Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009572.1 Hibiscus syriacus cultivar Beakdansim tig00116937_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: 2529503
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 13
Found at i:12095 original size:25 final size:26
Alignment explanation
Indices: 12067--12135 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 26
12057 AAAAAAGAAG
**
12067 AAGAAAAAATGAG-TGAAAATGAAAA
1 AAGAAAAAATGAGAAAAAAATGAAAA
*
12092 AAGAAAAAA-AAGAAAAAAATGAAAA
1 AAGAAAAAATGAGAAAAAAATGAAAA
*
12117 ATGAAAAAATG-GAAAAAAA
1 AAGAAAAAATGAGAAAAAAA
12136 GAAGGGTTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.05
25 35 0.95
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (26 bp):
AAGAAAAAATGAGAAAAAAATGAAAA
Found at i:12102 original size:9 final size:9
Alignment explanation
Indices: 12088--12117 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
12078 AGTGAAAATG
12088 AAAAAAGAA
1 AAAAAAGAA
12097 AAAAAAGAA
1 AAAAAAGAA
*
12106 AAAAATGAA
1 AAAAAAGAA
12115 AAA
1 AAA
12118 TGAAAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:12125 original size:9 final size:8
Alignment explanation
Indices: 12082--12134 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
12072 AAAATGAGTG
12082 AAAATGAA
1 AAAATGAA
12090 AAAA-GAAA
1 AAAATG-AA
*
12098 AAAAAGAAA
1 AAAATG-AA
12107 AAAATG-A
1 AAAATGAA
12114 AAAATGAA
1 AAAATGAA
12122 AAAATGGAA
1 AAAAT-GAA
12131 AAAA
1 AAAA
12135 AGAAGGGTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
7 8 0.20
8 16 0.40
9 16 0.40
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (8 bp):
AAAATGAA
Found at i:13249 original size:108 final size:108
Alignment explanation
Indices: 13063--13662 Score: 798
Period size: 108 Copynumber: 5.6 Consensus size: 108
13053 CAACAATTAT
* * *
13063 TGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACGCAATTGATGAAGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATTGT
*
13128 GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
66 GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * * * * *
13171 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACACAATCGTTGAAGATCGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATTG-
* *
13234 TCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACGCGATTGA
65 T-GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * *
13279 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATTG-
* *
13342 TCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGA
65 T-GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * *
13387 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATTGT
* * * * *
13450 GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACACAATCGT
66 GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * * *
13493 TGAAGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATTGT
* * * * *
13558 GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
66 GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* *
13601 TGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGAT
13663 ATTCGAGTTC
Statistics
Matches: 443, Mismatches: 45, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
106 87 0.20
107 4 0.01
108 352 0.79
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (108 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATTGT
GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
Found at i:13338 original size:161 final size:161
Alignment explanation
Indices: 13063--13670 Score: 862
Period size: 161 Copynumber: 3.8 Consensus size: 161
13053 CAACAATTAT
* *
13063 TGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACGCAATTGATGAAGATTGT
1 TGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTGT
* * * *
13128 GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTG-T-GGGTCTTATA
64 GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATTGTTCGAGTCTTATA
* * * *
13191 CTCTCTGAAGATATAGGGGGCAGACACAATCGT
129 CTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * * *
13224 TGAAGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACGCGATTGATGAAGATTGT
1 TGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTGT
* *
13289 GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTCATA
64 GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATTGTTCGAGTCTTATA
*
13354 CTCTCTGAAGAAATAGGGAGCAGACGCAATTGA
129 CTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* *
13387 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTGTGG
1 TGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGG
* * * *
13452 GTCTTATACTCTCTGAAGATATAGGGGGCAGACACAATCGTTGAAGATCGTTCGAGTCTTATACT
66 GTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATTGTTCGAGTCTTATACT
*
13517 CTCTGAAGAAATAGGGGGCAGACGCGATTGA
131 CTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * * *
13548 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTC
1 TGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTG-T-
* * *
13613 GAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGA-TATTCGAGT
64 GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATTGTTCGAGT
13671 TCTATTCTCC
Statistics
Matches: 403, Mismatches: 40, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
161 305 0.76
162 10 0.02
163 88 0.22
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (161 bp):
TGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGG
GTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATTGTTCGAGTCTTATACT
CTCTGAAGAAATAGGGGGCAGACGCAATTGA
Found at i:13542 original size:269 final size:269
Alignment explanation
Indices: 13062--13662 Score: 1166
Period size: 269 Copynumber: 2.2 Consensus size: 269
13052 CCAACAATTA
*
13062 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACGCAATTGATGAAGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTG
13127 TGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTGTGGGTCTTATAC
66 TGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTGTGGGTCTTATAC
13192 TCTCTGAAGATATAGGGGGCAGACACAATCGTTGAAGATCGTTCGAGTCTTATACTCTCTGAAGA
131 TCTCTGAAGATATAGGGGGCAGACACAATCGTTGAAGATCGTTCGAGTCTTATACTCTCTGAAGA
*
13257 AATAGGGGGGAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAG
196 AATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAG
13322 ACACGATTG
261 ACACGATTG
13331 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTG
13396 TGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTGTGGGTCTTATAC
66 TGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTGTGGGTCTTATAC
13461 TCTCTGAAGATATAGGGGGCAGACACAATCGTTGAAGATCGTTCGAGTCTTATACTCTCTGAAGA
131 TCTCTGAAGATATAGGGGGCAGACACAATCGTTGAAGATCGTTCGAGTCTTATACTCTCTGAAGA
13526 AATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAG
196 AATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAG
13591 ACACGATTG
261 ACACGATTG
* *
13600 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGAT
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGAT
13663 ATTCGAGTTC
Statistics
Matches: 328, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
269 328 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (269 bp):
TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTG
TGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTGTGGGTCTTATAC
TCTCTGAAGATATAGGGGGCAGACACAATCGTTGAAGATCGTTCGAGTCTTATACTCTCTGAAGA
AATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAG
ACACGATTG
Found at i:17024 original size:3 final size:3
Alignment explanation
Indices: 17018--17168 Score: 124
Period size: 3 Copynumber: 48.7 Consensus size: 3
17008 TCTGGAGATC
* * * *
17018 ATT ATT ATT ATT ATT ACTA AGT ATT ATT ATT ATT AAT ATT ATT AAGT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * * * * *
17065 AGT ATT ATT ATT ATT AGTA ATT ATT ACT ATT ATT ATA AAT A-A AAT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
17110 ATGCC AAT ATGT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 AT--T ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17158 ATT ATT ATT AT
1 ATT ATT ATT AT
17169 ACAGATCAAA
Statistics
Matches: 119, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
2 1 0.01
3 108 0.91
4 9 0.08
5 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:17070 original size:19 final size:20
Alignment explanation
Indices: 17048--17099 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
17038 GTATTATTAT
17048 TATTAATATTATTAAGT-AG
1 TATTAATATTATTAAGTAAG
* *
17067 TATTATTATTATT-AGTAAT
1 TATTAATATTATTAAGTAAG
*
17086 TATTACTATTATTA
1 TATTAATATTATTA
17100 TAAATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 3 0.11
19 25 0.89
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (20 bp):
TATTAATATTATTAAGTAAG
Found at i:17496 original size:12 final size:14
Alignment explanation
Indices: 17467--17498 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
17457 TCGTCCATCT
17467 CCACCAGTCGTATG
1 CCACCAGTCGTATG
17481 CCACCA-TCGT-TG
1 CCACCAGTCGTATG
17493 CCACCA
1 CCACCA
17499 ACCAAGCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 4 0.22
14 6 0.33
ACGTcount: A:0.22, C:0.44, G:0.16, T:0.19
Consensus pattern (14 bp):
CCACCAGTCGTATG
Found at i:19578 original size:131 final size:132
Alignment explanation
Indices: 19278--19628 Score: 490
Period size: 131 Copynumber: 2.7 Consensus size: 132
19268 TAATATTTTT
* * *
19278 TTCATTTCGGTTGGAGTAATAAATGATTGCTTTAAGGCATGAG-AGATCATTTATTCTCAATTGG
1 TTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAAG-TCATTTATTCTCGATTGG
* * * * * * **
19342 AAATAATTCGATATTATTGTTTTCTCTCGAATTAATATTGATTTTTTAAGATGAAATAGTGATAT
65 AAATAATTAGATATTATAGTTTTCACTCGAATCAATATTGATATTATAAGAAAAAATAGTGATAT
19407 CTC
130 CTC
* * *
19410 TTCAATTCGATTAGAGCAATAAATGATTGCTTTAAGGTATGAGAAGTCATTTATTCTCGATTGGA
1 TTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAAGTCATTTATTCTCGATTGGA
* *
19475 AATCATTAGATATTATAGTTTTCACTTGAATCAATATTGA-ATTATAAGAAAAAATAGTGATATC
66 AATAATTAGATATTATAGTTTTCACTCGAATCAATATTGATATTATAAGAAAAAATAGTGATATC
19539 TC
131 TC
* * * *
19541 TTCATTTCGATTGGAGTAATAAACGATTGTTTTAAGGTATGAGAGGTCATTTATTCTTGATTGGA
1 TTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAAGTCATTTATTCTCGATTGGA
*
19606 AATAATTAGATATTATCGTTTTC
66 AATAATTAGATATTATAGTTTTC
19629 TCTCTTAACA
Statistics
Matches: 193, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
131 101 0.52
132 90 0.47
