Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008908.1 Hibiscus syriacus cultivar Beakdansim tig00112205_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: 345752
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 2
Found at i:235143 original size:22 final size:22
Alignment explanation
Indices: 235097--235178 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 22
235087 ATACAATAAA
*
235097 TAATATTATTTATTATAAAACT
1 TAATATTATTTATTATAAAAAT
*
235119 TAATATTA-TTATTTTAAAATAT
1 TAATATTATTTATTATAAAA-AT
* * **
235141 TAAAATAATTTATT-T-ATTAT
1 TAATATTATTTATTATAAAAAT
235161 TAAATATTATTT-TTATAA
1 T-AATATTATTTATTATAA
235179 TTTTATTAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 5 0.11
21 20 0.43
22 17 0.36
23 5 0.11
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATATTATTTATTATAAAAAT
Found at i:235375 original size:28 final size:29
Alignment explanation
Indices: 235302--235435 Score: 118
Period size: 29 Copynumber: 4.6 Consensus size: 29
235292 TATATTTTAA
* *
235302 ATATTTTATTAAATAT-T-ATTAGATTATT
1 ATATATTATTAAATATATAAATA-ATTATT
*
235330 ATATTAATATTAAATATATAAATAA-TATT
1 ATA-TATTATTAAATATATAAATAATTATT
235359 AT-TCATTATTAAATATATAAATAATTTATT
1 ATAT-ATTATTAAATATATAAATAA-TTATT
* *
235389 ATATATTATTAAA-ATAAAAAT-ATAATAT
1 ATATATTATTAAATATATAAATAATTAT-T
235417 ATGATATTATTATAATATA
1 AT-ATATTATTA-AATATA
235436 ATTGATTGTT
Statistics
Matches: 89, Mismatches: 6, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
27 4 0.04
28 26 0.29
29 33 0.37
30 19 0.21
31 7 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (29 bp):
ATATATTATTAAATATATAAATAATTATT
Found at i:235389 original size:30 final size:28
Alignment explanation
Indices: 235326--235435 Score: 109
Period size: 28 Copynumber: 3.8 Consensus size: 28
235316 ATTATTAGAT
*
235326 TATTATATTAATATTAAATATATAAATAA
1 TATTATA-TATTATTAAATATATAAATAA
235355 TATTAT-TCATTATTAAATATATAAATAA
1 TATTATAT-ATTATTAAATATATAAATAA
*
235383 TTTATTATATATTATTAAA-ATAAAAAT-A
1 --TATTATATATTATTAAATATATAAATAA
235411 TAATATATGATATTATTATAATATA
1 T-AT-TAT-ATATTATTA-AATATA
235436 ATTGATTGTT
Statistics
Matches: 70, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
26 1 0.01
27 3 0.04
28 23 0.33
29 22 0.31
30 17 0.24
31 4 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
TATTATATATTATTAAATATATAAATAA
Found at i:235480 original size:22 final size:24
Alignment explanation
Indices: 235449--235525 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 24
235439 GATTGTTTTG
*
235449 TTATAATATTAAAAATA-TAAT-A
1 TTATATTATTAAAAATATTAATAA
*
235471 TTATATTATTAGAAATATTAATAA
1 TTATATTATTAAAAATATTAATAA
* * *
235495 ATATATT-TTAAATATTTTAATAA
1 TTATATTATTAAAAATATTAATAA
235518 TTAATATT
1 TT-ATATT
235526 TTGATTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
22 15 0.33
23 18 0.40
24 12 0.27
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (24 bp):
TTATATTATTAAAAATATTAATAA
Found at i:235781 original size:42 final size:42
Alignment explanation
Indices: 235725--235819 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
235715 TTCCTCCAAC
* * *
235725 CAAACACAGGAAAACATTTTTCGAAAAACGAATTACGTGAAA
1 CAAACACGGGAAAACATTTTTCAAAAAACGAATTACATGAAA
235767 CAAACACGGGAAAACATTTTTCAAAAAACGAATTACATGAAA
1 CAAACACGGGAAAACATTTTTCAAAAAACGAATTACATGAAA
*
235809 CAAACATGGGA
1 CAAACACGGGA
235820 TTTCGGGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.18
Consensus pattern (42 bp):
CAAACACGGGAAAACATTTTTCAAAAAACGAATTACATGAAA
Found at i:262007 original size:2 final size:2
Alignment explanation
Indices: 262002--262046 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
261992 ACACACACAC
262002 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
262044 AT A
1 AT A
262047 GTTAAAGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:264027 original size:256 final size:254
Alignment explanation
Indices: 263510--264075 Score: 676
Period size: 256 Copynumber: 2.2 Consensus size: 254
263500 AAAATGAACG
* * * * *
263510 AAGGATTTAATCATC-CTGCTCAAAAGGCTTATTGATGACCCGAATGACTTACTAATTTGGAAAT
1 AAGGATTTAATCATCAC-GCTCGAAAGACTTACTGATGGCCCGAATGACTTACCAATTTGGAAAT
* **
263574 AGTTTACTAGGTAATAAACTTTGGAAATTGTTTTCTCACTTTTCAAAAATTTCATTTTATGAAAA
65 AGTTTACTAGGTAAGAAACTTTGGAAATACTTTTCTCACTTTTCAAAAATTTCATTTTATGAAAA
* * *
263639 TAGTAAATGATAAACTTTGAAAATCATTTTCTCAATTTTCGAAAATAATGTGAAAACATCCTACC
130 TAATAAATGAGAAACTTTGAAAATCACTTTCTCAATTTTC-AAAATAATGTGAAAACATCCTACC
* * ** * * * *
263704 CGATGACCTTATGGATGACAAATGACTTATCATCTTACTCGAAAGGTTTATAGATGACGCG
194 CGAAGACCTTATGGATGACAAAGGACTTATCATCTTACTCGAAAGACTGACAGATGACCCA
* * *
263765 AAGGATTTAATCATCACGCTCGTAAGACTAACTGATGGCCCGAAGGACTTACCAATTTTGGAAAT
1 AAGGATTTAATCATCACGCTCGAAAGACTTACTGATGGCCCGAATGACTTACCAA-TTTGGAAAT
* * *
263830 AGTTTACTAGGTAAGAAACTTTGGAAATCACTTTT-TTATTTTTCAAAAATTTCATTTTCTGAAA
65 AGTTTACTAGGTAAGAAACTTTGGAAAT-ACTTTTCTCACTTTTCAAAAATTTCATTTTATGAAA
* * * *
263894 ATAATGAATGAGAAACTTTGAAAATCGCTTTCTTATTTTTC-AAATCAA-GTGAAAACATCCTAC
129 ATAATAAATGAGAAACTTTGAAAATCACTTTCTCAATTTTCAAAAT-AATGTGAAAACATCCTAC
** * * * *
263957 CCGAAGGTCTTCTAGG-TGGTCTGAAGGACTTATCATCTTACTCGAAAGACTGGCAGATGACCCA
193 CCGAAGACCTTAT-GGAT-GAC-AAAGGACTTATCATCTTACTCGAAAGACTGACAGATGACCCA
* *
