Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008797.1 Hibiscus syriacus cultivar Beakdansim tig00111942_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: 1112200
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 5
Found at i:132688 original size:243 final size:243
Alignment explanation
Indices: 132260--132938 Score: 1159
Period size: 243 Copynumber: 2.8 Consensus size: 243
132250 CCTCCTACGT
* *
132260 TGAATAGAGAAACCCCGGAAGGGCCAAATCCCCTTCATAACAATTTTCCTCCTACGTCGCCTCAT
1 TGAATAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCTACGTCGCCTCAT
*
132325 GCTTTTGATGCTATTGTGAAGAGAGAAACGCCAGAGGGGCCAAATCCCCTTCATCACAATTTTCC
66 GCTTTTAATGCTATTGTGAAGAGAGAAACGCCAGAGGGGCCAAATCCCCTTCATCACAATTTTCC
*
132390 TCCAACTTCGCCTCATGCTTTTAATGCTATTGTGAATAGAGAAACCCCGGAAGGTCCAAATCCCC
131 TCCAACTTCGCCTCATGCTTTTAATTCTATTGTGAATAGAGAAACCCCGGAAGGTCCAAATCCCC
132455 TTCATCACAATTTTCCTCCAACTTCGCCTCATGCTTTTAATGCTATTG
196 TTCATCACAATTTTCCTCCAACTTCGCCTCATGCTTTTAATGCTATTG
132503 TGAATAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCTACGTCGCCTCAT
1 TGAATAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCTACGTCGCCTCAT
132568 GCTTTTAATGCTATTGTGAAGAGAGAAACGCCAGAGGGGCCAAATCCCCTTCATCACAATTTTCC
66 GCTTTTAATGCTATTGTGAAGAGAGAAACGCCAGAGGGGCCAAATCCCCTTCATCACAATTTTCC
132633 TCCAACTTCGCCTCATGCTTTTAATTCTATTGTGAATAGAGAAACCCCGGAAGGTCCAAATCCCC
131 TCCAACTTCGCCTCATGCTTTTAATTCTATTGTGAATAGAGAAACCCCGGAAGGTCCAAATCCCC
132698 TTCATCACAATTTTCCTCCAACTTCGCCTCATGCTTTTAATGCTATTG
196 TTCATCACAATTTTCCTCCAACTTCGCCTCATGCTTTTAATGCTATTG
* *
132746 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCTACGTCACCTCAT
1 TGAATAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCTACGTCGCCTCAT
* * * *
132811 GCTTTTAATGCTATTGTGAAGAGAGAAAC-CCTGGAAGGTCCAAATCCTCTTCATCACAATTTTC
66 GCTTTTAATGCTATTGTGAAGAGAGAAACGCC-AGAGGGGCCAAATCCCCTTCATCACAATTTTC
* * * * *
132875 CTCCTA-TGTCGCCTCATGCTTTTAATATC-ATTGTGAAAAGA-AATACACCGGAAAGACCAAAT
130 CTCCAACT-TCGCCTCATGCTTTTAAT-TCTATTGTGAATAGAGAA-ACCCCGGAAGGTCCAAAT
132937 CC
192 CC
132939 TCATCGTCAC
Statistics
Matches: 417, Mismatches: 15, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
242 5 0.01
243 410 0.98
244 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (243 bp):
TGAATAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCTACGTCGCCTCAT
GCTTTTAATGCTATTGTGAAGAGAGAAACGCCAGAGGGGCCAAATCCCCTTCATCACAATTTTCC
TCCAACTTCGCCTCATGCTTTTAATTCTATTGTGAATAGAGAAACCCCGGAAGGTCCAAATCCCC
TTCATCACAATTTTCCTCCAACTTCGCCTCATGCTTTTAATGCTATTG
Found at i:132940 original size:81 final size:81
Alignment explanation
Indices: 132260--132900 Score: 1032
Period size: 81 Copynumber: 7.9 Consensus size: 81
132250 CCTCCTACGT
* * * * *
132260 TGAATAGAGAAACCCCGGAAGGGCCAAATCCCCTTCATAACAATTTTCCTCCTACGTCGCCTCAT
1 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
*
132325 GCTTTTGATGCTATTG
66 GCTTTTAATGCTATTG
* * * *
132341 TGAAGAGAGAAACGCCAGAGGGGCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
1 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
132406 GCTTTTAATGCTATTG
66 GCTTTTAATGCTATTG
*
132422 TGAATAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
1 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
132487 GCTTTTAATGCTATTG
66 GCTTTTAATGCTATTG
* * *
132503 TGAATAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCTACGTCGCCTCAT
1 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
132568 GCTTTTAATGCTATTG
66 GCTTTTAATGCTATTG
* * * *
132584 TGAAGAGAGAAACGCCAGAGGGGCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
1 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
*
132649 GCTTTTAATTCTATTG
66 GCTTTTAATGCTATTG
*
132665 TGAATAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
1 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
132730 GCTTTTAATGCTATTG
66 GCTTTTAATGCTATTG
* * *
132746 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCTACGTCACCTCAT
1 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
132811 GCTTTTAATGCTATTG
66 GCTTTTAATGCTATTG
* * *
132827 TGAAGAGAGAAACCCTGGAAGGTCCAAATCCTCTTCATCACAATTTTCCTCCTA-TGTCGCCTCA
1 TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACT-TCGCCTCA
132891 TGCTTTTAAT
65 TGCTTTTAAT
132901 ATCATTGTGA
Statistics
Matches: 522, Mismatches: 37, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
81 522 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (81 bp):
TGAAGAGAGAAACCCCGGAAGGTCCAAATCCCCTTCATCACAATTTTCCTCCAACTTCGCCTCAT
GCTTTTAATGCTATTG
Found at i:136454 original size:16 final size:16
Alignment explanation
Indices: 136407--136458 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
136397 TGCGGTTTAG
*
136407 TTTGTTAAAATCATGT
1 TTTGTTAAAATCATAT
** ** *
136423 TTTCATATGATAATAT
1 TTTGTTAAAATCATAT
136439 TTTGTTAAAATCATAT
1 TTTGTTAAAATCATAT
136455 TTTG
1 TTTG
136459 CGTTTTGCAA
Statistics
Matches: 25, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (16 bp):
TTTGTTAAAATCATAT
Found at i:159285 original size:2 final size:2
Alignment explanation
Indices: 159278--159348 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
159268 AGCCTCAAAC
159278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
159320 TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
159349 GTGTGTTGAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:165134 original size:13 final size:14
Alignment explanation
Indices: 165107--165151 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
165097 CTCTAAATTA
165107 TAAACTATAAACCC
1 TAAACTATAAACCC
165121 TAAACTAT-AACCC
1 TAAACTATAAACCC
*
165134 TATTA-TATAAACCC
1 TA-AACTATAAACCC
165148 TAAA
1 TAAA
165152 TCCTAACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACTATAAACCC
Found at i:168259 original size:14 final size:14
Alignment explanation
Indices: 168240--168268 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
168230 ATCATTAAGA
168240 AACGATTAATCGTT
1 AACGATTAATCGTT
168254 AACGATTAATCGTT
1 AACGATTAATCGTT
168268 A
1 A
168269 TTAACAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (14 bp):
AACGATTAATCGTT
Found at i:168307 original size:89 final size:89
Alignment explanation
Indices: 168195--168369 Score: 332
Period size: 89 Copynumber: 2.0 Consensus size: 89
168185 GGTTAATCAG
*
168195 TTTAACAATTACTAAATTTTACTAATTATTACCTAATCATTAAGAAACGATTAATCGTTAACGAT
1 TTTAACAATTACTAAATTTTACTAATTATTACCTAATCATTAAGAAACAATTAATCGTTAACGAT
*
168260 TAATCGTTATTAACAGTGAAGCAA
66 TAATCATTATTAACAGTGAAGCAA
168284 TTTAACAATTACTAAATTTTACTAATTATTACCTAATCATTAAGAAACAATTAATCGTTAACGAT
1 TTTAACAATTACTAAATTTTACTAATTATTACCTAATCATTAAGAAACAATTAATCGTTAACGAT
168349 TAATCATTATTAACAGTGAAG
66 TAATCATTATTAACAGTGAAG
168370 ATATTGGTTA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (89 bp):
TTTAACAATTACTAAATTTTACTAATTATTACCTAATCATTAAGAAACAATTAATCGTTAACGAT
TAATCATTATTAACAGTGAAGCAA
Found at i:169936 original size:31 final size:31
Alignment explanation
Indices: 169901--169984 Score: 84
Period size: 35 Copynumber: 2.6 Consensus size: 31
169891 AGCCTTTTTT
169901 ATATTTTTAATTTTATAAA-AAAATTATATAA
1 ATATTTTTAATTTTATAAAGAAAA-TATATAA
169932 ATATTATGAATTTAATTTT-TAAAGAAAATATATAA
1 ATA-T-T---TTTAATTTTATAAAGAAAATATATAA
169967 ATATTTTATAA-TTTATAA
1 ATATTTT-TAATTTTATAA
169985 TATTATACAA
Statistics
Matches: 45, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
30 5 0.11
31 9 0.20
32 1 0.02
33 2 0.04
34 1 0.02
35 14 0.31
36 13 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
ATATTTTTAATTTTATAAAGAAAATATATAA
Found at i:169980 original size:36 final size:37
Alignment explanation
Indices: 169897--169981 Score: 106
Period size: 36 Copynumber: 2.3 Consensus size: 37
169887 ATTAAGCCTT
*
169897 TTTTATATTTTTAATTTTATAAAAAAATTATATAAATA
1 TTTTATA-ATTTAATTTTATAAAAAAATTATATAAATA
169935 --TTATGAATTTAATTTT-TAAAGAAAA-TATATAAATA
1 TTTTAT-AATTTAATTTTATAAA-AAAATTATATAAATA
169970 TTTTATAATTTA
1 TTTTATAATTTA
169982 TAATATTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
35 14 0.33
36 23 0.55
37 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (37 bp):
TTTTATAATTTAATTTTATAAAAAAATTATATAAATA
Found at i:170001 original size:18 final size:17
Alignment explanation
Indices: 169956--170004 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
169946 ATTTTTAAAG
*
169956 AAAATATATAAATATTTT
1 AAAATATAT-AATATTAT
* *
169974 ATAATTTATAATATTAT
1 AAAATATATAATATTAT
169991 ACAAATATATAATA
1 A-AAATATATAATA
170005 AGGACAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATATATAATATTAT
Found at i:170133 original size:16 final size:15
Alignment explanation
Indices: 170107--170136 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
170097 AAATACAACA
170107 TTCCCAGTAATCTTG
1 TTCCCAGTAATCTTG
170122 TTCCCTAGTAATCTT
1 TTCCC-AGTAATCTT
170137 TTATTCACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.43
Consensus pattern (15 bp):
TTCCCAGTAATCTTG
Found at i:172116 original size:16 final size:16
Alignment explanation
Indices: 172075--172116 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
172065 GTCAGAAAAT
*
172075 TAAAAAAATATATATA
1 TAAATAAATATATATA
*
172091 T-AATATAATATATGTA
1 TAAATA-AATATATATA
172107 TAAATAAATA
1 TAAATAAATA
172117 AATACAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.14
16 15 0.68
17 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAATAAATATATATA
Found at i:173218 original size:24 final size:24
Alignment explanation
Indices: 173188--173233 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
173178 GAATAATCAT
173188 TAAATTTATCAAAATGTTAAAAAA
1 TAAATTTATCAAAATGTTAAAAAA
* *
173212 TAAATTTATTAAAATTTTAAAA
1 TAAATTTATCAAAATGTTAAAA
173234 TTATTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
TAAATTTATCAAAATGTTAAAAAA
Found at i:176293 original size:17 final size:17
Alignment explanation
Indices: 176268--176309 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
176258 ATTAAAAAAT
* * *
176268 AATAATATTATTTTTGA
1 AATATTATTATTATTAA
176285 AATATTATTATTATTAA
1 AATATTATTATTATTAA
176302 AATATTAT
1 AATATTAT
176310 ATCTATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
AATATTATTATTATTAA
Found at i:176364 original size:33 final size:34
Alignment explanation
Indices: 176317--176475 Score: 91
Period size: 33 Copynumber: 4.6 Consensus size: 34
176307 TATATCTATA
176317 ATTTTA-T-AAATAAAAATATTTATTTTATTA-T
1 ATTTTATTAAAATAAAAATATTTATTTTATTACT
* **
176348 ATTTTATTAAAATAAAATTATTATAAATTA-TACT
1 ATTTTATTAAAATAAAAATATT-TATTTTATTACT
** * *
176382 AATTATTTATTAAAATACGATTA-ATATTTTATTA--
1 -A-T-TTTATTAAAATAAAAATATTTATTTTATTACT
* *
176416 ATTATATTAATTAATTATAAAATA-TTATTATTATTATT
1 ATTTTATTAA--AA-TA-AAAATATTTATT-TTATTACT
*
176454 ATTATATTAAAATAAAAATATT
1 ATTTTATTAAAATAAAAATATT
176476 ATACCCATTA
Statistics
Matches: 99, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
31 13 0.13
32 2 0.02
33 17 0.17
34 14 0.14
35 16 0.16
36 11 0.11
37 16 0.16
38 10 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (34 bp):
ATTTTATTAAAATAAAAATATTTATTTTATTACT
Found at i:176399 original size:19 final size:19
Alignment explanation
Indices: 176350--176399 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
176340 TTTATTATAT
176350 TTTATTAAAATA-AAATTA
1 TTTATTAAAATACAAATTA
*
176368 -TTA-TAAATTATACTAATTA
1 TTTATTAAA--ATACAAATTA
176387 TTTATTAAAATAC
1 TTTATTAAAATAC