133 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (132 bp):
TTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAAGTCATTTATTCTCGATTGGA
AATAATTAGATATTATAGTTTTCACTCGAATCAATATTGATATTATAAGAAAAAATAGTGATATC
TC
Found at i:20724 original size:22 final size:22
Alignment explanation
Indices: 20664--20731 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 22
20654 TATGTATGTA
* *
20664 TGACATGTTTTCTTCTATTTTT
1 TGACATGTTTTCTTCTGTCTTT
* *
20686 TGACATATTTTCTTCTGTCATT
1 TGACATGTTTTCTTCTGTCTTT
20708 TGACATGTTTTCTTCTGTCTTT
1 TGACATGTTTTCTTCTGTCTTT
20730 TG
1 TG
20732 GTCGTTGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.13, C:0.16, G:0.12, T:0.59
Consensus pattern (22 bp):
TGACATGTTTTCTTCTGTCTTT
Found at i:23946 original size:30 final size:32
Alignment explanation
Indices: 23912--23978 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 32
23902 AGAATTTTGA
23912 TTAATCATT-TTTTT-AATTAAATTCA-TAAT-T
1 TTAATCATTATTTTTGAATT-AA-TCATTAATAT
23942 TTAAT--TTATTTTTGAATTAATCATTAATAT
1 TTAATCATTATTTTTGAATTAATCATTAATAT
23972 TTAATCA
1 TTAATCA
23979 ATTAATTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
28 5 0.16
29 11 0.35
30 15 0.48
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.55
Consensus pattern (32 bp):
TTAATCATTATTTTTGAATTAATCATTAATAT
Found at i:27334 original size:2 final size:2
Alignment explanation
Indices: 27327--27354 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27317 TATGTATTGT
27327 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
27355 AACAAAACAA
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:29114 original size:21 final size:22
Alignment explanation
Indices: 29088--29165 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 22
29078 TGTCATTTTT
29088 TATAATTCATT-TGATTAAACA
1 TATAATTCATTATGATTAAACA
*
29109 TATAA-TCATTAGATGATTAAATA
1 TATAATTCATT--ATGATTAAACA
* * *
29132 TACAATTCATTA-GATGAAATA
1 TATAATTCATTATGATTAAACA
29153 TACT-ATTCATTAT
1 TA-TAATTCATTAT
29166 ATCGCATTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.11
21 23 0.49
22 1 0.02
23 13 0.28
24 5 0.11
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (22 bp):
TATAATTCATTATGATTAAACA
Found at i:29127 original size:23 final size:24
Alignment explanation
Indices: 29099--29148 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
29089 ATAATTCATT
*
29099 TGATTAAACATATAA-TCATTAGA
1 TGATTAAACATACAATTCATTAGA
*
29122 TGATTAAATATACAATTCATTAGA
1 TGATTAAACATACAATTCATTAGA
29146 TGA
1 TGA
29149 AATATACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (24 bp):
TGATTAAACATACAATTCATTAGA
Found at i:29145 original size:24 final size:24
Alignment explanation
Indices: 29099--29164 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 24
29089 ATAATTCATT
* *
29099 TGATTAAACATATAA-TCATTAGA
1 TGATTAAATATACAATTCATTAGA
29122 TGATTAAATATACAATTCATTAGA
1 TGATTAAATATACAATTCATTAGA
*
29146 TG---AAATATACTATTCATTA
1 TGATTAAATATACAATTCATTA
29165 TATCGCATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 16 0.41
23 13 0.33
24 10 0.26
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (24 bp):
TGATTAAATATACAATTCATTAGA
Found at i:32419 original size:25 final size:26
Alignment explanation
Indices: 32391--32439 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
32381 AAAAATTATT
32391 TATCTAATGACAA-ATATTTAATATA
1 TATCTAATGACAATATATTTAATATA
* *
32416 TATCTAATGATAATATTTTTAATA
1 TATCTAATGACAATATATTTAATA
32440 ACTAATTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
TATCTAATGACAATATATTTAATATA
Found at i:37062 original size:18 final size:18
Alignment explanation
Indices: 37041--37123 Score: 139
Period size: 18 Copynumber: 4.6 Consensus size: 18
37031 TACCAGTAGT
* *
37041 AATAGGATTACCGGCGGG
1 AATAAGATTACCGACGGG
37059 AATAAGATTACCGACGGG
1 AATAAGATTACCGACGGG
37077 AATAAGATTACCGACGGG
1 AATAAGATTACCGACGGG
*
37095 AATAAGATTACCGGCGGG
1 AATAAGATTACCGACGGG
37113 AATAAGATTAC
1 AATAAGATTAC
37124 TGGGAATGCT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (18 bp):
AATAAGATTACCGACGGG
Found at i:37260 original size:21 final size:22
Alignment explanation
Indices: 37234--37279 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
37224 ATTGTCCTTA
*
37234 TTATATA-TTTGTTTAAAAAAT
1 TTATATATTTTCTTTAAAAAAT
37255 TTATATATTTTCTTTAAAAAAT
1 TTATATATTTTCTTTAAAAAAT
37277 TTA
1 TTA
37280 ACTTCATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATATATTTTCTTTAAAAAAT
Found at i:46242 original size:20 final size:21
Alignment explanation
Indices: 46204--46242 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46194 CATCAAGGTC
*
46204 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCATGAAATCT
46225 TTTGTCGAAGCCAT-AAAT
1 TTTGTCGAAGCCATGAAAT
46243 TCCCATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (21 bp):
TTTGTCGAAGCCATGAAATCT
Found at i:49527 original size:21 final size:21
Alignment explanation
Indices: 49501--49616 Score: 139
Period size: 21 Copynumber: 5.7 Consensus size: 21
49491 GGTAGAGAGA
*
49501 TGTTAACATCACATATCTTCG
1 TGTTAACATCACATCTCTTCG
49522 TGTTAACATCACATCTCTTCG
1 TGTTAACATCACATCTCTTCG
*
49543 TGTTAATATCACATCTCTTCG
1 TGTTAACATCACATCTCTTCG
* * *
49564 TGTTAATATCACATTTCTTCA
1 TGTTAACATCACATCTCTTCG
* * *
49585 TGTT-A-AT-ATATCTTTTTG
1 TGTTAACATCACATCTCTTCG
49603 TGTTAACATCACAT
1 TGTTAACATCACAT
49617 TTATTTATGT
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.12
19 3 0.04
20 3 0.04
21 66 0.80
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.44
Consensus pattern (21 bp):
TGTTAACATCACATCTCTTCG
Found at i:49591 original size:42 final size:42
Alignment explanation
Indices: 49500--49638 Score: 158
Period size: 42 Copynumber: 3.4 Consensus size: 42
49490 GGGTAGAGAG
* * *
49500 ATGTTAACATCACATATCTTCGTGTTAACATCACATCTCTTC
1 ATGTTAATATCACATCTCTTCGTGTTAACATCACATTTCTTC
* *
49542 GTGTTAATATCACATCTCTTCGTGTTAATATCACATTTCTTC
1 ATGTTAATATCACATCTCTTCGTGTTAACATCACATTTCTTC
* * * *
49584 ATGTTAATAT---ATCTTTTTGTGTTAACATCACATTTATTT
1 ATGTTAATATCACATCTCTTCGTGTTAACATCACATTTCTTC
* *
49623 ATGTTTATATCCCATC
1 ATGTTAATATCACATC
49639 AATATGAATT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 33 0.40
42 49 0.60
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (42 bp):
ATGTTAATATCACATCTCTTCGTGTTAACATCACATTTCTTC
Found at i:49617 original size:39 final size:40
Alignment explanation
Indices: 49516--49633 Score: 139
Period size: 39 Copynumber: 2.9 Consensus size: 40
49506 ACATCACATA
* *
49516 TCTTCGTGTTAACATCACATCTCTTCGTGTTAATATCACATC
1 TCTTCGTGTTAACATCACATTTCTTCATGTTAATAT--CATC
*
49558 TCTTCGTGTTAATATCACATTTCTTCATGTTAATAT-ATC
1 TCTTCGTGTTAACATCACATTTCTTCATGTTAATATCATC
* * * * *
49597 TTTTTGTGTTAACATCACATTTATTTATGTTTATATC
1 TCTTCGTGTTAACATCACATTTCTTCATGTTAATATC
49634 CCATCAATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.50
42 33 0.50
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (40 bp):
TCTTCGTGTTAACATCACATTTCTTCATGTTAATATCATC
Found at i:51667 original size:21 final size:21
Alignment explanation
Indices: 51643--51696 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
51633 ACCCCATTTA
*
51643 CAAACAGACCTCAAGCCCAA-C
1 CAAACA-ACCTCAAACCCAATC
51664 CAAACCAACCTCAAACCCAATC
1 CAAA-CAACCTCAAACCCAATC
51686 CAAACCAACCT
1 CAAA-CAACCT
51697 AAATACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.44, C:0.44, G:0.04, T:0.07
Consensus pattern (21 bp):
CAAACAACCTCAAACCCAATC
Found at i:51691 original size:22 final size:21
Alignment explanation
Indices: 51650--51696 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
51640 TTACAAACAG
*
51650 ACCTCAAGCCCAACCAAACCA
1 ACCTCAAACCCAACCAAACCA
51671 ACCTCAAACCCAATCCAAACCA
1 ACCTCAAACCCAA-CCAAACCA
51693 ACCT
1 ACCT
51697 AAATACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.43, C:0.47, G:0.02, T:0.09
Consensus pattern (21 bp):
ACCTCAAACCCAACCAAACCA
Found at i:51705 original size:22 final size:21
Alignment explanation
Indices: 51650--51705 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
51640 TTACAAACAG
**
51650 ACCTCAAGCCCAACCAAACCA
1 ACCTCAAAACCAACCAAACCA
*
51671 ACCTCAAACCCAATCCAAACCA
1 ACCTCAAAACCAA-CCAAACCA
51693 ACCT-AAATACCAA
1 ACCTCAAA-ACCAA
51706 ACCCGACTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.46, C:0.43, G:0.02, T:0.09
Consensus pattern (21 bp):
ACCTCAAAACCAACCAAACCA
Found at i:72080 original size:31 final size:30
Alignment explanation
Indices: 72042--72207 Score: 111
Period size: 31 Copynumber: 5.3 Consensus size: 30
72032 TATGGCGACC
*
72042 CTTGGGTAGGCTCCAAGGCCTCGAGATCTTT
1 CTTGGGTAGGC-CCAAGGCCCCGAGATCTTT
** *
72073 CTTGGGTAGGCCCTGCGGCCCTGAGATCTTT
1 CTTGGGTAGGCCC-AAGGCCCCGAGATCTTT
* ** * *
72104 CTTGGGTAGTCCTCGTGGCCTCAAGATCTTT
1 CTTGGGTAGGCC-CAAGGCCCCGAGATCTTT
* * *
72135 CTTGGATAAG-TCATATGGCCCCGAGATACTTT
1 CTTGGGTAGGCCCA-A-GGCCCCGAGAT-CTTT
* * *
72167 -TTGGGAAGGCCCCATGGCCCCGAGTAACTTT
1 CTTGGGTAGG-CCCAAGGCCCCGAG-ATCTTT
72198 CTTGGGTAGG
1 CTTGGGTAGG
72208 TTCTCGGGCC
Statistics
Matches: 102, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
29 1 0.01
30 2 0.02
31 83 0.81
32 14 0.14
33 2 0.02
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.30
Consensus pattern (30 bp):
CTTGGGTAGGCCCAAGGCCCCGAGATCTTT
Found at i:72185 original size:62 final size:62
Alignment explanation
Indices: 72042--72185 Score: 146
Period size: 62 Copynumber: 2.3 Consensus size: 62
72032 TATGGCGACC
* * * * * * * *
72042 CTTGGGTAGGCTCCAAGGCCTCGAGATCTTTCTTGGGTAGGCCCTGCGGCCCTGAGATCTTT
1 CTTGGGTAGGCCCCATGGCCTCAAGATCTTTCTTGGATAAGCCATACGGCCCCGAGATCTTT
* * * * *
72104 CTTGGGTAGTCCTCGTGGCCTCAAGATCTTTCTTGGATAAGTCATATGGCCCCGAGATACTTT
1 CTTGGGTAGGCCCCATGGCCTCAAGATCTTTCTTGGATAAGCCATACGGCCCCGAGAT-CTTT
*
72167 -TTGGGAAGGCCCCATGGCC
1 CTTGGGTAGGCCCCATGGCC
72186 CCGAGTAACT
Statistics
Matches: 64, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
62 60 0.94
63 4 0.06
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.29
Consensus pattern (62 bp):
CTTGGGTAGGCCCCATGGCCTCAAGATCTTTCTTGGATAAGCCATACGGCCCCGAGATCTTT
Found at i:73115 original size:24 final size:24
Alignment explanation
Indices: 73086--73136 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
73076 TGGTGGTTGA
73086 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
73110 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
73134 TTT
1 TTT
