635 ATTATAT
1 ACTATAT
2803642 ATATAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (27 bp):
ACTATATTTTATATTTATATACTACAT
Found at i:2803620 original size:7 final size:7
Alignment explanation
Indices: 2803589--2803656 Score: 52
Period size: 7 Copynumber: 10.1 Consensus size: 7
2803579 GAACTATAGT
2803589 TTATAT-
1 TTATATA
2803595 TTATATA
1 TTATATA
* *
2803602 CTACATA
1 TTATATA
* *
2803609 CTATATT
1 TTATATA
2803616 TTATAT-
1 TTATATA
2803622 TTATATA
1 TTATATA
*
2803629 CTATATA
1 TTATATA
2803636 TTATATA
1 TTATATA
*
2803643 -TATAAA
1 TTATATA
*
2803649 CTATATA
1 TTATATA
2803656 T
1 T
2803657 ACTATATAGT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
6 17 0.35
7 32 0.65
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (7 bp):
TTATATA
Found at i:2803646 original size:20 final size:20
Alignment explanation
Indices: 2803590--2803669 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
2803580 AACTATAGTT
*
2803590 TATAT-TTATATACTACATAC
1 TATATATTATATA-TATATAC
* *
2803610 TATATTTTATATTTATATAC
1 TATATATTATATATATATAC
*
2803630 TATATATTATATATATAAAC
1 TATATATTATATATATATAC
2803650 TATATA-TACTATATAGTATA
1 TATATATTA-TATATA-TATA
2803670 ATTTACATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.04
20 40 0.78
21 9 0.18
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (20 bp):
TATATATTATATATATATAC
Found at i:2803662 original size:7 final size:7
Alignment explanation
Indices: 2803596--2803669 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
2803586 AGTTTATATT
2803596 TATATAC
1 TATATAC
*
2803603 TACATAC
1 TATATAC
**
2803610 TATATTT
1 TATATAC
*
2803617 TATAT-T
1 TATATAC
2803623 TATATAC
1 TATATAC
*
2803630 TATATAT
1 TATATAC
2803637 TATATA-
1 TATATAC
*
2803643 TATAAAC
1 TATATAC
2803650 TATATATAC
1 --TATATAC
*
2803659 TATATAG
1 TATATAC
2803666 TATA
1 TATA
2803670 ATTTACATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
6 11 0.20
7 37 0.69
9 6 0.11
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.47
Consensus pattern (7 bp):
TATATAC
Found at i:2803663 original size:36 final size:34
Alignment explanation
Indices: 2803623--2803691 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
2803613 ATTTTATATT
* *
2803623 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATA-ATT-TACATATAAACAATATATAC
* *
2803659 TATATAGTATAATTTACATATGAACAATATATA
1 TATATACTATAATTTACATATAAACAATATATA
2803692 AAAAGCCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 16 0.55
35 3 0.10
36 10 0.34
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (34 bp):
TATATACTATAATTTACATATAAACAATATATAC
Found at i:2803754 original size:17 final size:16
Alignment explanation
Indices: 2803732--2803804 Score: 51
Period size: 17 Copynumber: 4.4 Consensus size: 16
2803722 AACTATACAT
*
2803732 TATATAGTTTATTAGTA
1 TATATAGATTA-TAGTA
* *
2803749 TATATAAACTATATGATA
1 TATATAGATTATA-G-TA
2803767 TATATA-ATTATA-TA
1 TATATAGATTATAGTA
*
2803781 TTATATAGTTTATTAGTA
1 -TATATAGATTA-TAGTA
2803799 TATATA
1 TATATA
2803805 ACCTATATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 2 0.04
15 6 0.13
16 5 0.11
17 22 0.49
18 10 0.22
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.49
Consensus pattern (16 bp):
TATATAGATTATAGTA
Found at i:2803761 original size:24 final size:24
Alignment explanation
Indices: 2803734--2803811 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
2803724 CTATACATTA
2803734 TATAGTTTATTAGTATATATAAAC
1 TATAGTTTATTAGTATATATAAAC
* * *
2803758 TATATGATATATATAAT-TATATATTA-
1 TATA-G-TTTAT-TAGTATATATA-AAC
*
2803784 TATAGTTTATTAGTATATATAACC
1 TATAGTTTATTAGTATATATAAAC
2803808 TATA
1 TATA
2803812 TAGTATTTGG
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
23 3 0.07
24 18 0.44
25 2 0.05
26 14 0.34
27 4 0.10
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
TATAGTTTATTAGTATATATAAAC
Found at i:2803761 original size:26 final size:26
Alignment explanation
Indices: 2803732--2803914 Score: 109
Period size: 26 Copynumber: 7.2 Consensus size: 26
2803722 AACTATACAT
*
2803732 TATATAGTTTATTAGTATATATAAAC
1 TATATAGTATATTAGTATATATAAAC
* *
2803758 TATAT-G-ATA-TA-TATAATTATATAT
1 TATATAGTATATTAGTAT-A-TATAAAC
* *
2803782 TATATAGTTTATTAGTATATATAACC
1 TATATAGTATATTAGTATATATAAAC
* *
2803808 TATATAGTAT-TTGGTATATACAAAC
1 TATATAGTATATTAGTATATATAAAC
* *
2803833 TATATATTATA-TAGT-TCATTAGTATA-
1 TATATAGTATATTAGTAT-A-TA-TAAAC
* *
2803859 TATAAACTATA-TAGTATATATAAAC
1 TATATAGTATATTAGTATATATAAAC
* *
2803884 TATATATTA-ATTTATTA-ATATAAAC
1 TATATAGTATA-TTAGTATATATAAAC
2803909 ATATAT
1 -TATAT
2803915 TAATTGAAAG
Statistics
Matches: 121, Mismatches: 21, Indels: 30
0.70 0.12 0.17
Matches are distributed among these distances:
22 3 0.02
23 3 0.02
24 17 0.14
25 44 0.36
26 45 0.37
27 6 0.05
28 3 0.02
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (26 bp):
TATATAGTATATTAGTATATATAAAC
Found at i:2803835 original size:25 final size:26
Alignment explanation
Indices: 2803732--2803844 Score: 83
Period size: 25 Copynumber: 4.5 Consensus size: 26
2803722 AACTATACAT
* *
2803732 TATATAGTTTATTAGTATATATAAAC
1 TATATAGTATATTAGTATATACAAAC
* * *
2803758 TATAT-G-ATA-TA-TATAATTATATAT
1 TATATAGTATATTAGTAT-A-TACAAAC
* * *
2803782 TATATAGTTTATTAGTATATATAACC
1 TATATAGTATATTAGTATATACAAAC
*
2803808 TATATAGTAT-TTGGTATATACAAAC
1 TATATAGTATATTAGTATATACAAAC
*
2803833 TATATATTATAT
1 TATATAGTATAT
2803845 AGTTCATTAG
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
22 3 0.04
23 3 0.04
24 12 0.18
25 23 0.34
26 21 0.31
27 3 0.04
28 3 0.04
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (26 bp):
TATATAGTATATTAGTATATACAAAC
Found at i:2804058 original size:61 final size:61
Alignment explanation
Indices: 2803947--2804076 Score: 172
Period size: 61 Copynumber: 2.1 Consensus size: 61
2803937 AATAATGATC
* * * * * * *
2803947 AAATTGAACAAATTTTAAATATGAAGCTTTAATTAATAAATTGTAACATTAAATTTGGATT
1 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTGAAACATTAAATTTAGACT
*
2804008 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATATATT-AAATCATTAAATTTAGACT
1 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTGAAA-CATTAAATTTAGACT
2804069 AAATTGAA
1 AAATTGAA
2804077 TTAATTTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 2 0.03
61 58 0.97
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (61 bp):
AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTGAAACATTAAATTTAGACT
Found at i:2805697 original size:26 final size:26
Alignment explanation
Indices: 2805661--2805740 Score: 151
Period size: 26 Copynumber: 3.1 Consensus size: 26
2805651 GATGATCATG
2805661 TTTAATTCATTCTTATATTAACCGAC
1 TTTAATTCATTCTTATATTAACCGAC
2805687 TTTAATTCATTCTTATATTAACCGAC
1 TTTAATTCATTCTTATATTAACCGAC
*
2805713 TTTAATACATTCTTATATTAACCGAC
1 TTTAATTCATTCTTATATTAACCGAC
2805739 TT
1 TT
2805741 ATACTACTCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (26 bp):
TTTAATTCATTCTTATATTAACCGAC
Found at i:2806168 original size:23 final size:23
Alignment explanation
Indices: 2806142--2806195 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2806132 CTTAATGCAG
2806142 GATGCTTGCTGAATTGATACAAC
1 GATGCTTGCTGAATTGATACAAC
* * **
2806165 GATGCTTACTGAATTGGTACATT
1 GATGCTTGCTGAATTGATACAAC
2806188 GATGCTTG
1 GATGCTTG
2806196 TTGGTTATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (23 bp):
GATGCTTGCTGAATTGATACAAC
Found at i:2806837 original size:20 final size:21
Alignment explanation
Indices: 2806812--2806850 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2806802 GAATTGGAAT