264021 AAGGATTTAATCATCATGCTTGAAAGACTTACTGATGGCCC-AGATGACTTACCAA
1 AAGGATTTAATCATCACGCTCGAAAGACTTACTGATGGCCCGA-ATGACTTACCAA
264076 GTAAGAAACT
Statistics
Matches: 263, Mismatches: 40, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
254 29 0.11
255 52 0.20
256 178 0.68
257 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (254 bp):
AAGGATTTAATCATCACGCTCGAAAGACTTACTGATGGCCCGAATGACTTACCAATTTGGAAATA
GTTTACTAGGTAAGAAACTTTGGAAATACTTTTCTCACTTTTCAAAAATTTCATTTTATGAAAAT
AATAAATGAGAAACTTTGAAAATCACTTTCTCAATTTTCAAAATAATGTGAAAACATCCTACCCG
AAGACCTTATGGATGACAAAGGACTTATCATCTTACTCGAAAGACTGACAGATGACCCA
Found at i:264268 original size:20 final size:20
Alignment explanation
Indices: 264243--264291 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
264233 ATGCTCGAAA
264243 GACTTACTAGTGACCTTAAG
1 GACTTACTAGTGACCTTAAG
*
264263 GACTTACTGGTGACCTTAAG
1 GACTTACTAGTGACCTTAAG
264283 GACTTACTA
1 GACTTACTA
264292 AGTAAGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (20 bp):
GACTTACTAGTGACCTTAAG
Found at i:268168 original size:2 final size:2
Alignment explanation
Indices: 268161--268202 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
268151 AATAAAACAA
268161 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
268202 A
1 A
268203 TGGAGATGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:287216 original size:23 final size:23
Alignment explanation
Indices: 287169--287217 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
287159 AAATTACGTA
* *
287169 TTTAGTATTTAAAATTATCAGTT
1 TTTAGTATTTAAAATTATAAATT
* *
287192 TTTAGTATTTAAATTTTTAAATT
1 TTTAGTATTTAAAATTATAAATT
287215 TTT
1 TTT
287218 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (23 bp):
TTTAGTATTTAAAATTATAAATT
Found at i:290380 original size:21 final size:21
Alignment explanation
Indices: 290356--290400 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
290346 TGACTGTTAT
290356 GGTGCTAACATGACAGTTCAC
1 GGTGCTAACATGACAGTTCAC
* *
290377 GGTGCTGACATGACGGTTCAC
1 GGTGCTAACATGACAGTTCAC
290398 GGT
1 GGT
290401 ATTGACGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (21 bp):
GGTGCTAACATGACAGTTCAC
Found at i:290406 original size:21 final size:21
Alignment explanation
Indices: 290363--290406 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
290353 TATGGTGCTA
*
290363 ACATGACAGTTCACGGTGCTG
1 ACATGACAGTTCACGGTACTG
* *
290384 ACATGACGGTTCACGGTATTG
1 ACATGACAGTTCACGGTACTG
290405 AC
1 AC
290407 GTAACAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (21 bp):
ACATGACAGTTCACGGTACTG
Found at i:293331 original size:31 final size:31
Alignment explanation
Indices: 293293--293406 Score: 201
Period size: 31 Copynumber: 3.7 Consensus size: 31
293283 TTCTGTAATC
293293 TGTTCTGTTCAATGCATATGCCACGTTAAAT
1 TGTTCTGTTCAATGCATATGCCACGTTAAAT
*
293324 TGTTCTGTTCAATGCATATACCACGTTAAAT
1 TGTTCTGTTCAATGCATATGCCACGTTAAAT
* *
293355 TGTTTTGTTCAATGCATATGCCACGCTAAAT
1 TGTTCTGTTCAATGCATATGCCACGTTAAAT
293386 TGTTCTGTTCAATGCATATGC
1 TGTTCTGTTCAATGCATATGC
293407 AATGGTCTGA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (31 bp):
TGTTCTGTTCAATGCATATGCCACGTTAAAT
Found at i:299118 original size:22 final size:22
Alignment explanation
Indices: 299092--299134 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
299082 TAATAAATTA
299092 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
299114 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
299135 CTAATTAATT
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:299223 original size:22 final size:22
Alignment explanation
Indices: 299179--299223 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
299169 ACTACAATAC
* *
299179 TAAATCAATCCATATTTTAAAA
1 TAAATCAATCCATATCTAAAAA
299201 TAAATCAATCCAT-TCTAATAAA
1 TAAATCAATCCATATCTAA-AAA
299223 T
1 T
299224 TATTTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATCAATCCATATCTAAAAA
Found at i:299232 original size:80 final size:80
Alignment explanation
Indices: 299097--299618 Score: 650
Period size: 80 Copynumber: 6.4 Consensus size: 80
299087 AATTATTTAA
*
299097 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATTAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
299162 TCATACAACTACAAT
66 CCATACAACTACAAT
* *
299177 ACTAAATCAATCCATATTTTAAAATAAATCAATCCATTCTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
299242 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
299257 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
299322 CTATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
* ** *
299341 AAAATAAATCAATCCATATTTTAAAATAAATCAATTCATA-TTTTAAA--A--T-AAATCAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
* * *
299400 ATACTAATA-AATTATTTAA-
64 AT-C-CATACAACTA--CAAT
*
299419 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
299484 CCATACAACTACAAT
66 CCATACAACTACAAT
*
299499 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
299564 CCATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
299583 AAAATAAATCAATCCATATTTTAAAATAAATCAATC
1 --AATAAATCAATCCATATTTTAAAATAAATCAATC
299619 AATATTTTAA
Statistics
Matches: 387, Mismatches: 28, Indels: 48
0.84 0.06 0.10
Matches are distributed among these distances:
76 37 0.10
77 5 0.01
79 3 0.01
