Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008610.1 Hibiscus syriacus cultivar Beakdansim tig00111566_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: 2108335
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 11
Found at i:1254375 original size:134 final size:134
Alignment explanation
Indices: 1254210--1254929 Score: 897
Period size: 134 Copynumber: 5.4 Consensus size: 134
1254200 TAATAAATTA
*
1254210 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
1254275 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATATATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
1254340 ATAT
131 ATAT
* *
1254344 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATA----CAACTACA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA-A
** ** * *
1254405 AT-AATAAAT-C-AATCCATTTTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAA
65 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAA
1254466 ATCAATCCATAT
123 ATCAATCCATAT
* *
1254478 TTTAAAATAAATCAATCCATACTAATAAATTTTTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* *** * *
1254543 TCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA-TTTTAAAATAAATCAATTC-AT
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AAT-AAATCAAT
*
1254606 ACTAATAAATT
129 -C-CAT--A-T
*
1254617 ATTTAAAATAAATCAATCTATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATA
1 -TTTAAAATAAATCAATCTATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
*
1254675 AATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTAC---AATAAATCAAT
64 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAAT
1254737 CCATAT
129 CCATAT
* * *
1254743 TTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* *
1254808 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
1254873 ATAT
131 ATAT
1254877 TTTAAAATAAATCAAT-TCATACTAATAAATTATTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCT-ATACTAATAAATTATTTAAAATAAATCAATCCATA
1254930 CAACTACAAT
Statistics
Matches: 506, Mismatches: 43, Indels: 74
0.81 0.07 0.12
Matches are distributed among these distances:
125 23 0.05
126 3 0.01
127 2 0.00
128 31 0.06
129 6 0.01
130 15 0.03
131 83 0.16
132 1 0.00
134 259 0.51
135 8 0.02
136 3 0.01
137 4 0.01
138 10 0.02
139 8 0.02
140 50 0.10
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (134 bp):
TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
ATAT
Found at i:1254414 original size:26 final size:26
Alignment explanation
Indices: 1254301--1254421 Score: 90
Period size: 26 Copynumber: 4.6 Consensus size: 26
1254291 AATTATTTAA
1254301 AATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
* * **
1254327 AATATATCAATCCAT---ATTTTAA-
1 AATAAATCAATCCATACAACTACAAT
* *
1254349 AATAAATCAATCTATACTAA-TAAATTATTT
1 AATAAATCAATCCATAC-AACTACA--A--T
1254379 AAAATAAATCAATCCATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
1254407 AATAAATCAATCCAT
1 AATAAATCAATCCAT
1254422 TTTTTAAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 24
0.68 0.09 0.22
Matches are distributed among these distances:
22 13 0.18
23 4 0.05
25 2 0.03
26 30 0.41
27 1 0.01
28 1 0.01
30 1 0.01
31 2 0.03
32 19 0.26
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:1254453 original size:22 final size:23
Alignment explanation
Indices: 1254378--1254452 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
1254368 ATAAATTATT
1254378 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
1254400 CTACAATAATAAATCAATCCAT-TTTT
1 -T--AA-AATAAATCAATCCATACTAA
1254426 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1254449 TAAA
1 TAAA
1254453 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1254482 original size:22 final size:22
Alignment explanation
Indices: 1254456--1254498 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1254446 TAATAAATTA
1254456 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1254478 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1254499 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1254507 original size:22 final size:22
Alignment explanation
Indices: 1254458--1254506 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1254448 ATAAATTATT
**
1254458 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1254480 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1254503 TAAA
1 TAAA
1254507 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1254536 original size:22 final size:22
Alignment explanation
Indices: 1254509--1254552 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1254499 CTAATAAATT
1254509 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1254531 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1254553 CTAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:1254561 original size:22 final size:22
Alignment explanation
Indices: 1254512--1254560 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1254502 ATAAATTTTT
**
1254512 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1254534 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1254557 TAAA
1 TAAA
1254561 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1254573 original size:322 final size:319
Alignment explanation
Indices: 1254210--1255210 Score: 1205
Period size: 322 Copynumber: 3.2 Consensus size: 319
1254200 TAATAAATTA
**
1254210 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
1254275 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATATATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
1254340 ATATTTTAAAATAAATCAA-TCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTAC
131 ATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTAC
* *
1254404 AATAATAAATCAATCCATTTTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
195 ---AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATC
*
1254469 AATCCATATTTTAAAATAAATCAATCCATACTAATAAATTTTTTAAAATAAATCAATCCATAT
257 AATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
*
1254532 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* *
1254597 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
1254662 ATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA
131 ATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA
1254727 ATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAATC
196 ATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAATC
* * * *
1254792 TATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATACAAC
261 CATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---AT
** * * * * * *
1254854 TACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAA
1 TTTAA-AATAAATCAATCCATA--CT--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAA
* * **
1254914 AATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCAT---ATTTTAA-AATAAA
60 AATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAA
* * * * * * *** * *
1254968 TCAATTCATA--CT--AATAAAT-TATT--TA-AAATAAATCAATCT-ATGCAACTACAAT-AAT
124 TCAATCCATATTTTAAAATAAATCAATTCATACTAATAAAT-TATTTAAAATAAAT-CAATCCAT
** * *
1255023 A-AA-T-CAATCCAT--AT------TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT
187 ACAACTACAATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAAT
*
1255077 AAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCA
252 AAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
1255142 TAT
317 TAT
* *
1255145 TTTAAAATAAATCAATCCTTACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1255210 T
66 T
1255211 TATTTTAAAA
Statistics
Matches: 607, Mismatches: 54, Indels: 68
0.83 0.07 0.09
Matches are distributed among these distances:
285 6 0.01
286 13 0.02
288 1 0.00
289 2 0.00
290 27 0.04
291 4 0.01
294 102 0.17
300 2 0.00
302 6 0.01
303 1 0.00
304 2 0.00
305 14 0.02
306 9 0.01
308 3 0.00
309 7 0.01
311 1 0.00
313 15 0.02
314 4 0.01
317 14 0.02
319 118 0.19
321 1 0.00
322 191 0.31
323 42 0.07
324 2 0.00
325 1 0.00
327 13 0.02
328 6 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (319 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
ATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA
ATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAATC
CATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:1254590 original size:22 final size:22
Alignment explanation
Indices: 1254564--1254606 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1254554 TAATAAATTA
1254564 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
1254586 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATA
1254607 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:1254612 original size:18 final size:18
Alignment explanation
Indices: 1254537--1254615 Score: 58
Period size: 22 Copynumber: 4.4 Consensus size: 18
1254527 CATATTTTAA
*
1254537 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
* *
1254555 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
*
1254569 AATAAATCAATTCATATTTT
1 AATAAATCAATTCATA--CT
1254589 AAAATAAATCAATTCATACT
1 --AATAAATCAATTCATACT
1254609 AATAAAT
1 AATAAAT
1254616 TATTTAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
14 7 0.15
15 5 0.11
17 4 0.09
18 14 0.30
20 1 0.02
22 16 0.34
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:1254615 original size:22 final size:22
Alignment explanation
Indices: 1254566--1254614 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1254556 ATAAATTATT
**
1254566 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATTCATATAA
1254588 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATTCATA-TAA
1254611 TAAA
1 TAAA
1254615 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATTCATATAA
Found at i:1254782 original size:32 final size:32
Alignment explanation
Indices: 1254743--1254850 Score: 101
Period size: 32 Copynumber: 3.7 Consensus size: 32
1254733 CAATCCATAT
1254743 TTTAAAATAAATAAATCCATACTAATAAATTA
1 TTTAAAATAAATAAATCCATACTAATAAATTA
*
1254775 TTT---A-AAATAAATCAAT-CT-AT--A-T-
1 TTTAAAATAAATAAATCCATACTAATAAATTA
* *
1254797 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATAAATCCATACTAATAAATTA
* *
1254829 TTTAAAATAAATCAATCTATAC
1 TTTAAAATAAATAAATCCATAC
1254851 AACTACAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
22 3 0.05
23 1 0.02
24 1 0.02
25 1 0.02
26 11 0.18
27 4 0.07
28 13 0.22
29 1 0.02
30 1 0.02
31 1 0.02
32 23 0.38
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (32 bp):
TTTAAAATAAATAAATCCATACTAATAAATTA
Found at i:1254882 original size:80 final size:80
Alignment explanation
Indices: 1254780--1255085 Score: 585