2806812 TAATATAAAAATTA-AATTTA
1 TAATATAAAAATTATAATTTA
*
2806832 TAATATACAAATTATAATT
1 TAATATAAAAATTATAATT
2806851 AATATAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATATAAAAATTATAATTTA
Found at i:2806855 original size:18 final size:17
Alignment explanation
Indices: 2806809--2806859 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 17
2806799 TATGAATTGG
2806809 AATTAATATAAAAATTA
1 AATTAATATAAAAATTA
*
2806826 AATTTATAATATACAAATTA
1 AA--T-TAATATAAAAATTA
2806846 TAATTAATATAAAA
1 -AATTAATATAAAA
2806860 CTAAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 2 0.07
18 9 0.32
19 2 0.07
20 13 0.46
21 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTAATATAAAAATTA
Found at i:2806939 original size:51 final size:52
Alignment explanation
Indices: 2806862--2806959 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 52
2806852 ATATAAAACT
*
2806862 AAATTTCAAAAAAATAATCATATTAATTTGATTATCATAATAATTTATGATA
1 AAATTTCAAAAAAATAATCATATTAATTTAATTATCATAATAATTTATGATA
*
2806914 AAATTTC-AAAAAGTAAT-AGTATTAATTTAATTATCATAATAATTTA
1 AAATTTCAAAAAAATAATCA-TATTAATTTAATTATCATAATAATTTA
2806960 ATTATCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 1 0.02
51 35 0.81
52 7 0.16
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (52 bp):
AAATTTCAAAAAAATAATCATATTAATTTAATTATCATAATAATTTATGATA
Found at i:2806958 original size:17 final size:17
Alignment explanation
Indices: 2806936--2806969 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2806926 GTAATAGTAT
2806936 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
2806953 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
2806970 GTTTATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTTAATTATCATAA
Found at i:2811392 original size:2 final size:2
Alignment explanation
Indices: 2811385--2811415 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2811375 AAATGAAAAT
2811385 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 T
2811416 CATTATTGTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2820009 original size:74 final size:72
Alignment explanation
Indices: 2819920--2820098 Score: 270
Period size: 74 Copynumber: 2.5 Consensus size: 72
2819910 ACAAGTTAAA
** *
2819920 GCCTACAAACAGAAAGCCTATCATGCATGTGTATAAGTA-AAGAAATGAACGAGAGAAAACCAAC
1 GCCTACAAACAGAAAGCCTATCATGCATGCATAAAAGTACAA-AAATGAACGAGAGAAAACC-A-
2819984 ACACACTAAT
63 ACACACTAAT
* *
2819994 GCCTACAAACAGAAAGCCTATCATGCATGCATAAAAGTACAAAAATGAACTAGAGAAAACCAATA
1 GCCTACAAACAGAAAGCCTATCATGCATGCATAAAAGTACAAAAATGAACGAGAGAAAACCAACA
2820059 CACTAAT
66 CACTAAT
*
2820066 GCCCACAAACAGAAAGCCTATCATGCATGCATA
1 GCCTACAAACAGAAAGCCTATCATGCATGCATA
2820099 TATGTAAACA
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
72 41 0.42
73 1 0.01
74 54 0.55
75 2 0.02
ACGTcount: A:0.47, C:0.22, G:0.15, T:0.16
Consensus pattern (72 bp):
GCCTACAAACAGAAAGCCTATCATGCATGCATAAAAGTACAAAAATGAACGAGAGAAAACCAACA
CACTAAT
Found at i:2820121 original size:72 final size:73
Alignment explanation
Indices: 2819924--2820122 Score: 269
Period size: 72 Copynumber: 2.7 Consensus size: 73
2819914 GTTAAAGCCT
** *
2819924 ACAAACAGAAAGCCTATCATGCATGTGTATAAGTAAAGAAATGAACGAGAGAAAACCAACACACA
1 ACAAACAGAAAGCCTATCATGCATGCATATAAGTAAA-AAATGAATGAGAGAAAACCAACACACA
*
2819989 CTAATGCCT
65 CTAATGCCC
* *
2819998 ACAAACAGAAAGCCTATCATGCATGCATAAAAGTACAAAAATGAACT-AGAGAAAACC-A-ATAC
1 ACAAACAGAAAGCCTATCATGCATGCATATAAGTA-AAAAATGAA-TGAGAGAAAACCAACACAC
2820060 ACTAATGCCC
64 ACTAATGCCC
* *
2820070 ACAAACAGAAAGCCTATCATGCATGCATATATGTAAACAATGAATTGAGAGAA
1 ACAAACAGAAAGCCTATCATGCATGCATATAAGTAAAAAATGAA-TGAGAGAA
2820123 TAGCAGTACA
Statistics
Matches: 112, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
71 9 0.08
72 51 0.46
73 1 0.01
74 49 0.44
75 2 0.02
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (73 bp):
ACAAACAGAAAGCCTATCATGCATGCATATAAGTAAAAAATGAATGAGAGAAAACCAACACACAC
TAATGCCC
Found at i:2821008 original size:82 final size:82
Alignment explanation
Indices: 2820888--2821052 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
2820878 AAGGCCCCAC
2820888 GGTTCCAATTTATTTATTGCAATTTTTAAAACTACAATTATACTCAACACATATGTAACTAAGTA
1 GGTTCCAATTTATTTATTGCAATTTTTAAAACTACAATTATACTCAACACATATGTAACTAAGTA
2820953 AAATATTTTTGCAAAAT
66 AAATATTTTTGCAAAAT
2820970 GGTTCCAATTTATTTATTGCAATTTTTAAAACTACAATTATACTCAACACATATGTAACTAAGTA
1 GGTTCCAATTTATTTATTGCAATTTTTAAAACTACAATTATACTCAACACATATGTAACTAAGTA
2821035 AAATATTTTTGCAAAAT
66 AAATATTTTTGCAAAAT
2821052 G
1 G
2821053 CATCATTTCT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (82 bp):
GGTTCCAATTTATTTATTGCAATTTTTAAAACTACAATTATACTCAACACATATGTAACTAAGTA
AAATATTTTTGCAAAAT
Found at i:2823501 original size:15 final size:15
Alignment explanation
Indices: 2823481--2823548 Score: 136
Period size: 15 Copynumber: 4.5 Consensus size: 15
2823471 GTTATTAGAT
2823481 TTATTCAATTTTGAG
1 TTATTCAATTTTGAG
2823496 TTATTCAATTTTGAG
1 TTATTCAATTTTGAG
2823511 TTATTCAATTTTGAG
1 TTATTCAATTTTGAG
2823526 TTATTCAATTTTGAG
1 TTATTCAATTTTGAG
2823541 TTATTCAA
1 TTATTCAA
2823549 GTCAAGTTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (15 bp):
TTATTCAATTTTGAG
Found at i:2824345 original size:21 final size:20
Alignment explanation
Indices: 2824318--2824375 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
2824308 ATATCTTATT
2824318 AAAATGATTGATCCCTTTGA
1 AAAATGATTGATCCCTTTGA
* ** *
2824338 CCAAATGATCAATCCCCTTGA
1 -AAAATGATTGATCCCTTTGA
2824359 AAAATGATTGATCCCTT
1 AAAATGATTGATCCCTT
2824376 GGATTCTAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (20 bp):
AAAATGATTGATCCCTTTGA
Found at i:2824802 original size:22 final size:22
Alignment explanation
Indices: 2824767--2824820 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
2824757 ACAATATTGT
*
2824767 ATGAACATTAATGAACAATACC
1 ATGAACAATAATGAACAATACC
* * * *
2824789 GTGAACAATGATGAATAGTACC
1 ATGAACAATAATGAACAATACC
2824811 ATGAACAATA
1 ATGAACAATA
2824821 CCCGGATGTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (22 bp):
ATGAACAATAATGAACAATACC
Found at i:2825616 original size:31 final size:31
Alignment explanation
Indices: 2825601--2825702 Score: 195
Period size: 31 Copynumber: 3.3 Consensus size: 31
2825591 CTGAATAACC
2825601 TAGGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
*
2825632 TAGGTAAACAATCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
2825663 TAGGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
2825694 TAGGTAAAC
1 TAGGTAAAC
2825703 CCTCGACCCC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
TAGGTAAACAGTCCATATGTCCCGAAGAACA
Found at i:2826002 original size:21 final size:22
Alignment explanation
Indices: 2825971--2826014 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
2825961 GTTCATATAC
* *
2825971 ATATGTCATATATTCTTCACAT
1 ATATGTCATATATACATCACAT
2825993 ATAT-TCATATATACATCACAT
1 ATATGTCATATATACATCACAT
2826014 A
1 A
2826015 GCACATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATGTCATATATACATCACAT
Found at i:2828300 original size:2 final size:2
Alignment explanation
Indices: 2828293--2828337 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2828283 TCAAACTATT
2828293 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2828335 TA T
1 TA T
2828338 TCTTTATAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2829880 original size:22 final size:22
Alignment explanation
Indices: 2829841--2829887 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2829831 GGTATGAACT
* *
2829841 GTGATGAACAGTGCCGTGAAAA
1 GTGATGAACAATACCGTGAAAA
* *