80 233 0.60
81 15 0.04
82 16 0.04
83 2 0.01
84 2 0.01
85 4 0.01
86 70 0.18
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:299242 original size:112 final size:109
Alignment explanation
Indices: 299114--299787 Score: 706
Period size: 112 Copynumber: 6.2 Consensus size: 109
299104 CAATCCATAT
*
299114 TTTAAAATAAATCAATCCATACTAATTAATTATTTAAAATAAATCAATTCATACAACTACAATAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA-AACTA-AATA-
* *
299179 TAAATCAATCCATATTTTAAAATAAATCAATCCATTCTAATAAATTA
63 TAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTA
* * * *
299226 TTTAAAATAAATCAATCCATAC-AACTACAA-TA-AT-AAATCAATCCATATT-TTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAA-TA-AATTATTTAAAATAAAT-CA-ATTCATAAACTAAAT
** * *
299286 CAATCTATACAAATAAAT-TATTTAAAATAAATCAATCTATACTAATAAATTA
62 --ATAAAT-C-AATCAATAT-TTTAAAATAAATCAATCCATACTAATAAATTA
***
299338 TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATTCATATTTTAAA-ATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAAACTAAATATAA
** * ** * ** **
299392 ATCAATCAATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TA
66 ATCAATCAATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA
* *
299435 TTTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAATCCATACAACTACAATA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA-AACTA-AAT-
* *
299500 ATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
62 ATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTA
* ***
299548 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAA-ATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAAACTAAATATAA
*
299612 ATCAATCAATATTTTAAAATAAATCAATACATACTAATAAATTA
66 ATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTA
299656 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA-AACTA-AAT-A
*
299721 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
63 TAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTA
299768 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
299788 TCTTTAAAAT
Statistics
Matches: 466, Mismatches: 59, Indels: 74
0.78 0.10 0.12
Matches are distributed among these distances:
97 2 0.00
98 26 0.06
99 10 0.02
100 10 0.02
102 4 0.01
103 11 0.02
104 9 0.02
106 2 0.00
107 2 0.00
108 117 0.25
109 7 0.02
110 25 0.05
111 22 0.05
112 215 0.46
113 4 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (109 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAAACTAAATATAA
ATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:299299 original size:18 final size:16
Alignment explanation
Indices: 299275--299354 Score: 69
Period size: 14 Copynumber: 5.0 Consensus size: 16
299265 AATCCATATT
299275 TTAAAATAAATCAATC
1 TTAAAATAAATCAATC
*
299291 TATACAAATAAAT-TAT-
1 T-TA-AAATAAATCAATC
299307 TTAAAATAAATCAATC
1 TTAAAATAAATCAATC
* *
299323 TATACTAATAAAT-TAT-
1 T-TA-AAATAAATCAATC
299339 TTAAAATAAATCAATC
1 TTAAAATAAATCAATC
299355 CATATTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
14 15 0.30
15 8 0.16
16 4 0.08
17 8 0.16
18 15 0.30
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAATAAATCAATC
Found at i:299313 original size:32 final size:32
Alignment explanation
Indices: 299274--299596 Score: 176
Period size: 32 Copynumber: 9.5 Consensus size: 32
299264 CAATCCATAT
299274 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
*
299306 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
299338 TTTAAAATAAATCAATCCATATTTTA-AAATAAATCAATTCATA
1 TTTAAAATAAATCAAT-C-TA---TACAAAT--A--AA-T--TA
* *
299381 TTTTAAAATAAATCAATCAATACTAATAAATTA
1 -TTTAAAATAAATCAATCTATACAAATAAATTA
*
299414 TTTAAAATAAATCAATCCATATTTTA-AAATAAATCAA
1 TTTAAAATAAATCAAT-C-TA---TACAAATAAAT-TA
** * * * * *
299451 TCCATACT-AATAAAT-TATATAAAATAAATCAA
1 TTTAAAATAAATCAATCTATA-CAAATAAAT-TA
* * ** **
299483 TCCATACAACTACAAT-AATAAAT-C-AATCCA-TA
1 T--TTA-AAATA-AATCAATCTATACAAATAAATTA
*
299515 TTTTAAAATAAATCAATCCATACAAATAAATTA
1 -TTTAAAATAAATCAATCTATACAAATAAATTA
* *
299548 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
299580 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
299597 CATATTTTAA
Statistics
Matches: 231, Mismatches: 27, Indels: 66
0.71 0.08 0.20
Matches are distributed among these distances:
29 3 0.01
30 11 0.05
31 3 0.01
32 128 0.55
33 9 0.04
34 8 0.03
35 4 0.02
36 21 0.09
37 14 0.06
38 2 0.01
39 2 0.01
40 5 0.02
41 1 0.00
42 1 0.00
43 3 0.01
44 16 0.07
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCTATACAAATAAATTA
Found at i:299404 original size:76 final size:79
Alignment explanation
Indices: 299082--299676 Score: 509
Period size: 80 Copynumber: 7.4 Consensus size: 79
299072 ACAACTACAA
* *
299082 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA-TCCATACTAATTAATTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCAATACTATTTAA--A
* *
299146 TTTAAAATAAATCAAT--
64 -AT-AAATCAATCAATAC
* * * * *
299162 TCATACAACTA--CAATACTAAATCAATCCATATTTTAAAATAAATCAATCCATTCTAATAAATT
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATC-A---ATTC-AAT--ACT
*
299225 ATTTAAAATAAATCAATCCATAC
57 ATTTAAAATAAATCAATCAATAC
* *
299248 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTA
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA--T-T-C-AAT--ACTA