176400 GATTAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
16 4 0.15
17 3 0.12
18 3 0.12
19 9 0.35
20 3 0.12
21 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTATTAAAATACAAATTA
Found at i:176420 original size:42 final size:42
Alignment explanation
Indices: 176364--176462 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
176354 TTAAAATAAA
* *
176364 ATTATTATAAATTATACTAATTATTTATTAAAATACGATTAAT
1 ATTATTATTAATTATACTAATTAATTA-TAAAATACGATTAAT
* ** *
176407 ATT-TTATTAATTATATTAATTAATTATAAAATATTATTATT
1 ATTATTATTAATTATACTAATTAATTATAAAATACGATTAAT
176448 ATTATTATTATATTA
1 ATTATTATTA-ATTA
176463 AAATAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 15 0.31
42 26 0.54
43 7 0.15
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (42 bp):
ATTATTATTAATTATACTAATTAATTATAAAATACGATTAAT
Found at i:176426 original size:20 final size:20
Alignment explanation
Indices: 176401--176463 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
176391 TTAAAATACG
176401 ATTAATATTTTATTAATTAT
1 ATTAATATTTTATTAATTAT
* *
176421 ATTAAT-TAATTA-TAA-AAT
1 ATTAATAT-TTTATTAATTAT
*
176439 ATTATTATTATTATT-ATTAT
1 ATTAATATT-TTATTAATTAT
176459 ATTAA
1 ATTAA
176464 AATAAAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 7 0.22
19 9 0.28
20 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTAATATTTTATTAATTAT
Found at i:187293 original size:13 final size:13
Alignment explanation
Indices: 187275--187301 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
187265 TGTTAAAACA
187275 CGCGCTAATCATC
1 CGCGCTAATCATC
187288 CGCGCTAATCATC
1 CGCGCTAATCATC
187301 C
1 C
187302 TTACTCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (13 bp):
CGCGCTAATCATC
Found at i:188374 original size:23 final size:23
Alignment explanation
Indices: 188348--188392 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
188338 CACCACAGCT
*
188348 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
188371 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
188393 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:188610 original size:149 final size:148
Alignment explanation
Indices: 188360--188673 Score: 477
Period size: 149 Copynumber: 2.1 Consensus size: 148
188350 TATAATTGCA
188360 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
* * * * * *
188424 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCACAAATGTT
* *
188489 CCACAGAATATATATATATC
129 CCAAAGAATATACATATATC
* * * *
188509 CCGAAGGACCTCGTAGAATTTCACCTTAGTGCCATATAATAATGTCCCTAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
*
188574 TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCATAAATGTTCC
66 TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCC
*
188639 AAAGAATATACATATGTC
131 AAAGAATATACATATATC
188657 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
188674 CCCTCGACTC
Statistics
Matches: 149, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
148 48 0.32
149 101 0.68
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (148 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCC
AAAGAATATACATATATC
Found at i:190191 original size:64 final size:63
Alignment explanation
Indices: 190093--190253 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
190083 TAATGAAGGT
* *
190093 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
190156 GG
62 GC
*
190158 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
190222 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
190254 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:195760 original size:3 final size:3
Alignment explanation
Indices: 195714--195781 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
195704 TTGTAATATT
* * *
195714 TAA TAAA TAA TATA TAA CT-A TAA TTA TAA TTA TAA TAC TAA TAA TAA
1 TAA T-AA TAA TA-A TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
195761 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
195782 ATTTAAATGA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 1 0.02
3 43 0.84
4 7 0.14
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:195773 original size:18 final size:18
Alignment explanation
Indices: 195752--195787 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
195742 ATTATAATAC
*
195752 TAATAATAATAATTTTAA
1 TAATAATAATAAATTTAA
195770 TAATAATAATAAATTTAA
1 TAATAATAATAAATTTAA
195788 ATGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATAAATTTAA
Found at i:198807 original size:31 final size:31
Alignment explanation
Indices: 198709--198799 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
198699 CAATTTAAGG
198709 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
198740 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
198771 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
198800 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 12 0.20
31 37 0.62
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:198891 original size:19 final size:19
Alignment explanation
Indices: 198864--198930 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
198854 AATGTTTTTA
* *
198864 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
198883 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
*
198902 TGAACAGTAAATCACTATT
1 TGAACAGTAAATTACTATT
198921 TGAACAGTAA
1 TGAACAGTAA
198931 CCCGAGGCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:199062 original size:21 final size:21
Alignment explanation
Indices: 199036--199077 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
199026 ATTTGAATAT
*
199036 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
199057 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
199078 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:210940 original size:22 final size:22
Alignment explanation
Indices: 210915--210962 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
210905 GTTATTAACC
210915 TTATCAAA-TTATCTAAAATTTA
1 TTATCAAATTTATC-AAAATTTA
*
210937 TTATTAAATTTATCAAAATTTA
1 TTATCAAATTTATCAAAATTTA
210959 TTAT
1 TTAT
210963 ATTATATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATCAAATTTATCAAAATTTA
Found at i:212652 original size:2 final size:2
Alignment explanation
Indices: 212645--212688 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
212635 TGGAGCTGCA
212645 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
212687 AT
1 AT
212689 GTACCACATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:215580 original size:33 final size:35
Alignment explanation
Indices: 215524--215594 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 35
215514 ACGTATGTGA
*
215524 AAAAATAAATAAATATGTGTATATTATAAATGATT
1 AAAAATAAATAAATATGTGTATATCATAAATGATT
*
215559 AAAAATAAAT-AA-ATGTGTATATCGTAAATGATT
1 AAAAATAAATAAATATGTGTATATCATAAATGATT
215592 AAA
1 AAA
215595 GAGAATAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 22 0.65
34 2 0.06
35 10 0.29
ACGTcount: A:0.55, C:0.01, G:0.10, T:0.34
Consensus pattern (35 bp):
AAAAATAAATAAATATGTGTATATCATAAATGATT
Found at i:220172 original size:201 final size:203
Alignment explanation
Indices: 219932--220336 Score: 593
Period size: 201 Copynumber: 2.0 Consensus size: 203
219922 TTTAAAAATG
* *
219932 GGGTTTGGGTCGGATCAAGTTTAGGGTGAAAAATACCTGACCCAACCCGAAAAATATATAATTTT
1 GGGTTGGGGTCGGATCAAGTTTAGGGTGAAAAATACCTGACCCAACCCAAAAAATATATAATTTT
**
219997 ACATTATATATTTAGGAATAATTACAACAATACCC-CTCTATATATTATTTTTTTCAATTAAGGC
66 ACATTATATATTTAAAAATAATTACAACAATACCCTCTCTATATA-TA-TTTTTTCAATTAAGGC
* *
220061 ACTATTTTTATTGAAT-AAA-AATA-GTTTTTATTATTTCGGGTTGGGCCGGGTCGGGTTTTTAA
129 ACTATTTTTATTGAATAAAATAATATGTTTTTATTATTTCGGGTTGGGCCAGGTCAGGTTTTTAA
220123 GTTATATATC
194 GTTATATATC
* * * *
220133 GGGTTGGGGTCGGGTTAGGTTTAGGGTGAAAAATACCTGACCCGACCCAAAAAATATATAATTTT
1 GGGTTGGGGTCGGATCAAGTTTAGGGTGAAAAATACCTGACCCAACCCAAAAAATATATAATTTT
* * * * *
220198 ACCTTATATATTTAAAAATAATTACAATAATGCCCTCTCTCTATATATTTTTTCAATTAAGTCAC
66 ACATTATATATTTAAAAATAATTACAACAATACCCTCTCTATATATATTTTTTCAATTAAGGCAC
* * *
220263 TGTTTTTATTGAATAAAAATAATATTTTTTTATTATTTCGGGTTGGGTCAGGTCAGGTTTTTAAG
131 TATTTTTATTGAAT-AAAATAATATGTTTTTATTATTTCGGGTTGGGCCAGGTCAGGTTTTTAAG
220328 TTATATATC
195 TTATATATC
220337 AGGTCGGTTT
Statistics
Matches: 181, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
200 30 0.17
201 91 0.50
202 11 0.06
203 4 0.02
204 45 0.25
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (203 bp):
GGGTTGGGGTCGGATCAAGTTTAGGGTGAAAAATACCTGACCCAACCCAAAAAATATATAATTTT
ACATTATATATTTAAAAATAATTACAACAATACCCTCTCTATATATATTTTTTCAATTAAGGCAC
TATTTTTATTGAATAAAATAATATGTTTTTATTATTTCGGGTTGGGCCAGGTCAGGTTTTTAAGT
TATATATC
Found at i:220496 original size:213 final size:216
Alignment explanation
Indices: 220244--220659 Score: 811
Period size: 213 Copynumber: 1.9 Consensus size: 216
220234 CTCTCTATAT
220244 ATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATATTTTTTTATTATTTCGGGTTGG
1 ATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATATTTTTTTATTATTTCGGGTTGG
220309 GTCAGGTCAGGTTTTTAAGTTATATATCAGGTCGGTTTGGGTC-GGTGGAATCTTG-TTTGGTCG
66 GTCAGGTCAGGTTTTTAAGTTATATATCAGGTCGGTTTGGGTCGGGTGGAATCTTGTTTTGGTCG
220372 AGTCGGGTCAGATCTTGAGTGGAGGATTCCTTGTTCTCGGGTTGGGTCGGGTGGACC-AAAATCT
131 AGTCGGGTCAGATCTTGAGTGGAGGATTCCTTGTTCTCGGGTTGGGTCGGGTGGACCAAAAATCT
220436 GACCCAACTCCATCCCTAATG
196 GACCCAACTCCATCCCTAATG
220457 ATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATATTTTTTTATTATTTCGGGTTGG
1 ATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATATTTTTTTATTATTTCGGGTTGG
220522 GTCAGGTCAGGTTTTTAAGTTATATATCAGGTCGGTTTGGGTCGGGTGGAATCTTGTTTTGGTCG
66 GTCAGGTCAGGTTTTTAAGTTATATATCAGGTCGGTTTGGGTCGGGTGGAATCTTGTTTTGGTCG
220587 AGTCGGGTCAGATCTTGAGTGGAGGATTCCTTGTTCTCGGGTTGGGTCGGGTGGACCAAAAATCT
131 AGTCGGGTCAGATCTTGAGTGGAGGATTCCTTGTTCTCGGGTTGGGTCGGGTGGACCAAAAATCT
220652 GACCCAAC
196 GACCCAAC
220660 CCGACCCATG
Statistics
Matches: 200, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
213 108 0.54
214 12 0.06
215 65 0.32
216 15 0.08
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.39
Consensus pattern (216 bp):
ATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATATTTTTTTATTATTTCGGGTTGG
GTCAGGTCAGGTTTTTAAGTTATATATCAGGTCGGTTTGGGTCGGGTGGAATCTTGTTTTGGTCG
AGTCGGGTCAGATCTTGAGTGGAGGATTCCTTGTTCTCGGGTTGGGTCGGGTGGACCAAAAATCT
GACCCAACTCCATCCCTAATG
Found at i:222900 original size:28 final size:30
Alignment explanation
Indices: 222837--222900 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
222827 AAGTAACTAG
222837 AAAT-TTTTTTGATCAAAATAAATACCTTA
1 AAATATTTTTTGATCAAAATAAATACCTTA
** * *
222866 AGTTATTTTTTG-TCAAAATAGATA-TTTA
1 AAATATTTTTTGATCAAAATAAATACCTTA
222894 AAATATT
1 AAATATT
222901 CAAAATTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 8 0.29
29 13 0.46
30 7 0.25
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (30 bp):
AAATATTTTTTGATCAAAATAAATACCTTA
Found at i:223145 original size:17 final size:17
Alignment explanation
Indices: 223101--223147 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 17
223091 AACCGACCGA
223101 ACCGAATTAGTTCGGTT
1 ACCGAATTAGTTCGGTT
223118 ----AATTCAGTTCGGTT
1 ACCGAATT-AGTTCGGTT
223132 ACCGAATTAGTTCGGT
1 ACCGAATTAGTTCGGT
223148 CGGTTAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
17 8 0.32
18 4 0.16
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (17 bp):