2829863 GTGATGAACAATATCGTGAACA
1 GTGATGAACAATACCGTGAAAA
2829885 GTG
1 GTG
2829888 CCTGAATGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (22 bp):
GTGATGAACAATACCGTGAAAA
Found at i:2829961 original size:21 final size:22
Alignment explanation
Indices: 2829920--2829963 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2829910 TTTGTCAAAT
*
2829920 GGGAATCAATTCCTCTGCTACA
1 GGGAATCAATACCTCTGCTACA
*
2829942 GGGAATCGATACCT-TGCTACA
1 GGGAATCAATACCTCTGCTACA
2829963 G
1 G
2829964 TACTGCTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (22 bp):
GGGAATCAATACCTCTGCTACA
Found at i:2830697 original size:31 final size:31
Alignment explanation
Indices: 2830653--2830763 Score: 159
Period size: 31 Copynumber: 3.6 Consensus size: 31
2830643 CTATAAATTT
* *
2830653 CGAATAACCTAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
* * *
2830684 AGAAGAACATAGGTAAACAATCTATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
* *
2830715 CGTAGAATATAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
2830746 CGAAGAACATAGGTAAAC
1 CGAAGAACATAGGTAAAC
2830764 CCTCGACCCT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (31 bp):
CGAAGAACATAGGTAAACAGTCCATATGTCC
Found at i:2831063 original size:21 final size:22
Alignment explanation
Indices: 2831032--2831075 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
2831022 GTTCATATAC
* *
2831032 ATATGTCATATATTCTTCACAT
1 ATATGTCATATATACATCACAT
2831054 ATAT-TCATATATACATCACAT
1 ATATGTCATATATACATCACAT
2831075 A
1 A
2831076 GCACATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATGTCATATATACATCACAT
Found at i:2834435 original size:50 final size:50
Alignment explanation
Indices: 2834344--2834438 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
2834334 TAAAAATGCA
* ***
2834344 ATTTTTCAGAAAAAAGATCGATCCCTTTGTGTAAAGGATCAATCCCTTAT
1 ATTTTTCAGAAAAAAAATCGATCCCTTTGCAAAAAGGATCAATCCCTTAT
*
2834394 ATTTTTCA-AAAAATAAATCGATCCCTTTGCAAAAAGTATCAATCC
1 ATTTTTCAGAAAAA-AAATCGATCCCTTTGCAAAAAGGATCAATCC
2834439 ATTTTCTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 5 0.13
50 34 0.87
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (50 bp):
ATTTTTCAGAAAAAAAATCGATCCCTTTGCAAAAAGGATCAATCCCTTAT
Found at i:2835621 original size:15 final size:15
Alignment explanation
Indices: 2835601--2835630 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2835591 CTCCTATATT
2835601 AATTATTAACTAAAA
1 AATTATTAACTAAAA
*
2835616 AATTATTTACTAAAA
1 AATTATTAACTAAAA
2835631 TTTTTATTTA
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:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTATTAACTAAAA
Found at i:2837024 original size:18 final size:17
Alignment explanation
Indices: 2836970--2837018 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2836960 TTGGACTCCT
* *
2836970 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
2836988 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
2837006 AGTGCATTCGATG
1 AGTGCA-TCGATG
2837019 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:2837039 original size:64 final size:60
Alignment explanation
Indices: 2836970--2837149 Score: 175
Period size: 64 Copynumber: 2.8 Consensus size: 60
2836960 TTGGACTCCT
*
2836970 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGATGCA-T-AGAGTGCATCGATGCATGAA-TGCATTCGATGTTTGAATAAATCAG
* * * *
2837031 CCTGGTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATC
1 ---AGTGCATCGATGCATAGA--GTGCATCGATGCAT-GAATGCATTCGATGTTTGAA-TAAATC
2837096 AG
59 AG
*
2837098 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGCATCGATGCAT--AGAGTGCATCGATGCAT-GAATGCATTCGATGTTT
2837150 CAATTTATTC
Statistics
Matches: 98, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
62 2 0.02
63 1 0.01
64 85 0.87
65 2 0.02
66 6 0.06
67 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (60 bp):
AGTGCATCGATGCATAGAGTGCATCGATGCATGAATGCATTCGATGTTTGAATAAATCAG
Found at i:2837120 original size:19 final size:19
Alignment explanation
Indices: 2837096--2837146 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
2837086 TAATTAAATC
2837096 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
2837115 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
2837134 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
2837147 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:2837184 original size:21 final size:21
Alignment explanation
Indices: 2837160--2837199 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2837150 CAATTTATTC
2837160 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
2837181 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
2837200 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:2838193 original size:3 final size:3
Alignment explanation
Indices: 2838185--2838212 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2838175 ATTCGCAGCC
2838185 GGA GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA G
2838213 CACGAGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:2839753 original size:20 final size:20
Alignment explanation
Indices: 2839728--2839780 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
2839718 ACCCGACAGA
2839728 TGCATCGATGCATGGTCTTG
1 TGCATCGATGCATGGTCTTG
2839748 TGCATCGATGCATGGTCTTG
1 TGCATCGATGCATGGTCTTG
2839768 TGCATCGATGCAT
1 TGCATCGATGCAT
2839781 ATTCAAGGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (20 bp):
TGCATCGATGCATGGTCTTG
Found at i:2839839 original size:24 final size:23
Alignment explanation
Indices: 2839768--2839848 Score: 96
Period size: 24 Copynumber: 3.6 Consensus size: 23
2839758 CATGGTCTTG
*
2839768 TGCATCGATGCATATTCAAGGCA
1 TGCATCGATGCATATTCAAGGGA
* *
2839791 TGCATCGGTGC--A-TCATGCGGA
1 TGCATCGATGCATATTCAAG-GGA
2839812 TGCATCGATGCATATTCAAAGGGA
1 TGCATCGATGCATATTC-AAGGGA
2839836 TGCATCGATGCAT
1 TGCATCGATGCAT
2839849 TGTTAAGTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.08
21 13 0.27
23 11 0.23
24 18 0.38
25 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (23 bp):
TGCATCGATGCATATTCAAGGGA
Found at i:2839860 original size:44 final size:42
Alignment explanation
Indices: 2839748--2839868 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 42
2839738 CATGGTCTTG
* *
2839748 TGCATCGATGCATGGTCTTGTGCATCGATGCATATTCAAGGCA
1 TGCATCGATGCATTGT-TAGTGCATCGATGCATATTCAAGGCA
* ** *
2839791 TGCATCGGTGCATCATG-CGGATGCATCGATGCATATTCAAAGGGA
1 TGCATCGATGCAT--TGTTAG-TGCATCGATGCATATTC-AAGGCA
*
2839836 TGCATCGATGCATTGTTAAGTGCATCGGTGCAT
1 TGCATCGATGCATTGTT-AGTGCATCGATGCAT
2839869 TAAGCACAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
43 15 0.24
44 29 0.46
45 19 0.30
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (42 bp):
TGCATCGATGCATTGTTAGTGCATCGATGCATATTCAAGGCA
Found at i:2845692 original size:18 final size:17
Alignment explanation
Indices: 2845638--2845686 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2845628 TTGGACTCCT
* *
2845638 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
2845656 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
2845674 AGTGCATTCGATG
1 AGTGCA-TCGATG
2845687 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:2845726 original size:64 final size:62
Alignment explanation
Indices: 2845638--2845817 Score: 188
Period size: 64 Copynumber: 2.8 Consensus size: 62
2845628 TTGGACTCCT
* *
2845638 AGTGCATCGGTGCACT-AAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGATGCA-TGGAGAGTGCATCGATGCATGAA-TGCATTCGATGTTTGAATAAATCAG
* ** * *
2845699 CCTGGTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATC
1 ---AGTGCATCGATGCATGGAGAGTGCATCGATGCAT-GAATGCATTCGATGTTTGAA-TAAATC
2845764 AG
61 AG
2845766 AGTGCATCGATGCATGGAGAGTGCATC-AGTGCATGGAATGCATTCGATGTTT
1 AGTGCATCGATGCATGGAGAGTGCATCGA-TGCAT-GAATGCATTCGATGTTT
2845818 CAATTTATTC
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
63 2 0.02
64 88 0.90
65 2 0.02
66 4 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (62 bp):
AGTGCATCGATGCATGGAGAGTGCATCGATGCATGAATGCATTCGATGTTTGAATAAATCAG
Found at i:2845788 original size:19 final size:19
Alignment explanation
Indices: 2845764--2845814 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
2845754 TAATTAAATC
2845764 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
2845783 AGAGTGCATC-AGTGCATGG
1 AGAGTGCATCGA-TGCATGG
2845802 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
2845815 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:2845852 original size:21 final size:21
Alignment explanation
Indices: 2845828--2845867 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2845818 CAATTTATTC
2845828 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
2845849 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
2845868 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:2862968 original size:23 final size:24
Alignment explanation
Indices: 2862926--2862982 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
2862916 AATATATATA
2862926 TATATATAATACGTATAATGAATG
1 TATATATAATACGTATAATGAATG
* *
2862950 T-TATGATAATATG-ATAATGCATG
1 TATAT-ATAATACGTATAATGAATG
2862973 TATATATAAT
1 TATATATAAT
2862983 GTACACTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (24 bp):
TATATATAATACGTATAATGAATG
Found at i:2863031 original size:30 final size:33
Alignment explanation
Indices: 2862995--2863071 Score: 117
Period size: 30 Copynumber: 2.5 Consensus size: 33
2862985 ACACTGTACT
2862995 TATATTATAAGTATATAC-T-TAT-AATATAAG
1 TATATTATAAGTATATACTTATATAAATATAAG
2863025 TATATTATAAGTATATACTTATATAAATATAAG
1 TATATTATAAGTATATACTTATATAAATATAAG
*
2863058 TATAGTATAA-TATA
1 TATATTATAAGTATA
2863072 AGTATACACT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
30 18 0.42
31 1 0.02
32 7 0.16
33 17 0.40
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (33 bp):
TATATTATAAGTATATACTTATATAAATATAAG
Found at i:2863048 original size:19 final size:19
Alignment explanation
Indices: 2862991--2863029 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2862981 ATGTACACTG
*
2862991 TACTTATATTATAAGTATA
1 TACTTATAATATAAGTATA
2863010 TACTTATAATATAAGTATA
1 TACTTATAATATAAGTATA
2863029 T
1 T
2863030 TATAAGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
TACTTATAATATAAGTATA
Found at i:2863070 original size:22 final size:21
Alignment explanation
Indices: 2863030--2863101 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
2863020 ATAAGTATAT
*
2863030 TATAAGTATATACTTATATAAA
1 TATAAGTATATA-TAATATAAA
*
2863052 TATAAGTATAGTATAATATAAG
1 TATAAGTATA-TATAATATAAA
* *
2863074 TATACACTATACTTATAACATAAA
1 TATA-AGTATA--TATAATATAAA
2863098 TATA
1 TATA
2863102 GGATAAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 21 0.51
23 7 0.17
24 13 0.32
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.38
Consensus pattern (21 bp):
TATAAGTATATATAATATAAA
Found at i:2863145 original size:15 final size:15
Alignment explanation
Indices: 2863104--2863139 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
2863094 TAAATATAGG
*
2863104 ATAAATATATACTTAT
1 ATAAATATATA-ATAT
2863120 ATAAATATATAATAT
1 ATAAATATATAATAT
2863135 ATAAA
1 ATAAA
2863140 ACTATACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAATATATAATAT
Found at i:2863175 original size:18 final size:18
Alignment explanation
Indices: 2863108--2863188 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
2863098 TATAGGATAA
*
2863108 ATATATACTTATATA-AAT
1 ATATATACTTATA-ACTAT
*
2863126 ATATAATA-TATAAAACTAT
1 ATAT-ATACT-TATAACTAT
* * *
2863145 ACATTATATTTATAAGTAT
1 ATA-TATACTTATAACTAT
*
2863164 ATATATACTTATACCTAT
1 ATATATACTTATAACTAT
2863182 ATATATA
1 ATATATA
2863189 ATTACACACA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
18 25 0.51
19 22 0.45
20 2 0.04
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATATACTTATAACTAT
Found at i:2863215 original size:2 final size:2
Alignment explanation
Indices: 2863210--2863382 Score: 133
Period size: 2 Copynumber: 86.0 Consensus size: 2
2863200 ATACAAACAC
* * * * * *
2863210 AT AT AT AT AT A- AA AGT AT CT AT AT AT AG GT AT GT AT AT AA AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2863252 AT AT AT A- AGT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AGT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
2863294 AT AT AT GT AT GAT GT AC AT A- AGT AT AT AT AT AT AG GT AT A- AGT
1 AT AT AT AT AT -AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T
2863337 AT AT AT AT ACT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2863379 AT AT
1 AT AT
2863383 CATTAAACAT
Statistics
Matches: 136, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
1 6 0.04
2 122 0.90
3 8 0.06
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2863596 original size:40 final size:40
Alignment explanation
Indices: 2863552--2863653 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
2863542 AATATTTGTC
* *
2863552 AAAAATTAAAATTTTCCTCTTCAATTTTCTAAATTC-CTAA
1 AAAAATT-AAATTTTCCTCTTCAATCTTCTAAATTCTCAAA
* **
2863592 AAAAATTCAATTTTCACTCTTCCCTCTTCTAAATTCTCAAA
1 AAAAATTAAATTTTC-CTCTTCAATCTTCTAAATTCTCAAA
*
2863633 AAAAATTAATTTTTCCTCTTC
1 AAAAATTAAATTTTCCTCTTC
2863654 TAAATTTTGG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 7 0.13
40 30 0.57
41 16 0.30
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (40 bp):
AAAAATTAAATTTTCCTCTTCAATCTTCTAAATTCTCAAA
Found at i:2863805 original size:18 final size:19
Alignment explanation
Indices: 2863761--2863802 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
2863751 AAACTGGTTT
2863761 ATTTTAAACTGATGATTAA
1 ATTTTAAACTGATGATTAA
2863780 ATTTTAAACTGATGATTAA
1 ATTTTAAACTGATGATTAA
2863799 ATTT
1 ATTT
2863803 AAATATAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (19 bp):
ATTTTAAACTGATGATTAA
Found at i:2863984 original size:17 final size:18
Alignment explanation
Indices: 2863952--2863986 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2863942 ATTATTAATT
2863952 AATTCAAACATATAAATA
1 AATTCAAACATATAAATA
*
2863970 AATTC-AACTTATAAATA
1 AATTCAAACATATAAATA
2863987 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
AATTCAAACATATAAATA
Found at i:2864651 original size:33 final size:34
Alignment explanation
Indices: 2864605--2864687 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 34
2864595 GGGGGGGGGG
*
2864605 AATAGATACGAAATACAAGC-TTTTTTTACACCC
1 AATAAATACGAAATACAAGCTTTTTTTTACACCC
*
2864638 AATAAATATGAAATACAAGCTTTTTTTTTACACCC
1 AATAAATACGAAATACAAGC-TTTTTTTTACACCC
*
2864673 -ATACATACGAAATAC
1 AATAAATACGAAATAC
2864688 TCGAGCAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 18 0.41
34 13 0.30
35 13 0.30
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (34 bp):
AATAAATACGAAATACAAGCTTTTTTTTACACCC
Found at i:2869449 original size:165 final size:164
Alignment explanation
Indices: 2869152--2869811 Score: 802
Period size: 165 Copynumber: 4.0 Consensus size: 164
2869142 GGACTATATG
* * * * ** ** *
2869152 CCAAAGACCCTCGAGTTCGATTACACTCAGATTTGAAGGCATATCATTTACAGCATAACTTAAGT
1 CCAAAGACCTTCGAGTTCGACTACGCTCAG-CTCCAAGGCACGTCATTTGCAGCATAACTTAAGT
* * * * * * *