73137 GTTCTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.61
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:77063 original size:31 final size:31
Alignment explanation
Indices: 77005--77068 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
76995 ACGAGGCATG
*
77005 CCCAAGAAAGATCTTAGGGCTGCAGAGCCTA
1 CCCAAGAAAGATCTCAGGGCTGCAGAGCCTA
* *
77036 CCCAAGAAAGATCTC-GGGGTCGTAGAGCCTA
1 CCCAAGAAAGATCTCAGGGCT-GCAGAGCCTA
77067 CC
1 CC
77069 TAAGGGTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.16
Consensus pattern (31 bp):
CCCAAGAAAGATCTCAGGGCTGCAGAGCCTA
Found at i:77791 original size:22 final size:22
Alignment explanation
Indices: 77766--77823 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
77756 TGGTCAAAGC
* *
77766 CAAATTCAACGGTTATATCAAT
1 CAAAGTCAACGGTTATACCAAT
* * *
77788 CAAAGTCAACAGTCATACCAGT
1 CAAAGTCAACGGTTATACCAAT
77810 CAAAGTCAACGGTT
1 CAAAGTCAACGGTT
77824 TCATCGGTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (22 bp):
CAAAGTCAACGGTTATACCAAT
Found at i:78182 original size:42 final size:42
Alignment explanation
Indices: 78108--78188 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 42
78098 CCGAAATCCT
* *
78108 GTGTTTGTTTCACGTAATTCGTTTTCTTGAAAATGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCTAGAAAATATTTTCCC
78150 GTGTTTGTTTCACGTAATTCGTTTT-TCAGAAAATATTTT
1 GTGTTTGTTTCACGTAATTCGTTTTCT-AGAAAATATTTT
78189 TCCAATGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.51
Consensus pattern (42 bp):
GTGTTTGTTTCACGTAATTCGTTTTCTAGAAAATATTTTCCC
Found at i:78198 original size:43 final size:42
Alignment explanation
Indices: 78109--78199 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 42
78099 CGAAATCCTG
* **
78109 TGTTTGTTTCACGTAATTCGTTTTCTTGAAAATGTTTTCCCG
1 TGTTTGTTTCACGTAATTCGTTTTCTAGAAAATGTTTTCCAA
*
78151 TGTTTGTTTCACGTAATTCGTTTT-TCAGAAAATATTTTTCCAA
1 TGTTTGTTTCACGTAATTCGTTTTCT-AGAAAAT-GTTTTCCAA
78194 TGTTTG
1 TGTTTG
78200 GTTGTAGGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.02
42 30 0.70
43 12 0.28
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (42 bp):
TGTTTGTTTCACGTAATTCGTTTTCTAGAAAATGTTTTCCAA
Found at i:78475 original size:30 final size:32
Alignment explanation
Indices: 78424--78483 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 32
78414 ATATTTTAAA
78424 TATATTTATTAATATTTATAAT-AATATAATTT
1 TATATTTATTAATATTTATAATCAA-ATAATTT
78456 TATATTT-TTAATA-TTATAATCAAATAAT
1 TATATTTATTAATATTTATAATCAAATAAT
78484 CAATTATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 12 0.44
31 8 0.30
32 7 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATCAAATAATTT
Found at i:78491 original size:32 final size:32
Alignment explanation
Indices: 78424--78503 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
78414 ATATTTTAAA
*
78424 TATATTTATTAATATTTATAATAATATAATTT
1 TATATTTATTAATATTTATAATAATATAATAT
78456 TATATTT-TTAATA-TTATAATCAA-ATAATCAAT
1 TATATTTATTAATATTTATAAT-AATATAAT--AT
*
78488 TATATTATAATAATAT
1 TATATT-TATTAATAT
78504 AAGATATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
30 12 0.30
31 8 0.20
32 14 0.35
33 1 0.03
34 5 0.12
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAATATAATAT
Found at i:78566 original size:54 final size:54
Alignment explanation
Indices: 78524--78659 Score: 136
Period size: 54 Copynumber: 2.5 Consensus size: 54
78514 ATTTTATGCT
* *
78524 AATAATGTATAATAAATTATTAATAA-AATTATATTATTTATTA-ATTTCATAGA
1 AATAATAT-TAATAAATTATTAATAAGAATAATATTATTTATTATATTTCATAGA
* * *
78577 AATAATATTATTAAATTATTAATAATGAATAATATTATTTA-TATATTTAATATTA
1 AATAATATTAATAAATTATTAATAA-GAATAATATTATTTATTATATTTCATA-GA
78632 ATATAATAATCTAATAATATT-TTAATAA
1 A-ATAAT-AT-TAATAA-ATTATTAATAA
78660 AGATATTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
52 16 0.23
53 9 0.13
54 20 0.29
55 2 0.03
56 5 0.07
57 2 0.03
58 12 0.17
59 3 0.04
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (54 bp):
AATAATATTAATAAATTATTAATAAGAATAATATTATTTATTATATTTCATAGA
Found at i:78615 original size:19 final size:18
Alignment explanation
Indices: 78591--78659 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
78581 ATATTATTAA
78591 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
78610 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
78628 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
78650 ATT-TTAATAA
1 ATTATTAATAA
78660 AGATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:78634 original size:27 final size:27
Alignment explanation
Indices: 78543--78639 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
78533 TAATAAATTA
*
78543 TTAATA-AAATTATATTATTTAT-TAAT
1 TTAATATAAATAATATTATTTATAT-AT
* * *
78569 TTCATAGAAATAATATTA-TTAAAT-T
1 TTAATATAAATAATATTATTTATATAT
*
78594 ATTAATAATGAATAATATTATTTATATAT
1 -TTAAT-ATAAATAATATTATTTATATAT
78623 TTAATATTAATATAATA
1 TTAATA-TAA-ATAATA
78640 ATCTAATAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
25 1 0.02
26 12 0.22
27 23 0.42
28 12 0.22
29 7 0.13
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (27 bp):
TTAATATAAATAATATTATTTATATAT
Found at i:78816 original size:91 final size:87
Alignment explanation
Indices: 78667--78836 Score: 209
Period size: 91 Copynumber: 1.9 Consensus size: 87
78657 TAAAGATATT
* * * *
78667 TAAAATATACAAATTAATATTTTTAAAATATAATATAACACTATTACTTAAATAAATAAATAAAA
1 TAAAATATACAAATTAATATTTTTAAAATAAAATATAAAAATAATACTTAAATAAATAAAT-AAA
78732 TAATTTATAATATTTTTATTTCAA
65 TAATTT-TAATATTTTTATTTCAA
* *
78756 TAAAATATACGAATATTAATATTTTTATTAATAAAATTATAAAAATAATA-TTTAAT-AATAAAT
1 TAAAATATAC-AA-ATTAATATTTTTA-AAATAAAA-TATAAAAATAATACTTAAATAAATAAAT
*
78819 AAATTATTTTAATATTTT
62 AAATAATTTTAATATTTT
78837 AAAAATAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
89 19 0.27
90 10 0.14
91 20 0.29
92 11 0.16
93 10 0.14
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (87 bp):
TAAAATATACAAATTAATATTTTTAAAATAAAATATAAAAATAATACTTAAATAAATAAATAAAT
AATTTTAATATTTTTATTTCAA
Found at i:79105 original size:15 final size:14
Alignment explanation
Indices: 79075--79104 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
79065 AATTACTAGT
*
79075 AATTCATTTTCCAA
1 AATTCAATTTCCAA
79089 AATTCAATTTCCAA
1 AATTCAATTTCCAA
79103 AA
1 AA
79105 AACCATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTCAATTTCCAA
Found at i:81212 original size:22 final size:22
Alignment explanation
Indices: 81184--81227 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
81174 AAAATATGGT
*
81184 ATGAACACTACCGTGAACAGTA
1 ATGAACACTACCATGAACAGTA
*
81206 ATGAACAGTACCATGAACAGTA
1 ATGAACACTACCATGAACAGTA
81228 CCCTGCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (22 bp):
ATGAACACTACCATGAACAGTA
Found at i:81221 original size:12 final size:12
Alignment explanation
Indices: 81184--81229 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
81174 AAAATATGGT
*
81184 ATGAACACTACC
1 ATGAACAGTACC
*
81196 GTGAACAGTA--
1 ATGAACAGTACC
81206 ATGAACAGTACC
1 ATGAACAGTACC
81218 ATGAACAGTACC
1 ATGAACAGTACC
81230 CTGCTATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 9 0.31
12 20 0.69
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:87120 original size:31 final size:30
Alignment explanation
Indices: 87085--87158 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
87075 GGGGACCACG
*
87085 GGCCTACCTAAGAAAGATCTCAAGGTCGCAA
1 GGCCTACCTAAGAAAGATCTCAAGGCCGC-A
**
87116 GGCCTATCC-AAGAAAGATCTCGGGGCCGCA
1 GGCCTA-CCTAAGAAAGATCTCAAGGCCGCA
87146 GAGCCTACCTAAG
1 G-GCCTACCTAAG
87159 GGTCATCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 4 0.11
31 31 0.84
32 2 0.05
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (30 bp):
GGCCTACCTAAGAAAGATCTCAAGGCCGCA
Found at i:88721 original size:3 final size:3
Alignment explanation
Indices: 88713--88945 Score: 172
Period size: 3 Copynumber: 77.3 Consensus size: 3
88703 ATATATTTGA
88713 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
88761 AAT AA- AAC ACT AAT AAAT AAT AAT GAT AAT AAT ATT AAC AA- CAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
88805 AAT AAAT GAT AATT GAT GAT AAT AA- ACT AAT AGT TA- AAT GAT AAT
1 AAT -AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
88850 GAT AAT AAT AAT AAAT AAT AGT AA- AAT AAT AAAT AAA AAT AAT CAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * *
88896 AGT AAT ATAT ATT AAT AAAT AAT AAT AGT AGT -AT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
88942 AAT A
1 AAT A
88946 GAATATAGTA
Statistics
Matches: 181, Mismatches: 36, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
2 8 0.04
3 153 0.85
4 20 0.11
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:94048 original size:30 final size:30
Alignment explanation
Indices: 94012--94070 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
94002 CGTTAAATTT
* * *
94012 TGAATAAGATTAAAAGTTTAGGTATTAAAA
1 TGAATAAAAATAAAAGTTTAGGTAATAAAA
*
94042 TGAATAAAAATAATAGTTTAGGTAATAAA
1 TGAATAAAAATAAAAGTTTAGGTAATAAA
94071 CCTGTTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (30 bp):
TGAATAAAAATAAAAGTTTAGGTAATAAAA
Found at i:95080 original size:54 final size:54
Alignment explanation
Indices: 95019--95130 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 54
95009 TACTTAAGAT
*
95019 TGAAAATTTTATATTAAAGAACTAGTTATACAGTTTTAATTTACTCAAATTTAG
1 TGAAAATTTTAAATTAAAGAACTAGTTATACAGTTTTAATTTACTCAAATTTAG
* *
95073 TGAAAATTTTAAATTAAAGAATTAGTTATACATTTTTAATTTACTCAAATTTAG
1 TGAAAATTTTAAATTAAAGAACTAGTTATACAGTTTTAATTTACTCAAATTTAG
95127 TGAA
1 TGAA
95131 TAAAACGTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (54 bp):
TGAAAATTTTAAATTAAAGAACTAGTTATACAGTTTTAATTTACTCAAATTTAG
Found at i:95082 original size:27 final size:28
Alignment explanation
Indices: 95052--95130 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 28
95042 AGTTATACAG
95052 TTTTAATTTACTCAAATTTAGTGAA-AA
1 TTTTAATTTACTCAAATTTAGTGAACAA
* * * *
95079 TTTTAAATTA---AAGAATTAGTTATACAT
1 TTTTAATTTACTCAA-ATTTAGTGA-ACAA
95106 TTTTAATTTACTCAAATTTAGTGAA
1 TTTTAATTTACTCAAATTTAGTGAA
95131 TAAAACGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
24 2 0.05
25 7 0.18
26 1 0.03
27 19 0.49
28 1 0.03
29 7 0.18
30 2 0.05
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (28 bp):
TTTTAATTTACTCAAATTTAGTGAACAA
Found at i:95107 original size:26 final size:26
Alignment explanation
Indices: 95024--95113 Score: 67