Period size: 80 Copynumber: 3.8 Consensus size: 80
1254770 AATTATTTAA
*
1254780 AATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1254845 CTATACAACTACAAT
66 CTATACAACTACAAT
1254860 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
*
1254925 CCATACAACTACAAT
66 CTATACAACTACAAT
1254940 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
*
1255005 CTATGCAACTACAAT
66 CTATACAACTACAAT
1255020 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1255085 C
66 C
1255086 CATATTTTAA
Statistics
Matches: 222, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 222 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
CTATACAACTACAAT
Found at i:1255063 original size:18 final size:18
Alignment explanation
Indices: 1255042--1255120 Score: 58
Period size: 22 Copynumber: 4.4 Consensus size: 18
1255032 CATATTTTAA
1255042 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
* *
1255060 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
* *
1255074 AATAAATCAATCCATATTTT
1 AATAAATCAATTCATA--CT
1255094 AAAATAAATCAATTCATACT
1 --AATAAATCAATTCATACT
1255114 AATAAAT
1 AATAAAT
1255121 TATTTAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
14 7 0.15
15 4 0.09
17 5 0.11
18 14 0.30
20 1 0.02
22 15 0.33
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:1255076 original size:32 final size:32
Alignment explanation
Indices: 1255037--1255254 Score: 167
Period size: 32 Copynumber: 7.4 Consensus size: 32
1255027 CAATCCATAT
1255037 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
1255069 TTTAAAATAAATCAA-TC---C--AT--A-T-
1 TTTAAAATAAATCAATTCATACTAATAAATTA
1255091 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
1255123 TTTAAAATAAATCAA-TC---C--AT--A-T-
1 TTTAAAATAAATCAATTCATACTAATAAATTA
* *
1255145 TTTAAAATAAATCAATCCTTACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
*
1255177 TTTAAAATAAATCAATTCATATTTTAAAATAAATTA
1 TTTAAAATAAATCAATTCATA--CT--AATAAATTA
* *
1255213 TTTTAAAATAAAT-TATT-TTA-TAATAAATTA
1 -TTTAAAATAAATCAATTCATACTAATAAATTA
**
1255243 TTTTCAATAAAT
1 TTTAAAATAAAT
1255255 TATTTTAAAA
Statistics
Matches: 153, Mismatches: 8, Indels: 53
0.71 0.04 0.25
Matches are distributed among these distances:
22 30 0.20
23 5 0.03
24 2 0.01
26 6 0.04
28 6 0.04
29 10 0.07
30 11 0.07
31 6 0.04
32 50 0.33
34 1 0.01
35 2 0.01
36 12 0.08
37 12 0.08
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (32 bp):
TTTAAAATAAATCAATTCATACTAATAAATTA
Found at i:1255095 original size:22 final size:22
Alignment explanation
Indices: 1255069--1255111 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1255059 TAATAAATTA
1255069 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1255091 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
1255112 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1255102 original size:54 final size:54
Alignment explanation
Indices: 1254649--1255210 Score: 383
Period size: 54 Copynumber: 10.5 Consensus size: 54
1254639 CAACTACAAT
1254649 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
*** * * ** * **
1254703 AATAAATCAATCCATACAACTACAATAAATCAATCCATA-TTTTAAAATAAAT-A
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
** ** * * * *
1254756 AATCCATACTAATAAAT-TATTTAAAATAAATCAA-TCTATATTTTAAAATAAATCAATTCAT
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATTC-ATA--CT--AATAAAT-TATTTAA
* * *
1254817 ACT-AATAAAT---TA-TTTAAAATAAATCAA-TCTATAC-AACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAA-TAAATTATTTAA
1254860 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* ** * * * * *
1254914 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCAT
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATTCATA--CT--AATAAAT-TATTTAA
* * * *
1254977 ACT-AATAAAT---TA-TTTAAAATAAATCAA-TCTATGC-AACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAA-TAAATTATTTAA
1255020 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1255074 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* *
1255128 AATAAATCAATCCATATTTTAAAATAAATCAATCCTTACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
*
1255182 AATAAATCAATTCATATTTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAAT
1255211 TATTTTAAAA
Statistics
Matches: 397, Mismatches: 60, Indels: 102
0.71 0.11 0.18
Matches are distributed among these distances:
43 4 0.01
44 12 0.03
47 6 0.02
48 43 0.11
49 12 0.03
50 8 0.02
52 2 0.01
53 8 0.02
54 222 0.56
55 26 0.07
56 1 0.00
57 5 0.01
58 18 0.05
59 5 0.01
60 4 0.01
61 2 0.01
62 13 0.03
63 6 0.02
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
Found at i:1255120 original size:22 final size:22
Alignment explanation
Indices: 1255071--1255119 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1255061 ATAAATTATT
**
1255071 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1255093 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1255116 TAAA
1 TAAA
1255120 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1255174 original size:22 final size:22
Alignment explanation
Indices: 1255125--1255173 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1255115 ATAAATTATT
**
1255125 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1255147 TAAAATAAATCAATCCTTACTAA
1 TAAAATAAATCAATCCATA-TAA
1255170 TAAA
1 TAAA
1255174 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1255253 original size:14 final size:15
Alignment explanation
Indices: 1255196--1255269 Score: 123
Period size: 15 Copynumber: 5.0 Consensus size: 15
1255186 AATCAATTCA
1255196 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
1255211 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
*
1255226 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
*
1255241 TATTTT-CAATAAAT
1 TATTTTAAAATAAAT
1255255 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
1255270 AACCTTATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
14 13 0.24
15 42 0.76
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:1255261 original size:29 final size:30
Alignment explanation
Indices: 1255196--1255269 Score: 123
Period size: 29 Copynumber: 2.5 Consensus size: 30
1255186 AATCAATTCA
1255196 TATTTTAAAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATTATTTTAAAATAAAT
* *
1255226 TATTTTATAATAAATTATTTT-CAATAAAT
1 TATTTTAAAATAAATTATTTTAAAATAAAT
1255255 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
1255270 AACCTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 21 0.51
30 20 0.49
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TATTTTAAAATAAATTATTTTAAAATAAAT
Found at i:1255282 original size:108 final size:107
Alignment explanation
Indices: 1254649--1255292 Score: 315
Period size: 108 Copynumber: 6.0 Consensus size: 107
1254639 CAACTACAAT
*
1254649 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAAT
** *** * * * * * **
1254714 CCATACAACTACAATAAATCAATCCATATTTTAAAATAAAT-A
66 AAATA-TTTTAAAATAAATCAATCCTTACTATAAATTATTTAA
** ** * * * *
1254756 AATCCATACTAATAAAT-TATTTAAAATAAATCAA-TCTATATTTTAAAATAAATCAATT--CAT
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATTC-ATA----CAAATAAATTATTTAAAAT
* * * *
1254817 -ACT-AATAAAT-TATTTAAAATAAATCAAT-C-TA-TA-CAACTA--CAA
58 AAATCAATAAATAT-TTTAAAATAAATCAATCCTTACTATAAATTATTTAA
*
1254859 TAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
1 -AATAAATCAATCCATATTTTAAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAA
* ** * * * * ** *
1254924 TCCATACA-ACTACAATAATAAATCAATCCATATTTTAAAATAAAT-C
65 T--A-A-ATATTTTAA-AATAAATCAATCCTTACTATAAATTATTTAA
** ** * * *
1254970 AATTCATACTAATAAAT-TATTTAAAATAAATCAA-TCTATGCAACTACA--A--T--AATAAAT
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATTC-ATACAAATAAATTATTTAAAATAAAT
** * *
1255027 CAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
62 CAATAAATATTTTAAAATAAATCAATCCTTACT-ATAAATTATTTAA
*
1255074 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAAT
**
1255139 CCATATTTTAAAATAAATCAATCCTTACTAATAAATTATTTAA
66 AAATATTTTAAAATAAATCAATCCTTACT-ATAAATTATTTAA
* * * *
1255182 AATAAATCAATTCATATTTTAAAATAAAT-TATT-TTA-AAATAAATTATTTTATAATAAATTAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACAAATAAATTA-TTTAAAAT-AA--A-
1255244 TTTCAATAAATTATTTTAAAATAAAT-AA-CCTTA-T-TAAATTATTTAA
61 --TCAATAAA-TATTTTAAAATAAATCAATCCTTACTATAAATTATTTAA
1255290 AAT
1 AAT
1255293 TATTTTAATA
Statistics
Matches: 410, Mismatches: 75, Indels: 103
0.70 0.13 0.18
Matches are distributed among these distances:
98 10 0.02
100 2 0.00
101 2 0.00
102 70 0.17
103 20 0.05
104 16 0.04
105 14 0.03
106 35 0.09
107 12 0.03
108 115 0.28
109 30 0.07
110 13 0.03
111 11 0.03
112 35 0.09
113 25 0.06
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (107 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAAT
AAATATTTTAAAATAAATCAATCCTTACTATAAATTATTTAA
Found at i:1258066 original size:42 final size:40
Alignment explanation
Indices: 1258017--1258114 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 40
1258007 TTGCGAAAAA
*
1258017 GAAATTCGCGTTGCGATTTCCGAAACTGAGTTGCGAATTTG
1 GAAATTCGCGTTGCGATTT-CGAAACTGAGTTGCGAAATTG
* *
1258058 TGAAATTCGCGTTGCGAATTTGGAAACTGTGTTGCGAAATTG
1 -GAAATTCGCGTTGCG-ATTTCGAAACTGAGTTGCGAAATTG
*
1258100 G-AGTTCGCGTTGCGA
1 GAAATTCGCGTTGCGA
1258115 ATTTGTTGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
39 1 0.02
40 12 0.24
41 1 0.02
42 33 0.65
43 4 0.08
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (40 bp):
GAAATTCGCGTTGCGATTTCGAAACTGAGTTGCGAAATTG
Found at i:1258093 original size:20 final size:20
Alignment explanation
Indices: 1258038--1258101 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
1258028 TGCGATTTCC
1258038 GAAACTGAGTTGCGAATTTG
1 GAAACTGAGTTGCGAATTTG
* *
1258058 TGAAATTCGCGTTGCGAATTTG
1 -GAAACT-GAGTTGCGAATTTG
* *
1258080 GAAACTGTGTTGCGAAATTG
1 GAAACTGAGTTGCGAATTTG
1258100 GA
1 GA
1258102 GTTCGCGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 14 0.38
21 10 0.27
22 13 0.35
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (20 bp):
GAAACTGAGTTGCGAATTTG
Found at i:1261537 original size:24 final size:24
Alignment explanation
Indices: 1261510--1261563 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1261500 GTATTCGAAA
1261510 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1261534 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1261558 TTTGAT
1 TTTGAT
1261564 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1263592 original size:20 final size:20
Alignment explanation
Indices: 1263567--1263660 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