ACCGAATTAGTTCGGTT
Found at i:226995 original size:33 final size:33
Alignment explanation
Indices: 226958--227046 Score: 119
Period size: 33 Copynumber: 2.8 Consensus size: 33
226948 CCAACACGCT
*
226958 GGGCATCCGAGGCCATCCGAACGAGCTATGCGA
1 GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
* *
226991 GGGCATCCGAGGGCAACCGAGCGAGCTATGCGA
1 GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
* *
227024 GGGAATCCGA-G-CAACCGAGCGAG
1 GGGCATCCGAGGCCAACCGAACGAG
227047 GGTAGGTCGC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 12 0.23
32 1 0.02
33 39 0.75
ACGTcount: A:0.26, C:0.28, G:0.37, T:0.09
Consensus pattern (33 bp):
GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
Found at i:227163 original size:34 final size:34
Alignment explanation
Indices: 227116--227182 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
227106 GCATAGCTCG
* *
227116 TTCGGATGACCTCGGTCGGATGGCCTCGGATGCT
1 TTCGGATGACCTCGATCGGATGACCTCGGATGCT
*
227150 TTCGGATGGCCTCGATCGGATGACCTCGGATGC
1 TTCGGATGACCTCGATCGGATGACCTCGGATGC
227183 CCAGCGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.13, C:0.27, G:0.34, T:0.25
Consensus pattern (34 bp):
TTCGGATGACCTCGATCGGATGACCTCGGATGCT
Found at i:228544 original size:31 final size:31
Alignment explanation
Indices: 228504--228593 Score: 126
Period size: 31 Copynumber: 2.9 Consensus size: 31
228494 ATTCAACTAC
* *
228504 TAAACTTTAGATAAAATATTAATTTGACCCT
1 TAAACTTTAGATAAAATATCAATTTAACCCT
* **
228535 TAAATTTTAGATAAAATATCAATTTAACTTT
1 TAAACTTTAGATAAAATATCAATTTAACCCT
*
228566 TAAAGTTTAGATAAAATATCAATTTAAC
1 TAAACTTTAGATAAAATATCAATTTAAC
228594 ACCTAAATCC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (31 bp):
TAAACTTTAGATAAAATATCAATTTAACCCT
Found at i:228764 original size:30 final size:28
Alignment explanation
Indices: 228707--228797 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
228697 AATTTAGGGG
228707 TTAAATTGATATTTTATCTAAAGTTAAAGAA
1 TTAAATT-ATA-TTTATCTAAAGTTAAAG-A
* *
228738 TTAAATTATATTTATCTAAATTTTAAAGG
1 TTAAATTATATTTATCTAAA-GTTAAAGA
* * *
228767 TTAAATTA-ATTTTTATAAAGTTTAGAGA
1 TTAAATTATATTTATCTAAAG-TTAAAGA
228795 TTA
1 TTA
228798 TACTAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
28 17 0.33
29 18 0.35
30 9 0.18
31 7 0.14
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (28 bp):
TTAAATTATATTTATCTAAAGTTAAAGA
Found at i:231046 original size:3 final size:3
Alignment explanation
Indices: 231038--231135 Score: 133
Period size: 3 Copynumber: 32.7 Consensus size: 3
231028 TAATATAAAT
*
231038 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** *
231086 TAT TAT TAT TAA TAA TAA TAA GGA TAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
231134 TA
1 TA
231136 TGGATAAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:231142 original size:15 final size:15
Alignment explanation
Indices: 231095--231142 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
231085 TTATTATTAT
*
231095 TAATAATAATAAGGA
1 TAATAATAATATGGA
**
231110 TAATAATAATATTAA
1 TAATAATAATATGGA
231125 TAATAATAATATGGA
1 TAATAATAATATGGA
231140 TAA
1 TAA
231143 AAAAAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (15 bp):
TAATAATAATATGGA
Found at i:231500 original size:113 final size:113
Alignment explanation
Indices: 231302--231510 Score: 332
Period size: 113 Copynumber: 1.8 Consensus size: 113
231292 TCTTGATGAG
*
231302 TTCTTCTCATTATGAACTTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTG
1 TTCTTCTCATTATGAACTTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTACCTG
* * *
231367 GCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
231415 TTCTTCTCATTATGAAC-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CTC
1 TTCTTCTCATTATGAACTTTC-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTAC-C
* *
231478 TGGAAAAGCTGTTCCATCAAATGATGGATTCAA
64 TGGAAAAGCTGATCCATCAAATGATGAATTCAA
231511 ATCTTTGCTA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
112 4 0.05
113 84 0.95
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTACCTG
GAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
Found at i:232377 original size:82 final size:82
Alignment explanation
Indices: 232124--232631 Score: 858
Period size: 82 Copynumber: 6.2 Consensus size: 82
232114 TTTACTATGA
* * * * *
232124 GTAAATTCATCTTCCAAATTCAATGCTTGTTCT-ATCCAACCAGATCAGATAACTCAAAGAACAC
1 GTAAATTCATCTTCTAAATTCAATGATTGTTCTGCT-AAACCAGGTCAGATAACTCAAAGAACAC
232188 TTCCAGAAGATGCTATTG
65 TTCCAGAAGATGCTATTG
* * * * * * *
232206 GCAAATTCATCTTCCAAATTCAATGCTTGGTTCT-ATATAATCAGATCAAATAACTCAAAGAACA
1 GTAAATTCATCTTCTAAATTCAATGATT-GTTCTGCTA-AACCAGGTCAGATAACTCAAAGAACA
232270 CTTCCAGAAGATGCTATTG
64 CTTCCAGAAGATGCTATTG
*
232289 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GTAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
232354 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
232371 GTAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GTAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
232436 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
232453 GTAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GTAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
232518 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
232535 GTAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GTAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
232600 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
232617 GTAAATTCATCTTCT
1 GTAAATTCATCTTCT
232632 GTTTAATGTT
Statistics
Matches: 412, Mismatches: 11, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
82 334 0.81
83 78 0.19
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (82 bp):
GTAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
TCCAGAAGATGCTATTG
Found at i:233408 original size:19 final size:16
Alignment explanation
Indices: 233386--233440 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
233376 AATAGAAAAG
233386 AATAAATTGAATTTCCAAA
1 AATAAATTGAATTT-C--A
*
233405 AATAAATTGAATCTCA
1 AATAAATTGAATTTCA
*
233421 AATAAATTGAATTTGA
1 AATAAATTGAATTTCA
233437 AATA
1 AATA
233441 GATATAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 19 0.58
18 1 0.03
19 13 0.39
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (16 bp):
AATAAATTGAATTTCA
Found at i:233771 original size:7 final size:6
Alignment explanation
Indices: 233762--233825 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
233752 CACCTTTTTC
* * *
233762 TTTCTT CTTT-TT TTTCAT TTTCTA TTT-TT TTTCTT TTTTTT TTTCTT
1 TTTCTT -TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* *
233809 CTTCCT TTT-TT TTTCTT
1 TTTCTT TTTCTT TTTCTT
233826 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
5 11 0.25
6 30 0.68
7 3 0.07
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:233795 original size:11 final size:10
Alignment explanation
Indices: 233756--233825 Score: 54
Period size: 10 Copynumber: 6.8 Consensus size: 10
233746 TTGACCCACC
233756 TTTTTCTTTCT
1 TTTTTCTTT-T
233767 TCTTTT-TTTT
1 T-TTTTCTTTT
*
233777 CATTTTCTATTT
1 -TTTTTCT-TTT
233789 TTTTTCTTTT
1 TTTTTCTTTT
*
233799 TTTTT-TTCT
1 TTTTTCTTTT
* *
233808 TCTTCCTTTT
1 TTTTTCTTTT
233818 TTTTTCTT
1 TTTTTCTT
233826 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
9 6 0.13
10 22 0.48
11 11 0.24
12 7 0.15
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:233800 original size:18 final size:16
Alignment explanation
Indices: 233756--233811 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 16
233746 TTGACCCACC
*
233756 TTTTTCTTTCTTCTTT
1 TTTTTCTTTTTTCTTT
* *
233772 TTTTTCATTTTCTATTT
1 TTTTTC-TTTTTTCTTT
233789 TTTTTCTTTTTT-TTT
1 TTTTTCTTTTTTCTTT
*
233804 TTCTTCTT
1 TTTTTCTT
233812 CCTTTTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 10 0.29
16 11 0.32
17 13 0.38
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:233801 original size:29 final size:29
Alignment explanation
Indices: 233754--233826 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
233744 CCTTGACCCA
*
233754 CCTTTTTCTTTCTTCTTTTTTTTCATT-TT
1 CCTTTTTTTTTCTTCTTTTTTTTC-TTCTT
*
233783 -CTATTTTTTTTCTTTTTTTTTTTCTTCTT
1 CCT-TTTTTTTTCTTCTTTTTTTTCTTCTT
233812 CCTTTTTTTTTCTTC
1 CCTTTTTTTTTCTTC
233827 AAGCATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 4 0.11
29 32 0.84
30 2 0.05
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (29 bp):
CCTTTTTTTTTCTTCTTTTTTTTCTTCTT
Found at i:233817 original size:17 final size:15
Alignment explanation
Indices: 233756--233826 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
233746 TTGACCCACC
*
233756 TTTTTCTTTCTTCTTT
1 TTTTTC-TTCTTTTTT
* *
233772 TTTTTCATT-TTCTAT
1 TTTTTC-TTCTTTTTT
233787 TTTTT-TTCTTTTTT
1 TTTTTCTTCTTTTTT
233801 TTTTTCTTCTTCCTTTT
1 TTTTTCTTCTT--TTTT
233818 TTTTTCTTC
1 TTTTTCTTC
233827 AAGCATAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
13 2 0.04
14 9 0.19
15 15 0.32
16 8 0.17
17 13 0.28
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCTTCTTTTTT
Found at i:246161 original size:18 final size:18
Alignment explanation
Indices: 246125--246166 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
246115 GTAGTTGTTG
*
246125 TTGTTTTTTTTTCTTTCT
1 TTGTTTTTTTTTCTCTCT
246143 TTGTTTTTTCTTT-TCTCT
1 TTGTTTTTT-TTTCTCTCT
*
246161 TCGTTT
1 TTGTTT
246167 CTCTGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (18 bp):
TTGTTTTTTTTTCTCTCT
Found at i:246695 original size:3 final size:3
Alignment explanation
Indices: 246687--246766 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
246677 TAATATAAAT
*
246687 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** *
246735 TAA GGA TAA TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
246767 TGGATAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:248777 original size:17 final size:17
Alignment explanation
Indices: 248737--248782 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
248727 TTCTACTATT
*
248737 ATATATTTAATTTATTTA
1 ATAT-TTTACTTTATTTA
248755 AGTATTTTACTTTATTTA
1 A-TATTTTACTTTATTTA
248773 ATATTTTACT
1 ATATTTTACT
248783 AATATAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 14 0.54
19 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (17 bp):
ATATTTTACTTTATTTA
Found at i:249050 original size:111 final size:111
Alignment explanation
Indices: 248856--249287 Score: 801
Period size: 111 Copynumber: 3.9 Consensus size: 111
248846 ATCTCTGCAA
* *
248856 TTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATATTTAGTTGAT
1 TTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGAT
*
248921 TTATTTAATGCATGATTATTAGATTAAGAATTAAATATATCGACAC
66 TTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCGACAC
248967 TTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGAT
1 TTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGAT
*
249032 TTATTTAATGCATGATTATTAGATTAATAATTAAATATCTCGACAC
66 TTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCGACAC
* *
249078 TTTGCTGATACGGTAACATTTTAACATTTTAATTTATTTTAAATTATTAGTAATAATTAGTTGAT
1 TTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGAT
*
249143 TTATTTAATGCATGATTATTAGATTAATAATTAAATATCTCGACAC
66 TTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCGACAC
249189 TTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGAT
1 TTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGAT
249254 TTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TTATTTAATGCATGATTATTAGATTAAGAATTAA
249288 TTTTTGTATT
Statistics
Matches: 312, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 312 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (111 bp):
TTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGAT
TTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCGACAC
Found at i:251363 original size:53 final size:49
Alignment explanation
Indices: 251264--251363 Score: 112
Period size: 53 Copynumber: 2.0 Consensus size: 49
251254 ATATTTGTAT
* * *
251264 TTACTTTATTTTGTTTAATTGTAATTTTTTATTATTTCTTATTTAATAC
1 TTACTTTATTTTGTTAAATTGTAATTTTTTAATATTTCTTAGTTAATAC
*
251313 TTACTTTATTTTGTTAAATTTGTTGGACTTTTTTAATATTT-TTCAGTTAAT
1 TTACTTTATTTTGTTAAA-TTG-T--AATTTTTTAATATTTCTT-AGTTAAT
251364 TTTGTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
49 17 0.40
50 3 0.07
51 1 0.02
52 2 0.05
53 19 0.45
ACGTcount: A:0.24, C:0.06, G:0.07, T:0.63
Consensus pattern (49 bp):
TTACTTTATTTTGTTAAATTGTAATTTTTTAATATTTCTTAGTTAATAC
Found at i:262652 original size:14 final size:14
Alignment explanation
Indices: 262635--262667 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
262625 ATTTCTATGT
*
262635 AGGGAATTATTTGC
1 AGGGAATTATTTAC
262649 AGGGAATTATTTAC
1 AGGGAATTATTTAC
262663 AGGGA
1 AGGGA
262668 TTACTCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (14 bp):
AGGGAATTATTTAC
Found at i:263605 original size:2 final size:2
Alignment explanation
Indices: 263598--263627 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
263588 CTAACAGCTG
263598 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
263628 GTGTGTGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:265280 original size:6 final size:6
Alignment explanation
Indices: 265269--265299 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
265259 GCAAGGTGCA
265269 GTGATG GTGATG GTGATG GTGATG GTGATG G
1 GTGATG GTGATG GTGATG GTGATG GTGATG G
265300 GGGGTCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GTGATG
Found at i:265564 original size:2 final size:2
Alignment explanation
Indices: 265557--265584 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
265547 ATTTAGAAAG
265557 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
265585 CTAGGGCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:271856 original size:20 final size:20
Alignment explanation
Indices: 271810--271856 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
271800 CAACACACAA
271810 TATTAT-TAATAATTTATTT
1 TATTATATAATAATTTATTT
**
271829 TAAAATATAA-AATCTTATTT
1 TATTATATAATAAT-TTATTT
271849 TATTATAT
1 TATTATAT
271857 TTTCGAATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTATATAATAATTTATTT
Found at i:277301 original size:23 final size:25
Alignment explanation
Indices: 277275--277328 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
277265 ACGACGTCAT
277275 AATAATTTAAAAA-ATTAAAT-AAA
1 AATAATTTAAAAATATTAAATAAAA
* *
277298 AAT-A-CTAAAAATATTTAATAAAA
1 AATAATTTAAAAATATTAAATAAAA
277321 AATAATTT
1 AATAATTT
277329 TTTATATCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 9 0.38
24 1 0.04
25 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AATAATTTAAAAATATTAAATAAAA
Found at i:278071 original size:24 final size:24
Alignment explanation
Indices: 278039--278094 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
278029 CGAACGGTTC
278039 AACGGTTCTGGCCGATTCACTAAT
1 AACGGTTCTGGCCGATTCACTAAT
*
278063 AACGGTTCTGGCCGATTCACTAGT
1 AACGGTTCTGGCCGATTCACTAAT
278087 AACGGTTC
1 AACGGTTC
278095 AACCGATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (24 bp):
AACGGTTCTGGCCGATTCACTAAT
Found at i:290432 original size:31 final size:31
Alignment explanation
Indices: 290396--290460 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
290386 CGGAAAAGAG
290396 TTCATATAGTGTACGGGTTGTCAAAAGACCT
1 TTCATATAGTGTACGGGTTGTCAAAAGACCT
290427 TTCATATAGTGTACGGGTTGTCAAAAGACCT
1 TTCATATAGTGTACGGGTTGTCAAAAGACCT
290458 TTC
1 TTC
290461 TTCCAGGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (31 bp):
TTCATATAGTGTACGGGTTGTCAAAAGACCT
Found at i:294490 original size:17 final size:16
Alignment explanation
Indices: 294464--294502 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
294454 ATATTTAATA
*
294464 TGTTAATTAATTGAAC
1 TGTTAATTAAGTGAAC
294480 TGTTCAATTAAGTGAAC
1 TGTT-AATTAAGTGAAC
*
294497 TATTAA
1 TGTTAA
294503 AAAAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (16 bp):
TGTTAATTAAGTGAAC
Found at i:295993 original size:2 final size:2
Alignment explanation
Indices: 295986--296045 Score: 76
Period size: 2 Copynumber: 32.5 Consensus size: 2
295976 CCACCCCGAT
*
295986 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
296027 T- TA -A T- TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
296046 TTTATATTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
1 5 0.10
2 46 0.90
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:296058 original size:33 final size:34
Alignment explanation
Indices: 295996--296081 Score: 120
Period size: 33 Copynumber: 2.5 Consensus size: 34
295986 TATATATATA
*
295996 TATATATATATATATATATATAATATTTATATTAAT
1 TATATATATA-ATAT-TTTATAATATTTATATTAAT
*
296032 TATATATATAATATTTTAT-ATTTTTATATTAAT
1 TATATATATAATATTTTATAATATTTATATTAAT
*
296065 TATATATAAAATATTTT
1 TATATATATAATATTTT
296082 CGAGTTCGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.62
34 4 0.09
35 4 0.09
36 10 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
TATATATATAATATTTTATAATATTTATATTAAT
Found at i:297806 original size:23 final size:23
Alignment explanation
Indices: 297776--297838 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
297766 ACTTTACAAC
297776 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
297799 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
297822 TACCTATTACATCATAT
1 TACCTATTACATTATAT
297839 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:298289 original size:23 final size:23
Alignment explanation
Indices: 298259--298321 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
298249 ACTTTACAAC
*
298259 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* *
298282 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
298305 TACCTATTACATCATAT
1 TACCTATTACATTATAT
298322 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:298771 original size:23 final size:23
Alignment explanation
Indices: 298741--298803 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
298731 ACTTTACAAC
298741 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
298764 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
298787 TACCTATTACATCATAT
1 TACCTATTACATTATAT
298804 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:299183 original size:480 final size:482
Alignment explanation
Indices: 297371--299994 Score: 4922
Period size: 482 Copynumber: 5.5 Consensus size: 482
297361 TTATAATATG
* *
297371 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
297436 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
297501 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
297566 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATAAATGTTTATTGTTTTTAATTTAATAATAATATAT
297631 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
297696 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
297761 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
297826 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
297853 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATGT
297918 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
297983 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
*
298048 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATAAATGTTTATTGTTTTTAATTTAATAATAATATA
298113 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* *
298178 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTTATAAAAATG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
*
298243 ATAGATACTTTACAACTACCTATTACATTATATAAATGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
298308 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
*
298336 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
298401 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
298466 CAAAAAATTATTTGTTTTTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
298531 TAACCAAAGAAAATAATAAATATGTAATATAAATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATAAATGTTTATTGTTTTTAATTTAATAATAATATAT
*
298596 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
298661 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
298726 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
298791 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
298818 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
298883 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
298947 CAAAAAATTATTTG-TTTTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
299011 TAACCAAAGAAAATAATAAATATGTAATATAAATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATAAATGTTTATTGTTTTTAATTTAATAATAATATAT
*
299076 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
299141 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
299206 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
299271 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
299298 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATGT
299363 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
299428 AC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
299492 TTAACCAAAGATAATAATAAATATGTAATAT--ATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATAAATGTTTATTGTTTTTAATTTAATAATAATATA
299555 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
299620 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
* *
299685 ATAGATACTTTACAACTACCTATTAGATTATATAAATGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
299750 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
*
299778 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
299842 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
299906 CAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
299970 TAACCAAATATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
299995 TTTCCACAGT
Statistics
Matches: 2104, Mismatches: 33, Indels: 15
0.98 0.02 0.01
Matches are distributed among these distances:
477 129 0.06
478 46 0.02
479 20 0.01
480 638 0.30
481 117 0.06
482 679 0.32
483 475 0.23
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (482 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATAAATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATA
Found at i:299251 original size:23 final size:23
Alignment explanation
Indices: 299221--299283 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
299211 ACTTTACAAC
299221 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
299244 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
299267 TACCTATTACATCATAT
1 TACCTATTACATTATAT
299284 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:299750 original size:23 final size:23
Alignment explanation
Indices: 299700--299763 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
299690 TACTTTACAA
* *