Period size: 27 Copynumber: 3.4 Consensus size: 26
95014 AAGATTGAAA
* *
95024 ATTTTATATTAAAGAACTAGTTATAC
1 ATTTTAAATTAAAGAATTAGTTATAC
* * * *
95050 AGTTTTAATTTACTCAA-ATTTAGTGA-AA
1 A-TTTTAAATTA---AAGAATTAGTTATAC
95078 ATTTTAAATTAAAGAATTAGTTATAC
1 ATTTTAAATTAAAGAATTAGTTATAC
*
95104 ATTTTTAATT
1 ATTTTAAATT
95114 TACTCAAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
24 2 0.04
25 7 0.15
26 11 0.23
27 17 0.36
28 2 0.04
29 6 0.13
30 2 0.04
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (26 bp):
ATTTTAAATTAAAGAATTAGTTATAC
Found at i:96268 original size:217 final size:218
Alignment explanation
Indices: 95893--96329 Score: 867
Period size: 217 Copynumber: 2.0 Consensus size: 218
95883 GACCACTAGT
95893 GCTCATTTTCTCTACTATTCATCTTCTTCCTCTGTTCTCGCATTCTCCTTTTTTTCCCATGCCAC
1 GCTCATTTTCTCTACTATTCATCTTCTTCCTCTGTTCTCGCATTCTCCTTTTTTTCCCATGCCAC
95958 TGAGACAGAATAAATCATGTTAAATAATGTGACTGAAGTAGCTTATGTTCTTAAAGAATTAAGTC
66 TGAGACAGAATAAATCATGTTAAATAATGTGACTGAAGTAGCTTATGTTCTTAAAGAATTAAGTC
96023 ACACGCACATATGAATTAATAAGATGG-AACCCAGAGAATAACAGAGTATATACTAAGTTCAAAT
131 ACACGCACATATGAATTAATAAGATGGAAACCCAGAGAATAACAGAGTATATACTAAGTTCAAAT
96087 GGTAGGTATTGCTCTAGCCTGTA
196 GGTAGGTATTGCTCTAGCCTGTA
96110 GCTCATTTTCTCTACTATTCATCTTCTTCCTCTGTTCTCGCATTCTCCTTTTTTTCCCATGCCAC
1 GCTCATTTTCTCTACTATTCATCTTCTTCCTCTGTTCTCGCATTCTCCTTTTTTTCCCATGCCAC
96175 TGAGACAGAATAAATCATGTTAAATAATGTGACTGAAGTAGCTTATGTTCTTAAAGAATTAAGTC
66 TGAGACAGAATAAATCATGTTAAATAATGTGACTGAAGTAGCTTATGTTCTTAAAGAATTAAGTC
96240 ACACGCACATATGAATTAATAAGATGGAAACCCAGAGAATAACAGAGTATATACTAAGTTCAAAT
131 ACACGCACATATGAATTAATAAGATGGAAACCCAGAGAATAACAGAGTATATACTAAGTTCAAAT
96305 GGTAGGTATTGCTCTAGCCTGTA
196 GGTAGGTATTGCTCTAGCCTGTA
96328 GC
1 GC
96330 GCTGCTCTTC
Statistics
Matches: 219, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
217 157 0.72
218 62 0.28
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (218 bp):
GCTCATTTTCTCTACTATTCATCTTCTTCCTCTGTTCTCGCATTCTCCTTTTTTTCCCATGCCAC
TGAGACAGAATAAATCATGTTAAATAATGTGACTGAAGTAGCTTATGTTCTTAAAGAATTAAGTC
ACACGCACATATGAATTAATAAGATGGAAACCCAGAGAATAACAGAGTATATACTAAGTTCAAAT
GGTAGGTATTGCTCTAGCCTGTA
Found at i:97102 original size:47 final size:47
Alignment explanation
Indices: 97044--97141 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
97034 TGCCTTGTAC
97044 TTGAGGCAAAGTAAAGGTCCTAGTGCATAGAGTTTCCCTTGATACTT
1 TTGAGGCAAAGTAAAGGTCCTAGTGCATAGAGTTTCCCTTGATACTT
97091 TTGAGGCAAAGTAAAGGTCCTAGTGCATAGAGTTTCCCTTGATACTT
1 TTGAGGCAAAGTAAAGGTCCTAGTGCATAGAGTTTCCCTTGATACTT
97138 TTGA
1 TTGA
97142 TGTGATATGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (47 bp):
TTGAGGCAAAGTAAAGGTCCTAGTGCATAGAGTTTCCCTTGATACTT
Found at i:97239 original size:70 final size:72
Alignment explanation
Indices: 97144--97280 Score: 244
Period size: 70 Copynumber: 1.9 Consensus size: 72
97134 ACTTTTGATG
97144 TGATATGCATAACAGGTGCAGGTGATCGTTCACTAGTTTCTG-CACTATGCTTGC-TGTAAATCA
1 TGATATGCATAACAGGTGCAGGTGATCGTTCACTAGTTTCTGCCACTATGCTTGCATGTAAATCA
97207 ATTATAA
66 ATTATAA
97214 TGATATGCAATAACAGGTGCA-GTGATCGTTCACTAGTTTCTGCCACTATGCTTGCATGTAAATC
1 TGATATGC-ATAACAGGTGCAGGTGATCGTTCACTAGTTTCTGCCACTATGCTTGCATGTAAATC
97278 AAT
65 AAT
97281 AATTATAATG
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
70 29 0.45
71 24 0.38
72 11 0.17
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (72 bp):
TGATATGCATAACAGGTGCAGGTGATCGTTCACTAGTTTCTGCCACTATGCTTGCATGTAAATCA
ATTATAA
Found at i:103014 original size:31 final size:31
Alignment explanation
Indices: 102915--103015 Score: 157
Period size: 31 Copynumber: 3.3 Consensus size: 31
102905 TATGGGGAAA
* *
102915 TAGTCCATAACGTTATCGATCTGTTCAATTT
1 TAGTCCCTAACGTTATCGATATGTTCAATTT
*
102946 TAGTCCGTAACGTTATCGATATGTTCAATTT
1 TAGTCCCTAACGTTATCGATATGTTCAATTT
* *
102977 TAGTCCCTAACGTTATTGATATGTTCGATTT
1 TAGTCCCTAACGTTATCGATATGTTCAATTT
103008 TAGTCCCT
1 TAGTCCCT
103016 CAACTATTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.43
Consensus pattern (31 bp):
TAGTCCCTAACGTTATCGATATGTTCAATTT
Found at i:118895 original size:15 final size:15
Alignment explanation
Indices: 118875--118905 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
118865 GTATATCTTA
118875 CAACATTTCCATGTT
1 CAACATTTCCATGTT
*
118890 CAACATTTTCATGTT
1 CAACATTTCCATGTT
118905 C
1 C
118906 TATTCTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (15 bp):
CAACATTTCCATGTT
Found at i:121042 original size:12 final size:12
Alignment explanation
Indices: 121025--121078 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
121015 AGTTAAGCAA
121025 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
121037 AAAAAACAAAAC
1 AAAAAAAAAAAC
*
121049 AAAAGACAAAAACC
1 AAAA-A-AAAAAAC
* *
121063 AAACAAACAAAC
1 AAAAAAAAAAAC
121075 AAAA
1 AAAA
121079 CTCACGCTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
12 23 0.70
13 2 0.06
14 8 0.24
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:121052 original size:19 final size:19
Alignment explanation
Indices: 121025--121078 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
121015 AGTTAAGCAA
*
121025 AAAAAAAAAAACAAAAAAC
1 AAAACAAAAAACAAAAAAC
*
121044 AAAACAAAAGAC-AAAAAC
1 AAAACAAAAAACAAAAAAC
*
121062 CAAACAAACAAACAAAA
1 AAAACAAA-AAACAAAA
121079 CTCACGCTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 13 0.45
19 13 0.45
20 3 0.10
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAACAAAAAACAAAAAAC
Found at i:121057 original size:7 final size:7
Alignment explanation
Indices: 121022--121073 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
121012 TATAGTTAAG
121022 CAAAAAA
1 CAAAAAA
*
121029 AAAAAAA
1 CAAAAAA
121036 CAAAAAA
1 CAAAAAA
121043 C--AAAA
1 CAAAAAA
*
121048 CAAAAGA
1 CAAAAAA
*
121055 CAAAAAC
1 CAAAAAA
121062 CAAACAAA
1 CAAA-AAA
121070 CAAA
1 CAAA
121074 CAAAACTCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
5 5 0.14
7 25 0.69
8 6 0.17
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (7 bp):
CAAAAAA
Found at i:121079 original size:18 final size:18
Alignment explanation
Indices: 121025--121078 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
121015 AGTTAAGCAA
*
121025 AAAAAAAAAAACAAAAAAC
1 AAAACAAAAAAC-AAAAAC
*
121044 AAAACAAAAGACAAAAAC
1 AAAACAAAAAACAAAAAC
*
121062 CAAACAAACAAACAAAA
1 AAAACAAA-AAACAAAA
121079 CTCACGCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAACAAAAAACAAAAAC
Found at i:125561 original size:16 final size:17
Alignment explanation
Indices: 125542--125578 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
125532 TAAAATATTA
125542 TTTTA-AATAATTA-TAT
1 TTTTACAAT-ATTACTAT
125558 TTTTACAATATTACTAT
1 TTTTACAATATTACTAT
125575 TTTT
1 TTTT
125579 TCATCCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTACAATATTACTAT
Found at i:125688 original size:3 final size:3
Alignment explanation
Indices: 125680--125712 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
125670 ACAGTTTGTA
125680 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
125713 AATTTTGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:130294 original size:2 final size:2
Alignment explanation
Indices: 130283--130314 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
130273 TAGATAAATC
130283 AT AT -T AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130315 TGTAGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:132001 original size:31 final size:31
Alignment explanation
Indices: 131899--132001 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 31
131889 GATTACTTTT
*
131899 TAATTTAA-CCTCTAAAGTTTAGAT-AAATAC
1 TAATTTAACCCT-TAAACTTTAGATAAAATAC
* * *
131929 TAATTTAATCCTTAAACTTTTGATAAAGTAC
1 TAATTTAACCCTTAAACTTTAGATAAAATAC
* *
131960 TAATTCAACCCTTAAACTTTAAATAAAATA-
1 TAATTTAACCCTTAAACTTTAGATAAAATAC
131990 TCAATTTAACCC
1 T-AATTTAACCC
132002 ACAAAACTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
30 19 0.31
31 42 0.69
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.37
Consensus pattern (31 bp):
TAATTTAACCCTTAAACTTTAGATAAAATAC
Found at i:134096 original size:20 final size:20
Alignment explanation
Indices: 134067--134105 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
134057 AGGGATCATA
*
134067 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
134087 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
134106 GTGGTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:135966 original size:90 final size:89
Alignment explanation
Indices: 135852--136026 Score: 287
Period size: 90 Copynumber: 2.0 Consensus size: 89
135842 TCCCCAATAT
* * * *
135852 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCACTGATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACACTAATATGACTAG
135917 GGTAACTTGGATATAAAAGGATTA
66 GGTAACTTGGATATAAAAGGATTA
*
135941 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACACTAATATGACTA
*
136006 GGGTAACTTGGCTATAAAAGG
65 GGGTAACTTGGATATAAAAGG
136027 GTGTGTTAGG
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 7 0.09
90 72 0.91
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACACTAATATGACTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:137329 original size:2 final size:2
Alignment explanation
Indices: 137322--137358 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
137312 TATGCACTGC
137322 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
137359 TCCTTTATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:137615 original size:81 final size:81
Alignment explanation
Indices: 137455--138651 Score: 1651
Period size: 81 Copynumber: 14.8 Consensus size: 81
137445 TAATTAGTCC
* * * * * * * * *
137455 TTCATCCAACTTGCATTATTGGCATCTTTCTGCCAAATGCACCGTTA-GACATTTATTCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCA-TTAATCTTTTAC
137519 -CTAAAGGTATTTAACCT
65 TC-AAAGGTATTTAACCT
* * * * * * ** *
137536 TTCGTCTAACTGGCATGATTGACACCTTTCTGCCAAAGGAACAGTTAGACTTTTAGTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
137601 CAATGGTATTTAACCT
66 CAAAGGTATTTAACCT
** * * *
137617 TTCATCTAACTATCATATTTGACACATTTCTGCCAAATGCACAGCTAGGCTATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
137682 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
** * * *
137698 TTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGCAAAGCTATGCAATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
137763 CAGAGGTATTTAACCT
66 CAAAGGTATTTAACCT