2869217 CCATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCACGGCACATC
65 CGATAAGGGCTATCTG----CCAAAGACC-TCGAGTTCAATTACACTCAGCTTCGAAGGCACATC
* * *
2869281 ATTTGCAGCATATCTTAAATCAAGAAAGGCTATCTGCCAA
125 ATTTGCAGCATAACTTAAGTCAAGAAAGGTTATCTGCCAA
* * * *
2869321 CCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGACACGTCATTTGCAGTATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACGTCATTTGCAGCATAACTTAAGTC
2869386 GATAAGGGCTATCTGCCAAAGACCATCGAGTTCAATTACACTCAGCTTCGAAGGCACATCATTTG
66 GATAAGGGCTATCTGCCAAAGACC-TCGAGTTCAATTACACTCAGCTTCGAAGGCACATCATTTG
*** * * *
2869451 CAGCATAACTTAAGTTGGGAAGGGTTATATTCCAA
130 CAGCATAACTTAAGTCAAGAAAGGTTATCTGCCAA
* * * * *
2869486 CCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAATC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACGTCATTTGCAGCATAACTTAAGTC
* * * *
2869551 GAGAAGGGCTATCTGCCAAAGACCCTCGAATTCAATTACACTCAGCTTCGAGGGCACAACATTTG
66 GATAAGGGCTATCTGCCAAAGA-CCTCGAGTTCAATTACACTCAGCTTCGAAGGCACATCATTTG
*
2869616 CAGCATAACTTAAGTCGAG-AAGAGTTATCTGCCAA
130 CAGCATAACTTAAGTCAAGAAAG-GTTATCTGCCAA
* *
2869651 CCAAAGACCTTCGAGCTCGACTACGCTCAGCTCCAAGGCACGTCATTTGCAGTATAACTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACGTCATTTGCAGCATAACTTAAGTC
* *
2869716 GATAAGGGCTATCTGCCAAAGACTCTCGAGTTCGATTACACTCAGCTTCGAAGACACATCATTTG
66 GATAAGGGCTATCTGCCAAAGAC-CTCGAGTTCAATTACACTCAGCTTCGAAGGCACATCATTTG
* *
2869781 CATCATAACTTAAGTCAAAAAAGGGTTATCT
130 CAGCATAACTTAAGTCAAGAAA-GGTTATCT
2869812 TAACTCTAAC
Statistics
Matches: 423, Mismatches: 62, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
164 30 0.07
165 316 0.75
166 11 0.03
167 1 0.00
168 39 0.09
169 26 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (164 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACGTCATTTGCAGCATAACTTAAGTC
GATAAGGGCTATCTGCCAAAGACCTCGAGTTCAATTACACTCAGCTTCGAAGGCACATCATTTGC
AGCATAACTTAAGTCAAGAAAGGTTATCTGCCAA
Found at i:2869691 original size:249 final size:244
Alignment explanation
Indices: 2869115--2869804 Score: 726
Period size: 249 Copynumber: 2.8 Consensus size: 244
2869105 ATAAATAAAC
* *
2869115 CATTTGCAGCATAGCTTAAGTCGAGAAGGACTATATGCCAAAGACCCTCGAGTTCGATTACACTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGG-CTATCTGCCAAAGACCATCGAGTTCGATTACACTC
* * * * * *
2869180 AGATTTGAAGGCATATCATTTACAGCATAACTTAAGTCCATAAGGGTTATCTGCCAACCAAAGAC
65 AG-CTCGAAGGCACATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATATGCCAACCAAAGAC
* * *
2869245 CTTCGAGTTCGACTACGCTCAGCTCCACGGCACATCATTTGCAGCATATCTTAAATCAAGAAAGG
129 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAATCAAGAAAGG
* * * ** **
2869310 CTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGACACGT
194 CTATCTG---ACCAAAGACCCTCGAATTCAACTACACTCAGCTCCAAGACACAA
* * *
2869364 CATTTGCAGTATAGCTTAAGTCGATAAGGGCTATCTGCCAAAGACCATCGAGTTCAATTACACTC
1 CATTTGCAGCATAGCTTAAGTCGAGAA-GGCTATCTGCCAAAGACCATCGAGTTCGATTACACTC
*** *
2869429 AGCTTCGAAGGCACATCATTTGCAGCATAACTTAAGTTGGGAAGGGTTATATTCCAACCAAAGAC
65 AGC-TCGAAGGCACATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATATGCCAACCAAAGAC
* * *
2869494 CTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAATCGAGAAGGG
129 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAATCAAGAAAGG
* * * *
2869559 CTATCTG-CCAAAGACCCTCGAATTCAATTACACTCAGCTTCGAGGGCACAA
194 CTATCTGACCAAAGACCCTCGAATTCAACTACACTCAGC-TCCAAGACACAA
* * * * *
2869610 CATTTGCAGCATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAAGACCTTCGAGCTCGACTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAG-GCTATCTG----CCAAAGACCATCGAGTTCGATTAC
* * * * * * * *
2869675 GCTCAGCTCCAAGGCACGTCATTTGCAGTATAACTTAAGTCGATAAGGGCTATCTG----CCAAA
61 ACTCAGCTCGAAGGCACATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATATGCCAACCAAA
* * * * * * * *
2869736 GA-CTCTCGAGTTCGATTACACTCAGCTTCGAAGACACATCATTTGCATCATAACTTAAGTCAAA
126 GACCT-TCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAACATAGCTTAAATCAAG
2869800 AAAGG
189 AAAGG
2869805 GTTATCTTAA
Statistics
Matches: 370, Mismatches: 61, Indels: 23
0.81 0.13 0.05
Matches are distributed among these distances:
244 2 0.01
245 51 0.14
246 72 0.19
249 217 0.59
250 28 0.08
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (244 bp):
CATTTGCAGCATAGCTTAAGTCGAGAAGGCTATCTGCCAAAGACCATCGAGTTCGATTACACTCA
GCTCGAAGGCACATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATATGCCAACCAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAATCAAGAAAGGCT
ATCTGACCAAAGACCCTCGAATTCAACTACACTCAGCTCCAAGACACAA
Found at i:2869994 original size:79 final size:79
Alignment explanation
Indices: 2869840--2869995 Score: 224
Period size: 79 Copynumber: 2.0 Consensus size: 79
2869830 GGTTCCGACA
* *
2869840 ATTATCATAACTAACCATTTATATTAACTTTTAAAGAGTAATCATATTAATTATCATAGTTTATT
1 ATTATCATAACTAACAATTTATATTAACTTTTAAAAAGTAATCATATTAATTATCATAGTTTATT
* *
2869905 TGATTGTCAAAAAT
66 TAAATGTCAAAAAT
* * * *
2869919 ATTATCGTAATTAACAATTTGTTTTAACTTTTAAAAAGTAATCATATTAATTATCATAGTTTATT
1 ATTATCATAACTAACAATTTATATTAACTTTTAAAAAGTAATCATATTAATTATCATAGTTTATT
2869984 ATAAAT-TCAAAA
66 -TAAATGTCAAAA
2869996 TATCACAACT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 65 0.96
80 3 0.04
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.44
Consensus pattern (79 bp):
ATTATCATAACTAACAATTTATATTAACTTTTAAAAAGTAATCATATTAATTATCATAGTTTATT
TAAATGTCAAAAAT
Found at i:2870104 original size:16 final size:16
Alignment explanation
Indices: 2870091--2870128 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2870081 CAATTACAGA
2870091 TCAGGTTTATTACAAG
1 TCAGGTTTATTACAAG
* *
2870107 TCAGGTTGATAACAAG
1 TCAGGTTTATTACAAG
2870123 TCAGGT
1 TCAGGT
2870129 AATATCAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (16 bp):
TCAGGTTTATTACAAG
Found at i:2872674 original size:19 final size:20
Alignment explanation
Indices: 2872629--2872675 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
2872619 GATCAAATAA
*
2872629 TTTT-TATAATTATTTATAG
1 TTTTATATAATTATTTATAC
**
2872648 TTAAATATAA-TATTTATAC
1 TTTTATATAATTATTTATAC
2872667 TTTTATATA
1 TTTTATATA
2872676 CAATTTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTATATAATTATTTATAC
Found at i:2873781 original size:15 final size:14
Alignment explanation
Indices: 2873757--2873790 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2873747 CGTCAGATTG
*
2873757 AAAAAAATAATAAA
1 AAAAAAATAAGAAA
2873771 AAAAAACATAAGAAA
1 AAAAAA-ATAAGAAA
2873786 AAAAA
1 AAAAA
2873791 CTAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (14 bp):
AAAAAAATAAGAAA
Found at i:2875128 original size:16 final size:16
Alignment explanation
Indices: 2875109--2875166 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
2875099 AGAAATGATT
2875109 AAAAAAATAATTAAT-
1 AAAAAAATAATTAATA
*
2875124 AAAAAAATAAGTAATA
1 AAAAAAATAATTAATA
*
2875140 AAAAAAATAATAAATA
1 AAAAAAATAATTAATA
* *
2875156 ACAATAATAAT
1 AAAAAAATAAT
2875167 GCATAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 14 0.38
16 23 0.62
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAAAAATAATTAATA
Found at i:2875280 original size:43 final size:40
Alignment explanation
Indices: 2875182--2875280 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 40
2875172 AATAAAAGTA
** *
2875182 TTTTTTAAAAAC--TATATAATATAACTTTTTAAAAAGGT
1 TTTTTTAAAAACTATATATAATATAAAATTTCAAAAAGGT
* *
2875220 TTTTTAAAAAACTATATATTATATATAAAATTTCAAAAATGTT
1 TTTTTTAAAAACTATATA-TA-ATATAAAATTTCAAAAA-GGT
2875263 TTTTTTAAAAACTATATA
1 TTTTTTAAAAACTATATA
2875281 ATTTTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 11 0.22