*
299306 TTTAAAATAAATCAATCTATAC
58 TTTAAAATAAATCAATCAATAC
299328 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTC-ATA-T-TTTAAAAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCAATACTATTTAAAAT
299390 AAATCAATCAATAC
66 AAATCAATCAATAC
* * *
299404 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA-TCCATACTAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCAATACTATTTAA--A
*
299468 TATAAAATAAATCAAT-C
64 -AT-AAATCAATCAATAC
* * * *
299485 -CATACAACTA--CAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATT
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAAT---T-C-AAT--ACT
*
299547 ATTTAAAATAAATCAATCCATAC
57 ATTTAAAATAAATCAATCAATAC
299570 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA-TCAATA-T-TTTAAAAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCAATACTATTTAAAAT
299632 AAATCAAT-ACATAC
66 AAATCAATCA-ATAC
299646 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
299677 CTAATAAATT
Statistics
Matches: 435, Mismatches: 34, Indels: 96
0.77 0.06 0.17
Matches are distributed among these distances:
75 2 0.00
76 123 0.28
77 3 0.01
78 6 0.01
79 6 0.01
80 137 0.31
81 15 0.03
82 14 0.03
83 2 0.00
84 24 0.06
85 13 0.03
86 75 0.17
87 2 0.00
88 13 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (79 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCAATACTATTTAAAAT
AAATCAATCAATAC
Found at i:299456 original size:22 final size:22
Alignment explanation
Indices: 299338--299398 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
299328 TAATAAATTA
299338 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
299360 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
299382 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
299399 AATACTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:299462 original size:18 final size:18
Alignment explanation
Indices: 299440--299491 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
299430 CCATATTTTA
299440 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
299458 TAATAAAT-TAT--ATA-
1 AAATAAATCAATCCATAC
299472 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
299490 AA
1 AA
299492 CTACAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
17 5 0.19
18 9 0.35
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:299465 original size:22 final size:22
Alignment explanation
Indices: 299416--299464 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
299406 ATAAATTATT
**
299416 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
299438 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
299461 TAAA
1 TAAA
299465 TTATATAAAA
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:299541 original size:18 final size:18
Alignment explanation
Indices: 299520--299577 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
299510 CCATATTTTA
299520 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
299538 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
299552 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
*
299570 TAATAAAT
1 AAATAAAT
299578 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
17 4 0.13
18 15 0.48
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:299545 original size:22 final size:22
Alignment explanation
Indices: 299472--299545 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
299462 AAATTATATA
*
299472 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
299497 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
299519 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
299542 AAAT
1 AAAT
299546 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:299606 original size:22 final size:22
Alignment explanation
Indices: 299580--299644 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
299570 TAATAAATTA
299580 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
299602 TTTAAAATAAATCAATCAATAT
1 TTTAAAATAAATCAATCCATAT
*
299624 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATCCATA
299645 CTAATAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:299613 original size:220 final size:213
Alignment explanation
Indices: 299306--299810 Score: 713
Period size: 220 Copynumber: 2.4 Consensus size: 213
299296 AAATAAATTA
*
299306 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT-C--CATATTTTAAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATCATATTTTAAAAT
* * ** *
299368 AAATCAATTCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAAT-C-AATC
66 AAATCAATCCATATTTTAAAATAAATCAATCAATA-TAATAAAATAAAT-AAATAAATACTAATA
*
299431 CA-TATTTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAATCCATACAACTA
129 AATTA-TTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAATCCATACAACTA
299495 CAATAATAAATCAATCCATAT
193 CAATAATAAATCAATCCATAT
*
299516 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT-C--AT--A-T-T
** * *
299581 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATCAATACATAC
59 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATATAATAAAATAAATAAATAAATAC
* *
299646 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACA
124 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAATCCATACA
299711 ACTACAATAATAAATCAATCCATAT
189 ACTACAATAATAAATCAATCCATAT