* * * *
137779 TTCATCTAACTAGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTAATCTTTTAAT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
137844 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
* * * * *
137860 TTCATCTAACTGGCATAATTAACACATTTCTGCCAAATGCATAGATAGACCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
137925 CAAAGGTATTTAAACT
66 CAAAGGTATTTAACCT
* * *
137941 TTCATCTAACTGGCATAATTGACATCTTTCTGCCAAATGCATAGCTATGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
138006 CAAAGGTATTTAGCCT
66 CAAAGGTATTTAACCT
* * * * * *
138022 TTCATCTAACTGACATCATTGACATCTTTCTTCCAAATGCACATCTAGGCCATTAATCTTTAACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
138087 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
* * * * **
138103 TTCATCTAACTCGCATAATTGACACATTTATGCCAAATGCACAACTATACCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
138168 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
* * * * * * *
138184 TTCATTTAACTAGCATTATTAACACCTTTCTGCCAAATGCACAACTATGTCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
138249 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
*
138265 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAGTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
138330 CAAAGGTATTTAATCT
66 CAAAGGTATTTAACCT
* * * *
138346 TTCATCTAACTGGCATAATTGACACCTATCTACCAAATGCACAACTAGGCCATTAATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
138411 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
* * *
138427 TTCATCTAACTGCCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAGTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
138492 CAAAGGTATTTAATCT
66 CAAAGGTATTTAACCT
* * *
138508 TTCATCTAACTGGCATAATTGACACCTATCTACCAAATGCACAACTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
138573 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
* * *
138589 TTCATCTAACTGCCATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCCATTAATCATTTA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTA
138652 TTTTAGAACA
Statistics
Matches: 988, Mismatches: 126, Indels: 4
0.88 0.11 0.00
Matches are distributed among these distances:
81 987 1.00
82 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
CAAAGGTATTTAACCT
Found at i:143160 original size:81 final size:81
Alignment explanation
Indices: 143010--143880 Score: 1190
Period size: 81 Copynumber: 10.8 Consensus size: 81
143000 CAATTAATCC
* * * * * * * * * *
143010 TTCATCCAACTTGCATTATTGGCATCTTTATGCCAAATGCACCGTTA-GACATTTAGTCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCA-TTAATCTTTTAC
*
143074 CCAAAGGTATTTAACCT
65 TCAAAGGTATTTAACCT
* * * * ** * ** *
143091 TTCATCTAACTGGCTTGATTGACACATTTCTGCCAAAGGCACATTTATGCTTTTAGTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
143156 CAAAGGTATTTAACAT
66 CAAAGGTATTTAACCT
* * * * * * *
143172 TTCATCTAACCGACATATTTAACACATTTCTGGCAAAAGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
143237 CAAAGGTATTTAAACT
66 CAAAGGTATTTAACCT
* * *
143253 TTCATCTAACTGGCATAATTGACACC-TTCTGCCAAATGCACAGTTAGGCTATTAATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
143317 CAAAGGTATTTAACAT
66 CAAAGGTATTTAACCT
* * *
143333 TTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCATAGGTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
143398 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
*
143414 TTCATCTAACTGACATAA-TGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
*
143478 CAAAGATATTTAACCT
66 CAAAGGTATTTAACCT
* * *
143494 TTCATCTAACTGGAATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCAATTAATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
143559 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
* *
143575 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
143640 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
* *
143656 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATACACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
* *
143721 CAAATGTATTTATCCT
66 CAAAGGTATTTAACCT
* ** * * *
143737 TTCATGTAACTTACATAATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
143802 CAAAGGTATTTAACCT
66 CAAAGGTATTTAACCT
* * * *
143818 TTCATCTAACTAGCATAATTGGCACATTTCTGCCAAATGCACGGCTAGGCCATTAATCTTTTA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTA
143881 TTTTAGAACA
Statistics
Matches: 703, Mismatches: 84, Indels: 6
0.89 0.11 0.01
Matches are distributed among these distances:
80 147 0.21
81 555 0.79
82 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
CAAAGGTATTTAACCT
Found at i:147085 original size:25 final size:25
Alignment explanation
Indices: 147051--147115 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
147041 TATGTGAAGG
147051 CATCTCGACACTTTTGGGGTGGAAA
1 CATCTCGACACTTTTGGGGTGGAAA
147076 CATCTCGACACTTTTGGGGTGGAAA
1 CATCTCGACACTTTTGGGGTGGAAA
*
147101 CATCTCAACA-TTTTG
1 CATCTCGACACTTTTG
147116 TGATTAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
24 5 0.13
25 34 0.87
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (25 bp):
CATCTCGACACTTTTGGGGTGGAAA
Found at i:154408 original size:24 final size:24
Alignment explanation
Indices: 154376--154436 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
154366 CTATGCTTCA
154376 TGGTATCGATACCTCTGTGTAAAG
1 TGGTATCGATACCTCTGTGTAAAG
154400 TGGTATCGATACCTCTGTGTAAAG
1 TGGTATCGATACCTCTGTGTAAAG
*
154424 TAGTATCGATACC
1 TGGTATCGATACC
154437 CCTTAAGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (24 bp):
TGGTATCGATACCTCTGTGTAAAG
Found at i:155110 original size:15 final size:16
Alignment explanation
Indices: 155081--155118 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
155071 TCAAGATGAA
155081 ATTTTGAATTCATTTG
1 ATTTTGAATTCATTTG
155097 ATTTTGAA-TCATTTG
1 ATTTTGAATTCATTTG
155112 ATATTTG
1 AT-TTTG
155119 TAAAACTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (16 bp):
ATTTTGAATTCATTTG
Found at i:155186 original size:30 final size:30
Alignment explanation
Indices: 155147--155246 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
155137 TAAGATGATA
*
155147 AATGACAAATT-ATATTTTATCTAAAGTTT
1 AATGTCAAATTAATATTTTATCTAAAGTTT
*
155176 AATGGTCAAATTGATA-TTTATCTTAAA-TTT
1 AAT-GTCAAATTAATATTTTATC-TAAAGTTT
155206 AAATGTCAAATTAATATTTTATCTAAAGTTT
1 -AATGTCAAATTAATATTTTATCTAAAGTTT
155237 AA-GTCAAATT
1 AATGTCAAATT
155247 TAAAATTAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
29 11 0.17
30 33 0.52
31 19 0.30
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (30 bp):
AATGTCAAATTAATATTTTATCTAAAGTTT
Found at i:172219 original size:20 final size:21
Alignment explanation
Indices: 172176--172220 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
172166 GCTTCATTGT
172176 AAGAATTTATGGCTTCGAAAA
1 AAGAATTTATGGCTTCGAAAA
* *
172197 AAGATTTTATGGCTTC-AACA
1 AAGAATTTATGGCTTCGAAAA
172217 AAGA
1 AAGA
172221 CCTTGATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (21 bp):
AAGAATTTATGGCTTCGAAAA
Found at i:184034 original size:2 final size:2
Alignment explanation
Indices: 184027--184075 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
184017 AAAATGTGTA
184027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
*
184068 AA AT AT AT
1 AT AT AT AT
184076 GGCTAATAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 2 0.05
2 38 0.90
3 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:184598 original size:13 final size:14
Alignment explanation
Indices: 184567--184599 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
184557 TTTGATTTAG
184567 AAATAATATTAAAT
1 AAATAATATTAAAT
*
184581 AAATAATA-TAATT
1 AAATAATATTAAAT
184594 AAATAA
1 AAATAA
184600 AATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATATTAAAT
Found at i:187116 original size:20 final size:20
Alignment explanation
Indices: 187091--187150 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
187081 GTTCATCAGG
187091 TATGGATACCAGCCTTTCGA
1 TATGGATACCAGCCTTTCGA
*
187111 TATGGATAACAG--TTCATCTGA
1 TATGGATACCAGCCTT--TC-GA
*
187132 TATGGATACCAACCTTTCG
1 TATGGATACCAGCCTTTCG
187151 GTATCGAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
18 2 0.06
20 14 0.44
21 14 0.44
23 2 0.06
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (20 bp):
TATGGATACCAGCCTTTCGA
Found at i:187116 original size:41 final size:41
Alignment explanation
Indices: 187071--187150 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
187061 AGCCTCCAGA
* *
187071 ATGGAT-ACTAGTTCATCAGGTATGGATACCAGCCTTTCGAT
1 ATGGATAAC-AGTTCATCAGATATGGATACCAACCTTTCGAT
*
187112 ATGGATAACAGTTCATCTGATATGGATACCAACCTTTCG
1 ATGGATAACAGTTCATCAGATATGGATACCAACCTTTCG
187151 GTATCGAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 33 0.94
42 2 0.06
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
ATGGATAACAGTTCATCAGATATGGATACCAACCTTTCGAT
Found at i:189325 original size:19 final size:19
Alignment explanation
Indices: 189301--189349 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
189291 TAGAGGATGA
189301 TATATCGATGAGATTGTGG
1 TATATCGATGAGATTGTGG
189320 TATATCGATGAGATTGTGG
1 TATATCGATGAGATTGTGG
189339 TATATCGATGA
1 TATATCGATGA
189350 AATGGTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.37
Consensus pattern (19 bp):
TATATCGATGAGATTGTGG
Found at i:193137 original size:15 final size:15
Alignment explanation
Indices: 193117--193146 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
193107 CATCATGGGG
*
193117 TAAGAAGACAACGTC
1 TAAGAAGAAAACGTC
193132 TAAGAAGAAAACGTC
1 TAAGAAGAAAACGTC
193147 AAAAAAGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (15 bp):
TAAGAAGAAAACGTC
Found at i:196712 original size:39 final size:40
Alignment explanation
Indices: 196661--196738 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
196651 AAAGAAAAGG
* *
196661 AAGAGGGTAAAGGAGAAGGGACACTGCAAA-GGAAAAAAT
1 AAGAGGGTAAAGGAGAAGGGACACCGAAAAGGGAAAAAAT
196700 AAGAGGAG-AAAGGAGAAGGGACACCGAAAAGGGAAAAAA
1 AAGAGG-GTAAAGGAGAAGGGACACCGAAAAGGGAAAAAA
196739 GAAAGAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 26 0.74
40 9 0.26
ACGTcount: A:0.54, C:0.08, G:0.35, T:0.04
Consensus pattern (40 bp):
AAGAGGGTAAAGGAGAAGGGACACCGAAAAGGGAAAAAAT
Found at i:197280 original size:12 final size:12
Alignment explanation
Indices: 197263--197288 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
197253 ATCCCGGGTT
197263 TTTTTCATTTGA