40 4 0.08
41 2 0.04
42 14 0.28
43 19 0.38
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (40 bp):
TTTTTTAAAAACTATATATAATATAAAATTTCAAAAAGGT
Found at i:2875287 original size:17 final size:17
Alignment explanation
Indices: 2875265--2875325 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
2875255 AAAATGTTTT
*
2875265 TTTTAAAAACTATATAA
1 TTTTAAAAAATATATAA
* * *
2875282 TTTTAAAAAAAATGT-T
1 TTTTAAAAAATATATAA
*
2875298 TTTTAAAAATTATATAA
1 TTTTAAAAAATATATAA
*
2875315 TTTTCAAAAAT
1 TTTTAAAAAAT
2875326 GTTTTCAAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
16 12 0.36
17 21 0.64
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTTAAAAAATATATAA
Found at i:2875290 original size:32 final size:33
Alignment explanation
Indices: 2875254--2875330 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
2875244 ATAAAATTTC
2875254 AAAAATGTTTTTTTTAAAAACTATATAATTTTA
1 AAAAATGTTTTTTTTAAAAACTATATAATTTTA
** * * *
2875287 AAAAAAATGTTTTTTAAAAATTATATAATTTTC
1 AAAAATGTTTTTTTTAAAAACTATATAATTTTA
2875320 AAAAATGTTTT
1 AAAAATGTTTT
2875331 CAAAAATCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (33 bp):
AAAAATGTTTTTTTTAAAAACTATATAATTTTA
Found at i:2875413 original size:39 final size:38
Alignment explanation
Indices: 2875306--2875573 Score: 277
Period size: 37 Copynumber: 7.2 Consensus size: 38
2875296 TTTTTTAAAA
* *
2875306 ATTATATAA-TTTTCAAAAATGTTTTCAAAAATCATAT
1 ATTATATAAGTTTTCAAAAATGTTTTTAAAAATTATAT
* *
2875343 ATTATATAAGTTTTCAAAAATATTTTCAAAAATTATAT
1 ATTATATAAGTTTTCAAAAATGTTTTTAAAAATTATAT
*
2875381 ATTATATAAGTTTTAAAAAAATGTTTTTAAAAATTATAT
1 ATTATATAAGTTTT-CAAAAATGTTTTTAAAAATTATAT
* **
2875420 ATTATATAAGTTTTC-AAAATGATTTTAAAAATCCTAT
1 ATTATATAAGTTTTCAAAAATGTTTTTAAAAATTATAT
* *
2875457 ATTATAT-A-TTTTCCTAAAAT-ATTTTAAAAATTATAT
1 ATTATATAAGTTTT-CAAAAATGTTTTTAAAAATTATAT
* * * **
2875493 ATTATA-CAGTTTTTAAAAGTG-TTTTAAAAACCATAT
1 ATTATATAAGTTTTCAAAAATGTTTTTAAAAATTATAT
* *
2875529 ATTATATTCA-TTTTC-AAAAGGTTTTTAGAAAA-TATAT
1 ATTATA-TAAGTTTTCAAAAATGTTTTTA-AAAATTATAT
2875566 ATTATATA
1 ATTATATA
2875574 CGTATTTTCA
Statistics
Matches: 199, Mismatches: 21, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
35 4 0.02
36 51 0.26
37 63 0.32
38 46 0.23
39 35 0.18
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (38 bp):
ATTATATAAGTTTTCAAAAATGTTTTTAAAAATTATAT
Found at i:2875671 original size:2 final size:2
Alignment explanation
Indices: 2875659--2875713 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
2875649 TGTCTACAAT
*
2875659 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2875701 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
2875714 GAGATACATC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2875841 original size:37 final size:37
Alignment explanation
Indices: 2875791--2875882 Score: 166
Period size: 37 Copynumber: 2.5 Consensus size: 37
2875781 AAAAAATTGG
*
2875791 AAATATACATTCAAATGGCATTCTACATGTTCTATGA
1 AAATATACATTCAAATGACATTCTACATGTTCTATGA
*
2875828 AAATATAAATTCAAATGACATTCTACATGTTCTATGA
1 AAATATACATTCAAATGACATTCTACATGTTCTATGA
2875865 AAATATACATTCAAATGA
1 AAATATACATTCAAATGA
2875883 TATTTAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (37 bp):
AAATATACATTCAAATGACATTCTACATGTTCTATGA
Found at i:2875873 original size:19 final size:19
Alignment explanation
Indices: 2875814--2875874 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
2875804 AATGGCATTC
2875814 TACATGTTCTATGAAAATA
1 TACATGTTCTATGAAAATA
* * * * *
2875833 TA-A-ATTCAAATGACATTC
1 TACATGTTC-TATGAAAATA
2875851 TACATGTTCTATGAAAATA
1 TACATGTTCTATGAAAATA
2875870 TACAT
1 TACAT
2875875 TCAAATGATA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
17 3 0.10
18 9 0.31
19 14 0.48
20 3 0.10
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (19 bp):
TACATGTTCTATGAAAATA
Found at i:2876003 original size:28 final size:28
Alignment explanation
Indices: 2875970--2876060 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
2875960 AAAAAAATAC
2875970 ATATATGTAGTTTACCACAGAGACCATA
1 ATATATGTAGTTTACCACAGAGACCATA
* * ** *
2875998 ATATATGAAATTATTATAACTA-A-A-AATA
1 ATATATG-TAGT-TTACCAC-AGAGACCATA
2876026 CATATATGTAGTTTACCACAGAGACCATA
1 -ATATATGTAGTTTACCACAGAGACCATA
2876055 ATATAT
1 ATATAT
2876061 AAAATTATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
26 1 0.02
27 6 0.13
28 19 0.41
29 13 0.28
30 6 0.13
31 1 0.02
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (28 bp):
ATATATGTAGTTTACCACAGAGACCATA
Found at i:2876028 original size:57 final size:58
Alignment explanation
Indices: 2875962--2876093 Score: 239
Period size: 57 Copynumber: 2.3 Consensus size: 58
2875952 TTAATATGAA
*
2875962 AAAAATACATATATGTAGTTTACCACAGAGACCATAATATATGAAATTA-TTATAACT
1 AAAAATACATATATGTAGTTTACCACAGAGACCATAATATATAAAATTATTTATAACT
2876019 AAAAATACATATATGTAGTTTACCACAGAGACCATAATATATAAAATTATTTATAACT
1 AAAAATACATATATGTAGTTTACCACAGAGACCATAATATATAAAATTATTTATAACT
*
2876077 ACAAATACATATATGTA
1 AAAAATACATATATGTA
2876094 ACATCATGTT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 48 0.67
58 24 0.33
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (58 bp):
AAAAATACATATATGTAGTTTACCACAGAGACCATAATATATAAAATTATTTATAACT
Found at i:2876965 original size:28 final size:28
Alignment explanation
Indices: 2876912--2876965 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
2876902 TTTATTTTGC
*
2876912 TTATACTTTTATATATTATTATATATGT
1 TTATACTTTTATATATTATTAAATATGT
* *
2876940 TTATAGTTTTA-ATAATTTTTAAATAT
1 TTATACTTTTATAT-ATTATTAAATAT
2876966 TAATAGTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 20 0.91
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (28 bp):
TTATACTTTTATATATTATTAAATATGT
Found at i:2878080 original size:23 final size:23
Alignment explanation
Indices: 2878054--2878098 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2878044 CACCACAGCT
*
2878054 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
2878077 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2878099 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:2879958 original size:21 final size:21
Alignment explanation
Indices: 2879934--2879978 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2879924 TTTTGTTCGT
* *
2879934 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2879955 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2879976 TTG
1 TTG
2879979 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2881132 original size:42 final size:42
Alignment explanation
Indices: 2881085--2881170 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
2881075 AATATTATGC
2881085 ATCATTCCATTTATTCTGGTAAAAATGAATCCTCTTAAAGAA
1 ATCATTCCATTTATTCTGGTAAAAATGAATCCTCTTAAAGAA
2881127 ATCATTCCATTTATTCTGGTAAAAATGAATCCTCTTAAAGAA
1 ATCATTCCATTTATTCTGGTAAAAATGAATCCTCTTAAAGAA
2881169 AT
1 AT
2881171 AAGTGTTATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (42 bp):
ATCATTCCATTTATTCTGGTAAAAATGAATCCTCTTAAAGAA
Found at i:2884415 original size:31 final size:31
Alignment explanation
Indices: 2884357--2884481 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
2884347 CCCGAAGGAC
* * *
2884357 CAGTCCATA-GATTCCGAAAAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
2884388 CAGTTCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
2884419 TAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2884450 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2884481 C
1 C
2884482 CCTCGACCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2885302 original size:64 final size:64