*
299736 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--T-CTTTAAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATCATATTTTAAAAT
*
299798 AAATCAATTCATA
66 AAATCAATCCATA
299811 CTAATAAATT
Statistics
Matches: 265, Mismatches: 17, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
210 66 0.25
211 1 0.00
214 1 0.00
215 1 0.00
216 2 0.01
218 7 0.03
219 10 0.04
220 175 0.66
221 2 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (213 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATCATATTTTAAAAT
AAATCAATCCATATTTTAAAATAAATCAATCAATATAATAAAATAAATAAATAAATACTAATAAA
TTATTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAATCCATACAACTACAA
TAATAAATCAATCCATAT
Found at i:299660 original size:32 final size:32
Alignment explanation
Indices: 299624--299709 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
299614 CAATCAATAT
299624 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATACATACTAATAAATTA
*
299656 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATACATACTAATAAATTA
*
299688 TTTAAAATAAATCAATTCATAC
1 TTTAAAATAAATCAATACATAC
299710 AACTACAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATACATACTAATAAATTA
Found at i:299747 original size:242 final size:239
Alignment explanation
Indices: 299353--299868 Score: 576
Period size: 242 Copynumber: 2.2 Consensus size: 239
299343 AATAAATCAA
299353 TCCATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTA
1 TCCATATTTTAAAATAAATCAA-TCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTA
** * * *
299418 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAA
65 AAATAAATCAATCCATATAATAAAATAAATAAATCCATACTAATAAACTACATAAAATAAATCAA
*
299483 TCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
130 TCCAT--AACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTA
299548 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
193 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
299595 TCCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATCAAT-ACATACTAATAAATTATTT
1 TCCATATTTTAAAATAAATCAATC-ATATTTTAAAATAAATCAATCA-ATACTAATAAATTATTT
* * *
299659 AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-CA-ATTCATACAACTACA-ATAA
64 AAAATAAATCAATCCATA-TAATAAA--A--T-AAATAAATCCATACTAATA-AACTACATAAAA
* ** ** * ** * *
299721 TAAATCAATCCAT-ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-A
122 TAAATCAATCCATAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCAATACAA
** * *
299782 ATCCATTCTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT--A--AA
185 ATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
*
299833 T---TATTTTAAAATAAATCAATCCATATTTTATAATAA
1 TCCATATTTTAAAATAAATCAAT-CATATTTTAAAATAA
299869 TTTATTTTAA
Statistics
Matches: 238, Mismatches: 24, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
235 32 0.13
236 1 0.00
238 3 0.01
240 1 0.00
241 3 0.01
242 138 0.58
243 18 0.08
244 5 0.02
245 1 0.00
246 21 0.09
247 8 0.03
248 7 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (239 bp):
TCCATATTTTAAAATAAATCAATCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
AATAAATCAATCCATATAATAAAATAAATAAATCCATACTAATAAACTACATAAAATAAATCAAT
CCATAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTATTT
AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
Found at i:299765 original size:22 final size:22
Alignment explanation
Indices: 299690--299764 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
299680 ATAAATTATT
* *
299690 TAAAATAAATCAATTCATACAA
1 TAAAATAAATCAATCCATATAA
**
299712 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
299738 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
299761 TAAA
1 TAAA
299765 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:299775 original size:32 final size:31
Alignment explanation
Indices: 299736--299833 Score: 106
Period size: 32 Copynumber: 3.4 Consensus size: 31
299726 CAATCCATAT
299736 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
*
299768 TTTAAAATAAATCAATC---C------ATTC
1 TTTAAAATAAATCAATCATACTAATAAATTA
299790 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAA-TCATACTAATAAATTA
299822 TTTAAAATAAAT
1 TTTAAAATAAAT
299834 TATTTTAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
22 18 0.33
23 2 0.04
26 1 0.02
28 1 0.02
31 1 0.02
32 31 0.57
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTAAAATAAATCAATCATACTAATAAATTA
Found at i:299801 original size:54 final size:54
Alignment explanation
Indices: 299499--299833 Score: 317
Period size: 54 Copynumber: 6.1 Consensus size: 54
299489 CAACTACAAT
*
299499 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * ** * ** **
299553 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
* *
299607 AATAAATCAATCAATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * * * * *
299661 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-CA-ATTCATACAACTA--CAA
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACTAATA-AATTATTTAA
299718 TAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
299773 AATAAATCAATCCAT-TCTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
299827 AATAAAT
1 AATAAAT
299834 TATTTTAAAA
Statistics
Matches: 226, Mismatches: 36, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