1 TTTTTCATTTGA
197275 TTTTTCATTTGA
1 TTTTTCATTTGA
197287 TT
1 TT
197289 ATCAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTTCATTTGA
Found at i:200918 original size:39 final size:40
Alignment explanation
Indices: 200869--200951 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
200859 TTTCTTTCTT
* *
200869 TTTTTCCCTTT-TCGGTGTCCCTTCTCCTTT-CTCCTCTTCC
1 TTTTTCCCTTTGT-AGTGTCCCTTCTCCTTTAC-CCTCTTCA
200909 TTTTT-CCTTTGTAGTGTCCCTTCTCCTTTACCCTCTTCA
1 TTTTTCCCTTTGTAGTGTCCCTTCTCCTTTACCCTCTTCA
200948 TTTT
1 TTTT
200952 CTTTCTCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
39 32 0.82
40 7 0.18
ACGTcount: A:0.04, C:0.35, G:0.07, T:0.54
Consensus pattern (40 bp):
TTTTTCCCTTTGTAGTGTCCCTTCTCCTTTACCCTCTTCA
Found at i:202357 original size:513 final size:506
Alignment explanation
Indices: 201134--202163 Score: 1574
Period size: 513 Copynumber: 2.0 Consensus size: 506
201124 TTAGACATAT
* * * * *
201134 ATAATTTATTTAAATAAATGAAAATATTTCCAAATCATAGCATCTAATGACTAGATGTCTAGACC
1 ATAA-TTATTTAAATAAATCAAAATATTTCC-AATCACACCATCGAATGA-TAGATGTCTACACC
* * * ** * *
201199 ACTTCACTAGGAACCCCACAGTATCTTTAATCTTGTAAATGAACTCCTCATCTAGTTGAAACGGT
63 AC-TCACTAGGAA-CACAAAGTATCTGTAATCTTACAAATGAACTCCTCACCTAGTTGAAACGGC
* * ** *
201264 AGTAAAGTGTCTCCTTGCACACTCATTTCCATCATTACTTCAATGTTTTCACCTGTTATATAAAG
126 AGT--A-TGTCTCCTTGCACACTCACTTCCATAAGCACTTCAATGTTTTCACCTGCTATATAAAG
201329 TTATTACTAAGATACAATATTCTAAAAAGTCAAAAAGAAAACTGATATTTTTTGTAATACCTGAT
188 TTATTACTAAGATACAATATTCTAAAAAGTCAAAAAGAAAACTGATATTTTTTGTAATACCTGAT
*
201394 AGTTCATTGTTCTTCACTATCGTTCCTTTGGCAACTATAGTGGAGGCTATATCTTCGTATGATAA
253 AGATCATTGTTCTTCACTATCGTTCCTTTGGCAACTATAGTGGAGGCTATATCTTCGTATGATAA
*
201459 CAGGAAGTATCCTACAAATTATATATATATTAGTTGTAGCCAAGACTTACATTTAATTCATACTA
318 AAGGAAGTATCCTACAAATTATATATATATTAGTTGTAGCCAAGACTTACATTTAATTCATACTA
201524 TAATTTAATAAGACTTACAAGTAATTCCTCGGGTGGGTTATCTTCAAAATCTGCTTTGCCCCACC
383 TAATTTAATAAGACTTACAAGTAATTCCTCGGGTGGGTTATCTTCAAAATCTGCTTTGCCCCACC
201589 TTGGCAACTTGCACCTTCAGAAGCATGATTCGTCCCTTTTGTAGTTTCTCTATTGCACC
448 TTGGCAACTTGCACCTTCAGAAGCATGATTCGTCCCTTTTGTAGTTTCTCTATTGCACC
* * * *
201648 ATAATTATTTAAATAAATGAAAATATTTCCAAATCAGAGCATCGAATGACTAGATGTCTAGACCA
1 ATAATTATTTAAATAAATCAAAATATTTCC-AATCACACCATCGAATGA-TAGATGTCTACACCA
** * ** * *
201713 CTTCACTAGGAACACCACTGTATCTTTAATCTTGTAAATGAACTCCTCATCTAGTTGAAACGGTA
64 C-TCACTAGGAACA-CAAAGTATCTGTAATCTTACAAATGAACTCCTCACCTAGTTGAAACGGCA
* * ** *
201778 GTAAAGTGTCTCCTTGCACACTCATTTCCATCATTACTTCAATGTTTTCACCTGTTATATAAAGT
127 GT--A-TGTCTCCTTGCACACTCACTTCCATAAGCACTTCAATGTTTTCACCTGCTATATAAAGT
201843 TATTACTAAGATACAATATTCTAAAAAGTCAAAAAGAAAACTGATATTTTTTGTAATACCTGATA
189 TATTACTAAGATACAATATTCTAAAAAGTCAAAAAGAAAACTGATATTTTTTGTAATACCTGATA
*
201908 GATCATTGTTCTTCACTATCGTTCCTTTGGCAACTATATTGGAGGCTATATCATTCGTATGATAA
254 GATCATTGTTCTTCACTATCGTTCCTTTGGCAACTATAGTGGAGGCTATATC-TTCGTATGATAA
201973 AAGGAAGTATCCTACAAATTATATATATATTAGTTGTAGCCAAGACTTACATTTAATTCATACTA
318 AAGGAAGTATCCTACAAATTATATATATATTAGTTGTAGCCAAGACTTACATTTAATTCATACTA
202038 TAATTTAATAAGACTTACAAGTAATTCCTCGGGTGGGTTATCTTCAAAATCTGCTTTGCCCCACC
383 TAATTTAATAAGACTTACAAGTAATTCCTCGGGTGGGTTATCTTCAAAATCTGCTTTGCCCCA-C
202103 CTTGGCAACTTGCACCTTCAGAAGCATGATTCGTCCCTTTTTGTAGTTTCTCTATTGCACC
447 CTTGGCAACTTGCACCTTCAGAAGCATGATTCGTCCC-TTTTGTAGTTTCTCTATTGCACC
202164 TTCAATTTGG
Statistics
Matches: 505, Mismatches: 7, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
512 1 0.00
513 300 0.59
514 143 0.28
515 38 0.08
516 23 0.05
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (506 bp):
ATAATTATTTAAATAAATCAAAATATTTCCAATCACACCATCGAATGATAGATGTCTACACCACT
CACTAGGAACACAAAGTATCTGTAATCTTACAAATGAACTCCTCACCTAGTTGAAACGGCAGTAT
GTCTCCTTGCACACTCACTTCCATAAGCACTTCAATGTTTTCACCTGCTATATAAAGTTATTACT
AAGATACAATATTCTAAAAAGTCAAAAAGAAAACTGATATTTTTTGTAATACCTGATAGATCATT
GTTCTTCACTATCGTTCCTTTGGCAACTATAGTGGAGGCTATATCTTCGTATGATAAAAGGAAGT
ATCCTACAAATTATATATATATTAGTTGTAGCCAAGACTTACATTTAATTCATACTATAATTTAA
TAAGACTTACAAGTAATTCCTCGGGTGGGTTATCTTCAAAATCTGCTTTGCCCCACCTTGGCAAC
TTGCACCTTCAGAAGCATGATTCGTCCCTTTTGTAGTTTCTCTATTGCACC
Found at i:205387 original size:15 final size:15
Alignment explanation
Indices: 205331--205387 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
205321 GATGCTTTCT
205331 TTTTCCTTCTTTA-ACG
1 TTTT-CTTC-TTAGACG
* *
205347 TTTTCTTCTTTGACA
1 TTTTCTTCTTAGACG
205362 TTTTCTTCTTAGACG
1 TTTTCTTCTTAGACG
*
205377 TTGTCTTCTTA
1 TTTTCTTCTTA
205388 CCCCATGAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 2 0.06
15 29 0.83
16 4 0.11
ACGTcount: A:0.12, C:0.21, G:0.09, T:0.58
Consensus pattern (15 bp):
TTTTCTTCTTAGACG
Found at i:210642 original size:21 final size:21
Alignment explanation
Indices: 210618--210685 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
210608 CGACGAAACG
210618 ACTTAACCTTTTTATTAAAGA
1 ACTTAACCTTTTTATTAAAGA
* * * *
210639 ACTTAACATTTCTATTCAAGT
1 ACTTAACCTTTTTATTAAAGA
* *
210660 GCTTAACCTTTTTATGAAAGA
1 ACTTAACCTTTTTATTAAAGA
210681 A-TTAA
1 ACTTAA
210686 TTTAATATTT
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
20 4 0.11
21 32 0.89
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (21 bp):
ACTTAACCTTTTTATTAAAGA
Found at i:210717 original size:25 final size:25
Alignment explanation
Indices: 210668--210717 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
210658 GTGCTTAACC
*
210668 TTTTTATGAAAGAATTAATTTAATA
1 TTTTTATGAAAGAATTAATTGAATA
*
210693 TTTTTATGAAGAGAATT-GTTGAATA
1 TTTTTATGAA-AGAATTAATTGAATA
210718 GGTATGCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (25 bp):
TTTTTATGAAAGAATTAATTGAATA
Found at i:212390 original size:32 final size:32
Alignment explanation
Indices: 212354--212434 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
212344 AATGTTCGTT
*
212354 TGTTCATTTATGTTCGTGAACGTTCGCTAATC
1 TGTTCGTTTATGTTCGTGAACGTTCGCTAATC
*
212386 TGTTCGTTTATGTTTGTGAACGTTCGCTAATC
1 TGTTCGTTTATGTTCGTGAACGTTCGCTAATC
*
212418 TGTTCGTTTATATTCGT
1 TGTTCGTTTATGTTCGT
212435 TCATTTATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (32 bp):
TGTTCGTTTATGTTCGTGAACGTTCGCTAATC
Found at i:212450 original size:24 final size:24
Alignment explanation
Indices: 212418--212466 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
212408 TTCGCTAATC
212418 TGTTCGTTTATATTCGTTCATTTA
1 TGTTCGTTTATATTCGTTCATTTA
*
212442 TGTTCGTTTATGTTCGTTCATTTA
1 TGTTCGTTTATATTCGTTCATTTA
212466 T
1 T
212467 ATTCAATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.59
Consensus pattern (24 bp):
TGTTCGTTTATATTCGTTCATTTA
Found at i:212588 original size:24 final size:24
Alignment explanation
Indices: 212561--212609 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
212551 GAGTACCACA
212561 AATTATATTATATAATATAATTTT
1 AATTATATTATATAATATAATTTT
*
212585 AATTATATTATATAGTATAATTTT
1 AATTATATTATATAATATAATTTT
212609 A
1 A
212610 TTTACATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTATATTATATAATATAATTTT
Found at i:213808 original size:3 final size:3
Alignment explanation
Indices: 213800--213857 Score: 64
Period size: 3 Copynumber: 18.3 Consensus size: 3
213790 ATATTACGTT
*
213800 TTA TTA TTA TTA TATA TGTT TTA TTA TTA TTA TTA TATA TTA -TA TTA
1 TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
213847 TTA TATA TTA T
1 TTA T-TA TTA T
213858 ATATATATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.04
3 35 0.73
4 11 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:213820 original size:20 final size:20
Alignment explanation
Indices: 213797--213854 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
213787 TATATATTAC
213797 GTTTTATTATTATTATATAT
1 GTTTTATTATTATTATATAT
213817 GTTTTATTATTATTAT-TAT
1 GTTTTATTATTATTATATAT
* *
213836 ATATTA-TATTATTATATAT
1 GTTTTATTATTATTATATAT
213855 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 16 0.46
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
GTTTTATTATTATTATATAT
Found at i:213842 original size:10 final size:10
Alignment explanation
Indices: 213800--213896 Score: 66
Period size: 12 Copynumber: 9.9 Consensus size: 10
213790 ATATTACGTT
213800 TTAT-TATTA
1 TTATATATTA
*
213809 TTATATA-TG
1 TTATATATTA
213818 TT-T-TATTA
1 TTATATATTA
213826 TTAT-TATTA
1 TTATATATTA
213835 TATATTATATTA
1 T-TA-TATATTA
213847 TTATATATTA
1 TTATATATTA
213857 -TATATA-TA
1 TTATATATTA
213865 -TATATATATA
1 TTATATAT-TA
*
213875 TAGATATATATA
1 T-TATATAT-TA
213887 TATATATATT
1 T-TATATATT
213897 GTTAACTGTT
Statistics
Matches: 74, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
7 2 0.03
8 12 0.16
9 20 0.27
10 13 0.18
11 4 0.05
12 23 0.31
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TTATATATTA
Found at i:213853 original size:2 final size:2
Alignment explanation
Indices: 213833--213895 Score: 89
Period size: 2 Copynumber: 33.5 Consensus size: 2
213823 TTATTATTAT
213833 TA TA TA T- TA TA T- TA T- TA TA TA T- 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
*
213871 TA TA TA GA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
213896 TGTTAACTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
1 4 0.07
2 51 0.93
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:217083 original size:55 final size:54
Alignment explanation
Indices: 217020--217744 Score: 276
Period size: 55 Copynumber: 13.3 Consensus size: 54
217010 TTATTGCTTT
* * * * *
217020 AGGGAGTATAGAACTCGAGAAATCTTTTGAAAATGGGTTCGTTCCCTCTTTCTTC
1 AGGGAGTATAGAACTAGA-AAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
217075 AGGGAGTATAGAACTAGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
1 AGGGAGTATAGAACTAGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
* *
217129 AGGGAGTAGAGAACTAGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
1 AGGGAGTATAGAACTAGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
* * * *** * * * * *
217183 AGGGAGTATGGATCTCGAACAA-CTTCAATAATCGTG-TCTGCTCTCTATTCCTTC
1 AGGGAGTATAGAACTAGAA-AATCTTCTGCAAACGGGTTC-GCTCCCTCTTTCTTC
* * ** * ** * * *
217237 AGAGAGTATA-AGACTCGAACAATCTTCAACAATCGTATCCGCTCCCTATTCCTTC
1 AGGGAGTATAGA-ACTAGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
* * ** * * * * * *
217292 AGAGAGTATA-AGACTCGAACAATCTTCAACAATCGTGTCCTCTCCCTATTCCTTC
1 AGGGAGTATAGA-ACTAGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
* * * * * * * *
217347 AGAGAGTATA-AGACTCGAACAATCTT-TAACAATCGTG-TCAGCTCCATATTCCTTC