1263557 GACATTCATT
1263567 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
*
1263587 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* *
1263607 TGACTATCGCAATGCGGAAT
1 TGACTATCGCAACGCGGAAA
*
1263627 TAACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
*
1263647 TGATTATCGCAACG
1 TGACTATCGCAACG
1263661 AGAGAATCGC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 61 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:1263682 original size:33 final size:33
Alignment explanation
Indices: 1263632--1263713 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
1263622 GGAATTAACT
**
1263632 ATCGCAACGCGGAAATGATTATCGCAACGAGAGA
1 ATCGCAACGC-GAAATGAAAATCGCAACGAGAGA
* * *
1263666 ATCGCAATGCGAAATGAAAATCGCAATGAGTGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1263699 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
1263714 TAGTTTCGCG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 33 0.79
34 9 0.21
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:1263784 original size:33 final size:33
Alignment explanation
Indices: 1263722--1263806 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
1263712 ATTAGTTTCG
*
1263722 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTACGATTCACT
*
1263756 CGTTGCGATTTTCATTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTACGATTCACT
**
1263789 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
1263807 CGAGTTGCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 33 0.70
34 14 0.30
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTACGATTCACT
Found at i:1264002 original size:34 final size:34
Alignment explanation
Indices: 1263959--1264054 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 34
1263949 ATTAGTTTCG
1263959 CGTTGCGATTATCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTATCATTTTCGCATTGCGATTCACT
* *
1263993 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTATCATTTTCGCATTGCGATTCACT
* * *
1264026 CGTTGC-AATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTA-TCATTTTCGCATTGCGAT
1264055 AGTCTGTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
32 2 0.04
33 27 0.50
34 25 0.46
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.41
Consensus pattern (34 bp):
CGTTGCGATTATCATTTTCGCATTGCGATTCACT
Found at i:1264116 original size:237 final size:237
Alignment explanation
Indices: 1263701--1264164 Score: 865
Period size: 237 Copynumber: 2.0 Consensus size: 237
1263691 ATGAGTGAAT
*
1263701 CGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATT
1 CGCAACGCGAAATTAGTTTCGCGTTGCGATTATCATTTTCGCATTGCGATTCACTCGTTGCGATT
*
1263766 TTCATTTCGCATTACGATTCTCTCGTTGCGATAGTCATTTCCGAGTTGCGATAGTCTGTTTTGCA
66 TTCATTTCGCATTACGATTCTCTCGTTGCAATAGTCATTTCCGAGTTGCGATAGTCTGTTTTGCA
*
1263831 TTCAAAATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACA
131 TTCAAAATAATGCAAATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACA
1263896 AATATTATGTACACATCAATTAAACAAATCAAAAATGAAAAC
196 AATATTATGTACACATCAATTAAACAAATCAAAAATGAAAAC
1263938 CGCAACGCGAAATTAGTTTCGCGTTGCGATTATCATTTTCGCATTGCGATTCACTCGTTGCGATT
1 CGCAACGCGAAATTAGTTTCGCGTTGCGATTATCATTTTCGCATTGCGATTCACTCGTTGCGATT
* *
1264003 TTCATTTCGCATTGCGATTCTCTCGTTGCAATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCA
66 TTCATTTCGCATTACGATTCTCTCGTTGCAATAGTCATTTCCGAGTTGCGATAGTCTGTTTTGCA
* *
1264068 TTCAACATAATGCAAATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGTACA
131 TTCAAAATAATGCAAATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACA
1264133 AATATTATGTACACATCAATTAAACAAATCAA
196 AATATTATGTACACATCAATTAAACAAATCAA
1264165 CATTTACAAA
Statistics
Matches: 220, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
237 220 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (237 bp):
CGCAACGCGAAATTAGTTTCGCGTTGCGATTATCATTTTCGCATTGCGATTCACTCGTTGCGATT
TTCATTTCGCATTACGATTCTCTCGTTGCAATAGTCATTTCCGAGTTGCGATAGTCTGTTTTGCA
TTCAAAATAATGCAAATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACA
AATATTATGTACACATCAATTAAACAAATCAAAAATGAAAAC
Found at i:1264175 original size:14 final size:14
Alignment explanation
Indices: 1264156--1264192 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1264146 CATCAATTAA
1264156 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1264170 ACAAATCATCTTTT
1 ACAAATCAACATTT
1264184 ACAAATCAA
1 ACAAATCAA
1264193 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1265630 original size:18 final size:20
Alignment explanation
Indices: 1265607--1265650 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
1265597 CTCTTGAGGG
1265607 ATGATA-GG-GGCCTCTTGA
1 ATGATAGGGAGGCCTCTTGA
1265625 ATGATAGGGGAGGCCTCTTGA
1 ATGATA-GGGAGGCCTCTTGA
1265646 ATGAT
1 ATGAT
1265651 GATAGGTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.26
20 2 0.09
21 15 0.65
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.27
Consensus pattern (20 bp):
ATGATAGGGAGGCCTCTTGA
Found at i:1266159 original size:20 final size:20
Alignment explanation
Indices: 1266136--1266282 Score: 206
Period size: 20 Copynumber: 7.3 Consensus size: 20
1266126 GAAACTTAAA
*
1266136 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
1266156 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* *
1266176 ATCGTAATGTGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
1266196 ATCACAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
1266216 ATCACAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
1266236 ATCCCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* *
1266256 ATCGTAATGC-AAATTTGACT
1 ATCGCAATGCGAAA-ATGACT
1266276 ATCGCAA
1 ATCGCAA
1266283 CGAGAGAATC
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
19 3 0.03
20 112 0.97
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:1266378 original size:54 final size:53
Alignment explanation
Indices: 1266291--1266412 Score: 172
Period size: 54 Copynumber: 2.3 Consensus size: 53
1266281 AACGAGAGAA
* ** * *
1266291 TCGCAATGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAAT
1 TCGCATTGCGATAGTCATTTCGCATTGCGATTCTCTCGTTACGATAGTCAAAT
**
1266344 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTACGATAGTCATTT
1 TCGCATTGCGATAGTCA-TTTCGCATTGCGATTCTCTCGTTACGATAGTCAAAT
1266398 TCGCATTGCGATAGT
1 TCGCATTGCGATAGT
1266413 AAACTATTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
53 14 0.23
54 47 0.77
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (53 bp):
TCGCATTGCGATAGTCATTTCGCATTGCGATTCTCTCGTTACGATAGTCAAAT
Found at i:1266411 original size:20 final size:20
Alignment explanation
Indices: 1266329--1266412 Score: 90
Period size: 20 Copynumber: 4.5 Consensus size: 20
1266319 GATTCTTTCG
**
1266329 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
1266349 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1266369 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
1266383 TTACGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1266403 TTGCGATAGT
1 TTGCGATAGT
1266413 AAACTATTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
14 6 0.12
16 6 0.12
18 6 0.12
20 34 0.65
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1268735 original size:22 final size:22
Alignment explanation
Indices: 1268673--1268738 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
1268663 TGACCGTGAA
* *
1268673 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
1268695 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1268717 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1268739 GGATGTCGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:1268942 original size:20 final size:20
Alignment explanation
Indices: 1268917--1268968 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1268907 GCTATGTAAA
1268917 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
1268937 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
1268957 TCGCATTGCGAT
1 TCGCATTGCGAT
1268969 TTACGTAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (20 bp):
TCGCATTGCGATAGTCAGAT
Found at i:1268981 original size:20 final size:20
Alignment explanation
Indices: 1268958--1269050 Score: 168
Period size: 20 Copynumber: 4.7 Consensus size: 20
1268948 TAGTCAGATT
1268958 CGCATTGCGATTTACGTAAC
1 CGCATTGCGATTTACGTAAC
1268978 CGCATTGCGATTTACGTAAC
1 CGCATTGCGATTTACGTAAC
1268998 CGCATTGCGATTTACGTAAC
1 CGCATTGCGATTTACGTAAC
* *
1269018 CGCATTGCGATTTACGTCAT
1 CGCATTGCGATTTACGTAAC
1269038 CGCATTGCGATTT
1 CGCATTGCGATTT
1269051 CTCAAATTCG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (20 bp):
CGCATTGCGATTTACGTAAC
Found at i:1269176 original size:21 final size:21
Alignment explanation
Indices: 1269079--1269159 Score: 144
Period size: 21 Copynumber: 3.9 Consensus size: 21
1269069 CGATTTAGGA
*
1269079 AAATCGTAACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
*
1269100 AAATCGGAACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
1269121 AAATCGCAACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
1269142 AAATCGCAACGCGAATTT
1 AAATCGCAACGCGAATTT
1269160 AGAAAATTGC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (21 bp):
AAATCGCAACGCGAATTTGGG
Found at i:1271085 original size:9 final size:9
Alignment explanation
Indices: 1271053--1271087 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1271043 TAGAGAATAT
*
1271053 TTTTATTAA
1 TTTTATTTA
*
1271062 TTTTAATTA
1 TTTTATTTA
1271071 TTTTATTTA
1 TTTTATTTA
1271080 TTTTATTT
1 TTTTATTT
1271088 GATACAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTATTTA
Found at i:1271677 original size:21 final size:21
Alignment explanation
Indices: 1271653--1271717 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
1271643 TTAAAAATCA
*
1271653 TTTTAAAAATATTAAATTTATT
1 TTTTAAAATTATTAAATTTA-T
* * * *
1271675 TTTTATACTTATCAAATTTAA
1 TTTTAAAATTATTAAATTTAT
1271696 TTTTAAAATTATTAAATTTAT
1 TTTTAAAATTATTAAATTTAT
1271717 T
1 T
1271718 ATTATTTTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTAAAATTATTAAATTTAT
Found at i:1271763 original size:22 final size:23
Alignment explanation
Indices: 1271721--1271763 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1271711 ATTTATTATT
* *
1271721 ATTTTAAATATTATATTAAATAC
1 ATTTTAAATAATATATAAAATAC
1271744 ATTTTAAA-AATATATAAAAT
1 ATTTTAAATAATATATAAAAT
1271764 GTATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTAAATAATATATAAAATAC
Found at i:1272597 original size:45 final size:45
Alignment explanation
Indices: 1272533--1272654 Score: 217
Period size: 45 Copynumber: 2.7 Consensus size: 45
