Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 58 of 189
Found at i:16468767 original size:44 final size:44
Alignment explanation
Indices: 16468712--16468902 Score: 113
Period size: 45 Copynumber: 4.3 Consensus size: 44
16468702 AGCATGTTGA
*
16468712 AAGATAACAGATCCTGTCTCCATGTACTGG-CGTGAAGTAGATC
1 AAGATACCAGATCCTGTCTCCATGTACTGGTCGTGAAGTAGATC
* * * * *
16468755 ATAGATACCAGATCTTGTCTCTC-CGTACAGGTGGTGGAGTAGATC
1 A-AGATACCAGATCCTGTCTC-CATGTACTGGTCGTGAAGTAGATC
* ** * * * * *
16468800 GAAGAAAGTAGATCTTGCCTTCCCA--TACTGGTGGCGAAGCAGATC
1 -AAGATACCAGATCCTGTC-T-CCATGTACTGGTCGTGAAGTAGATC
* * * * *
16468845 AAAGAAAGCAGATTCTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 -AAGATACCAGATCCTGTCTCCATGTACTGGTCGTGAAGTAGATC
16468889 AGAGATACCAGATC
1 A-AGATACCAGATC
16468903 TTGCCTTCCC
Statistics
Matches: 111, Mismatches: 27, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
43 4 0.04
44 43 0.39
45 60 0.54
46 3 0.03
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
AAGATACCAGATCCTGTCTCCATGTACTGGTCGTGAAGTAGATC
Found at i:16468833 original size:45 final size:45
Alignment explanation
Indices: 16468795--16468950 Score: 172
Period size: 45 Copynumber: 3.5 Consensus size: 45
16468785 GTGGTGGAGT
* *
16468795 AGATCGAAGAAAGTAGATCTTGCCTTCCCATACTGGTGGCGAAGC
1 AGATCAAAGAAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGC
* *** * * * *
16468840 AGATCAAAGAAAGCAGAT-TCTGTCTTCATGTATTGG-CGTGAAGT
1 AGATCAAAGAAAGCAGATCT-TGCCTTCCCATACTGGTGGCGAAGC
* * *
16468884 AGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGC
1 AGATCAAAGAAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGC
16468929 AGATCAAAGAAAGCAGATCTTG
1 AGATCAAAGAAAGCAGATCTTG
16468951 TTTTCATATA
Statistics
Matches: 84, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
44 32 0.38
45 52 0.62
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (45 bp):
AGATCAAAGAAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGC
Found at i:16468968 original size:89 final size:89
Alignment explanation
Indices: 16468809--16468984 Score: 264
Period size: 89 Copynumber: 2.0 Consensus size: 89
16468799 CGAAGAAAGT
* **
16468809 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATTCTGTCTTCATGTATT
1 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATTCTGTCTTCATATACC
* ** *
16468874 GGCGTGAAGTAGATCAGAGATACC
66 AGCGTGAAACAGATCAAAGATACC
*
16468898 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGA-TCTTGTTTTCATATAC
1 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATTC-TGTCTTCATATAC
16468962 CAGCGTGAAACAGATCAAAGATA
65 CAGCGTGAAACAGATCAAAGATA
16468985 GTAGGTCCTG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 2 0.03
89 76 0.97
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (89 bp):
AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATTCTGTCTTCATATACC
AGCGTGAAACAGATCAAAGATACC
Found at i:16469015 original size:89 final size:89
Alignment explanation
Indices: 16468809--16469016 Score: 231
Period size: 89 Copynumber: 2.3 Consensus size: 89
16468799 CGAAGAAAGT
* * * **
16468809 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATTCTGTCTTCATGTATT
1 AGATCCTGCCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATTCTGTCTTCATATACC
* ** *
16468874 GGCGTGAAGTAGATCAGAGATACC
66 AGCGTGAAACAGATCAAAGATACC
* * *
16468898 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGA-TCTTGTTTTCATATAC
1 AGATCCTGCCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATTC-TGTCTTCATATAC
**
16468962 CAGCGTGAAACAGATCAAAGATAGT
65 CAGCGTGAAACAGATCAAAGATACC
* * *
16468987 AGGTCCTGTCTTCCTATA-TCGGTAGCGAAG
1 AGATCCTGCCTTCCCATACT-GGTAGCGAAG
16469017 TGGATCGAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
88 3 0.03
89 99 0.97
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (89 bp):
AGATCCTGCCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATTCTGTCTTCATATACC
AGCGTGAAACAGATCAAAGATACC
Found at i:16470913 original size:15 final size:17
Alignment explanation
Indices: 16470872--16470917 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
16470862 ATTATCATTG
*
16470872 TATCCTCATTATTATAT
1 TATCCTTATTATTATAT
*
16470889 TATGCATTATT-TT-TAT
1 TAT-CCTTATTATTATAT
16470905 TATCCTTATTATT
1 TATCCTTATTATT
16470918 TTCAGGCACC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 5 0.21
18 5 0.21
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (17 bp):
TATCCTTATTATTATAT
Found at i:16471044 original size:22 final size:22
Alignment explanation
Indices: 16471018--16471059 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16471008 TTTATTTTCA
16471018 TATTTT-TTTAATATATTATACT
1 TATTTTATTT-ATATATTATACT
*
16471040 TATTTTATTTATATTTTATA
1 TATTTTATTTATATATTATA