299700 CTACCTATTAGATTATATAAATG
1 CTACCTATTACATTATATAAACG
* *
299723 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
*
299746 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
299764 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:300308 original size:227 final size:227
Alignment explanation
Indices: 299792--300498 Score: 1267
Period size: 227 Copynumber: 3.1 Consensus size: 227
299782 AAGTGTCCAT
*
299792 ACTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
1 ACTTTTATAAAAAGGATAGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
299857 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
66 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
*
299922 TATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAATATAATAAT
131 T-TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
299987 AAATATGTTTTCCACAGTGAAATAAGTATGGAC
195 AAATATGTTTTCCACAGTGAAATAAGTATGGAC
* * *
300020 ACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-ATTTTTAATA
1 ACTTTTATAAAAAGGATAGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
300084 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
66 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
300149 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
131 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
**
300214 AATATGTTTTCCACAGTGAAATAAGTATAAAC
196 AATATGTTTTCCACAGTGAAATAAGTATGGAC
* *
300246 ACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
1 ACTTTTATAAAAAGGATAGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
*
300311 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAATTATTTGAT
66 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA-
300376 TGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
130 T-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
*
300441 TAAATAT-ATTT-CACAGTGAAATAAGTATGGAC
194 TAAATATGTTTTCCACAGTGAAATAAGTATGGAC
300473 ACTTTTATAAAAAGGATAGATACTTT
1 ACTTTTATAAAAAGGATAGATACTTT
300499 ACAATATAAC
Statistics
Matches: 462, Mismatches: 14, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
226 147 0.32
227 190 0.41
228 55 0.12
229 70 0.15
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (227 bp):
ACTTTTATAAAAAGGATAGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
AATATGTTTTCCACAGTGAAATAAGTATGGAC
Found at i:301678 original size:18 final size:19
Alignment explanation
Indices: 301638--301704 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 19
301628 ATTCGACTCG
*
301638 ATTATTATATATATATATATAT
1 ATTATTA-A-ATAT-TATTTAT
301660 ATTAATT-AATATT-TTTAT
1 ATT-ATTAAATATTATTTAT
301678 ATTATTAAATATTATTTA-
1 ATTATTAAATATTATTTAT
*
301696 ATCATTAAA
1 ATTATTAAA
301705 AATATAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
17 3 0.08
18 21 0.52
19 5 0.12
20 4 0.10
21 1 0.03
22 3 0.08
23 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATTAAATATTATTTAT
Found at i:301685 original size:21 final size:22
Alignment explanation
Indices: 301653--301694 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
301643 TATATATATA
*
301653 TATATATATTAATTAATATTTT
1 TATATATATTAAATAATATTTT
*
301675 TATAT-TATTAAATATTATTT
1 TATATATATTAAATAATATTT
301695 AATCATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATATATTAAATAATATTTT
Found at i:301760 original size:46 final size:45
Alignment explanation
Indices: 301707--301795 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
301697 TCATTAAAAA
301707 TATAAAATATATTAATTTAA-TATTTTAAATATAATAAATATATTAT
1 TATAAAATATATTAATTTAATTATTTTAAA-AT-ATAAATATATTAT
* *
301753 TATAAAATATATTATTTTAATTATTTTAAAATATTAATATATT
1 TATAAAATATATTAATTTAATTATTTTAAAATATAAATATATT
301796 TGGATCGGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
45 10 0.25
46 21 0.52
47 9 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (45 bp):
TATAAAATATATTAATTTAATTATTTTAAAATATAAATATATTAT
Found at i:302468 original size:25 final size:23
Alignment explanation
Indices: 302400--302458 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
302390 ATTTTTAAAT
*
302400 TAAGTTAATAATGGAATATATTTAA
1 TAAGTTAAT-AT-AAATATATTTAA
* *
302425 TAAGTTAATATAAAAATATTT-T
1 TAAGTTAATATAAATATATTTAA
302447 TAAGTTAATATA
1 TAAGTTAATATA
302459 TATTATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.39
23 8 0.26
24 2 0.06
25 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.42
Consensus pattern (23 bp):
TAAGTTAATATAAATATATTTAA
Found at i:307727 original size:6 final size:6
Alignment explanation
Indices: 307716--307741 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
307706 GAACTTTTTG
307716 CATTCT CATTCT CATTCT CATTCT CA
1 CATTCT CATTCT CATTCT CATTCT CA
307742 GTTGTGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (6 bp):
CATTCT
Found at i:311760 original size:60 final size:61
Alignment explanation
Indices: 311687--311840 Score: 190
Period size: 60 Copynumber: 2.6 Consensus size: 61
311677 TTTTGATGAA
*
311687 TTTGGGGATGAAATTGGAA-GTTCTAAAAGTTTAGA-GACCAATTTAAAATGAGATTCATAG
1 TTTGGGGATGAAATTGGAATGTTCTAAAAGTTTA-ATGACCAATTTAAAATGAGAGTCATAG
* * * * *
311747 TTTGGGGATGAAATTCGAATATTC-AAAAGTTTAATGACTAATTTAGAATGGGAGTCATAG
1 TTTGGGGATGAAATTGGAATGTTCTAAAAGTTTAATGACCAATTTAAAATGAGAGTCATAG
* * *
311807 TTTGAGGATGCAATTGGAATGTT-TAAAAATTTAA
1 TTTGGGGATGAAATTGGAATGTTCTAAAAGTTTAA
311841 GAACTAATAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
59 1 0.01
60 76 0.95
61 3 0.04
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.34
Consensus pattern (61 bp):
TTTGGGGATGAAATTGGAATGTTCTAAAAGTTTAATGACCAATTTAAAATGAGAGTCATAG
Found at i:311847 original size:60 final size:60
Alignment explanation
Indices: 311687--311862 Score: 187
Period size: 60 Copynumber: 2.9 Consensus size: 60
311677 TTTTGATGAA
* *
311687 TTTGGGGATGAAATTGGAA-GTTCTAAAAGTTT-AGAGACCAATTTAAAATGAGATTCATAG
1 TTTGGGGATGAAATTGGAATGTT-TAAAAGTTTAAGA-ACTAATTTAAAATGAGAGTCATAG
* * * * *
311747 TTTGGGGATGAAATTCGAATATTCAAAAGTTTAATG-ACTAATTTAGAATGGGAGTCATAG
1 TTTGGGGATGAAATTGGAATGTTTAAAAGTTTAA-GAACTAATTTAAAATGAGAGTCATAG
* * * * * *
311807 TTTGAGGATGCAATTGGAATGTTTAAAAATTTAAGAACTAATATGAAATTAGAGTC
1 TTTGGGGATGAAATTGGAATGTTTAAAAGTTTAAGAACTAATTTAAAATGAGAGTC
311863 CTAATTTGAA
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
59 1 0.01
60 89 0.95
61 3 0.03
62 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (60 bp):
TTTGGGGATGAAATTGGAATGTTTAAAAGTTTAAGAACTAATTTAAAATGAGAGTCATAG
Found at i:314578 original size:39 final size:38
Alignment explanation
Indices: 314535--314638 Score: 113
Period size: 39 Copynumber: 2.7 Consensus size: 38
314525 TATAGTTATC
*
314535 AAATTATTTCAGTCTAACATTCTAAATT-TCTAATTTCTT
1 AAATTATTTCAAT-TAACATTCTAAATTCT-TAATTTCTT
* *
314574 AAATT-TTGCCACTATAACATTCTAAATTCTTAATTTCTT
1 AAATTATT-TCAAT-TAACATTCTAAATTCTTAATTTCTT
*
314613 AGATTATTTCACATTAACATTCTAAA
1 AAATTATTTCA-ATTAACATTCTAAA
314639 ATATTTTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
38 2 0.04
39 49 0.89
40 4 0.07
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.45
Consensus pattern (38 bp):
AAATTATTTCAATTAACATTCTAAATTCTTAATTTCTT
Found at i:314966 original size:32 final size:33
Alignment explanation
Indices: 314905--314968 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
314895 CTGAAATTTT
* *
314905 GGTACCCGAAAATTCCAGGTACCTGGTATTCCA
1 GGTACCCGAAAATTACAGGTACATGGTATTCCA
* *
314938 GGTAGCCGAAAA-TACAGGTACATTGTATTCC
1 GGTACCCGAAAATTACAGGTACATGGTATTCC
314969 GGGAACCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (33 bp):
GGTACCCGAAAATTACAGGTACATGGTATTCCA
Found at i:317702 original size:17 final size:17
Alignment explanation
Indices: 317675--317713 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
317665 AATTTACAAT
317675 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
317691 TAATTATAAATAATATC
1 TAATTATAAATAATATC
317708 TAATTA
1 TAATTA
317714 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:319095 original size:2 final size:2
Alignment explanation
Indices: 319088--319117 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
319078 AATGACTTAA
319088 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
319118 ATAAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:319110 original size:13 final size:13
Alignment explanation
Indices: 319088--319120 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
319078 AATGACTTAA
319088 ATAT-ATATATAT
1 ATATAATATATAT
319100 ATATAATATATAT
1 ATATAATATATAT
319113 ATATAATA
1 ATATAATA
319121 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:327309 original size:22 final size:23
Alignment explanation
Indices: 327270--327315 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
327260 GATTAAATCC
* * *
327270 TTTCATGAAAATGTTAAG-CATT
1 TTTCATCAAAAGGATAAGTCATT
327292 TTTCATCAAAAGGATAAGTCATT
1 TTTCATCAAAAGGATAAGTCATT
327315 T
1 T
327316 AATTGAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (23 bp):
TTTCATCAAAAGGATAAGTCATT
Found at i:327344 original size:21 final size:21
Alignment explanation
Indices: 327292--327344 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
327282 GTTAAGCATT
*
327292 TTTCATCAAAAGGATAAGTCA
1 TTTCATCGAAAGGATAAGTCA
* *
327313 TTTAATTGAAA-GATCAAGTCA
1 TTTCATCGAAAGGAT-AAGTCA
327334 TTTCATCGAAA
1 TTTCATCGAAA
327345 TATCTTAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (21 bp):
TTTCATCGAAAGGATAAGTCA
Found at i:332277 original size:53 final size:53
Alignment explanation
Indices: 332197--332319 Score: 165
Period size: 53 Copynumber: 2.3 Consensus size: 53
332187 CATGTACTTA
* * * *
332197 TGTCCACTCTGAAATCTGAATTTTTTTATATTAGTTGTACATTTTATTGAAGG
1 TGTCCACCCTGAAATTTGAATTTTTTTATATTAGTTGTACATTTTACTAAAGG
** *
332250 TGTCCACCCTGAAATTTGCTTTTTTTTATATTAGTTGTTCATTTTACTAAAGG
1 TGTCCACCCTGAAATTTGAATTTTTTTATATTAGTTGTACATTTTACTAAAGG
* *
332303 TGTCTACCCTAAAATTT
1 TGTCCACCCTGAAATTT
332320 TATTTGTGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (53 bp):
TGTCCACCCTGAAATTTGAATTTTTTTATATTAGTTGTACATTTTACTAAAGG
Found at i:332981 original size:15 final size:14
Alignment explanation
Indices: 332960--332997 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
332950 ATTTAATAAT
332960 TTTTTATTATATTA
1 TTTTTATTATATTA
*
332974 TATTTTATTGTATTA
1 T-TTTTATTATATTA
332989 TTTTT-TTAT
1 TTTTTATTAT
332998 TACTTTCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 3 0.14
14 5 0.24
15 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTATTATATTA
Found at i:333141 original size:18 final size:18
Alignment explanation
Indices: 333120--333154 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
333110 ATAAATGTTT
* *
333120 TATTCATTTATTTTTTAG
1 TATTAATTTATATTTTAG
333138 TATTAATTTATATTTTA
1 TATTAATTTATATTTTA
333155 ATTTGTATAC
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:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTAATTTATATTTTAG
Found at i:334809 original size:22 final size:22
Alignment explanation
Indices: 334784--334842 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
334774 GATGTTTTTG
*
334784 CAGTTTTCTATGAGCGTTGCTA
1 CAGTTTTCTATGAGCGGTGCTA
334806 CAGTTTTCTATGAGCGGTGCTA
1 CAGTTTTCTATGAGCGGTGCTA
334828 CAGTTTTCTATGAGC
1 CAGTTTTCTATGAGC
334843 AGTTAGTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (22 bp):
CAGTTTTCTATGAGCGGTGCTA
Found at i:335805 original size:25 final size:25