1 AGGGAGTATAGA-ACTAGAA-AATCTTCT-GCAAACGGGTTC-GCTCCCTCTTTCTTC
* * ** * * * *
217402 AGAGAGTATA-AGACTCGAACAATCTTCAACAATCGTGTAT-GCTCCCTATTCCTTC
1 AGGGAGTATAGA-ACTAGAA-AATCTTCTGCAAACGGGT-TCGCTCCCTCTTTCTTC
* * * * * * * * * *
217457 AGAGAATATA-AGACTCGAACAACCTTCAGCAATCGTGTCCGCTCCCTATTTTTTC
1 AGGGAGTATAGA-ACTAGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
* * ** * * * *
217512 AGAGAGTATA-AGACTCGAACAATCTTCAACAATCGTG-TCTGCTCCCTATTCCTTC
1 AGGGAGTATAGA-ACTAGAA-AATCTTCTGCAAACGGGTTC-GCTCCCTCTTTCTTC
* * ** * * * * *
217567 AGAGAGTATA-AGACTCGAACAATCTTCAACAATCGTGTCCGCTCCCTATTCCTTC
1 AGGGAGTATAGA-ACTAGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
* * * * * *
217622 AGAGAGTATA-AGACTCGAACATCTTCTTCAAACGGGTTCGCTCCTTCTTTCTTT
1 AGGGAGTATAGA-ACTAGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
* * * * *
217676 AAGGAGTATGGAACTCA-AACAATCTTCTACAAACGGATTCGCTCCCTCTTT-TTT
1 AGGGAGTATAGAACT-AGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
* *
217730 AGAGATTATAGAACT
1 AGGGAGTATAGAACT
217745 CGAACATATT
Statistics
Matches: 584, Mismatches: 70, Indels: 33
0.85 0.10 0.05
Matches are distributed among these distances:
53 3 0.01
54 189 0.32
55 389 0.67
56 2 0.00
57 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (54 bp):
AGGGAGTATAGAACTAGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC
Found at i:217351 original size:110 final size:110
Alignment explanation
Indices: 217196--217647 Score: 766
Period size: 110 Copynumber: 4.1 Consensus size: 110
217186 GAGTATGGAT
* *
217196 CTCGAACAA-CTTCAATAATCGTGTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
1 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
*
217260 CTTCAACAATCGTATCCGCTCCCTATTCCTTCAGAGAGTATAAGA
66 CTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGA
217305 CTCGAACAATCTTCAACAATCGTGTCCT-CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAA
1 CTCGAACAATCTTCAACAATCGTGT-CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAA
* * *
217369 TCTTTAACAATCGTGTCAGCTCCATATTCCTTCAGAGAGTATAAGA
65 TCTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGA
* * *
217415 CTCGAACAATCTTCAACAATCGTGTATGCTCCCTATTCCTTCAGAGAATATAAGACTCGAACAAC
1 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
* **
217480 CTTCAGCAATCGTGTCCGCTCCCTATTTTTTCAGAGAGTATAAGA
66 CTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGA
217525 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
1 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
217590 CTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGA
66 CTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGA
217635 CTCGAAC-ATCTTC
1 CTCGAACAATCTTC
217648 TTCAAACGGG
Statistics
Matches: 319, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
109 16 0.05
110 301 0.94
111 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (110 bp):
CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
CTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGA
Found at i:217399 original size:165 final size:164
Alignment explanation
Indices: 217196--217647 Score: 755
Period size: 165 Copynumber: 2.8 Consensus size: 164
217186 GAGTATGGAT
*
217196 CTCGAACAA-CTTCAATAATCGTGTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
1 CTCGAACAATCTTCAACAATCGTGTCTGCTC-CTATTCCTTCAGAGAGTATAAGACTCGAACAAT
*
217260 CTTCAACAATCGTATCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
65 CTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
*
217325 CGTGTCCTCTCCCTATTCCTTCAGAGAGTATAAGA
130 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGA
* *
217360 CTCGAACAATCTTTAACAATCGTGTCAGCTCCATATTCCTTCAGAGAGTATAAGACTCGAACAAT
1 CTCGAACAATCTTCAACAATCGTGTCTGCTCC-TATTCCTTCAGAGAGTATAAGACTCGAACAAT
** * * *
217425 CTTCAACAATCGTGTATGCTCCCTATTCCTTCAGAGAATATAAGACTCGAACAACCTTCAGCAAT
65 CTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
**
217490 CGTGTCCGCTCCCTATTTTTTCAGAGAGTATAAGA
130 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGA
217525 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
1 CTCGAACAATCTTCAACAATCGTGTCTGCT-CCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
217590 CTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAAC-ATCTTC
65 CTTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC
217648 TTCAAACGGG
Statistics
Matches: 267, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
164 15 0.06
165 250 0.94
166 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (164 bp):
CTCGAACAATCTTCAACAATCGTGTCTGCTCCTATTCCTTCAGAGAGTATAAGACTCGAACAATC
TTCAACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATC
GTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGA
Found at i:218740 original size:16 final size:18
Alignment explanation
Indices: 218708--218747 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
218698 CAGTAACCTC
*
218708 CATTGTCACTGCTTCAT-
1 CATTTTCACTGCTTCATA
218725 CATTTTCACT-CTTCATA
1 CATTTTCACTGCTTCATA
218742 CATTTT
1 CATTTT
218748 TATCCCATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.47
Consensus pattern (18 bp):
CATTTTCACTGCTTCATA
Found at i:222607 original size:21 final size:21
Alignment explanation
Indices: 222583--222651 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
222573 ATGCAAAGCA
222583 GTCTTCATGTCTTTATGAATG
1 GTCTTCATGTCTTTATGAATG
222604 GTCTTC-TCGTCTTTATGAATG
1 GTCTTCAT-GTCTTTATGAATG
* * *
222625 GTCTT-ATTGTCCTTGTGCATG
1 GTCTTCA-TGTCTTTATGAATG
222646 GTCTTC
1 GTCTTC
222652 TCGTCCTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 1 0.02
21 39 0.95
22 1 0.02
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.48
Consensus pattern (21 bp):
GTCTTCATGTCTTTATGAATG
Found at i:222657 original size:21 final size:21
Alignment explanation
Indices: 222598--222660 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
222588 CATGTCTTTA
* *
222598 TGAATGGTCTTCTCGTCTTTA
1 TGAATGGTCTTCTCGTCCTTG
* *
222619 TGAATGGTCTTATTGTCCTTG
1 TGAATGGTCTTCTCGTCCTTG
*
222640 TGCATGGTCTTCTCGTCCTTG
1 TGAATGGTCTTCTCGTCCTTG
222661 GTATGACTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.46
Consensus pattern (21 bp):
TGAATGGTCTTCTCGTCCTTG
Found at i:224780 original size:2 final size:2
Alignment explanation
Indices: 224728--224761 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
224718 AAAAATAATA
224728 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
224762 GCTTGCATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:226807 original size:3 final size:3
Alignment explanation
Indices: 226799--226839 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
226789 TAATTTGTAT
226799 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TTAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TA
226840 TTTATAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:232432 original size:3 final size:3
Alignment explanation
Indices: 232406--232448 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
232396 GTCCTTTAAA
* *
232406 ATT ATT ATA AAT ATT AATT A-T ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT A
232449 ATACAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:234486 original size:312 final size:310
Alignment explanation
Indices: 233917--234541 Score: 1150
Period size: 312 Copynumber: 2.0 Consensus size: 310
233907 TTATATATAT
233917 TATATATATATATATTACATTCACATGTTTGCCCTTTAATTATTTGTATTTTTGGATTTATTTTA
1 TATATATATATATATTACATTCACATGTTTGCCCTTTAATTATTTGTATTTTTGGATTTATTTTA
233982 CAGTTCACAACGCATTTAATTTGAATTTAAATTTGATTGATTGAATGTAAATTACTTGATTGTTT
66 CAGTTCACAACGCATTTAATTTGAATTTAAATTTGATTGATTGAATGTAAATTACTTGATTGTTT
234047 CCTGCTTTGTTTAGCGGTAATTATTGATGTTGATTAATAGTATCGGGTTTTTACCTTAATTTTAA
131 CCTGCTTTGTTTAGCGGTAA-TATTGATGTTGATTAATAGTATCGGGTTTTTACCTTAATTTTAA
234112 GACGATAATGCATTGGAATAGCATGTTACTGTTTGTTTACCTTAACCTTTCTTTATTCCATTTAT
195 GACGATAATGCATTGGAATAGCATGTTACTGTTTGTTTACCTTAACCTTTCTTTATTCCATTTAT
234177 TTACGCATGATGTATGTTAATTAATGCTATAGGGATAAAGATTAGTAATAAA
260 TT-CGCATGATGTATGTTAATTAATGCTATAGGGATAAAGATTAGTAATAAA
234229 TATATATAATATATATTACATTCAC-TGTTTGCCCTTTAATTTATTTGTATTTTTGGATTTATTT
1 TATATAT-ATATATATTACATTCACATGTTTGCCCTTTAA-TTATTTGTATTTTTGGATTTATTT
234293 TACAGTTCACAACGCATTTAATTTGAATTTAAATTTGATTGATTTGAATGTAAATTACTTGATTG
64 TACAGTTCACAACGCATTTAATTTGAATTTAAATTTGATTGA-TTGAATGTAAATTACTTGATTG
*
234358 TTTCCTGCTTTTGTTTAGCGGTAA-A-TGATGTTGATTAATAGTCTCGGGTTTTTACCTTAATTT
128 TTTCCTGC-TTTGTTTAGCGGTAATATTGATGTTGATTAATAGTATCGGGTTTTTACCTTAATTT
234421 TAAGACGATAATGCATTGGAATAGCATGTTACTGTTTGTTTACCTTAACCTTTTCTTTA-TCCAT
192 TAAGACGATAATGCATTGGAATAGCATGTTACTGTTTGTTTACCTTAACC-TTTCTTTATTCCAT
234485 TTATTTCGCATGATGTATGTTAATTAATGCTATAGGGATAAAGATTAGTAATAAA
256 TTATTTCGCATGATGTATGTTAATTAATGCTATAGGGATAAAGATTAGTAATAAA
234540 TA
1 TA
234542 ATTTTAGTTG
Statistics
Matches: 307, Mismatches: 1, Indels: 11
0.96 0.00 0.03
Matches are distributed among these distances:
311 51 0.17
312 119 0.39
313 92 0.30
314 30 0.10
315 15 0.05
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (310 bp):
TATATATATATATATTACATTCACATGTTTGCCCTTTAATTATTTGTATTTTTGGATTTATTTTA
CAGTTCACAACGCATTTAATTTGAATTTAAATTTGATTGATTGAATGTAAATTACTTGATTGTTT
CCTGCTTTGTTTAGCGGTAATATTGATGTTGATTAATAGTATCGGGTTTTTACCTTAATTTTAAG
ACGATAATGCATTGGAATAGCATGTTACTGTTTGTTTACCTTAACCTTTCTTTATTCCATTTATT
TCGCATGATGTATGTTAATTAATGCTATAGGGATAAAGATTAGTAATAAA
Found at i:234656 original size:2 final size:2
Alignment explanation
Indices: 234649--234707 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
234639 TAATGCAAGC
234649 AT AT AT AT AT AT AT AT AT AT AT -T 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
234690 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
234708 TAATTGAATG
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:238360 original size:13 final size:13
Alignment explanation
Indices: 238344--238369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
238334 ACCTTGTAGT
238344 ATCACCATATCCG
1 ATCACCATATCCG
238357 ATCACCATATCCG
1 ATCACCATATCCG
238370 TTGGAACCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (13 bp):
ATCACCATATCCG
Found at i:239002 original size:14 final size:14
Alignment explanation
Indices: 238983--239010 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
238973 TAGGTTAGTT
238983 GTTTGGAAATTAAA
1 GTTTGGAAATTAAA
238997 GTTTGGAAATTAAA
1 GTTTGGAAATTAAA