1272523 TATTCATTAT
*
1272533 TTTCATTTAGGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1272578 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
1272623 TTTTATTTATGACATCCTTTCATGCCTTTAAT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAAT
1272655 CTTTTATTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 74 1.00
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.44
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:1272844 original size:59 final size:58
Alignment explanation
Indices: 1272748--1272916 Score: 238
Period size: 59 Copynumber: 2.9 Consensus size: 58
1272738 GCACACGTAC
**
1272748 TGCCCATACGG-AAATTCAATAAA-TTTATTATAAATTTCTTAGTTTTTGCACACACGG
1 TGCCCATACGGAAAATTC-ATAAACTTTATTATAAATTTCTTAGTTTTTGCACACACAA
1272805 TGCCCATACGGAAAATTCATAAACTTATATTATAAATTTCTTAGTTTTTGCACACACAA
1 TGCCCATACGGAAAATTCATAAACTT-TATTATAAATTTCTTAGTTTTTGCACACACAA
* * * *
1272864 TGCCTATA-TGAAAATTCATAAAC-TCATTATGAATTTCTTAGTTTTTGCACACA
1 TGCCCATACGGAAAATTCATAAACTTTATTATAAATTTCTTAGTTTTTGCACACA
1272917 AAGTATCCAT
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
56 27 0.26
57 17 0.17
58 22 0.21
59 37 0.36
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (58 bp):
TGCCCATACGGAAAATTCATAAACTTTATTATAAATTTCTTAGTTTTTGCACACACAA
Found at i:1276254 original size:2 final size:2
Alignment explanation
Indices: 1276247--1276283 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1276237 CCAGAAAAGC
1276247 TA 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 TA T
1276284 TTGACATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1278078 original size:45 final size:45
Alignment explanation
Indices: 1278012--1278268 Score: 397
Period size: 45 Copynumber: 5.7 Consensus size: 45
1278002 TATTCATTAT
* *
1278012 TTTCATTTAGGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
1278057 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * *
1278102 TTTCATTTATGACATCATTTCATGCCTTTAATGCATCGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
1278147 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
1278192 TTTCATTTATGGCATCCTTTCATGTCTTTAAGGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
1278237 TTTCATATATGGCATTCTTTCATGCCTTTAAT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAAT
1278269 CTTTTATTTT
Statistics
Matches: 193, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 193 1.00
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.44
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:1279582 original size:11 final size:11
Alignment explanation
Indices: 1279566--1279609 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
1279556 TATCATTTTA
1279566 AAAACACACTT
1 AAAACACACTT
1279577 AAAACACACTT
1 AAAACACACTT
*
1279588 AAGACACACTT
1 AAAACACACTT
1279599 AAAACACACTT
1 AAAACACACTT
1279610 CTCCCCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.18
Consensus pattern (11 bp):
AAAACACACTT
Found at i:1281892 original size:20 final size:21
Alignment explanation
Indices: 1281840--1281900 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
1281830 TTCCCCTGTG
*
1281840 GGGGGGATTGGTTCCCTTTCAAA
1 GGGGGGATCGGTTCCC--TCAAA
* *
1281863 GGGGGAATCGGTTCCCTC-AT
1 GGGGGGATCGGTTCCCTCAAA
*
1281883 GGGGGGATCGATTCCCTC
1 GGGGGGATCGGTTCCCTC
1281901 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
23 14 0.42
ACGTcount: A:0.15, C:0.23, G:0.36, T:0.26
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCTCAAA
Found at i:1287697 original size:22 final size:22
Alignment explanation
Indices: 1287670--1287711 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1287660 AAACCATTCA
1287670 GGGGGGAATCGGTACCCTCTTG
1 GGGGGGAATCGGTACCCTCTTG
*
1287692 GGGGGGAATCGGTTCCCTCT
1 GGGGGGAATCGGTACCCTCT
1287712 GAGCAATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.40, T:0.24
Consensus pattern (22 bp):
GGGGGGAATCGGTACCCTCTTG
Found at i:1288030 original size:56 final size:57
Alignment explanation
Indices: 1287963--1288072 Score: 177
Period size: 56 Copynumber: 1.9 Consensus size: 57
1287953 ACAAATGTCC
* * *
1287963 ATACGGAAAATTCATAAACTTATTATAAATTTCTTAGTTTTTGCACACACAGTGCCT
1 ATACGGAAAATTCATAAACTCATTATAAATTTCTTAGTTTTCGCACACAAAGTGCCT
*
1288020 ATAC-GAAAATTCATAAACTCATTATGAATTTCTTAGTTTTCGCACACAAAGTG
1 ATACGGAAAATTCATAAACTCATTATAAATTTCTTAGTTTTCGCACACAAAGTG
1288073 TCCATTTGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 45 0.92
57 4 0.08
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (57 bp):
ATACGGAAAATTCATAAACTCATTATAAATTTCTTAGTTTTCGCACACAAAGTGCCT
Found at i:1290002 original size:31 final size:32
Alignment explanation
Indices: 1289953--1290039 Score: 79
Period size: 31 Copynumber: 2.8 Consensus size: 32
1289943 TGACTTTAAC
* * *
1289953 TCTAAATTGATCTATAAACTTTTGAGCAT-AT
1 TCTAAATTAATCCATAAACTTTTGACCATCAT
* * * *
1289984 TCTAAATTCATCCCTAAAC-TATGACCCTCAT
1 TCTAAATTAATCCATAAACTTTTGACCATCAT
* *
1290015 TATAAATTAATCCTTAAACTTTTGA
1 TCTAAATTAATCCATAAACTTTTGA
1290040 ACATTACAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
30 6 0.14
31 34 0.77
32 4 0.09
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.39
Consensus pattern (32 bp):
TCTAAATTAATCCATAAACTTTTGACCATCAT
Found at i:1291628 original size:19 final size:18
Alignment explanation
Indices: 1291594--1291633 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
1291584 GGAGTTATTT
*
1291594 TATTTTTATATGTATATA
1 TATTTTTATATATATATA
1291612 TATTTTTATTATATATATA
1 TATTTTTA-TATATATATA
1291631 TAT
1 TAT
1291634 ATATGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATTTTTATATATATATA
Found at i:1291682 original size:38 final size:35
Alignment explanation
Indices: 1291639--1291937 Score: 185
Period size: 38 Copynumber: 7.9 Consensus size: 35
1291629 TATATATATG
1291639 TATATAGTAATATAGTTTTTGAAAATGTTTTTAAAATA
1 TATATA-TAATATAGTTTTT-AAAAT-TTTTTAAAATA
* * * *
1291677 TATATA-ATATATGGTTTTGAAAAACATTTTTGAAAACA
1 TATATATA-ATATAGTTTT--TAAA-ATTTTTTAAAATA
* * * * *
1291715 TTTATGTACTATACAGTTTTTAAAACATTTTGAAAATA
1 TATATATA--ATATAGTTTTTAAAA-TTTTTTAAAATA
* *
1291753 TATATAATATATATAGTTTTTAAACATTTTTGAAAACATT
1 TATAT-ATA-ATATAGTTTTTAAA-ATTTTT-TAAA-ATA
* **
1291793 TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
1 TATATATAATATAGTTTTT-AAA-ATTTTTTAAA-ATA
*
1291831 TATATATTATATAGTTTTT-AAATTTTTTGAAAACT-
1 TATATATAATATAGTTTTTAAAATTTTTT-AAAA-TA
1291866 TACCTATA-ATATATAGTTTTT-AAATGTTTTTAAAATA
1 TA--TATATA-ATATAGTTTTTAAAAT-TTTTTAAAATA
*
1291903 TATATATTATATAGTTTTTAAAAATATTTTTAAAA
1 TATATATAATATAGTTTTT-AAAAT-TTTTTAAAA
1291938 AATGGTTTTT
Statistics
Matches: 214, Mismatches: 25, Indels: 45
0.75 0.09 0.16
Matches are distributed among these distances:
35 23 0.11
36 8 0.04
37 48 0.22
38 99 0.46
39 20 0.09
40 16 0.07
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (35 bp):
TATATATAATATAGTTTTTAAAATTTTTTAAAATA
Found at i:1291707 original size:37 final size:35
Alignment explanation
Indices: 1291639--1291937 Score: 188
Period size: 37 Copynumber: 7.9 Consensus size: 35
1291629 TATATATATG
* **
1291639 TATATAGTAATATAGTTTTTGAAAATGTTTTTAAAATA
1 TATATAAT-ATATAG-TTTT-AAAACATTTTTAAAATA
* *
1291677 TATATAATATATGGTTTTGAAAAACATTTTTGAAAACATT
1 TATATAATATATAGTTTT--AAAACATTTTT--AAA-ATA
* * * *
1291717 TATGTACTATACAGTTTTTAAAACATTTTGAAAATA
1 TATATAATATATAG-TTTTAAAACATTTTTAAAATA
* *
1291753 TATATAATATATATAGTTTTTAAACATTTTTGAAAACATT
1 TATAT-A-ATATATAGTTTTAAAACATTTTT--AAA-ATA
* *
1291793 TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
1 TATATAATATATAG-TTTTAAAACATTTT-TAAA-ATA
* * *
1291831 TATATATTATATAGTTTTTAAA-TTTTTTGAAAACT-
1 TATATAATATATAGTTTTAAAACATTTTT-AAAA-TA
* **
1291866 TACCTATAATATATAGTTTTTAAATGTTTTTAAAATA
1 TA--TATAATATATAGTTTTAAAACATTTTTAAAATA
* *
1291903 TATATATTATATAGTTTTTAAAAATATTTTTAAAA
1 TATATAATATATAG-TTTT-AAAACATTTTTAAAA
1291938 AATGGTTTTT
Statistics
Matches: 211, Mismatches: 30, Indels: 41
0.75 0.11 0.15
Matches are distributed among these distances:
35 14 0.07
36 23 0.11
37 76 0.36
38 45 0.21
39 30 0.14
40 19 0.09
41 4 0.02
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (35 bp):
TATATAATATATAGTTTTAAAACATTTTTAAAATA
Found at i:1291752 original size:76 final size:74
Alignment explanation
Indices: 1291639--1291925 Score: 294
Period size: 76 Copynumber: 3.8 Consensus size: 74
1291629 TATATATATG
* ** * *
1291639 TATATAGTAATATAGTTTTTGAAAATGTTTTTAAAATATATATAATATATGGTTTTGAAAAACAT
1 TATATAAT-ATATAGTTTTT-AAAACATTTTGAAAATATATATAATATATAGTTTT--AAAACAT
1291704 TTTTGAAAACATT
62 TTTTGAAAACATT
* * * *
1291717 TATGTACTATACAGTTTTTAAAACATTTTGAAAATATATATAATATATATAGTTTTTAAACATTT
1 TATATAATATATAGTTTTTAAAACATTTTGAAAATATATAT-A-ATATATAGTTTTAAAACATTT
1291782 TTGAAAACATT
64 TTGAAAACATT
* * * *
1291793 TATATATTATATAGTTTTTAAAACATTTTGAAAACATATATATATTATATAGTTTTTAAA-TTTT
1 TATATAATATATAGTTTTTAAAACATTTTG-AAA-ATATATATAATATATAGTTTTAAAACATTT
1291857 TTGAAAAC--T
64 TTGAAAACATT
** * *
1291866 TACCTATAATATATAGTTTTT-AAATGTTTTTAAAATATATATATTATATAGTTTTTAAAA
1 TA--TATAATATATAGTTTTTAAAACATTTTGAAAATATATATAATATATAG-TTTTAAAA
1291926 ATATTTTTAA
Statistics
Matches: 184, Mismatches: 18, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
72 17 0.09
73 13 0.07
74 7 0.04
75 27 0.15
76 80 0.43
77 15 0.08
78 25 0.14
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (74 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAATATATATAATATATAGTTTTAAAACATTTTT
GAAAACATT
Found at i:1292010 original size:3 final size:3
Alignment explanation
Indices: 1292002--1292046 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
1291992 TTTGAAATAT
*
1292002 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTTA TTA -TA TTAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TT
1292047 TCTTTTTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1293292 original size:15 final size:13
Alignment explanation
Indices: 1293263--1293301 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1293253 TTCCCTTTGA
1293263 TTATTTATTTTAT
1 TTATTTATTTTAT
*
1293276 TTATTTA-TCTA-
1 TTATTTATTTTAT
1293287 TTATTTATTTTAT
1 TTATTTATTTTAT
1293300 TT
1 TT
1293302 CTTTTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 7 0.32
12 6 0.27
13 9 0.41
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:1295549 original size:29 final size:31
Alignment explanation
Indices: 1295505--1295566 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
1295495 AAGTAAATCA
*
1295505 AAGAGAAAAAAGAGTT-AAATTAAAA-AAAT
1 AAGAGAAAAAAGAGTTAAAAATAAAAGAAAT