Alignment explanation
Indices: 335771--335853 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
335761 TCGATAAACT
335771 TGTTTTTATTTATTTTGTTTCTTAA
1 TGTTTTTATTTATTTTGTTTCTTAA
* *
335796 TGTTTTTATTTAATTATG-----GAA
1 TGTTTTTATTT-ATTTTGTTTCTTAA
*
335817 --TTTTTATTAATTTTGTTTCTTAA
1 TGTTTTTATTTATTTTGTTTCTTAA
335840 TGTTTTTA-TTATTT
1 TGTTTTTATTTATTT
335854 AATTATTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 17
0.66 0.09 0.25
Matches are distributed among these distances:
18 5 0.11
19 8 0.18
21 2 0.05
23 2 0.05
24 5 0.11
25 17 0.39
26 5 0.11
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.69
Consensus pattern (25 bp):
TGTTTTTATTTATTTTGTTTCTTAA
Found at i:336576 original size:15 final size:14
Alignment explanation
Indices: 336524--336578 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
336514 CCGTAAAAAA
336524 TAATACAAAATAAT
1 TAATACAAAATAAT
* *
336538 TAATACAATAACATT
1 TAATACAA-AATAAT
336553 TAAT-C-AAATAAT
1 TAATACAAAATAAT
336565 TAAATACAAAATAA
1 T-AATACAAAATAA
336579 ATATAATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 5 0.15
13 4 0.12
14 10 0.30
15 14 0.42
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (14 bp):
TAATACAAAATAAT
Found at i:342846 original size:2 final size:2
Alignment explanation
Indices: 342833--342890 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
342823 ACTGTATAGG
* *
342833 TA TA TT TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
342874 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
342891 TTATTTATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:343216 original size:22 final size:21
Alignment explanation
Indices: 343178--343229 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
343168 CGGTTCAACC
343178 TAAATTTTTTGATTTTTT-AT
1 TAAATTTTTTGATTTTTTAAT
*
343198 TAAATGTTTTTGGTATTTTTAAT
1 TAAAT-TTTTTGAT-TTTTTAAT
343221 T-AATTTTTT
1 TAAATTTTTT
343230 AAATAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.18
21 12 0.43
22 8 0.29
23 3 0.11
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TAAATTTTTTGATTTTTTAAT
Found at i:343635 original size:43 final size:43
Alignment explanation
Indices: 343574--343661 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
343564 TGAACATTCC
*
343574 AATTTTATCCCCAAACTACCACTCCCATTCTAAATTGGTCTAT
1 AATTTAATCCCCAAACTACCACTCCCATTCTAAATTGGTCTAT
343617 AATTTAATCCCCAAACTACCACTCCCATTCTAAATTGGTCTAT
1 AATTTAATCCCCAAACTACCACTCCCATTCTAAATTGGTCTAT
343660 AA
1 AA
343662 ACTTTTGAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (43 bp):
AATTTAATCCCCAAACTACCACTCCCATTCTAAATTGGTCTAT
Found at i:347733 original size:25 final size:24
Alignment explanation
Indices: 347692--347739 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
347682 TTTCAGCTAC
* * *
347692 ATTTTTTATTTTTATGTTGTTAAT
1 ATTTTTTATTATCATGTTATTAAT
347716 ATTTTTATATTATCATGTTATTAA
1 ATTTTT-TATTATCATGTTATTAA
347740 AATATGTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (24 bp):
ATTTTTTATTATCATGTTATTAAT
Found at i:350391 original size:18 final size:18
Alignment explanation
Indices: 350368--350402 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
350358 GTGTCCGAAG
350368 CGTGAGATTCGTCTGAAA
1 CGTGAGATTCGTCTGAAA
350386 CGTGAGATTCGTCTGAA
1 CGTGAGATTCGTCTGAA
350403 GCAAGTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (18 bp):
CGTGAGATTCGTCTGAAA
Found at i:353755 original size:14 final size:14
Alignment explanation
Indices: 353736--353827 Score: 75
Period size: 14 Copynumber: 6.6 Consensus size: 14
353726 CTCGAGTACA
353736 TATTTAATAATAAT
1 TATTTAATAATAAT
*
353750 TATTTAA-ATTTAAT
1 TATTTAATA-ATAAT
*
353764 TATTTAACT-TTAAT
1 TATTTAA-TAATAAT
*
353778 GA-TTAATAATAAT
1 TATTTAATAATAAT
*
353791 TATTTAACT-TTAAT
1 TATTTAA-TAATAAT
*
353805 GATTTAATAATAAT
1 TATTTAATAATAAT
353819 TACTTTAAT
1 TA-TTTAAT
353828 GATTTAACTT
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
12 1 0.02
13 11 0.18
14 43 0.69
15 7 0.11
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.51
Consensus pattern (14 bp):
TATTTAATAATAAT
Found at i:353812 original size:8 final size:8
Alignment explanation
Indices: 353799--354610 Score: 736
Period size: 8 Copynumber: 105.8 Consensus size: 8
353789 ATTATTTAAC
353799 TTTAATGA
1 TTTAATGA
353807 TTTAAT-A
1 TTTAATGA
* *
353814 -ATAATTA
1 TTTAATGA
353821 CTTTAATGA
1 -TTTAATGA
*
353830 TTTAA--C
1 TTTAATGA
353836 TTTAATGA
1 TTTAATGA
353844 TTTAAT-A
1 TTTAATGA
* *
353851 -ATAATTA
1 TTTAATGA
353858 TTTTAATGA
1 -TTTAATGA
*
353867 TTTAA--C
1 TTTAATGA
353873 TTTAATGA
1 TTTAATGA
353881 TTTAAT-A
1 TTTAATGA
* *
353888 -ATAATTA
1 TTTAATGA
353895 CTTTAATGA
1 -TTTAATGA
353904 TTTAATGA
1 TTTAATGA
353912 TTTAATGA
1 TTTAATGA
353920 TTTAATGA
1 TTTAATGA
353928 TTTAATGA
1 TTTAATGA
353936 TTTAAT-A
1 TTTAATGA
* *
353943 -ATAATTA
1 TTTAATGA
353950 CTTTAATGA
1 -TTTAATGA
*
353959 TTTAA--C
1 TTTAATGA
353965 TTTAATGA
1 TTTAATGA
353973 TTTAAT-A
1 TTTAATGA
* *
353980 -ATAATTA
1 TTTAATGA
353987 CTTTAATGA
1 -TTTAATGA
353996 TTTAATGA
1 TTTAATGA
354004 -TTAATGA
1 TTTAATGA
354011 TTTAATGA
1 TTTAATGA
354019 TTTAATGA
1 TTTAATGA
354027 TTTAATGA
1 TTTAATGA
354035 -TTAATGA
1 TTTAATGA
354042 TTTAAT-A
1 TTTAATGA
* *
354049 -ATAATTA
1 TTTAATGA
354056 CTTTAATGA
1 -TTTAATGA
354065 TTTAATGA
1 TTTAATGA
354073 TTTAATGA
1 TTTAATGA
354081 TTTAATGA
1 TTTAATGA
354089 TTTAATGA
1 TTTAATGA
354097 TTTAATGA
1 TTTAATGA
354105 TTTAAT-A
1 TTTAATGA
* *
354112 -ATAATTA
1 TTTAATGA
*
354119 CTTAATGA
1 TTTAATGA
354127 -TTAATGA
1 TTTAATGA
354134 TTTAATGA
1 TTTAATGA
354142 TTTAATGA
1 TTTAATGA
354150 TTTAATGA
1 TTTAATGA
354158 TTTAAT-A
1 TTTAATGA
* *
354165 -ATAATTA
1 TTTAATGA
354172 CTTTAATGA
1 -TTTAATGA
*
354181 TTTAA--C
1 TTTAATGA
354187 TTTAATGA
1 TTTAATGA
354195 TTTAAT-A
1 TTTAATGA
* *
354202 -ATAATTA
1 TTTAATGA
354209 CTTTAATGA
1 -TTTAATGA
354218 TTTAATGA
1 TTTAATGA
354226 TTTAATGA
1 TTTAATGA
354234 TTTAAT-A
1 TTTAATGA
* *
354241 -ATAATTA
1 TTTAATGA
354248 TTTTAATGA
1 -TTTAATGA
354257 TTTAATGA
1 TTTAATGA
354265 TTTAATGA
1 TTTAATGA
354273 TTTAATGA
1 TTTAATGA
354281 TTTAAT-A
1 TTTAATGA
* *
354288 -ATAATTA
1 TTTAATGA
354295 CTTTAATGA
1 -TTTAATGA
354304 TTTAATGA
1 TTTAATGA
354312 TTTAATGA
1 TTTAATGA
354320 TTTAATGA
1 TTTAATGA
354328 TTTAATGA
1 TTTAATGA
*
354336 TTAATAATTA
1 TT--TAATGA
354346 CTTTAATGA
1 -TTTAATGA
354355 TTTAATGA
1 TTTAATGA
354363 TTTAATGA
1 TTTAATGA
354371 TTTAATGA
1 TTTAATGA
354379 TTTAATGA
1 TTTAATGA
354387 TTTAATGA
1 TTTAATGA
354395 TTTAATGA
1 TTTAATGA
354403 TTTAAT-A
1 TTTAATGA
* *
354410 -ATAATTA
1 TTTAATGA
354417 CTTTAATGA
1 -TTTAATGA
*
354426 TTTAA--C
1 TTTAATGA
354432 TTTAATGA
1 TTTAATGA
354440 TTTAAT-A
1 TTTAATGA
* *
354447 -ATAATTA
1 TTTAATGA
354454 CTTTAATGA
1 -TTTAATGA
354463 TTTAATGA
1 TTTAATGA
354471 TTTAATGA
1 TTTAATGA
354479 TTTAAT-A
1 TTTAATGA
* *
354486 -ATAATTA
1 TTTAATGA
354493 TTTTAATGA
1 -TTTAATGA
354502 TTTAATGA
1 TTTAATGA
354510 TTTAATGA
1 TTTAATGA
*
354518 TTTGATGA
1 TTTAATGA
354526 TTTAAT-A
1 TTTAATGA
* *
354533 -ATAATTA
1 TTTAATGA
354540 CTTTAATGA
1 -TTTAATGA
354549 TTTAAT--
1 TTTAATGA
*
354555 TTTAATAA
1 TTTAATGA
354563 TTTAAT-A
1 TTTAATGA
* *
354570 -ATAATTA
1 TTTAATGA
*
354577 CTTAAT--
1 TTTAATGA
354583 TTTAATGA
1 TTTAATGA
354591 TTTAAT--
1 TTTAATGA
354597 TTTAATGA
1 TTTAATGA
354605 TTTAAT
1 TTTAAT
354611 AATAATACTT
Statistics
Matches: 674, Mismatches: 62, Indels: 136
0.77 0.07 0.16
Matches are distributed among these distances:
6 106 0.16
7 53 0.08
8 433 0.64
9 75 0.11
10 5 0.01
11 2 0.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (8 bp):
TTTAATGA
Found at i:353826 original size:23 final size:22
Alignment explanation
Indices: 353737--354430 Score: 202
Period size: 23 Copynumber: 31.3 Consensus size: 22
353727 TCGAGTACAT
353737 ATTTAATAATAATTATTTAA--
1 ATTTAATAATAATTATTTAATG
*
353757 ATTTAAT--TATTTAACTTTAATG
1 ATTTAATAATAATT-A-TTTAATG
*
353779 ATTAATAATAATTATTTAACTTTAATG
1 ATT--TAATAA-TAATT-A-TTTAATG
353806 ATTTAATAATAATTACTTTAATG
1 ATTTAATAATAATTA-TTTAATG
* *
353829 ATTTAACT-TTAATGATTT-A--
1 ATTTAA-TAATAATTATTTAATG
*
353848 A--TAATAATTA-T-TTTAATG
1 ATTTAATAATAATTATTTAATG
* * *
353866 ATTTAACT-TTAATGATTTAATA
1 ATTTAA-TAATAATTATTTAATG
* * *
353888 ATAATTACT-TTAATGATTTAATG
1 AT--TTAATAATAATTATTTAATG
* *
353911 ATTTAATGATTTAATGATTTAATG
1 ATTTAAT-A-ATAATTATTTAATG
353935 ATTTAATAATAATTACTTTAATG
1 ATTTAATAATAATTA-TTTAATG
* * *
353958 ATTTAACT-TTAATGATTTAATA
1 ATTTAA-TAATAATTATTTAATG
* * *
353980 ATAATTACT-TTAATGATTTAATG
1 AT--TTAATAATAATTATTTAATG
* *
354003 A-TTAATGATTTAATGATTTAATG
1 ATTTAAT-A-ATAATTATTTAATG
* * *
354026 ATTTAATGATTAATGATTTAATA
1 ATTTAAT-AATAATTATTTAATG
* * *
354049 ATAATTACT-TTAATGATTTAATG
1 AT--TTAATAATAATTATTTAATG
* *
354072 ATTTAATGATTTAATGATTTAATG
1 ATTTAAT-A-ATAATTATTTAATG
* *
354096 ATTTAATGAT--TTA-ATAAT-
1 ATTTAATAATAATTATTTAATG
* * *
354114 AATTACT--TAATGA-TTAATG
1 ATTTAATAATAATTATTTAATG
* *
354133 ATTTAATGATTTAATGATTTAATG
1 ATTTAAT-A-ATAATTATTTAATG
354157 ATTTAATAATAATTACTTTAATG
1 ATTTAATAATAATTA-TTTAATG
* * *
354180 ATTTAACT-TTAATGATTTAATA
1 ATTTAA-TAATAATTATTTAATG
* * *
354202 ATAATTACT-TTAATGATTTAATG
1 AT--TTAATAATAATTATTTAATG
* *
354225 ATTTAATGAT--TTA-ATAAT-
1 ATTTAATAATAATTATTTAATG
* ** *
354243 AATT-ATTTTAATGATTTAATG
1 ATTTAATAATAATTATTTAATG
* * *
354264 ATTTAATGATTTAATGATTTAATA
1 ATTTAAT-A-ATAATTATTTAATG
* * *
354288 ATAATTACT-TTAATGATTTAATG
1 AT--TTAATAATAATTATTTAATG
* *
354311 ATTTAATGATTTAATGATTTAATG
1 ATTTAAT-A-ATAATTATTTAATG
354335 A--T--TAATAATTACTTTAATG
1 ATTTAATAATAATTA-TTTAATG
* *
354354 ATTTAATGATTTAATGATTTAATG
1 ATTTAAT-A-ATAATTATTTAATG
* *
354378 ATTTAATGATTTAATGATTTAATG
1 ATTTAAT-A-ATAATTATTTAATG
354402 ATTTAATAATAATTACTTTAATG
1 ATTTAATAATAATTA-TTTAATG
354425 ATTTAA
1 ATTTAA
354431 CTTTAATGAT
Statistics
Matches: 540, Mismatches: 64, Indels: 137
0.73 0.09 0.18
Matches are distributed among these distances:
15 3 0.01
16 3 0.01
17 8 0.01
18 24 0.04
19 26 0.05
20 30 0.06
21 22 0.04
22 50 0.09
23 186 0.34
24 151 0.28
25 15 0.03
26 4 0.01
27 18 0.03
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (22 bp):
ATTTAATAATAATTATTTAATG
Found at i:354406 original size:245 final size:244
Alignment explanation
Indices: 353799--354568 Score: 1144
Period size: 245 Copynumber: 3.2 Consensus size: 244
353789 ATTATTTAAC
* * *
353799 TTTAATGATTTAATAATAATTACTTTAATGATTTAA-CTTTAATGATTTAATAATAATT-AT-TT
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAATATTTAATGATTTAATGAT--TTAATGAT
*
353861 TAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAAT
64 TAAT-AATT-ACTTTAATGA--T--T--TAATTA-TTTAATGATTTAATGATTTAATGATTTAAT
353926 GATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTT
120 GATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTT
353991 AATGATTTAATGA-TTAATG--------------A-TTTAATGATTTAATGATTTAATGA
185 AATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGATTTAATGATTTAATGA
354035 -TTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATGATTTAATGATT
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-ATTTAATGATTTAATGATTTAATGATT
* * *
354099 --TAATGA-TTTAAT-A-ATAATTACTTAATGA-TTAATGATTTAATGATTTAATGATTTAATGA
65 AATAATTACTTTAATGATTTAATTATTTAATGATTTAATGATTTAATGATTTAATGATTTAATGA
354158 TTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAA
130 TTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAA
354223 TGATTTAATGATTTAATAATAATTATTTTAATGATTTAATGATTTAATGA
195 TGATTTAATGATTTAATAATAATTATTTTAATGATTTAATGATTTAATGA
354273 TTTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATGATTTAATGATT
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-ATTTAATGATTTAATGATTTAATGATT
*
354338 AATAATTACTTTAATGATTTAATGATTTAATGATTTAATGATTTAATGATTTAATGATTTAATGA
65 AATAATTACTTTAATGATTTAATTATTTAATGATTTAATGATTTAATGATTTAATGATTTAATGA
354403 TTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAA
130 TTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAA
354468 TGATTTAATGATTTAATAATAATTATTTTAATGATTTAATGATTTAATGA
195 TGATTTAATGATTTAATAATAATTATTTTAATGATTTAATGATTTAATGA
* *
354518 TTTGATGATTTAATAATAATTACTTTAATGATTTAAT-TTTAATAATTTAAT
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAATATTTAATGATTTAAT
354569 AATAATTACT
Statistics
Matches: 494, Mismatches: 13, Indels: 47
0.89 0.02 0.08
Matches are distributed among these distances:
222 99 0.20
223 13 0.03
224 6 0.01
231 1 0.00
232 6 0.01
233 1 0.00
234 2 0.00
235 38 0.08
236 2 0.00
237 19 0.04
238 24 0.05
239 64 0.13
241 5 0.01
242 6 0.01
243 14 0.03
244 12 0.02
245 182 0.37
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.49
Consensus pattern (244 bp):
TTTAATGATTTAATAATAATTACTTTAATGATTTAATATTTAATGATTTAATGATTTAATGATTA
ATAATTACTTTAATGATTTAATTATTTAATGATTTAATGATTTAATGATTTAATGATTTAATGAT
TTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAAT
GATTTAATGATTTAATAATAATTATTTTAATGATTTAATGATTTAATGA
Found at i:354501 original size:23 final size:22
Alignment explanation
Indices: 353873--354596 Score: 443
Period size: 23 Copynumber: 31.3 Consensus size: 22
353863 ATGATTTAAC
* *
353873 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATATTAATGA
353895 CTTTAATGATTTAATGATTTAATGA
1 -TTTAATGATTTAAT-A-TTAATGA
353920 TTTAATGATTTAATGATTTAAT-A
1 TTTAATGATTTAAT-A-TTAATGA
* * *
353943 -ATAATTACTTTAATGATTTAA--C
1 TTTAATGA-TTTAAT-A-TTAATGA
* *
353965 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATATTAATGA
353987 CTTTAATGATTTAATGATTAATGA
1 -TTTAATGATTTAAT-ATTAATGA
354011 TTTAATGATTTAATGATTTAATGA
1 TTTAATGATTTAAT-A-TTAATGA
* *
354035 -TTAATGATTTAATAATAATTA
1 TTTAATGATTTAATATTAATGA
354056 CTTTAATGATTTAATGATTTAATGA
1 -TTTAATGATTTAAT-A-TTAATGA
354081 TTTAATGATTTAATGATTTAATGA
1 TTTAATGATTTAAT-A-TTAATGA
*
354105 TTTAAT-A-ATAATTACTTAATGA
1 TTTAATGATTTAA-TA-TTAATGA
354127 -TTAATGATTTAATGATTTAATGA
1 TTTAATGATTTAAT-A-TTAATGA
* *
354150 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATATTAATGA
354172 CTTTAATGATTTAACT-TTAATGA
1 -TTTAATGATTTAA-TATTAATGA
* *
354195 TTTAATAATAATTACT-TTAATGA
1 TTTAATGAT--TTAATATTAATGA
354218 TTTAATGATTTAATGATTTAAT-A
1 TTTAATGATTTAAT-A-TTAATGA
* *
354241 -ATAATTATTTTAATGATTTAATGA
1 TTTAATGA-TTTAAT-A-TTAATGA
354265 TTTAATGATTTAATGATTTAAT-A
1 TTTAATGATTTAAT-A-TTAATGA
* *
354288 -ATAATTACTTTAATGATTTAATGA
1 TTTAATGA-TTTAAT-A-TTAATGA
354312 TTTAATGATTTAATGATTTAATGA
1 TTTAATGATTTAAT-A-TTAATGA
* *
354336 -TTAAT-AATTACT-TTAATGA
1 TTTAATGATTTAATATTAATGA
354355 TTTAATGATTTAATGATTTAATGA
1 TTTAATGATTTAAT-A-TTAATGA
354379 TTTAATGATTTAATGATTTAATGA
1 TTTAATGATTTAAT-A-TTAATGA
* *
354403 TTTAATAATAATTACT-TTAATGATTTAA
1 TTTAATGAT--TTAATATTAATG-----A
* *
354431 CTTTAATGATTTAATAATAATTA
1 -TTTAATGATTTAATATTAATGA
354454 CTTTAATGATTTAATGATTTAATGA
1 -TTTAATGATTTAAT-A-TTAATGA
* *
354479 TTTAATAATAATT-ATTTTAATGA
1 TTTAATGAT--TTAATATTAATGA
*
354502 TTTAATGATTTAATGATTTGATGA
1 TTTAATGATTTAAT-A-TTAATGA
* *
354526 TTTAATAATAATTACT-TTAATGA
1 TTTAATGAT--TTAATATTAATGA
354549 TTTAAT--TTTAATAATTTAAT-A
1 TTTAATGATTTAAT-A-TTAATGA
* * * *
354570 -ATAATTACTTAATTTTAATGA
1 TTTAATGATTTAATATTAATGA
354591 TTTAAT
1 TTTAAT
354597 TTTAATGATT
Statistics
Matches: 580, Mismatches: 60, Indels: 123
0.76 0.08 0.16
Matches are distributed among these distances:
19 11 0.02
20 17 0.03
21 25 0.04
22 69 0.12
23 221 0.38
24 183 0.32
25 27 0.05
26 10 0.02
27 4 0.01
28 5 0.01
29 8 0.01
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.49
Consensus pattern (22 bp):
TTTAATGATTTAATATTAATGA
Found at i:354602 original size:28 final size:28
Alignment explanation
Indices: 354492--354610 Score: 87
Period size: 28 Copynumber: 4.1 Consensus size: 28
354482 AATAATAATT
* * *
354492 ATTTTAATGATTTAATGATTTAATGATTTG
1 ATTTTAATAATTTAAT--TTTAATGACTTA
* *
354522 ATGATTTAATAATAATT-ACTTTAATGATTTA
1 AT--TTTAATAAT--TTAATTTTAATGACTTA
** *
354553 ATTTTAATAATTTAATAATAATTACTTA
1 ATTTTAATAATTTAATTTTAATGACTTA
* *
354581 ATTTTAATGATTTAATTTTAATGATTTA
1 ATTTTAATAATTTAATTTTAATGACTTA
354609 AT
1 AT
354611 AATAATACTT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
27 2 0.03
28 34 0.48
29 9 0.13
30 2 0.03
31 13 0.18
32 8 0.11
33 1 0.01
34 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (28 bp):
ATTTTAATAATTTAATTTTAATGACTTA
Found at i:354630 original size:245 final size:242
Alignment explanation
Indices: 353737--354655 Score: 480
Period size: 237 Copynumber: 3.9 Consensus size: 242
353727 TCGAGTACAT
* * *
353737 ATTTAATAATAATTA-TTTAA--ATTTAATTATTTAA--CTTTAATGATTAA-TAA--TAATTAT
1 ATTTAATAATAATTACTTTAATGATTTAA-TATTTAATGATTTAAT-AATAATTAATTTAATGAT
* *
353794 TTAACTTTAATGATTTAATAAT-A-A-TT-A-CTTTAATGATTTAA-CTTTAATGATTTAATAAT
64 TTAACTTTAATGATTTAATAATAATACTTAATGTTTAATGATTTAATATTTAATGATTTAATAAT
*
353853 -A-ATTATTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTA
129 AATATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAA-GATTTA
* * * *
353916 ATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAA--CTTTAATG
193 ATGATTTAAT-A-ATAATTA-TT--T--TAATGA-TTTAATGATTTAATGATTTAATG
*
353972 ATTTAATAATAATTACTTTAATGATTTAATGA-TTAATGA--T--T--TAA-TGATTTAATGATT
1 ATTTAATAATAATTACTTTAATGATTTAAT-ATTTAATGATTTAATAATAATTAATTTAATGATT
354029 TAA-TGATTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATGATTTA
65 TAACT--TTAATGATTTAATAATAA-TAC-TTAATG-TTTAATGATTTAAT-ATTTAATGATTTA
* * * * * *
354093 ATGAT-TTAATGA-TTTAATAATAATT-AC-TTAATGA-TTAATGATTTAATGA-TTTAATGATT
124 ATAATAAT-ATTACTTTAATGAT--TTAACTTTAATGATTTAAT-A-ATAATTACTTTAATGATT
* * *
354152 TAATGATTTAAT--------AATAATTACTTTAATGATTTAA--CTTTAATGATTTAATA
184 TAA-GATTTAATGATTTAATAATAATTATTTTAATGATTTAATGATTTAATGATTTAATG
* * * * ** *
354202 ATAATTACT-TTAATGA-TTTAATGATTTAATGATTTAATAATAATT-ATTTTAA-TGATTTAAT
1 AT--TTAATAATAATTACTTTAATGATTTAAT-ATTTAATGAT--TTAATAATAATTAATTTAAT
*
354263 GATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATGA
61 GATTTAA--CTTTAATGATTTAATAATAA-TAC-TTAATG-TTTAATGATTTAAT-ATTTAATGA
* * *
354328 TTTAATGATTAATAATTACTTTAATG-----A-TTTAATGATTTAATGATTTAATGA-TTTAATG
120 TTTAAT-AATAAT-ATTACTTTAATGATTTAACTTTAATGATTTAAT-A-ATAATTACTTTAATG
* *
354386 ATTTAATGATTTAATGATTTAATAAT-A--A--TT-A--CTTTAATGATTTAA--CTTTAATG
181 ATTTAA-GATTTAATGATTTAATAATAATTATTTTAATGATTTAATGATTTAATGATTTAATG
*
354439 ATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGATT
1 ATTTAATAATAATTACTTTAATGATTTAAT-ATTTAATGATTTAATAATAATTAATTTAATGATT
* * * *
354504 TAATGATTTAATGATTTGATGATTTAATAATAATT-A-CTTTAATGATTTAAT-TTTAATAATTT
65 TAA--CTTTAATGATTT-A--A--TAATAATACTTAATGTTTAATGATTTAATATTTAATGATTT
* *
354566 AATAATAATTACTTAATTTTAATGATTTAATTTTAATGATTTAATAATAATACTTGACTTTAATG
123 AATAATAA-TA-TT-ACTTTAATGATTTAACTTTAATGATTTAATAAT-A-A-TT-ACTTTAATG
* * *
354631 ATTT-ATATTTACTGATATAATAATA
181 ATTTAAGATTTAATGATTTAATAATA
354656 GTAAATATAT
Statistics
Matches: 555, Mismatches: 49, Indels: 151
0.74 0.06 0.20
Matches are distributed among these distances:
228 5 0.01
230 29 0.05
231 16 0.03
232 9 0.02
233 2 0.00
234 15 0.03
235 56 0.10
236 38 0.07
237 123 0.22
238 28 0.05
239 67 0.12
240 9 0.02
241 12 0.02
242 28 0.05
243 30 0.05
244 3 0.01
245 35 0.06
246 38 0.07
247 10 0.02
248 2 0.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (242 bp):
ATTTAATAATAATTACTTTAATGATTTAATATTTAATGATTTAATAATAATTAATTTAATGATTT
AACTTTAATGATTTAATAATAATACTTAATGTTTAATGATTTAATATTTAATGATTTAATAATAA
TATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAAGATTTAATG
ATTTAATAATAATTATTTTAATGATTTAATGATTTAATGATTTAATG
Found at i:357194 original size:171 final size:173
Alignment explanation
Indices: 356853--357210 Score: 562
Period size: 171 Copynumber: 2.1 Consensus size: 173
356843 ACATCAATAT
*
356853 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
356918 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* *
356983 TTTTTATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTAC
* * *
357026 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
357090 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACT-ATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
357153 CTTTTAATAATTTACTCT-TTTTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTT-CTTAAATTCCTCAAATTTTAC
357197 AAAATGATCCCTAA
1 AAAATGATCCCTAA
357211 AACTTTACAA
Statistics
Matches: 170, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
170 3 0.02
171 74 0.44
172 33 0.19
173 60 0.35
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTAC
Found at i:357687 original size:23 final size:23
Alignment explanation
Indices: 357661--357704 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
357651 AGTTGCATGC
357661 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
357684 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
357705 CCTTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:357749 original size:22 final size:22
Alignment explanation
Indices: 357721--357774 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
357711 AGGACCCAGG
357721 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
357743 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
357765 ACCCGTGATT
1 ACCCGTGATT
357775 CTCACGTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Found at i:360895 original size:21 final size:21
Alignment explanation
Indices: 360847--360897 Score: 95
Period size: 20 Copynumber: 2.5 Consensus size: 21
360837 TCAACTGAAC
360847 TGAAACAGAAGCATAACAGCT
1 TGAAACAGAAGCATAACAGCT
360868 T-AAACAGAAGCATAACAGCT
1 TGAAACAGAAGCATAACAGCT
360888 TGAAACAGAA
1 TGAAACAGAA
360898 AACTCAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.14
Consensus pattern (21 bp):
TGAAACAGAAGCATAACAGCT
Found at i:365910 original size:3 final size:3
Alignment explanation
Indices: 365902--366012 Score: 136
Period size: 3 Copynumber: 36.7 Consensus size: 3
365892 GGCCCGTTTG
* * *
365902 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* *
365949 TTA TAA T-A TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
365996 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
366013 TTTAAATGAA
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
2 4 0.04
3 83 0.88
4 7 0.07
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:366455 original size:113 final size:113
Alignment explanation
Indices: 366261--367160 Score: 1610
Period size: 113 Copynumber: 7.9 Consensus size: 113
366251 TCTTGATGAG
* * *
366261 TTCTTCTCATTATGAACTTCTTCCTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTC
* * * *
366326 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAGC-AAAGGTTTGAACAAA
62 TCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGG-TTGAACAAA
* *
366377 TTCTTCTCATTATGAATTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
366442 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
366490 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
366555 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAAC-AA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
366602 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
366667 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
366715 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
366780 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
366828 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
366893 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
366941 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
367006 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
367054 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* **
367119 GCAATGATAATCCATC-AGATGATGGATTTGAACAAAAGGTTG
66 GCAATGATAATCCATCAAG-TGATGAATTCAAACAAAAGGTTG
367161 GTTCTTCTCA
Statistics
Matches: 766, Mismatches: 14, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
112 117 0.15
113 611 0.80
114 5 0.01
116 33 0.04
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
Found at i:367187 original size:181 final size:181
Alignment explanation
Indices: 366980--367341 Score: 636
Period size: 181 Copynumber: 2.0 Consensus size: 181
366970 CTTCAGATGA
366980 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA-AGTGATGAATTCAAACAAAAG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGA-TGATGAATTCAAACAAAAG
367044 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
65 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* **
367109 ACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGGTTG
130 ACCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGGTTG
* **
367161 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGG
*
367226 TTGAACAAATTCTTCTCATTATGAATTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
66 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
367291 CCTTCTCTGGCAATGATAATCCATCAGGTGATGAATTCAAACAAAAGGTTG
131 CCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGGTTG
367342 AACAAATTCT
Statistics
Matches: 172, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
181 171 0.99
182 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (181 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGG
TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGGTTG
Found at i:367202 original size:68 final size:68
Alignment explanation
Indices: 367093--367228 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
367083 CTTCAGATGA
367093 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
367158 TTG
66 TTG
367161 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
367226 TTG
66 TTG
367229 AACAAATTCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (68 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
TTG
Found at i:367228 original size:294 final size:294
Alignment explanation
Indices: 366867--367738 Score: 1550
Period size: 294 Copynumber: 3.0 Consensus size: 294
366857 CTTCAGATGA
* **
366867 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA-AGTGATGAATTCAAACAAAAG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGA-TGATGGATTTGAACAAAAG
366931 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
65 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
366996 ACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCT
130 ACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCT
*
367061 CATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGA
195 CATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGA
367126 TAATCCATCAGATGATGGATTTGAACAAAAGGTTG
260 TAATCCATCAGATGATGGATTTGAACAAAAGGTTG
367161 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
*
367226 TTGAACAAATTCTTCTCATTATGAATTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
66 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
367291 CCTTCTCTGGCAATGATAATCCATCAGGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTC
131 CCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTC
*
367356 ATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGAT
196 ATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGAT
367421 AATCCATCAGATGATGGATTTGAACAAAAGGTTG
261 AATCCATCAGATGATGGATTTGAACAAAAGGTTG
367455 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
*
367520 TTGAACAAATTATTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
66 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * **
367585 CCTTCTCTGGCAATGATGATCCATC-AGATGATGGATTTGAACAAAAGGTTGAACAAATTCTTCT
131 CCTTCTCTGGCAATGATAATCCATCAAG-TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCT
* * * *
367649 CATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTTTCTGGAAAAGC
195 CATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGA
* *
367714 TGATCCATCATATGATGGATTTGAA
260 TAATCCATCAGATGATGGATTTGAA
367739 TCTTTGCTAA
Statistics
Matches: 556, Mismatches: 20, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
293 1 0.00
294 554 1.00
295 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (294 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTC
ATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGAT
AATCCATCAGATGATGGATTTGAACAAAAGGTTG
Found at i:367359 original size:113 final size:113
Alignment explanation
Indices: 367161--367454 Score: 536
Period size: 113 Copynumber: 2.6 Consensus size: 113
367151 CAAAAGGTTG
367161 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
367226 TTGAACAAATTCTTCTCATTATGAATTTCTTT-TTCCTTCTTCAGATGA
66 TTGAACAAATTCTTCTCATTATGAATTT-TTTCTTCCTTCTTCAGATGA
* * **
367274 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGGTGATGAATTCAAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
367339 TTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGA
66 TTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGA
367387 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
367452 TTG
66 TTG
367455 GTTCTTCTCA
Statistics
Matches: 172, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
112 3 0.02
113 169 0.98
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (113 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
TTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGA
Found at i:367461 original size:181 final size:181
Alignment explanation
Indices: 367274--367635 Score: 661
Period size: 181 Copynumber: 2.0 Consensus size: 181
367264 CTTCAGATGA
*
367274 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGGTGATGAATTCAAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGG
* *
367339 TTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
66 TTGAACAAATTATTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
367404 CCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGGTTG
131 CCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGGTTG
* **
367455 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGG
367520 TTGAACAAATTATTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
66 TTGAACAAATTATTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
367585 CCTTCTCTGGCAATGATGATCCATCAGATGATGGATTTGAACAAAAGGTTG
131 CCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGGTTG
367636 AACAAATTCT
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
181 174 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (181 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGG
TTGAACAAATTATTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGGTTG
Found at i:367496 original size:68 final size:68
Alignment explanation
Indices: 367387--367522 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
367377 CTTCAGATGA
367387 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
367452 TTG
66 TTG
367455 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
367520 TTG
66 TTG
367523 AACAAATTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (68 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
TTG
Found at i:367607 original size:113 final size:113
Alignment explanation
Indices: 367455--367738 Score: 496
Period size: 113 Copynumber: 2.5 Consensus size: 113
367445 CAAAAGGTTG
*
367455 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAGATGATGGATTTGAACAAAAGG
*
367520 TTGAACAAATTATTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
66 TTGAACAAATTATTCTCATTATGAATTTATTCTTCCTTCTTCAGATGA
367568 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAGATGATGGATTTGAACAAAAGG
*
367633 TTGAACAAATTCTTCTCATTATGAATTTATTCTTCCTTCTTCAGATGA
66 TTGAACAAATTATTCTCATTATGAATTTATTCTTCCTTCTTCAGATGA
* * * * *
367681 GTTCTTCTCATTATGAACCTTTTCTGGAAAAGCTGATCCATCATATGATGGATTTGAA
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAGATGATGGATTTGAA
367739 TCTTTGCTAA
Statistics
Matches: 163, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 163 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAGATGATGGATTTGAACAAAAGG
TTGAACAAATTATTCTCATTATGAATTTATTCTTCCTTCTTCAGATGA
Found at i:368161 original size:22 final size:22
Alignment explanation
Indices: 368136--368187 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
368126 CATAAAGTTT
* *
368136 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTAAAAAGAGAATCTA
368158 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
368180 CCATCTTT
1 TCATCTTT
368188 TGAAGAGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:370857 original size:83 final size:83
Alignment explanation
Indices: 370756--371020 Score: 451
Period size: 83 Copynumber: 3.2 Consensus size: 83
370746 CTTATTTCTA
* *
370756 CTATGAACAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCC-AACCAGATTAGATAACTCAA
1 CTATGAACAAATTCATCTTCCAAATTCAATGATTGGTTTTG-CCAAACCAGATCAGATAACTCAA
370820 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
*
370839 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAACAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
370904 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
370922 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAACAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
370987 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
371005 CTATGAGCACATTCAT
1 CTATGAACAAATTCAT
371021 TGTTCCATTT
Statistics
Matches: 175, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
82 2 0.01
83 173 0.99
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (83 bp):
CTATGAACAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:373575 original size:2 final size:2
Alignment explanation
Indices: 373568--373593 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
373558 ACAACAAAGG
373568 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
373594 TAAAGGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:379904 original size:3 final size:3
Alignment explanation
Indices: 379896--380001 Score: 124
Period size: 3 Copynumber: 34.7 Consensus size: 3
379886 GGCCCGTTTG
* * *
379896 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* * *
379943 TTA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
379991 TAA TAA TAA TA
1 TAA TAA TAA TA
380002 TTTAAATGAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
2 2 0.02
3 79 0.90
4 7 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Done.