52 13 0.06
53 19 0.08
54 127 0.56
55 19 0.08
56 5 0.02
57 8 0.04
58 21 0.09
59 7 0.03
60 7 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:299819 original size:22 final size:22
Alignment explanation
Indices: 299770--299818 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
299760 ATAAATTATT
* *
299770 TAAAATAAATCAATCCATTCTT
1 TAAAATAAATCAATCCATACTA
*
299792 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATACT-A
299815 TAAA
1 TAAA
299819 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATACTA
Found at i:299842 original size:15 final size:15
Alignment explanation
Indices: 299813--299930 Score: 112
Period size: 15 Copynumber: 7.5 Consensus size: 15
299803 AATTCATACT
299813 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
299827 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
299842 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
299864 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
299879 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
*
299894 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
299909 AATAAATTAATTTAA
1 AATAAATTATTTTAA
299924 AATAAAT
1 AATAAAT
299931 AACCTTATTA
Statistics
Matches: 87, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
14 9 0.10
15 61 0.70
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.11
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:299855 original size:69 final size:67
Alignment explanation
Indices: 299759--299915 Score: 187
Period size: 67 Copynumber: 2.3 Consensus size: 67
299749 AATCCATACT
299759 AATAAATTA-TTTAAAATAAATCAATCCAT-TCTTTAAAATAAATCAATTCATACTAA-TAAATT
1 AATAAATTATTTTAAAATAAATCAATCCATAT-TTTAAAAT-AATCAATT-ATA--AAGTAAATT
299821 A-TTTAA
61 ATTTTAA
* ** *
299827 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAGTAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATTATAAAGTAAATTATTTT
*
299892 AT
66 AA
*
299894 AATAAATTATTTTATAATAAAT
1 AATAAATTATTTTAAAATAAAT
299916 TAATTTAAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
65 2 0.03
66 7 0.09
67 27 0.34
68 15 0.19
69 27 0.34
70 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATTATAAAGTAAATTATTTT
AA
Found at i:299872 original size:47 final size:49
Alignment explanation
Indices: 299681--299900 Score: 152
Period size: 54 Copynumber: 4.4 Consensus size: 49
299671 TCCATACTAA
* ** *
299681 TAAATTA-TTTAAAATAAATCAATTCATAC-AACTACAATAATAAATCAA-
1 TAAATTATTTTAAAATAAATCAATCCATACTAA-TA-AATAATTTATAAAG
** *
299729 TCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTA-AAA-
1 TAAATTATTTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAG
* *
299775 TAAATCAATCCATTCTTTAAAATAAATCAATTCATACTAATAAATTATTTA-AAA-
1 TAAAT---T--A-T-TTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAG
**
299829 TAAATTATTTTAAAATAAATCAATCCATA-TTTTATAATAATTTATTTTAAAG
1 TAAATTATTTTAAAATAAATCAATCCATACTAATA-AATAATTTA---TAAAG
*
299881 TAAATTATTTTATAATAAAT
1 TAAATTATTTTAAAATAAAT
299901 TATTTTATAA
Statistics
Matches: 141, Mismatches: 15, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
46 7 0.05
47 36 0.26
48 26 0.18
49 3 0.02
50 1 0.01
51 4 0.03
52 20 0.14
53 1 0.01
54 43 0.30
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.39
Consensus pattern (49 bp):
TAAATTATTTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAG
Found at i:301524 original size:17 final size:17
Alignment explanation
Indices: 301502--301534 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
301492 TAAATTTAAA
301502 TATTTAGAA-ATTATATG
1 TATTTA-AATATTATATG
301519 TATTTAAATATTATAT
1 TATTTAAATATTATAT
301535 ATTAAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TATTTAAATATTATATG
Found at i:301537 original size:15 final size:15
Alignment explanation
Indices: 301470--301537 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
301460 TTAAGTTTAA
* *
301470 ATATATTCAAATATA
1 ATATATTTAAATATT
301485 AT-TAATTTAAAT-TT
1 ATAT-ATTTAAATATT
*
301499 AAATATTTAGAA-ATT
1 ATATATTTA-AATATT
301514 ATATGTATTTAAATATT
1 ATA--TATTTAAATATT
301531 ATATATT
1 ATATATT
301538 AAAGGTTCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
14 8 0.19
15 20 0.48
16 2 0.05
17 12 0.29
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATATTTAAATATT
Found at i:313998 original size:22 final size:22
Alignment explanation
Indices: 313972--314014 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
313962 TAATAAATTA
313972 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
313994 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
314015 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:314020 original size:18 final size:18
Alignment explanation
Indices: 313999--314055 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
313989 CATATTTTAA
313999 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
* * *
314017 AATAAAT-TAT--TTA-A
1 AATAAATCAATCCATACT
314031 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
314049 AATAAAT
1 AATAAAT
314056 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 7 0.24
15 4 0.14
17 4 0.14
18 14 0.48
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATCAATCCATACT
Found at i:314023 original size:22 final size:22
Alignment explanation