1295534 AAGA-AAAAAAGAAGTTAAAAATAAAAGAAAT
1 AAGAGAAAAAAG-AGTTAAAAATAAAAGAAAT
1295565 AA
1 AA
1295567 AATTCTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 7 0.24
29 8 0.28
30 8 0.28
31 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.15
Consensus pattern (31 bp):
AAGAGAAAAAAGAGTTAAAAATAAAAGAAAT
Found at i:1297167 original size:36 final size:35
Alignment explanation
Indices: 1297048--1297291 Score: 142
Period size: 35 Copynumber: 6.8 Consensus size: 35
1297038 CTATATATAC
* * *
1297048 ATTTTCAAAATATGTTTTC-AAAAC-TAAATTATGT
1 ATTTTCAAAA-ATGTTTTCAAAAACATACATTTTAT
* * *
1297082 -TTTTCAAAAATGTTTTCAAAACCATATATTATATGTTTT
1 ATTTTCAAAAATGTTTTCAAAA--ACATA-CAT-T-TTAT
* *
1297121 TTTTTAAAAAACTGTTTTCAAAAACATACATTTTAT
1 ATTTTCAAAAA-TGTTTTCAAAAACATACATTTTAT
**
1297157 ATTTTCAAAAATGTTTTTTAAAAC---CATATTTAT
1 ATTTTCAAAAATGTTTTCAAAAACATACAT-TTTAT
* *
1297190 ACGTTTTCAAAAATGTTTTCAAAAACATATATTATAT
1 A--TTTTCAAAAATGTTTTCAAAAACATACATTTTAT
* * * * * *
1297227 GTTTTCAAAAAATGTTTTTTTTAAAACCATATATTATAC
1 ATTTTC-AAAAATG---TTTTCAAAAACATACATTTTAT
*
1297266 ATTTTCAAAAAT-ATTTCAAAAACATA
1 ATTTTCAAAAATGTTTTCAAAAACATA
1297292 TTATATATAT
Statistics
Matches: 167, Mismatches: 24, Indels: 38
0.73 0.10 0.17
Matches are distributed among these distances:
32 11 0.07
33 18 0.11
34 11 0.07
35 38 0.23
36 21 0.13
37 7 0.04
38 11 0.07
39 30 0.18
40 9 0.05
41 11 0.07
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.44
Consensus pattern (35 bp):
ATTTTCAAAAATGTTTTCAAAAACATACATTTTAT
Found at i:1297180 original size:35 final size:35
Alignment explanation
Indices: 1297043--1297299 Score: 177
Period size: 34 Copynumber: 7.2 Consensus size: 35
1297033 AAAAACTATA
* *
1297043 TATACATTTTCAAAATATGTTTTC-AAAAC-TAAAT
1 TATATATTTTCAAAA-ATGTTTTCAAAAACATACAT
* * *
1297077 TATGT-TTTTCAAAAATGTTTTCAAAACCATATAT
1 TATATATTTTCAAAAATGTTTTCAAAAACATACAT
* *
1297111 TATATGTTTTTTTTTAAAAAACTGTTTTCAAAAACATACAT
1 TATA-----TATTTTCAAAAA-TGTTTTCAAAAACATACAT
* * * *
1297152 TTTATATTTTCAAAAATGTTTTTTAAAACCATA-TT
1 TATATATTTTCAAAAATG-TTTTCAAAAACATACAT
** *
1297187 TATACGTTTTCAAAAATGTTTTCAAAAACATATAT
1 TATATATTTTCAAAAATGTTTTCAAAAACATACAT
* * * *
1297222 TATATGTTTTCAAAAAATGTTTTTTTTAAAACCATATAT
1 TATATATTTTC-AAAAATG---TTTTCAAAAACATACAT
* *
1297261 TATACATTTTCAAAAAT-ATTTCAAAAACAT--AT
1 TATATATTTTCAAAAATGTTTTCAAAAACATACAT
1297293 TATATAT
1 TATATAT
1297300 ATATATATAT
Statistics
Matches: 179, Mismatches: 29, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
32 16 0.09
33 13 0.07
34 32 0.18
35 29 0.16
36 29 0.16
38 6 0.03
39 25 0.14
40 9 0.05
41 20 0.11
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (35 bp):
TATATATTTTCAAAAATGTTTTCAAAAACATACAT
Found at i:1297288 original size:73 final size:70
Alignment explanation
Indices: 1297030--1297303 Score: 245
Period size: 73 Copynumber: 3.8 Consensus size: 70
1297020 TTCAATAATA
* * * * *
1297030 TTTAAAAAC-TATATATACATTTTCAAAATATGTTTTC-AAAAC-TAAATTATGT-TTTTCAAAA
1 TTTAAAACCATATTTATACATTTTCAAAA-ATGATTTCAAAAACATATATTATATATTTTCAAAA
1297091 ATG-TT
65 ATGTTT
* ** * * * *
1297096 TTCAAAACCATATATTATATGTTTTTTTTTAAAAAACTGTTTTCAAAAACATACATTTTATATTT
1 TTTAAAACCATAT-TTATA-----CATTTTCAAAAA-TGATTTCAAAAACATATATTATATATTT
1297161 TCAAAAATGTTT
59 TCAAAAATGTTT
* * *
1297173 TTTAAAACCATATTTATACGTTTTCAAAAATGTTTTCAAAAACATATATTATATGTTTTCAAAAA
1 TTTAAAACCATATTTATACATTTTCAAAAATGATTTCAAAAACATATATTATATATTTTC-AAAA
1297238 ATGTTTTT
65 ATG--TTT
1297246 TTTAAAACCATATATTATACATTTTCAAAAAT-ATTTCAAAAACATATTATATATATAT
1 TTTAAAACCATAT-TTATACATTTTCAAAAATGATTTCAAAAACATA-TAT-TATATAT
1297304 ATATATATAT
Statistics
Matches: 171, Mismatches: 19, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
66 7 0.04
67 3 0.02
68 4 0.02
70 27 0.16
71 16 0.09
72 1 0.01
73 44 0.26
74 25 0.15
75 13 0.08
76 17 0.10
77 14 0.08
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.45
Consensus pattern (70 bp):
TTTAAAACCATATTTATACATTTTCAAAAATGATTTCAAAAACATATATTATATATTTTCAAAAA
TGTTT
Found at i:1306067 original size:66 final size:66
Alignment explanation
Indices: 1305985--1306124 Score: 244
Period size: 66 Copynumber: 2.1 Consensus size: 66
1305975 GACATTCAAC
* * *
1305985 TCAGCTATGGTTTTGTCATCTTGTTCTTGCTGTCTTTGAAGAGTCATCTCCAGATCAGCTACCTT
1 TCAGCTACGGTTTTGTCATCTTGTTCCTGCTGTCTTTGAAGAGTCATCTCCAGATCAACTACCTT
1306050 A
66 A
*
1306051 TCAGCTACGGTTTTGTCATCTTGTTCCTGCTGTCTTTGAAGAGTCATCTCCAGATTAACTACCTT
1 TCAGCTACGGTTTTGTCATCTTGTTCCTGCTGTCTTTGAAGAGTCATCTCCAGATCAACTACCTT
1306116 A
66 A
1306117 TCAGCTAC
1 TCAGCTAC
1306125 CTTAGTCTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (66 bp):
TCAGCTACGGTTTTGTCATCTTGTTCCTGCTGTCTTTGAAGAGTCATCTCCAGATCAACTACCTT
A
Found at i:1309208 original size:29 final size:30
Alignment explanation
Indices: 1309176--1309232 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
1309166 TATAGATAAA
*
1309176 AAATTAAAGGATCAAATTGA-ACTAAATTG
1 AAATTAAAGGATCAAATTAATACTAAATTG
* * *
1309205 AAATTTATGGATCTAATTAATACTAAAT
1 AAATTAAAGGATCAAATTAATACTAAAT
1309233 CACGAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATTAAAGGATCAAATTAATACTAAATTG
Found at i:1310263 original size:92 final size:92
Alignment explanation
Indices: 1310106--1310287 Score: 319
Period size: 92 Copynumber: 2.0 Consensus size: 92
1310096 CAGCCAACTC
* *
1310106 GTTTTCCTTACTTGCGACACCCCTGGTTAAACACGAAACCCTAATTTGCTGGGTTTGCTTGCTTG
1 GTTTTCCTTACTTGCGACACCCCTGGTTAAACACGAAACCCTAATCTGCTGGGTTTGCTTACTTG
1310171 GTTGGGCCTCCGAGTTTGCTTGCTACT
66 GTTGGGCCTCCGAGTTTGCTTGCTACT
* *
1310198 GTTTTCCTTACTTGCGACGCCCCTGGTTAAACACGAAACCCTAATCTGTTGGGTTTGCTTACTTG
1 GTTTTCCTTACTTGCGACACCCCTGGTTAAACACGAAACCCTAATCTGCTGGGTTTGCTTACTTG
*
1310263 GTTGGGCCTCTGAGTTTGCTTGCTA
66 GTTGGGCCTCCGAGTTTGCTTGCTA
1310288 GGTCAGGCTG
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.36
Consensus pattern (92 bp):
GTTTTCCTTACTTGCGACACCCCTGGTTAAACACGAAACCCTAATCTGCTGGGTTTGCTTACTTG
GTTGGGCCTCCGAGTTTGCTTGCTACT
Found at i:1310381 original size:16 final size:16
Alignment explanation
Indices: 1310360--1310391 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1310350 TGGGCTGGAC
1310360 TTGGACCCTAAAAAAG
1 TTGGACCCTAAAAAAG
1310376 TTGGACCCTAAAAAAG
1 TTGGACCCTAAAAAAG
1310392 AATAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
TTGGACCCTAAAAAAG
Found at i:1310567 original size:13 final size:12
Alignment explanation
Indices: 1310549--1310609 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 12
1310539 CTATATATAC
1310549 GTTTTCAAAATAT
1 GTTTTCAAAA-AT
1310562 GTTTTCAAAAAT
1 GTTTTCAAAAAT
* *
1310574 ATTTT-ATATATAT
1 GTTTTCA-A-AAAT
1310587 GTTTTCCAAAAAT
1 GTTTT-CAAAAAT
1310600 GTTTTCAAAA
1 GTTTTCAAAA
1310610 CCATATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 1 0.03
12 12 0.30
13 25 0.62
14 1 0.03
15 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (12 bp):
GTTTTCAAAAAT
Found at i:1310701 original size:37 final size:35
Alignment explanation
Indices: 1310531--1310801 Score: 224
Period size: 37 Copynumber: 7.5 Consensus size: 35
1310521 TCCAAGAATA
* *
1310531 TTTAAAAAC-TATA-TATACGTTTTCAAAATATGTT
1 TTTAAAACCATATATTATACGTTTTCAAAA-ATTTT
* ** * * *
1310565 TTCAAAAATATTTTATATATATGTTTTCCAAAAATGTT
1 TTTAAAACCA-TATAT-TATACGTTTT-CAAAAATTTT
* * ** *
1310603 TTCAAAACCATATATTATATGTTTTTTTAAAATGTT
1 TTTAAAACCATATATTATACG-TTTTCAAAAATTTT
* * * *
1310639 TTCAAAAACATACATTATACATTTTCAAAAATGTTTT
1 TTTAAAACCATATATTATACGTTTTCAAAAA--TTTT
*
1310676 TTTAAAACCATATATTATACGTTTTCAAAAATATT
1 TTTAAAACCATATATTATACGTTTTCAAAAATTTT
*
1310711 TTCAGAAA-CATATATTATACGTTTTCAAAAATATTT
1 TTTA-AAACCATATATTATACGTTTTCAAAAAT-TTT
* *
1310747 TTTGAAAACCATATATCATACGTTTTCAAAAATGTT
1 TTT-AAAACCATATATTATACGTTTTCAAAAATTTT
* *
1310783 TTTAAAAACATTTATTATA
1 TTTAAAACCATATATTATA
1310802 TATTTTTTAA
Statistics
Matches: 196, Mismatches: 29, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
34 7 0.04
35 51 0.26
36 49 0.25
37 62 0.32
38 22 0.11
39 5 0.03
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (35 bp):
TTTAAAACCATATATTATACGTTTTCAAAAATTTT
Found at i:1310720 original size:72 final size:72
Alignment explanation
Indices: 1310540--1310807 Score: 279
Period size: 72 Copynumber: 3.7 Consensus size: 72
1310530 ATTTAAAAAC
* * * ** * *
1310540 TATAT-ATACGTTTTCAAAATATGTTTTCAAAAATATTTTATATATATGTTTTCCAAAA-ATGTT
1 TATATCATACGTTTTCAAAA-ATATTTTCAAAAACA-TATAT-TATACATTTTCAAAAATATTTT
*
1310603 TTCAAAACCA
63 TTGAAAACCA
* * ** * * *
1310613 TATATTATATGTTTTTTTAAAATGTTTTCAAAAACATACATTATACATTTTCAAAAATGTTTTTT
1 TATATCATACG-TTTTCAAAAATATTTTCAAAAACATATATTATACATTTTCAAAAATATTTTTT
*
1310678 TAAAACCA
65 GAAAACCA
* * *
1310686 TATATTATACGTTTTCAAAAATATTTTCAGAAACATATATTATACGTTTTCAAAAATATTTTTTG
1 TATATCATACGTTTTCAAAAATATTTTCAAAAACATATATTATACATTTTCAAAAATATTTTTTG
1310751 AAAACCA
66 AAAACCA
* * * *
1310758 TATATCATACGTTTTCAAAAATGTTTTTAAAAACATTTATTATATATTTT
1 TATATCATACGTTTTCAAAAATATTTTCAAAAACATATATTATACATTTT
1310808 TTAAAAAACT
Statistics
Matches: 164, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
72 109 0.66
73 30 0.18
74 18 0.11
75 7 0.04
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (72 bp):
TATATCATACGTTTTCAAAAATATTTTCAAAAACATATATTATACATTTTCAAAAATATTTTTTG
AAAACCA
Found at i:1319563 original size:11 final size:11
Alignment explanation
Indices: 1319547--1319609 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
1319537 AAAATTACAT
1319547 TATTAAAAATA
1 TATTAAAAATA
1319558 TATTAAAAATA
1 TATTAAAAATA
* * ***
1319569 CACTATTGATA
1 TATTAAAAATA
1319580 -ATTATAAAA-A
1 TATTA-AAAATA
1319590 T-TTAAAAATA
1 TATTAAAAATA
1319600 TATTAAAAAT
1 TATTAAAAAT
1319610 TCTATAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 4 0.10
10 9 0.23
11 26 0.67
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:1319809 original size:7 final size:7
Alignment explanation
Indices: 1319799--1319837 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
1319789 CCACAAACTA
1319799 TAAACCC
1 TAAACCC
1319806 TAAACCC
1 TAAACCC
*
1319813 TAAAACC
1 TAAACCC
1319820 TAAACCC
1 TAAACCC
*
1319827 TAAAACC
1 TAAACCC
1319834 TAAA
1 TAAA
1319838 TCCAATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:1319810 original size:14 final size:14
Alignment explanation
Indices: 1319793--1319837 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
1319783 CACAAACCAC
* *
1319793 AAACTATAAACCCT
1 AAACCATAAAACCT
*
1319807 AAACCCTAAAACCT
1 AAACCATAAAACCT
*
1319821 AAACCCTAAAACCT
1 AAACCATAAAACCT
1319835 AAA
1 AAA