239011 CTCTAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTTGGAAATTAAA
Found at i:239306 original size:81 final size:82
Alignment explanation
Indices: 239152--239565 Score: 302
Period size: 78 Copynumber: 5.1 Consensus size: 82
239142 TAGAGCAATT
* * * * * *
239152 GGTTATCTGCCAACAAAGACCTTTGAGTTCAATTACACTCAG-TTCAACGGCACAACATTTGCGG
1 GGTTATCTGCC-ACAAAGACCTTCGAGTTCGAGTACACTCAGCTTCAAGGGCACATCATTTGCAG
* *
239216 TATAGCTCAAGGCTAAAAG
65 CATAACTCAAGGC-AAAAG
* **
239235 GGTTATCTG-C-CAAAGACCTTCGAGTTCGAGTACAGTCAGCTTTGAGGGCACATCATTTGCAGC
1 GGTTATCTGCCACAAAGACCTTCGAGTTCGAGTACACTCAGCTTCAAGGGCACATCATTTGCAGC
***
239298 ATAACTCAAGGTTGGAAG
66 ATAACTCAAGG-CAAAAG
* * * * *
239316 GGTTATCTGTCAACAAAGACCTTTGAGTTC--G-ACGCTCAGC-TCAATGG-A-ATCATTTACAG
1 GGTTATCTG-CCACAAAGACCTTCGAGTTCGAGTACACTCAGCTTCAAGGGCACATCATTTGCAG
* *
239375 CATAGCTTAAGGCAAGAAG
65 CATAACTCAAGGCAA-AAG
* * * * * * ** *
239394 AGCTATATG-C-CAAAGACCTTC--GTTCGATTACATTTAGC-TCAAAAGCACATAATTTGCAGC
1 GGTTATCTGCCACAAAGACCTTCGAGTTCGAGTACACTCAGCTTCAAGGGCACATCATTTGCAGC
239454 ATAACTCAAGGCAAGAAG
66 ATAACTCAAGGCAA-AAG
* * *
239472 GGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC-TCAAAAGCGC-CATCATTTA
1 GGTTATCTGCC-AC-AAAGACCTTCGAGTTCGAGTACACTCAGCTTC--AAGGGCACATCATTTG
*
239535 CAGCATAACTCAAGGCGAGAAG
62 CAGCATAACTCAAGGC-AAAAG
*
239557 GTTTATCTG
1 GGTTATCTG
239566 TCATCAAAAT
Statistics
Matches: 257, Mismatches: 54, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
73 4 0.02
75 10 0.04
76 11 0.04
77 1 0.00
78 61 0.24
79 2 0.01
80 29 0.11
81 47 0.18
82 12 0.05
83 9 0.04
84 32 0.12
85 34 0.13
86 5 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (82 bp):
GGTTATCTGCCACAAAGACCTTCGAGTTCGAGTACACTCAGCTTCAAGGGCACATCATTTGCAGC
ATAACTCAAGGCAAAAG
Found at i:241330 original size:3 final size:3
Alignment explanation
Indices: 241322--241408 Score: 56
Period size: 3 Copynumber: 27.7 Consensus size: 3
241312 ATATTACATT
241322 TTA TTA TTA TTA TATA CGTT- TTA TTA TTA TTA TTA TATA TTA -TA TT-
1 TTA TTA TTA TTA T-TA --TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* *
241368 TTA TTA TATA TATA TATA TT- TTA TTAA CTG TTA TTA TTA TT
1 TTA TTA T-TA T-TA T-TA TTA TTA TT-A TTA TTA TTA TTA TT
241409 TTTTCCTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 20
0.74 0.04 0.21
Matches are distributed among these distances:
2 8 0.11
3 42 0.60
4 18 0.26
5 1 0.01
6 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:241343 original size:20 final size:20
Alignment explanation
Indices: 241311--241377 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
241301 TTATTTTTTA
241311 TATATTACATTTTATTATTAT
1 TATA-TACATTTTATTATTAT
*
241332 TATATACGTTTTATTATTAT
1 TATATACATTTTATTATTAT
* *
241352 TATTATATATTATATT-TTAT
1 TA-TATACATTTTATTATTAT
241372 TATATA
1 TATATA
241378 TATATATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.10
20 23 0.56
21 14 0.34
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (20 bp):
TATATACATTTTATTATTAT
Found at i:241348 original size:23 final size:21
Alignment explanation
Indices: 241301--241393 Score: 88
Period size: 23 Copynumber: 4.4 Consensus size: 21
241291 TTATTTATCT
*
241301 TTATT-TT-TTATATATTACATT
1 TTATTATTATTATATATT--ATA
*
241322 TTATTATTATTATATACGTTTTA
1 TTATTATTATTATATA--TTATA
241345 TTATTATTATTATATATTATA
1 TTATTATTATTATATATTATA
241366 TT-TTATTA-TATATATATATA
1 TTATTATTATTATATAT-TATA
241386 TT-TTATTA
1 TTATTATTA
241394 ACTGTTATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.11
20 18 0.28
21 11 0.17
22 2 0.03
23 24 0.38
25 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (21 bp):
TTATTATTATTATATATTATA
Found at i:241363 original size:46 final size:44
Alignment explanation
Indices: 241301--241393 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 44
241291 TTATTTATCT
241301 TTATTTTTTATATATTACATTTTATTAT-TAT-TATATACGTTTTA
1 TTATTTTTTATATATTACATTTTATTATATATATATATA--TTTTA
*
241345 TTATTATTATTATATATTATATTTTATTATATATATATATATTTTA
1 TTATT-TT-TTATATATTACATTTTATTATATATATATATATTTTA
241391 TTA
1 TTA
241394 ACTGTTATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
44 5 0.11
45 2 0.05
46 28 0.64
47 3 0.07
48 6 0.14
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (44 bp):
TTATTTTTTATATATTACATTTTATTATATATATATATATTTTA
Found at i:241385 original size:20 final size:20
Alignment explanation
Indices: 241325--241393 Score: 86
Period size: 20 Copynumber: 3.3 Consensus size: 20
241315 TTACATTTTA
*
241325 TTATTATTATATACGTTTTATT
1 TTATTATTATATA--TTATATT
241347 ATTATTATTATATATTATATT
1 -TTATTATTATATATTATATT
241368 TTATTA-TATATATATATATT
1 TTATTATTATATAT-TATATT
241388 TTATTA
1 TTATTA
241394 ACTGTTATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 7 0.16
20 18 0.41
21 6 0.14
23 13 0.30
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (20 bp):
TTATTATTATATATTATATT
Found at i:241834 original size:11 final size:10
Alignment explanation
Indices: 241820--241895 Score: 55
Period size: 11 Copynumber: 7.1 Consensus size: 10
241810 TATTGTTTTC
241820 TTTTTTATTAT
1 TTTTTTATT-T
*
241831 TTTTTTATACT
1 TTTTTTAT-TT
*
241842 TATTTTATTT
1 TTTTTTATTT
241852 TTTCTTTATTT
1 TTT-TTTATTT
241863 TTGTTTT-TATT
1 TT-TTTTAT-TT
* *
241874 TATGTTATTT
1 TTTTTTATTT
241884 TTCTTTTATTT
1 TT-TTTTATTT
241895 T
1 T
241896 AGGTATTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
10 10 0.20
11 40 0.78
12 1 0.02
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:241836 original size:18 final size:18
Alignment explanation
Indices: 241802--241835 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
241792 ATATAAATAT
241802 TTTTTTACTATTGTTTTC
1 TTTTTTACTATTGTTTTC
*
241820 TTTTTTATTATT-TTTT
1 TTTTTTACTATTGTTTT
241836 TATACTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTTACTATTGTTTTC
Found at i:241847 original size:29 final size:30
Alignment explanation
Indices: 241799--241864 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
241789 TATATATAAA
* *
241799 TATTTTTTTACTATTGTTTTCTTTTTT-AT
1 TATTTTTTTACTATTATTTTATTTTTTCAT
*
241828 TATTTTTTTA-TACTTATTTTATTTTTTCTT
1 TATTTTTTTACTA-TTATTTTATTTTTTCAT
241858 TATTTTT
1 TATTTTT
241865 GTTTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 22 0.69
30 8 0.25
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (30 bp):
TATTTTTTTACTATTATTTTATTTTTTCAT
Found at i:241860 original size:16 final size:16
Alignment explanation
Indices: 241841--241896 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
241831 TTTTTTATAC
241841 TTATTTTATTTTTTCT
1 TTATTTTATTTTTTCT
*
241857 TTATTTT-TGTTTTTAT
1 TTATTTTAT-TTTTTCT
*
241873 TTATGTTA-TTTTTCTT
1 TTATTTTATTTTTTC-T
241889 TTATTTTA
1 TTATTTTA
241897 GGTATTTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 6 0.18
16 27 0.82
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.79
Consensus pattern (16 bp):
TTATTTTATTTTTTCT
Found at i:241892 original size:32 final size:31
Alignment explanation
Indices: 241820--241895 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
241810 TATTGTTTTC
*
241820 TTTTTTATTATTTTTTTATACTTATTTTATTT
1 TTTTTTATT-TTTTTTTATACTTATGTTATTT
*
241852 TTTCTTTATTTTTGTTTT-TATTTATGTTATTT
1 TTT-TTTATTTTT-TTTTATACTTATGTTATTT
241884 TTCTTTTATTTT
1 TT-TTTTATTTT
241896 AGGTATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
32 28 0.72
33 11 0.28
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.79
Consensus pattern (31 bp):
TTTTTTATTTTTTTTTATACTTATGTTATTT
Found at i:241896 original size:21 final size:20
Alignment explanation
Indices: 241857--241904 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
241847 TATTTTTTCT
*
241857 TTATTTTTGTTTTTATTTATG
1 TTATTTTTCTTTTTATTTA-G
241878 TTATTTTTC-TTTTATTTTAG
1 TTATTTTTCTTTTTA-TTTAG
*
241898 GTATTTT
1 TTATTTT
241905 ACTTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (20 bp):
TTATTTTTCTTTTTATTTAG
Found at i:241917 original size:32 final size:31
Alignment explanation
Indices: 241833--241917 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 31
241823 TTTATTATTT
* *
241833 TTTTATACTTATTTTATTTTTTCTTTATTTTTG
1 TTTT-TACTTATTTT-TTTTCTCTTTATTTTGG
*
241866 TTTTTATTTATGTTATTTTTCT-TTTATTTTAGG
1 TTTTTACTTAT-TT-TTTTTCTCTTTATTTT-GG
241899 TATTTTACTTATTTTTTTT
1 T-TTTTACTTATTTTTTTT
241918 TATCTTACTT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
32 19 0.43
33 15 0.34
34 10 0.23
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (31 bp):
TTTTTACTTATTTTTTTTCTCTTTATTTTGG
Found at i:241936 original size:21 final size:20
Alignment explanation
Indices: 241902--241959 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
241892 TTTTAGGTAT
241902 TTTAC-TTAT-TTTTTTTTA
1 TTTACTTTATCTTTTTTTTA
241920 TCTTACTTTATCCTTTTTTATTA
1 T-TTACTTTAT-CTTTTTT-TTA
*
241943 TTTTCTTTATCTTTTTT
1 TTTACTTTATCTTTTTT
241960 ATTTATTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 1 0.03
19 4 0.12
20 4 0.12
21 7 0.21
22 14 0.41
23 4 0.12
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTACTTTATCTTTTTTTTA
Found at i:241936 original size:22 final size:21
Alignment explanation
Indices: 241911--241967 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
241901 TTTTACTTAT
241911 TTTTTTTTATCTTACTTTATCC
1 TTTTTTTTAT-TTACTTTATCC
* *
241933 TTTTTTATTATTTTCTTTATCT
1 TTTTTT-TTATTTACTTTATCC
241955 TTTTTATTTATTT
1 TTTTT-TTTATTT
241968 CATTTTTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTTTTATTTACTTTATCC
Found at i:242008 original size:92 final size:91
Alignment explanation
Indices: 241834--242010 Score: 202
Period size: 92 Copynumber: 1.9 Consensus size: 91
241824 TTATTATTTT
* *
241834 TTTATACTTATTTTATTTTTTCTTTATTTTTGTTTTTATTTATGTTATTTTTCTTTTATTTTAGG
1 TTTATACTTATTTTATTTTTTCTTTA-TTCTGTTTTTATTTATGTTATTTTTCTTTTATTTTAAG
**
241899 TATTTTACTTATTTTTTTTTATCTTAC
65 TATTTTACTTACCTTTTTTTATCTTAC
*
241926 TTTATCCTT-TTTTATTATTTTCTTTA-TCT-TTTTTATTTAT-TTCATTTTTCTCCTTTATTTT
1 TTTATACTTATTTTATT-TTTTCTTTATTCTGTTTTTATTTATGTT-ATTTTTCT--TTTATTTT
*
241987 AAATTATTTT-CATTACCTTTTTTT
62 -AAGTATTTTAC-TTACCTTTTTTT
242011 GACATGTTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
88 2 0.03
89 19 0.26
90 2 0.03
91 16 0.22
92 34 0.47
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.72
Consensus pattern (91 bp):
TTTATACTTATTTTATTTTTTCTTTATTCTGTTTTTATTTATGTTATTTTTCTTTTATTTTAAGT
ATTTTACTTACCTTTTTTTATCTTAC
Done.