Alignment explanation
Indices: 2885136--2885359 Score: 229
Period size: 64 Copynumber: 3.5 Consensus size: 64
2885126 TAATGAAGGT
* * ** * **
2885136 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAATATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGTATTCGATGTATTATTATTAATGGG
* **
2885200 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGTATTCGATGT-TTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGTATTCGATGTATT-ATTATTAATGGG
* * * * **
2885264 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTTGATGTCTTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGTATTCGATGT-ATTATTATTAATGGG
** *
2885327 AGTGCATCGATGCACTACCAATGCATCGGTGCA
1 A-TGCATCGATGCACTACTTATGCATCGATGCA
2885360 CATTCAAACA
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
63 3 0.02
64 128 0.94
65 3 0.02
66 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGTATTCGATGTATTATTATTAATGGG
Found at i:2893617 original size:3 final size:3
Alignment explanation
Indices: 2893611--2893642 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2893601 CCTTTTAGTG
2893611 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2893643 TGAGTGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2909369 original size:64 final size:63
Alignment explanation
Indices: 2909253--2909395 Score: 171
Period size: 64 Copynumber: 2.3 Consensus size: 63
2909243 ATAGGTTGTG
* ** * *
2909253 TGCATCGATGCA-CTCTTAAATAAGGAACATCGAATGTCATTAATGCATCGATGCATAAGGAC
1 TGCATCGATGCACCTGTTAAATAACAAACATCGAATGACATTAATGCACCGATGCATAAGGAC
* * * * * *
2909315 TGCATCGATGCACCTGTTTAATATACAAACATCGAATGAGATTTATGTACCGATGCATAAGTAG
1 TGCATCGATGCACCTGTTAAATA-ACAAACATCGAATGACATTAATGCACCGATGCATAAGGAC
2909379 TGCATCGATGCACCTGT
1 TGCATCGATGCACCTGT
2909396 CAAGGGATGC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 12 0.18
63 8 0.12
64 48 0.71
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCACCTGTTAAATAACAAACATCGAATGACATTAATGCACCGATGCATAAGGAC
Found at i:2909969 original size:18 final size:19
Alignment explanation
Indices: 2909944--2910001 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
2909934 TCGAGGGATA
2909944 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
* * *
2909963 A-CAGTGGTTCTTCGGAATA
1 ATCAGTGGTCCTTCGGGA-C
2909982 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
2910001 A
1 A
2910002 AATATTCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 14 0.45
19 3 0.10
20 14 0.45
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGGAC
Found at i:2917349 original size:23 final size:22
Alignment explanation
Indices: 2917307--2917390 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
2917297 ATAGGGCAGA
* *
2917307 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATTCCCCCTTGAAG
2917329 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC-TTGAAG
* * *
2917352 GGGAACCGATTCCCCCCTGTAT
1 GGGAACCGATTCCCCCTTGAAG
* *
2917374 GGGAATCGATACCCCCT
1 GGGAACCGATTCCCCCT
2917391 GGGGTTTCTG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
22 31 0.58
23 22 0.42
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.20
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTTGAAG
Found at i:2920390 original size:64 final size:64
Alignment explanation
Indices: 2920308--2920528 Score: 229
Period size: 64 Copynumber: 3.5 Consensus size: 64
2920298 TTAAAGGTGT
* * * ** * *
2920308 ATCGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTG
1 ATCGATGCATAAGCAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATTAGTG
2920371 C
64 C
*
2920372 ATCGATGCATAA-CTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGC-AGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
* *
2920436 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAA-ACAAACATCGAATGCATTTTA-T
1 ATCGATGCATAA-GCAGTGCATCGATGCATCCCATTAATAAGA-AAACATCGAATGCA-ATTAGT
2920498 GC
63 GC
* * *
2920500 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGCAGTGCATCGATGCAT
2920529 ACCTTCATTA
Statistics
Matches: 135, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
63 2 0.01
64 123 0.91
65 9 0.07
66 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (64 bp):
ATCGATGCATAAGCAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
Found at i:2921449 original size:103 final size:103
Alignment explanation
Indices: 2921265--2921482 Score: 364
Period size: 103 Copynumber: 2.1 Consensus size: 103
2921255 GTCGAGGGTC
* *
2921265 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGAACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
* *
2921330 TTGATCCTTGGCATATGTATATGATTCTTAAAGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
* *
2921368 TATGTGGTCCTTCAGAACATATATGTATTCTTTGGAACATGTGTGAAGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCAGAACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
* *
2921433 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
2921471 TATGTGGTCCTT
1 TATGTGGTCCTT
2921483 ATGGACATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAGAACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
Found at i:2921534 original size:23 final size:23
Alignment explanation
Indices: 2921508--2921564 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
2921498 TGGCACTACA
2921508 GTGCAATTCTACGCAGCACTCCG
1 GTGCAATTCTACGCAGCACTCCG
** *
2921531 GTGCAATTCTACGTGGCACTTCG
1 GTGCAATTCTACGCAGCACTCCG
2921554 GTGCAATTCTA
1 GTGCAATTCTA
2921565 TGAGCTGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (23 bp):
GTGCAATTCTACGCAGCACTCCG
Found at i:2925879 original size:21 final size:21
Alignment explanation
Indices: 2925853--2925908 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
2925843 TTCTGGGCAG
2925853 AGTGCATCGATGCACATTCAT
1 AGTGCATCGATGCACATTCAT
2925874 AGTGCATCGATGCACATTCAT
1 AGTGCATCGATGCACATTCAT
2925895 AGTGCATCGATGCA
1 AGTGCATCGATGCA
2925909 TCAAGGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (21 bp):
AGTGCATCGATGCACATTCAT
Found at i:2926028 original size:64 final size:64
Alignment explanation
Indices: 2925957--2926163 Score: 199
Period size: 64 Copynumber: 3.2 Consensus size: 64
2925947 ATACACAGGA
** * *
2925957 AGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTGCATCGATGCAGAAG
1 AGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATTAGTGCATCGATGCAGAAG
2926020 T
64 T
* * * *
2926021 AGTGCATCGATGCATCCCATTAATAAGGAAACATTGAATGCAATTAGTGCATCGATGCATAAGGC
1 AGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGCATCGATGCAGAA-GT
* * * * * **
2926086 A-TGCATTGATACATCCCAGTAATAA-ACAAACATCGAATGCATTTTA-TGCACCGATGCATCAG
1 AGTGCATCGATGCATCCCATTAATAAGA-AAACATCGAATGCA-ATTAGTGCATCGATGCAGAAG
2926148 T
64 T
2926149 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
2926164 ACCTTCATTA
Statistics
Matches: 118, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
63 2 0.02
64 106 0.90
65 10 0.08
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
AGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGCATCGATGCAGAAGT
Found at i:2927125 original size:103 final size:103
Alignment explanation
Indices: 2926900--2927117 Score: 384
Period size: 103 Copynumber: 2.1 Consensus size: 103
2926890 GTCGAGGGTC
*
2926900 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
1 TATGTGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
2926965 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
2927003 TATGTGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCT-GTTGAGACACATA
1 TATGTGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAG-TGAGACACATA