1319838 TCCAATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCATAAAACCT
Found at i:1321165 original size:11 final size:11
Alignment explanation
Indices: 1321149--1321173 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1321139 ATAAAATGGA
1321149 TGAGTTTGAAT
1 TGAGTTTGAAT
1321160 TGAGTTTGAAT
1 TGAGTTTGAAT
1321171 TGA
1 TGA
1321174 ACTCAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (11 bp):
TGAGTTTGAAT
Found at i:1323818 original size:21 final size:21
Alignment explanation
Indices: 1323794--1323835 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1323784 TTAATGCTTG
*
1323794 GGGTTTAAGATTTAAGTTTTA
1 GGGTTTAAGATTTAAGGTTTA
* *
1323815 GGGTTTATGGTTTAAGGTTTA
1 GGGTTTAAGATTTAAGGTTTA
1323836 AAATTAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (21 bp):
GGGTTTAAGATTTAAGGTTTA
Found at i:1323821 original size:7 final size:7
Alignment explanation
Indices: 1323795--1323859 Score: 51
Period size: 7 Copynumber: 9.4 Consensus size: 7
1323785 TAATGCTTGG
1323795 GGTTTAA
1 GGTTTAA
*
1323802 GATTTAA
1 GGTTTAA
* *
1323809 GTTTTAG
1 GGTTTAA
*
1323816 GGTTTAT
1 GGTTTAA
1323823 GGTTTAA
1 GGTTTAA
1323830 GGTTTAA
1 GGTTTAA
**
1323837 -AATTAA
1 GGTTTAA
* *
1323843 GTTTTAT
1 GGTTTAA
1323850 GGTTTAA
1 GGTTTAA
1323857 GGT
1 GGT
1323860 AAATATTTTA
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
6 4 0.09
7 40 0.91
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.48
Consensus pattern (7 bp):
GGTTTAA
Found at i:1324735 original size:20 final size:19
Alignment explanation
Indices: 1324690--1324737 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
1324680 TTTTAAAACT
* *
1324690 CAAAACTCTTGAAATTAGC
1 CAAAACCCTTAAAATTAGC
1324709 CAAAACCCTTAAAATTAGC
1 CAAAACCCTTAAAATTAGC
1324728 CAAAAACCCT
1 C-AAAACCCT
1324738 ATCAGTCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.46, C:0.27, G:0.06, T:0.21
Consensus pattern (19 bp):
CAAAACCCTTAAAATTAGC
Found at i:1339887 original size:20 final size:20
Alignment explanation
Indices: 1339860--1339906 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1339850 TATATTATGC
*
1339860 TGGAATTTAATGTTAGAGTG
1 TGGAATTTAATGTTAGAATG
* *
1339880 TTGAATTTGATGTTAGAATG
1 TGGAATTTAATGTTAGAATG
1339900 TGGAATT
1 TGGAATT
1339907 GGGCCATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.43
Consensus pattern (20 bp):
TGGAATTTAATGTTAGAATG
Found at i:1346505 original size:19 final size:19
Alignment explanation
Indices: 1346450--1346511 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
1346440 ATAGGGCAGA
1346450 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCC-T--AG
* * *
1346472 GGGAACCAATTCCCCCTAG
1 GGGAATCGATACCCCCTAG
1346491 GGGAATCGATACCCCCT-G
1 GGGAATCGATACCCCCTAG
1346509 GGG
1 GGG
1346512 TTTCTGGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 4 0.12
19 16 0.47
21 1 0.03
22 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.29, T:0.16
Consensus pattern (19 bp):
GGGAATCGATACCCCCTAG
Found at i:1350324 original size:22 final size:22
Alignment explanation
Indices: 1350299--1350344 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1350289 AGTCAACCTC
*
1350299 TTATTTATT-TTAAAGTATGATT
1 TTATTTATTATTAAAGGAT-ATT
*
1350321 TTATTTTTTATTAAAGGATATT
1 TTATTTATTATTAAAGGATATT
1350343 TT
1 TT
1350345 CATAATGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (22 bp):
TTATTTATTATTAAAGGATATT
Found at i:1356605 original size:20 final size:20
Alignment explanation
Indices: 1356578--1356624 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1356568 TATATTATGC
*
1356578 TGGAATTTAATGTTAGAGTG
1 TGGAATTTAATGTTAGAATG
* *
1356598 TTGAATTTGATGTTAGAATG
1 TGGAATTTAATGTTAGAATG
1356618 TGGAATT
1 TGGAATT
1356625 GGGCAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.43
Consensus pattern (20 bp):
TGGAATTTAATGTTAGAATG
Found at i:1358598 original size:73 final size:73
Alignment explanation
Indices: 1358459--1358660 Score: 336
Period size: 73 Copynumber: 2.8 Consensus size: 73
1358449 CAAAGCCAAA
*
1358459 AATTCCAG-ATTGCTC-AGAGGGAACCGATTCCCCCTAAGGGGGTACTGATTCCCCCTGAATGGT
1 AATTCCAGTA-TGCTCGA-AGGGAACCGATTCCCCC-CAGGGGGTACTGATTCCCCCTGAATGGT
1358522 TTGGCTCCGAG
63 TTGGCTCCGAG
*
1358533 AATTCCAGTATGCTCGAAGGGAACCGATTCCCCCCAGGGGGTACTAATTCCCCCTGAATGGTTTG
1 AATTCCAGTATGCTCGAAGGGAACCGATTCCCCCCAGGGGGTACTGATTCCCCCTGAATGGTTTG
1358598 GCTCCGAG
66 GCTCCGAG
*
1358606 AATTCCAGTATGCTCGAAGGGAACCGATTCCCCCCAGGGGGTACCGATTCCCCCT
1 AATTCCAGTATGCTCGAAGGGAACCGATTCCCCCCAGGGGGTACTGATTCCCCCT
1358661 TGTATAACGG
Statistics
Matches: 122, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
73 90 0.74
74 30 0.25
75 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.23
Consensus pattern (73 bp):
AATTCCAGTATGCTCGAAGGGAACCGATTCCCCCCAGGGGGTACTGATTCCCCCTGAATGGTTTG
GCTCCGAG
Found at i:1364432 original size:21 final size:23
Alignment explanation
Indices: 1364406--1364456 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1364396 AGGGAATCGA
1364406 TCCCCCCTTG-A-GGGAACCAAT
1 TCCCCCCTTGAAGGGGAACCAAT
*
1364427 TCCCCCTTTGAAGGGGAACCAAT
1 TCCCCCCTTGAAGGGGAACCAAT
1364450 TCCCCCC
1 TCCCCCC
1364457 ACAGGGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.35
22 1 0.04
23 16 0.62
ACGTcount: A:0.22, C:0.41, G:0.18, T:0.20
Consensus pattern (23 bp):
TCCCCCCTTGAAGGGGAACCAAT
Found at i:1382157 original size:26 final size:26
Alignment explanation
Indices: 1382121--1382173 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1382111 TGACTTTTAT
1382121 GTGTGATGGTTGGAGTGATCCAACGA
1 GTGTGATGGTTGGAGTGATCCAACGA
1382147 GTGTGATGGTTGGAGTGATCCAACGA
1 GTGTGATGGTTGGAGTGATCCAACGA
1382173 G
1 G
1382174 AAAACCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.40, T:0.26
Consensus pattern (26 bp):
GTGTGATGGTTGGAGTGATCCAACGA
Found at i:1383808 original size:40 final size:40
Alignment explanation
Indices: 1383747--1383842 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
1383737 TTTGACACTA
*
1383747 TAATATTATGGTTTGAGTATGGATTTTATTGTTTTAGACT
1 TAATATTATGGTTTGAGTATGGATTTTATTGTTCTAGACT
*
1383787 TAATATTATGGTTT-ATTTATGGATTTTATTGTTCTAGACT
1 TAATATTATGGTTTGA-GTATGGATTTTATTGTTCTAGACT
* *
1383827 TCATATTGTGGTTTGA
1 TAATATTATGGTTTGA
1383843 ATCTTGAGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.02
40 48 0.96
41 1 0.02
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.53
Consensus pattern (40 bp):
TAATATTATGGTTTGAGTATGGATTTTATTGTTCTAGACT
Found at i:1389273 original size:2 final size:2
Alignment explanation
Indices: 1389266--1389317 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
1389256 ATTAAAAATG
1389266 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
*
1389308 AT AT AA AT AT
1 AT AT AT AT AT
1389318 TAGAAAACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1390774 original size:22 final size:21
Alignment explanation
Indices: 1390729--1390787 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
1390719 ATATTTTATA
1390729 TATATTAACTTAAAAAAATATTTT
1 TATATTAACTT--AAAAATA-TTT
*
1390753 TATATTAACTTAAATATATTT
1 TATATTAACTTAAAAATATTT
*
1390774 TATTATTAATTTAA
1 TA-TATTAACTTAA
1390788 TTTTTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 16 0.50
24 11 0.34
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATTAACTTAAAAATATTT
Found at i:1390779 original size:24 final size:24
Alignment explanation
Indices: 1390718--1390779 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
1390708 TTAAATTCAT
1390718 AATATTTTATATATATTAACTTAAA
1 AATATTTTAT-TATATTAACTTAAA
*
1390743 AAAATATTT-TTATATTAACTTAAA
1 AATAT-TTTATTATATTAACTTAAA
*
1390767 TATATTTTATTAT
1 AATATTTTATTAT
1390780 TAATTTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 3 0.09
24 21 0.66
25 5 0.16
26 3 0.09
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (24 bp):
AATATTTTATTATATTAACTTAAA
Found at i:1390813 original size:20 final size:20
Alignment explanation
Indices: 1390790--1390842 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1390780 TAATTTAATT
1390790 TTTAAAATATTTTATTTTAA
1 TTTAAAATATTTTATTTTAA
*
1390810 TTTAAAA-ATATATATTTTAA
1 TTTAAAATAT-TTTATTTTAA
*
1390830 ATTAAAATATTTT
1 TTTAAAATATTTT
1390843 GAAGTTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAAAATATTTTATTTTAA
Found at i:1390817 original size:21 final size:21
Alignment explanation
Indices: 1390742--1390842 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 21
1390732 ATTAACTTAA
* *
1390742 AAAAATATTTTTATATTAACTT
1 AAAAATA-TTTTATTTTAATTT
*
1390764 AAATATATTTTATTATTAATTT
1 AAAAATATTTTATT-TTAATTT
1390786 AATTTTTAAAATATTTTATTTTAATTT
1 -A-----AAAATATTTTATTTTAATTT
* *
1390813 AAAAATA-TATATTTTAAATT
1 AAAAATATTTTATTTTAATTT
1390833 -AAAATATTTT
1 AAAAATATTTT
1390843 GAAGTTAAGA
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
19 6 0.09
20 13 0.20
21 12 0.19
22 12 0.19
23 1 0.02
26 1 0.02
27 7 0.11
28 12 0.19
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
AAAAATATTTTATTTTAATTT
Found at i:1391013 original size:31 final size:32
Alignment explanation
Indices: 1390912--1391015 Score: 113
Period size: 31 Copynumber: 3.3 Consensus size: 32
1390902 ATAAATTAAG
* *
1390912 ATAAAATATATACTTTAAAAAGTTAAAATAATA
1 ATAAAATATATA-TTTTAAAAGTTAAAATAAAA
*** * *
1390945 A-AAAATATATATTTTAAAAGTTTCGACAAGA
1 ATAAAATATATATTTTAAAAGTTAAAATAAAA
*
1390976 ATAAAATATATATTTTTAAA-TTAAAATAAAA
1 ATAAAATATATATTTTAAAAGTTAAAATAAAA
1391007 ATAAAATAT
1 ATAAAATAT
1391016 TTTTATATTA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
31 30 0.52
32 27 0.47
33 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (32 bp):
ATAAAATATATATTTTAAAAGTTAAAATAAAA
Found at i:1391064 original size:25 final size:26
Alignment explanation
Indices: 1391036--1391094 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
1391026 AGTTGGTAAT
*
1391036 AAAATATATTTAAT-AAGTTAATATA
1 AAAATATATTCAATAAAGTTAATATA
*
1391061 AAAATA-ATTCATTAAAGTTAATATA
1 AAAATATATTCAATAAAGTTAATATA
* *
1391086 TATATATAT
1 AAAATATAT
1391095 ATATATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 5 0.18
25 21 0.75
26 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (26 bp):
AAAATATATTCAATAAAGTTAATATA
Found at i:1391088 original size:2 final size:2
Alignment explanation
Indices: 1391081--1391120 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1391071 ATTAAAGTTA
1391081 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
1391121 TATGAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1399726 original size:23 final size:22
Alignment explanation