Indices: 313974--314022 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
313964 ATAAATTATT
**
313974 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
313996 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
314019 TAAA
1 TAAA
314023 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:314032 original size:32 final size:32
Alignment explanation
Indices: 313994--314154 Score: 241
Period size: 32 Copynumber: 5.3 Consensus size: 32
313984 CAATCCATAT
313994 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
314026 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
314058 TTTAAAATAAATCAAT---T-C--AT--ATT-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
314081 TTAAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
314113 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
314145 TTTAAAATAA
1 TTTAAAATAA
314155 TTTATTTTAA
Statistics
Matches: 117, Mismatches: 3, Indels: 18
0.85 0.02 0.13
Matches are distributed among these distances:
23 15 0.13
24 3 0.03
26 3 0.03
27 1 0.01
28 1 0.01
29 3 0.03
31 3 0.03
32 88 0.75
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:314100 original size:55 final size:55
Alignment explanation
Indices: 314029--314133 Score: 210
Period size: 55 Copynumber: 1.9 Consensus size: 55
314019 TAAATTATTT
314029 AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTTA
1 AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTTA
314084 AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA
1 AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA
314134 CTAATAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (55 bp):
AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTTA
Found at i:314121 original size:87 final size:86
Alignment explanation
Indices: 313962--314154 Score: 359
Period size: 87 Copynumber: 2.2 Consensus size: 86
313952 ACAACTACAA
313962 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
314027 TTAAAATAAATCAATCCATAC
66 TTAAAATAAATCAATCCATAC
*
314048 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAAATAAATCAATCCATACTAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTT-AAAATAAATCAATCCATACTAATAAATTA
*
314113 TTTAAAATAAATCAATTCATAC
65 TTTAAAATAAATCAATCCATAC
314135 TAATAAATTATTTAAAATAA
1 TAATAAATTATTTAAAATAA
314155 TTTATTTTAA
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
86 34 0.33
87 70 0.67
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.36
Consensus pattern (86 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATAC
Found at i:314165 original size:15 final size:15
Alignment explanation
Indices: 314104--314223 Score: 91
Period size: 15 Copynumber: 7.5 Consensus size: 15
314094 AATCCATACT
314104 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
* * *
314118 AATAAATCAATTCATACT
1 AATAAAT-TATT-TTA-A
314136 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
314150 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
314165 AATAAATTAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
314187 AATAAATTATTTTAA
1 AATAAATTATTTTAA
314202 AATAAATTATTTTAA
1 AATAAATTATTTTAA
314217 AATAAAT
1 AATAAAT
314224 AACCTTATTA
Statistics
Matches: 84, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
14 15 0.18
15 40 0.48
16 2 0.02
17 4 0.05
18 10 0.12
19 2 0.02
20 1 0.01
22 10 0.12
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:316229 original size:6 final size:6
Alignment explanation
Indices: 316218--316266 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
316208 AAATTGCACA
*
316218 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TGTATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
316266 T
1 T
316267 GTACGTGTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:316267 original size:6 final size:6
Alignment explanation
Indices: 316259--316461 Score: 397
Period size: 6 Copynumber: 33.8 Consensus size: 6
316249 ATATGTATAT
*
316259 GTGTAT GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC
1 GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC
316307 GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC
1 GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC
316355 GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC
1 GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC
316403 GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC
1 GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC GTGTAC
316451 GTGTAC GTGTA
1 GTGTAC GTGTA
316462 TATATGTATA
Statistics
Matches: 196, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 196 1.00
ACGTcount: A:0.17, C:0.16, G:0.33, T:0.34
Consensus pattern (6 bp):
GTGTAC
Found at i:316811 original size:6 final size:6
Alignment explanation
Indices: 316800--316868 Score: 131
Period size: 6 Copynumber: 11.7 Consensus size: 6
316790 AAATCTTTTC
316800 TATGCT TATGCT TATGCT TATGCT TATGCT TATGCT TATGCT TATGCT
1 TATGCT TATGCT TATGCT TATGCT TATGCT TATGCT TATGCT TATGCT
316848 TATGCT TATGCT TATG-T TATG
1 TATGCT TATGCT TATGCT TATG
316869 AGCATAAAAG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.08
6 58 0.92
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.51
Consensus pattern (6 bp):
TATGCT
Found at i:317783 original size:21 final size:21