*
2927067 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
65 CTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
2927106 TATGTGGTTCTT
1 TATGTGGTTCTT
2927118 ATGGACATTA
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
102 1 0.01
103 109 0.99
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:2927167 original size:23 final size:23
Alignment explanation
Indices: 2927134--2927196 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2927124 ATTATTATAT
2927134 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
2927157 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
2927180 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
2927197 ATATGAGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:2927803 original size:20 final size:20
Alignment explanation
Indices: 2927778--2927824 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2927768 GGAGCAAGAC
2927778 AGGTCAGTTCTCCTTACCAA
1 AGGTCAGTTCTCCTTACCAA
*
2927798 AGGTCAGTTCTCCTTACTAA
1 AGGTCAGTTCTCCTTACCAA
2927818 AGGTCAG
1 AGGTCAG
2927825 ATCAGAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (20 bp):
AGGTCAGTTCTCCTTACCAA
Found at i:2934240 original size:36 final size:34
Alignment explanation
Indices: 2934079--2934243 Score: 111
Period size: 36 Copynumber: 4.7 Consensus size: 34
2934069 CAAAACAACC
*
2934079 ATCTTTGA-TCGTTTCTCTTGAAACAAATCTTATT
1 ATCTTTGAGTCGTTTCTCTTGAAACAAATTTTA-T
* * * * **
2934113 TTCCTTGAGACTGTTTCTCATGAAAC-AA-TAAAT
1 ATCTTTGAGTC-GTTTCTCTTGAAACAAATTTTAT
* * **
2934146 ATCTTTGAGATCGTTTCCCTTGAAACGAATTTGGT
1 ATCTTTGAG-TCGTTTCTCTTGAAACAAATTTTAT
* * * *
2934181 CTCTCTTGAGACAATTTCACTTGAAACAAATTTTAT
1 ATCT-TTGAGTC-GTTTCTCTTGAAACAAATTTTAT
2934217 AATCTTTGAGTCGGTTTCTCTTGAAAC
1 -ATCTTTGAGTC-GTTTCTCTTGAAAC
2934244 CATTATCCCT
Statistics
Matches: 96, Mismatches: 27, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
33 20 0.21
34 10 0.10
35 9 0.09
36 54 0.56
37 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (34 bp):
ATCTTTGAGTCGTTTCTCTTGAAACAAATTTTAT
Found at i:2934511 original size:135 final size:134
Alignment explanation
Indices: 2934248--2934545 Score: 420
Period size: 135 Copynumber: 2.2 Consensus size: 134
2934238 TGAAACCATT
* * * * *
2934248 ATCCCTAAAGATGGCCAGAACTCTACATCGCGGATGAGCAGTGTCATCCCCCGACCAGATTTCCC
1 ATCCCTAAAGATGGCCAGAACTCTTCATCACGAATAAGCAATGTCATCCCCCGACCAGATTTCCC
*
2934313 CAACAGAGAGGAACCGTATCAACCTCAAATAACTAGCTGTCCCCAACAGAGTGGAACCGTGTTAT
66 CAACAGAGAGGAACCGTATCAACCTCAAATAACCAGCTGTCCCCAACAGAGTGGAACCGTGTTAT
2934378 CATC
131 CATC
*
2934382 ATCCCTAAAGATGGCCAAGAACTCTTCATCACGAATAAGTAATGTCATCCCCCGACCAGATTTCC
1 ATCCCTAAAGATGGCC-AGAACTCTTCATCACGAATAAGCAATGTCATCCCCCGACCAGATTTCC
* * * * * *
2934447 CTAGCAGAGTGGAACCGTGTCAACCTCAGATAACCAG-TCGTCCCCAGCAGAGTGGAATCC-TGT
65 CCAACAGAGAGGAACCGTATCAACCTCAAATAACCAGCT-GTCCCCAACAGAGTGGAA-CCGTGT
2934510 TATCATC
128 TATCATC
* *
2934517 ATTCTTAAAGATGGCCAGAACTCTTCATC
1 ATCCCTAAAGATGGCCAGAACTCTTCATC
2934546 GCGCATGAGT
Statistics
Matches: 146, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
134 30 0.21
135 114 0.78
136 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (134 bp):
ATCCCTAAAGATGGCCAGAACTCTTCATCACGAATAAGCAATGTCATCCCCCGACCAGATTTCCC
CAACAGAGAGGAACCGTATCAACCTCAAATAACCAGCTGTCCCCAACAGAGTGGAACCGTGTTAT
CATC
Found at i:2936707 original size:15 final size:15
Alignment explanation
Indices: 2936687--2936720 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2936677 CCCGACAGAG
2936687 GATTGCTAATTTTGA
1 GATTGCTAATTTTGA
2936702 GATTGCTAATTTTGA
1 GATTGCTAATTTTGA
2936717 GATT
1 GATT
2936721 TCTTTTCGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (15 bp):
GATTGCTAATTTTGA
Found at i:2945062 original size:32 final size:32
Alignment explanation
Indices: 2945026--2945133 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 32
2945016 AGGTAAACTT
2945026 TTAATTCTAAT-TTCTTAATTTTAAATAAAACA
1 TTAATT-TAATCTTCTTAATTTTAAATAAAACA
* * * *
2945058 TTAATTTCATCTT-TAAATCTTAGATAAAACA
1 TTAATTTAATCTTCTTAATTTTAAATAAAACA
* *
2945089 TT-ATTTAAATCTTC-TAATTTTTAAAAAAAATA
1 TTAATTT-AATCTTCTTAA-TTTTAAATAAAACA
*
2945121 TTAATTTACTCTT
1 TTAATTTAATCTT
2945134 TAAACTCGAC
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
30 4 0.07
31 27 0.45
32 25 0.42
33 4 0.07
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.47
Consensus pattern (32 bp):
TTAATTTAATCTTCTTAATTTTAAATAAAACA
Found at i:2947276 original size:2 final size:2
Alignment explanation
Indices: 2947269--2947343 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
2947259 TATATGAAAT
2947269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2947311 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 T
2947344 GTGCATATAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2950575 original size:16 final size:16
Alignment explanation
Indices: 2950549--2950586 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
2950539 TCTACTAAAG
2950549 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
2950566 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
2950582 CATGT
1 CATGT
2950587 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:2960579 original size:8 final size:8
Alignment explanation
Indices: 2960566--2960621 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
2960556 AAAATGAGTG
2960566 AAAAAATA
1 AAAAAATA
2960574 AAAAAATA
1 AAAAAATA
*
2960582 ATAAAATA
1 AAAAAATA
*
2960590 ATAAAATGA
1 AAAAAAT-A
2960599 AAAATGAA-A
1 AAAA--AATA
2960608 AAAAAATA
1 AAAAAATA
2960616 AAAAAA
1 AAAAAA
2960622 ATGAGGGTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 2 0.05
8 29 0.69
9 9 0.21
11 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (8 bp):
AAAAAATA
Found at i:2960601 original size:23 final size:23
Alignment explanation
Indices: 2960575--2960618 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2960565 GAAAAAATAA
*
2960575 AAAAAT-AATAAAATAATAAAATG
1 AAAAATGAA-AAAAAAATAAAATG
2960598 AAAAATGAAAAAAAAATAAAA
1 AAAAATGAAAAAAAAATAAAA
2960619 AAAATGAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (23 bp):
AAAAATGAAAAAAAAATAAAATG
Found at i:2962221 original size:55 final size:55
Alignment explanation
Indices: 2961621--2962202 Score: 916
Period size: 55 Copynumber: 10.6 Consensus size: 55
2961611 AAGTTTCCCA
*
2961621 ACGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
*
2961676 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
* * * *
2961731 GCGATTGATGAATATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
* * *
2961784 GCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGCCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
*
2961839 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATA-GGGGGCAGAC
* *
2961895 ACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCGGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
* * *
2961950 GCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
* * *
2962005 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGGGTAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
* *
2962060 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
* * *
2962115 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
* *
2962170 ACGATTGTTGAAGATTGTTCGAGTTTTACACTC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTC
2962203 CCTAGAGAAA
Statistics
Matches: 490, Mismatches: 34, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
53 48 0.10
54 2 0.00
55 388 0.79
56 52 0.11
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
Done.