Indices: 1399699--1399749 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
1399689 TTGACCGGTT
1399699 TTGACCTGACCCGACCCGACCCG
1 TTGACCTGACCCGACCCGA-CCG
*
1399722 TTGACCTGACCTGACCCGACCG
1 TTGACCTGACCCGACCCGACCG
1399744 TTGACC
1 TTGACC
1399750 ATTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.18
Consensus pattern (22 bp):
TTGACCTGACCCGACCCGACCG
Found at i:1399732 original size:18 final size:18
Alignment explanation
Indices: 1399705--1399739 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1399695 GGTTTTGACC
1399705 TGACCCGACCCGACCCGT
1 TGACCCGACCCGACCCGT
* *
1399723 TGACCTGACCTGACCCG
1 TGACCCGACCCGACCCG
1399740 ACCGTTGACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
TGACCCGACCCGACCCGT
Found at i:1399803 original size:29 final size:28
Alignment explanation
Indices: 1399771--1399938 Score: 223
Period size: 29 Copynumber: 5.9 Consensus size: 28
1399761 GCATTTTAGT
1399771 AATTAATTCAAAATGGGTGCTATTTTGGG
1 AATTAATTCAAAA-GGGTGCTATTTTGGG
* *
1399800 AATTAATTCGAAAAGGGTGCTATTTTAGT
1 AATTAATTC-AAAAGGGTGCTATTTTGGG
*
1399829 AATTAATTCGAAATGGGTGCTATTTTGGG
1 AATTAATTC-AAAAGGGTGCTATTTTGGG
*
1399858 AATTAATTCAAAA-AGTGCTATTTTGGG
1 AATTAATTCAAAAGGGTGCTATTTTGGG
*
1399885 AATTTAATTCGAAAA-AGTGCTATTTTGGG
1 AA-TTAATTC-AAAAGGGTGCTATTTTGGG
1399914 AATTAATTTCAAAAGGGTGCTATTT
1 AATTAA-TTCAAAAGGGTGCTATTT
1399939 AGTAATTATT
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
27 15 0.12
28 18 0.14
29 89 0.71
30 4 0.03
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.38
Consensus pattern (28 bp):
AATTAATTCAAAAGGGTGCTATTTTGGG
Found at i:1399853 original size:58 final size:57
Alignment explanation
Indices: 1399763--1399946 Score: 266
Period size: 58 Copynumber: 3.2 Consensus size: 57
1399753 GACCGGTGGC
*
1399763 ATTTTAGTAATTAATTCAAAATGGGTGCTATTTTGGGAATTAATTCGAAAAGGGTGCT
1 ATTTTAGTAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTC-AAAAGGGTGCT
*
1399821 ATTTTAGTAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTCAAAA-AGTGCT
1 ATTTTAGTAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTCAAAAGGGTGCT
* * **
1399877 ATTTTGGGAATTTAATTCGAAA-AAGTGCTATTTTGGGAATTAATTTCAAAAGGGTGCT
1 ATTTTAGTAA-TTAATTCGAAATGGGTGCTATTTTGGGAATTAA-TTCAAAAGGGTGCT
1399935 A-TTTAGTAATTA
1 ATTTTAGTAATTA
1399947 TTTTAAAATG
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
56 35 0.31
57 28 0.25
58 51 0.45
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.39
Consensus pattern (57 bp):
ATTTTAGTAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTCAAAAGGGTGCT
Found at i:1399965 original size:85 final size:85
Alignment explanation
Indices: 1399763--1399965 Score: 250
Period size: 85 Copynumber: 2.4 Consensus size: 85
1399753 GACCGGTGGC
*
1399763 ATTTTAGTAATTAATTCAAAATGGGTGCTATTTTGGGAATTAATTCGAAAAGGGTGCTATTTTAG
1 ATTTTAGTAATTAATTCAAAAT--GTGCTATTTTGGGAATTAATTCGAAAAGAGTGCTATTTTAG
* *
1399828 TAATTAATTCGAAATGGGTGCT
64 GAATTAATTCGAAAAGGGTGCT
* * * *
1399850 ATTTTGGGAATTAATTCAAAAAGTGCTATTTTGGGAATTTAATTCGAAAA-AGTGCTATTTTGGG
1 ATTTTAGTAATTAATTCAAAATGTGCTATTTTGGGAA-TTAATTCGAAAAGAGTGCTATTTTAGG
1399914 AATTAATTTC-AAAAGGGTGCT
65 AATTAA-TTCGAAAAGGGTGCT
* * *
1399935 A-TTTAGTAATTATTTTAAAATGATGTTATTT
1 ATTTTAGTAATTAATTCAAAATG-TGCTATTT
1399966 CTATAAAATG
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
84 16 0.16
85 50 0.50
86 15 0.15
87 19 0.19
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (85 bp):
ATTTTAGTAATTAATTCAAAATGTGCTATTTTGGGAATTAATTCGAAAAGAGTGCTATTTTAGGA
ATTAATTCGAAAAGGGTGCT
Found at i:1400736 original size:24 final size:24
Alignment explanation
Indices: 1400704--1400779 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
1400694 ATATGCTACT
*
1400704 TGACATGGATTCTGATCTGTTACC
1 TGACCTGGATTCTGATCTGTTACC
* * * ** *
1400728 TGACCTGGATTTTTATATAATACA
1 TGACCTGGATTCTGATCTGTTACC
1400752 TGACCTGGATTCTGATCTGTTACC
1 TGACCTGGATTCTGATCTGTTACC
1400776 TGAC
1 TGAC
1400780 TTGAATTATG
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGTTACC
Found at i:1400740 original size:48 final size:48
Alignment explanation
Indices: 1400688--1400779 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
1400678 CTTGACTTGA
** *
1400688 ATTTTTATATGCTACTTGACATGGATTCTGATCTGTTACCTGACCTGG
1 ATTTTTATATAATACATGACATGGATTCTGATCTGTTACCTGACCTGG
*
1400736 ATTTTTATATAATACATGACCTGGATTCTGATCTGTTACCTGAC
1 ATTTTTATATAATACATGACATGGATTCTGATCTGTTACCTGAC
1400780 TTGAATTATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (48 bp):
ATTTTTATATAATACATGACATGGATTCTGATCTGTTACCTGACCTGG
Found at i:1407225 original size:59 final size:58
Alignment explanation
Indices: 1407072--1407274 Score: 259
Period size: 59 Copynumber: 3.5 Consensus size: 58
1407062 TGATAATTTA
** * *
1407072 GTAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTC-AAAAAGGGTGATATTTTA
1 GTAATT-ATTCGAAAAAGGTGCTATTTTGGGAATTAATTCGAAAAAGGGTGCTATTTTG
*
1407130 GTAATTAATTCG-AAATGGTGCTATTTTGGGAATTAATTCGAAAAA-GGTGCTATTTTG
1 GTAATT-ATTCGAAAAAGGTGCTATTTTGGGAATTAATTCGAAAAAGGGTGCTATTTTG
* * *
1407187 GGAATTTCATTCGAAAAAGGTGCCATTTTGGGAATTAATTTGAAAAAGGGTGCTATTTTG
1 GTAA-TT-ATTCGAAAAAGGTGCTATTTTGGGAATTAATTCGAAAAAGGGTGCTATTTTG
*
1407247 GTAATTATTTGAAAAAGGGTGCTATTTT
1 GTAATTATTCGAAAAA-GGTGCTATTTT
1407275 TGTAAAATGG
Statistics
Matches: 128, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
57 38 0.30
58 33 0.26
59 42 0.33
60 15 0.12
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (58 bp):
GTAATTATTCGAAAAAGGTGCTATTTTGGGAATTAATTCGAAAAAGGGTGCTATTTTG
Found at i:1407279 original size:29 final size:30
Alignment explanation
Indices: 1407074--1407274 Score: 254
Period size: 29 Copynumber: 6.9 Consensus size: 30
1407064 ATAATTTAGT
*
1407074 AATTAATTCG-AAATGGGTGCTATTTTGGG
1 AATTAATTCGAAAAAGGGTGCTATTTTGGG
* * *
1407103 AATTAATTC-AAAAAGGGTGATATTTTAGT
1 AATTAATTCGAAAAAGGGTGCTATTTTGGG
*
1407132 AATTAATTCG--AAATGGTGCTATTTTGGG
1 AATTAATTCGAAAAAGGGTGCTATTTTGGG
1407160 AATTAATTCGAAAAA-GGTGCTATTTTGGG
1 AATTAATTCGAAAAAGGGTGCTATTTTGGG
* *
1407189 AATTTCATTCGAAAAA-GGTGCCATTTTGGG
1 AA-TTAATTCGAAAAAGGGTGCTATTTTGGG
* *
1407219 AATTAATTTGAAAAAGGGTGCTATTTTGGT
1 AATTAATTCGAAAAAGGGTGCTATTTTGGG
*
1407249 AATT-ATTTGAAAAAGGGTGCTATTTT
1 AATTAATTCGAAAAAGGGTGCTATTTT
1407275 TGTAAAATGG
Statistics
Matches: 152, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
28 24 0.16
29 82 0.54
30 46 0.30
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (30 bp):
AATTAATTCGAAAAAGGGTGCTATTTTGGG
Found at i:1408005 original size:24 final size:24
Alignment explanation
Indices: 1407972--1408088 Score: 99
Period size: 24 Copynumber: 4.9 Consensus size: 24
1407962 TAGTTATCTG
*
1407972 ATATGATACTTGACCTGAATTTTT
1 ATATGATACCTGACCTGAATTTTT
* * * * * *
1407996 ATATGCTACTTGACATGGATTCTG
1 ATATGATACCTGACCTGAATTTTT
* * *
1408020 ATCTGTTACCTGACTTGAATTTTT
1 ATATGATACCTGACCTGAATTTTT
* * *
1408044 ATATGATACATGACCTGGATTTTA
1 ATATGATACCTGACCTGAATTTTT
* *
1408068 ATCTGTTACCTGACCTGAATT
1 ATATGATACCTGACCTGAATT
1408089 ATGTTTTAAT
Statistics
Matches: 71, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (24 bp):
ATATGATACCTGACCTGAATTTTT
Found at i:1408039 original size:48 final size:48
Alignment explanation
Indices: 1407968--1408088 Score: 161
Period size: 48 Copynumber: 2.5 Consensus size: 48
1407958 TGAATAGTTA
* * * * *
1407968 TCTGATATGATACTTGACCTGAATTTTTATATGCTACTTGACATGGAT
1 TCTGATCTGTTACCTGACCTGAATTTTTATATGATACATGACATGGAT
* *
1408016 TCTGATCTGTTACCTGACTTGAATTTTTATATGATACATGACCTGGAT
1 TCTGATCTGTTACCTGACCTGAATTTTTATATGATACATGACATGGAT
* *
1408064 TTTAATCTGTTACCTGACCTGAATT
1 TCTGATCTGTTACCTGACCTGAATT
1408089 ATGTTTTAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.42
Consensus pattern (48 bp):
TCTGATCTGTTACCTGACCTGAATTTTTATATGATACATGACATGGAT
Found at i:1410062 original size:50 final size:51
Alignment explanation
Indices: 1409858--1410063 Score: 256
Period size: 51 Copynumber: 4.1 Consensus size: 51
1409848 GAACCCAACA
* * * * *
1409858 TTTATTTTATTCACTTACA-CTGGTTTAAGTATATGTCAAGT-TATATATTTT
1 TTTATTTTATTCACTTACATC-GATGTAAGTATGTGTTAAGTGT-TATACTTT
1409909 TTTATTTTATTCACTTACATCGATGTAAGTATGTGTTAAGTGTTATACTTT
1 TTTATTTTATTCACTTACATCGATGTAAGTATGTGTTAAGTGTTATACTTT
* * * *
1409960 TTTATTTTATTCACTTACATCGATGTAAATATGTGTTAAGTGCTACAATTT
1 TTTATTTTATTCACTTACATCGATGTAAGTATGTGTTAAGTGTTATACTTT
* ** *
1410011 TTTATTTTATTCAC-TACATCAACATAAGTATGTGTTAAGTGTTGTACTTT
1 TTTATTTTATTCACTTACATCGATGTAAGTATGTGTTAAGTGTTATACTTT
1410061 TTT
1 TTT
1410064 GTAGTATGAA
Statistics
Matches: 136, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
50 31 0.23
51 103 0.76
52 2 0.01
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.50
Consensus pattern (51 bp):
TTTATTTTATTCACTTACATCGATGTAAGTATGTGTTAAGTGTTATACTTT
Found at i:1411889 original size:47 final size:42
Alignment explanation
Indices: 1411838--1411959 Score: 139
Period size: 39 Copynumber: 2.9 Consensus size: 42
1411828 TTAAAAACCA
*
1411838 TTAATACAAATTATCACCTCATCCACCCACAGATAATATTTAAATCT
1 TTAATACAAATTATCA--TCAT---CCCACAGATAATATTCAAATCT
1411885 TTAATACAAA-T-T-ATCATCCCACAGATAATATTCAAATCT
1 TTAATACAAATTATCATCATCCCACAGATAATATTCAAATCT
*
1411924 TTAATACAAA-T-T-ATCATCCCACAAATAATATTCAAA
1 TTAATACAAATTATCATCATCCCACAGATAATATTCAAA
1411960 ACCTGGAGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
39 56 0.77
42 4 0.05
44 1 0.01
45 1 0.01
46 1 0.01
47 10 0.14
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (42 bp):
TTAATACAAATTATCATCATCCCACAGATAATATTCAAATCT
Found at i:1411913 original size:39 final size:39
Alignment explanation
Indices: 1411863--1411959 Score: 176
Period size: 39 Copynumber: 2.5 Consensus size: 39
1411853 ACCTCATCCA
*
1411863 CCCACAGATAATATTTAAATCTTTAATACAAATTATCAT
1 CCCACAGATAATATTCAAATCTTTAATACAAATTATCAT
1411902 CCCACAGATAATATTCAAATCTTTAATACAAATTATCAT
1 CCCACAGATAATATTCAAATCTTTAATACAAATTATCAT
*
1411941 CCCACAAATAATATTCAAA
1 CCCACAGATAATATTCAAA
1411960 ACCTGGAGAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (39 bp):
CCCACAGATAATATTCAAATCTTTAATACAAATTATCAT
Found at i:1414179 original size:2 final size:2
Alignment explanation
Indices: 1414172--1414222 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1414162 AGTTTCGTTC
1414172 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
1414214 AT AT AT AT A
1 AT AT AT AT A
1414223 AATTAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1415134 original size:73 final size:73
Alignment explanation
Indices: 1415055--1415206 Score: 277
Period size: 73 Copynumber: 2.1 Consensus size: 73