Alignment explanation
Indices: 317757--317799 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
317747 ATTCTGGGTT
* *
317757 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
317778 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
317799 A
1 A
317800 CAAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:317850 original size:67 final size:68
Alignment explanation
Indices: 317779--317929 Score: 189
Period size: 67 Copynumber: 2.2 Consensus size: 68
317769 ACCCATTCAA
* * *
317779 GGGGAACCGATACCCCTTCAACAAATATG-ATTTCCAGAATGCTAGAGGGGAATCGGTACCCC-A
1 GGGGAACCGATACCCC-TCAACAAATATGAAATTCCAGAATGCTAGAAGGGAATCGATACCCCTA
*
317842 GGGG
65 AGGG
* ** * *
317846 GGGGAACCGATACCCCTCATCGTATATGAAATTCCAGACTGCTTGAAGGGAATCGATACCCCTAA
1 GGGGAACCGATACCCCTCAACAAATATGAAATTCCAGAATGCTAGAAGGGAATCGATACCCCTAA
317911 GGG
66 GGG
*
317914 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
317930 CATGACAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
66 9 0.12
67 44 0.61
68 19 0.26
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.19
Consensus pattern (68 bp):
GGGGAACCGATACCCCTCAACAAATATGAAATTCCAGAATGCTAGAAGGGAATCGATACCCCTAA
GGG
Found at i:318265 original size:29 final size:29
Alignment explanation
Indices: 318231--318302 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
318221 CATATTATGA
**
318231 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
318260 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
318289 TACATGACATGAAT
1 TACATGACATGAAT
318303 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:318624 original size:23 final size:23
Alignment explanation
Indices: 318594--318663 Score: 140
Period size: 23 Copynumber: 3.0 Consensus size: 23
318584 CTTATGGACA
318594 AAATTCTACGGGCACTTCGGTGC
1 AAATTCTACGGGCACTTCGGTGC
318617 AAATTCTACGGGCACTTCGGTGC
1 AAATTCTACGGGCACTTCGGTGC
318640 AAATTCTACGGGCACTTCGGTGC
1 AAATTCTACGGGCACTTCGGTGC
318663 A
1 A
318664 TTTATACGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
AAATTCTACGGGCACTTCGGTGC
Found at i:324729 original size:21 final size:21
Alignment explanation
Indices: 324703--324745 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
324693 ATTCTGGGTT
* *
324703 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
324724 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
324745 A
1 A
324746 CAAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:324809 original size:69 final size:69
Alignment explanation
Indices: 324725--324879 Score: 186
Period size: 69 Copynumber: 2.2 Consensus size: 69
324715 ACCCATTCAA
* * * *
324725 GGGGAACCGATACCCCTTCAACAAATATG-ATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACAAATATGAAATTCCAGAATGCTAGAAGGGAATCGATACCCCCA
*
324789 GGGGG
66 -AGGG
* ** * * *
324794 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGACTGCTTGAAGGGAATCGATACCCCTA
1 GGGGAACCGATACCCCCTCAACAAATATGAAATTCCAGAATGCTAGAAGGGAATCGATACCCCCA
324859 AGGG
66 AGGG
*
324863 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
324880 ATGACAAAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
69 44 0.60
70 29 0.40
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCAACAAATATGAAATTCCAGAATGCTAGAAGGGAATCGATACCCCCA
AGGG
Found at i:325216 original size:29 final size:29
Alignment explanation
Indices: 325182--325253 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
325172 CATATTATGA
**
325182 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
325211 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
325240 TACATGACATGAAT
1 TACATGACATGAAT
325254 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:325575 original size:23 final size:23
Alignment explanation
Indices: 325545--325614 Score: 140
Period size: 23 Copynumber: 3.0 Consensus size: 23
325535 CTTATGGACA
325545 AAATTCTACGGGCACTTCGGTGC
1 AAATTCTACGGGCACTTCGGTGC
325568 AAATTCTACGGGCACTTCGGTGC
1 AAATTCTACGGGCACTTCGGTGC
325591 AAATTCTACGGGCACTTCGGTGC
1 AAATTCTACGGGCACTTCGGTGC
325614 A
1 A
325615 TTTATACGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
AAATTCTACGGGCACTTCGGTGC
Found at i:329929 original size:2 final size:2
Alignment explanation
Indices: 329922--329946 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
329912 TGGCAAAGTA
329922 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
329947 TTGTGCTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:334946 original size:16 final size:18
Alignment explanation
Indices: 334914--334946 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
334904 CCTTCGCTTT
334914 CCCTGCCCTTGTTCCAAA
1 CCCTGCCCTTGTTCCAAA
334932 CCCTG-CCTT-TTCCAA
1 CCCTGCCCTTGTTCCAA
334947 TCTGCATGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.15, C:0.45, G:0.09, T:0.30
Consensus pattern (18 bp):
CCCTGCCCTTGTTCCAAA
Found at i:336536 original size:7 final size:7
Alignment explanation
Indices: 336526--336570 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
336516 TTTATTATTA
336526 TTTAGGG
1 TTTAGGG
336533 TTTAGGG
1 TTTAGGG
336540 TTTAGGG
1 TTTAGGG
336547 TTTAGGG
1 TTTAGGG
*
336554 TTTAAGG
1 TTTAGGG
336561 TTTAGGG
1 TTTAGGG
336568 TTT
1 TTT
336571 TAAGTTAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Done.