1415045 ATAGGTACAA
* *
1415055 ATACCCTTGTGTTAATTTTGGTTCCAAGAAAAACATAATGCCCAATGGGTACCGATACCCCCTAG
1 ATACCCTTGTGTTAATTTTGGCTCCAAGAAAAACAGAATGCCCAATGGGTACCGATACCCCCTAG
1415120 AGGTACCG
66 AGGTACCG
*
1415128 ATACCCTTGTGTTAATTTTGGCTCCGAGAAAAACAGAATGCCCAATGGGTACCGATACCCCCTAG
1 ATACCCTTGTGTTAATTTTGGCTCCAAGAAAAACAGAATGCCCAATGGGTACCGATACCCCCTAG
1415193 AGGTACCG
66 AGGTACCG
1415201 ATACCC
1 ATACCC
1415207 CTAGTCATTT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (73 bp):
ATACCCTTGTGTTAATTTTGGCTCCAAGAAAAACAGAATGCCCAATGGGTACCGATACCCCCTAG
AGGTACCG
Found at i:1420976 original size:20 final size:20
Alignment explanation
Indices: 1420938--1421058 Score: 107
Period size: 20 Copynumber: 5.8 Consensus size: 20
1420928 TTTTGTGCAC
*
1420938 TAGGTATTGATACCCCCTTTA
1 TAGGTATCGATA-CCCCTTTA
**
1420959 TAGGTATCGATACCCCTTCC
1 TAGGTATCGATACCCCTTTA
*
1420979 TAGGTATCGATACTCCTTTA
1 TAGGTATCGATACCCCTTTA
*
1420999 TCATGTATCGATACCCTCTTTGAA
1 T-AGGTATCGATACCC-CTTT--A
* **
1421023 TATGTATCGATACCCCTCGA
1 TAGGTATCGATACCCCTTTA
* *
1421043 TGGGTACCGATACCCC
1 TAGGTATCGATACCCC
1421059 CTGTCGGGTT
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
20 38 0.46
21 23 0.28
22 6 0.07
23 14 0.17
24 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (20 bp):
TAGGTATCGATACCCCTTTA
Found at i:1421007 original size:41 final size:41
Alignment explanation
Indices: 1420937--1421014 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
1420927 TTTTTGTGCA
*
1420937 CTAGGTATTGATACCCCCTTTATAGGTATCGATACCCCTTC
1 CTAGGTATCGATACCCCCTTTATAGGTATCGATACCCCTTC
* *
1420978 CTAGGTATCGATA-CTCCTTTATCATGTATCGATACCC
1 CTAGGTATCGATACCCCCTTTAT-AGGTATCGATACCC
1421015 TCTTTGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 8 0.24
41 25 0.76
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (41 bp):
CTAGGTATCGATACCCCCTTTATAGGTATCGATACCCCTTC
Found at i:1423079 original size:19 final size:21
Alignment explanation
Indices: 1423048--1423087 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1423038 ATACTTATGT
1423048 ATTTGGTTTTGATT-ATTTGA
1 ATTTGGTTTTGATTAATTTGA
1423068 ATTTGG-TTTGATTAATTTGA
1 ATTTGGTTTTGATTAATTTGA
1423088 GCTTAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (21 bp):
ATTTGGTTTTGATTAATTTGA
Found at i:1423761 original size:73 final size:73
Alignment explanation
Indices: 1423681--1423820 Score: 253
Period size: 73 Copynumber: 1.9 Consensus size: 73
1423671 TAAGTCATAT
* *
1423681 GTACCGATACCCTTGTGTTAATTTTGGTTCCAAGAAAAATAGAATGCCCAATGGGTACCGATACC
1 GTACCGATACCCTTGTGTTAATTTTGGCTCCAAGAAAAACAGAATGCCCAATGGGTACCGATACC
1423746 CCCTAGAG
66 CCCTAGAG
*
1423754 GTACCGATACCCTTGTGTTAATTTTGGCTCCGAGAAAAACAGAATGCCCAATGGGTACCGATACC
1 GTACCGATACCCTTGTGTTAATTTTGGCTCCAAGAAAAACAGAATGCCCAATGGGTACCGATACC
1423819 CC
66 CC
1423821 TATTCATTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (73 bp):
GTACCGATACCCTTGTGTTAATTTTGGCTCCAAGAAAAACAGAATGCCCAATGGGTACCGATACC
CCCTAGAG
Found at i:1446500 original size:100 final size:102
Alignment explanation
Indices: 1446332--1446525 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 102
1446322 ACATAAGCCT
* * * *
1446332 TTGATATTGTTTCTCTCAAAACAAATTTTGTGTCGCTTGAGACAGTTTTCCTTCGAAACACAAAT
1 TTGATATTGTTTCTCTCAAAACAAATTTCGTCTCGCTTGAGACAATTTCCCTTCGAAACACAAAT
*
1446397 TTTGAAATTGTTTCACTTGAAACAAAATTGATCTCAG
66 TTTGAAATTGTTTCACTCGAAACAAAATTGATCTCAG
* * * *
1446434 TTGATATTTTTTC-CTCAGAACAAATTTCGTCTCGCTTGAGATAATTTCCCTT-GAAACATAAAT
1 TTGATATTGTTTCTCTCAAAACAAATTTCGTCTCGCTTGAGACAATTTCCCTTCGAAACACAAAT
*
1446497 TTTGAAATTGTTTCACTCGAAATAAAATT
66 TTTGAAATTGTTTCACTCGAAACAAAATT
1446526 TTATCTCATA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 37 0.45
101 33 0.40
102 12 0.15
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (102 bp):
TTGATATTGTTTCTCTCAAAACAAATTTCGTCTCGCTTGAGACAATTTCCCTTCGAAACACAAAT
TTTGAAATTGTTTCACTCGAAACAAAATTGATCTCAG
Found at i:1447170 original size:137 final size:137
Alignment explanation
Indices: 1446916--1447390 Score: 432
Period size: 137 Copynumber: 3.5 Consensus size: 137
1446906 CAAACCATCA
** * * * * * *
1446916 AAGTATGACTAGACATCCTCAACACAAAGGAACAATGATGTCCACCAATAAGATCTCCTCAACGT
1 AAGTATGACTAGATGTCCTCAACACGAAGGAAAAATGTTGTCCACCGATCATATCTCCTCAACG-
* * * * * * *
1446981 AAAAGAAG-AATATCATCCTTAGACAATCAGACTTCCTCAACACGAAGCAACCACATTGTCTCTA
65 CAAAGGAGCAATATAATCCTCAGACAATCAGAATTCCTCAACACAAAGCAACCACATTGTCTCCA
1447045 AATTATCC
130 AATTATCC
* *
1447053 AAGTATGACTAGATGTCCTCAACACGAAGGAATAATGTTGTCCACCGATCATATCTCCTTAACGC
1 AAGTATGACTAGATGTCCTCAACACGAAGGAAAAATGTTGTCCACCGATCATATCTCCTCAACGC
* * * * **
1447118 AAAGGAGCAATATAATCCTCAGATAATCAGAATTCCTTAATACAAAGGAACCATGTTGTCTCCAA
66 AAAGGAGCAATATAATCCTCAGACAATCAGAATTCCTCAACACAAAGCAACCACATTGTCTCCAA
1447183 ATTATCC
131 ATTATCC
* ** * *
1447190 AAGTATGACTACATGTCCTCAACACGAAGGAAAAAATGTCATCCACCGACCATATCTCCTCAAAG
1 AAGTATGACTAGATGTCCTCAACACGAAGG-AAAAATGTTGTCCACCGATCATATCTCCTCAACG
* * * * * * * * * * * * ** *
1447255 CAAATGAGCAGTGTCATCTTCAAACAATCACATTTCCTCAACACGATGGAATCGTAGTGTCTCCA
65 CAAAGGAGCAATATAATCCTCAGACAATCAGAATTCCTCAACACAAAGCAACCACATTGTCTCCA
* *
1447320 AA-TCTCT
130 AATTATCC
* * * * * ** * *
1447327 AAGTACGGCTAGACGTCCTCAACACGAAAGAATAATGTCATCCACCGACCAGATCTCCTCAACG
1 AAGTATGACTAGATGTCCTCAACACGAAGGAAAAATGTTGTCCACCGATCATATCTCCTCAACG
1447391 TGAAGAAACA
Statistics
Matches: 280, Mismatches: 56, Indels: 5
0.82 0.16 0.01
Matches are distributed among these distances:
136 37 0.13
137 165 0.59
138 78 0.28
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (137 bp):
AAGTATGACTAGATGTCCTCAACACGAAGGAAAAATGTTGTCCACCGATCATATCTCCTCAACGC
AAAGGAGCAATATAATCCTCAGACAATCAGAATTCCTCAACACAAAGCAACCACATTGTCTCCAA
ATTATCC
Found at i:1447639 original size:104 final size:104
Alignment explanation
Indices: 1447455--1447698 Score: 326
Period size: 104 Copynumber: 2.3 Consensus size: 104
1447445 CTTTAAATTA
* * * *
1447455 TCCAGATTTACCCGACTTCCTCAACGAGAAGGAACAACGTCATATGAAAGCAGCCAGAACTCTTC
1 TCCAGATTGACCCAATTTCCTCAACGAGAAGGAACAACATCATATGAAAGCAGCCAGAACTCTTC
* * * *
1447520 AATATGGATGAGCAGTGTCGTCTTCAATACCATATTATC
66 AACATGGATGAGCAGTGTCATCTTCAATAACAAATTATC
* * *
1447559 TCCAGATTGACCCAATTTCCTCAACAAGAAGGAACAACATCATATGAAATCGGCCAGAACTCTTC
1 TCCAGATTGACCCAATTTCCTCAACGAGAAGGAACAACATCATATGAAAGCAGCCAGAACTCTTC
* * * *
1447624 CACATGGATGGGCAGTGTTATCTTCAATAATAAATTATC
66 AACATGGATGAGCAGTGTCATCTTCAATAACAAATTATC
* * *
1447663 TCCAAATTGACTCAATTTCCTCAACGAGAAAGAACA
1 TCCAGATTGACCCAATTTCCTCAACGAGAAGGAACA
1447699 GTGACATTTT
Statistics
Matches: 121, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
104 121 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (104 bp):
TCCAGATTGACCCAATTTCCTCAACGAGAAGGAACAACATCATATGAAAGCAGCCAGAACTCTTC
AACATGGATGAGCAGTGTCATCTTCAATAACAAATTATC
Found at i:1447893 original size:3 final size:3
Alignment explanation
Indices: 1447885--1447941 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
1447875 TTGGGTTTTG
1447885 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1447933 ATT ATT ATT
1 ATT ATT ATT
1447942 CTAATTTACA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1458104 original size:2 final size:2
Alignment explanation
Indices: 1458097--1458134 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1458087 AGTTTCGTGC
1458097 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
1458135 TAAATGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1464128 original size:22 final size:22
Alignment explanation
Indices: 1464098--1464139 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1464088 ATGGTAGGGG
*
1464098 GTATTGATACCATAGTAGGGTA
1 GTATCGATACCATAGTAGGGTA
*
1464120 GTATCGATACCGTAGTAGGG
1 GTATCGATACCATAGTAGGG
1464140 GTATTGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (22 bp):
GTATCGATACCATAGTAGGGTA
Found at i:1464687 original size:79 final size:79
Alignment explanation
Indices: 1464553--1464698 Score: 215
Period size: 79 Copynumber: 1.8 Consensus size: 79
1464543 AAAACAAATG
* *
1464553 TAAAAGAATAATGCATATGGGTGCATTATAGGCATGAAATGGTGCCATAACTGAAATGTATATGG
1 TAAAAGAATAATGCATATGGGTGCATTATAGGCATGAAATGGTGCCAGAACTGAAATGCATATGG
1464618 GTACATTGTCATCA
66 GTACATTGTCATCA
* **
1464632 TAAAAGAATAATGCATATGGGTGCATTGGT-GGCATGAAA-GGATGCCAGAGTTGAAATGCATAT
1 TAAAAGAATAATGCATATGGGTGCATT-ATAGGCATGAAATGG-TGCCAGAACTGAAATGCATAT
1464695 GGGT
64 GGGT
1464699 GTATTATGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 2 0.03
79 57 0.95
80 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAAAGAATAATGCATATGGGTGCATTATAGGCATGAAATGGTGCCAGAACTGAAATGCATATGG
GTACATTGTCATCA
Found at i:1464716 original size:79 final size:79
Alignment explanation
Indices: 1464554--1464716 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 79
1464544 AAACAAATGT
* *
1464554 AAAAGAATAATGCATATGGGTGCATTATAGGCATGAAATGGTGCCATAACTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATAGGCATGAAATGGTGCCAGAACTGAAATGCATATGGG
* * *
1464619 TACATTGTCATCAT
66 TACATTATCAACAG
* **
1464633 AAAAGAATAATGCATATGGGTGCATTGGT-GGCATGAAA-GGATGCCAGAGTTGAAATGCATATG
1 AAAAGAATAATGCATATGGGTGCATT-ATAGGCATGAAATGG-TGCCAGAACTGAAATGCATATG
** *
1464696 GGTGTATTATGAACAG
64 GGTACATTATCAACAG
1464712 AAAAG
1 AAAAG
1464717 TATACTATAG
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
78 2 0.03
79 68 0.96
80 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.26
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATAGGCATGAAATGGTGCCAGAACTGAAATGCATATGGG
TACATTATCAACAG
Found at i:1464729 original size:45 final size:45
Alignment explanation
Indices: 1464680--1464915 Score: 273
Period size: 45 Copynumber: 5.3 Consensus size: 45
1464670 AGGATGCCAG
* *
1464680 AGTTGAAATGCATATGGGTGTATTATGAACAGAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* * * * *
1464725 AGTTGAAATGCATATGGATGCATTATCAACATAAAGGTATGCTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* *
1464770 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* * * * * *
1464815 GGTTGAGATGTATATGGGTACA-T-T-AACATAAAAGTATATTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
**
1464857 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG-ATGTTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
*
1464901 AGTTTAAAATGCATA
1 AG-TTGAAATGCATA
1464916 AAGATGTATT
Statistics
Matches: 162, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 34 0.21
43 2 0.01
44 10 0.06
45 116 0.72
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (45 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
Done.