16471060 AAGTACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTATATATTATACT
Found at i:16471047 original size:35 final size:36
Alignment explanation
Indices: 16470985--16471056 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 36
16470975 TACATGCGCA
16470985 TTTTACATATATATACATTATTATTTATTTTCATATTT
1 TTTTACATATATATACATTATTATTTA-TTT-ATATTT
16471023 TTTTA-ATATATTATAC-TTA-T-TTTATTTATATTT
1 TTTTACATATA-TATACATTATTATTTATTTATATTT
16471056 T
1 T
16471057 ATAAAGTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
33 7 0.21
34 3 0.09
35 4 0.12
36 1 0.03
37 8 0.24
38 10 0.30
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (36 bp):
TTTTACATATATATACATTATTATTTATTTATATTT
Found at i:16472295 original size:19 final size:19
Alignment explanation
Indices: 16472256--16472293 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16472246 TAATGTTTAT
*
16472256 TTAACAAAATTAATTGAAA
1 TTAACAAAATTAACTGAAA
16472275 TTAACCAAAATTAACTGAA
1 TTAA-CAAAATTAACTGAA
16472294 TTGGTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (19 bp):
TTAACAAAATTAACTGAAA
Found at i:16473670 original size:20 final size:19
Alignment explanation
Indices: 16473633--16473691 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 19
16473623 TATGTAATCA
16473633 TTATTTTCATAATATATAT
1 TTATTTTCATAATATATAT
16473652 TTATTTT-ATAACT-TATA-
1 TTATTTTCATAA-TATATAT
* *
16473669 -TATGTACATATATATATAT
1 TTATTTTCATA-ATATATAT
16473688 TTAT
1 TTAT
16473692 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 13 0.41
19 8 0.25
20 3 0.09
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (19 bp):
TTATTTTCATAATATATAT
Found at i:16477918 original size:22 final size:21
Alignment explanation
Indices: 16477890--16477933 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
16477880 GAAGATTCAG
16477890 TAGAATCTGATGGGCAAAATGA
1 TAGAATCTGATGGG-AAAATGA
* *
16477912 TAGAATCTTATGGGAATATGA
1 TAGAATCTGATGGGAAAATGA
16477933 T
1 T
16477934 GACTCAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (21 bp):
TAGAATCTGATGGGAAAATGA
Found at i:16486271 original size:84 final size:85
Alignment explanation
Indices: 16486139--16486297 Score: 196
Period size: 84 Copynumber: 1.9 Consensus size: 85
16486129 AGATAGCGAA
* * * * * * *
16486139 TCTTATCTCCCTGAAGTTGCAATGGAGCGGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAAGTAACAGATCTTATCCCCCTGAAGTTGCA
16486204 G-AGAGCAGATCGCATCTAG
66 GTAGAGCAGATCGCATCTAG
* * *
16486223 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-GAGTAAGCAGGTCTTATCCCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAAGTAA-CAGATCTTATCCCCCTGAAGTTGC
*
16486287 AGTGGAGCAGA
65 AGTAGAGCAGA
16486298 CTCAAGAAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
83 4 0.06
84 51 0.82
85 7 0.11
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (85 bp):
TCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAAGTAACAGATCTTATCCCCCTGAAGTTGCA
GTAGAGCAGATCGCATCTAG
Found at i:16486324 original size:45 final size:45
Alignment explanation
Indices: 16486087--16486601 Score: 311
Period size: 45 Copynumber: 11.8 Consensus size: 45
16486077 GGATTAGAGT
* *
16486087 AAGCAAGTCTTATC-CTCTTGAAGTTGCAGTGG-GACAGACTGAAGA
1 AAGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACTCAAGA
* * * *
16486132 TAGCGAA-TCTTATCTCCCTGAAGTTGCAATGGAGCGGA-TTAA-A
1 AAGC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
** * *
16486175 GTG-ATAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TC--G-
1 AAGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* * * * * *
16486216 CATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-GAGT
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* *
16486260 AAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* * * * * * * *
16486305 AAGCAAGTTTTATCCCCCTGAAATTGCAGTAGCGTAGACTGAATA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* * * * * ** *
16486350 AA-AAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* * ** *
16486392 ATG-ATGGATCTTATCTCTATGAAGTTGCAGTAGAGCAGA-TC---A
1 AAGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* * *
16486434 TATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
*
16486479 AATG-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCACACTCAAGA
1 AA-GCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* * * * * * *
16486524 AAGCAAGTCTTATC-CCCTTGAAATTACAATGGGGCAGATTGAATA
1 AAGCAAGTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTCAAGA
* * *
16486569 AA-TAAATCTTATCTCCCTAAAGTTGCAGTGGAG
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
16486602 TAGATTGAGA
Statistics
Matches: 357, Mismatches: 86, Indels: 55
0.72 0.17 0.11
Matches are distributed among these distances:
40 20 0.06
41 38 0.11
42 9 0.03
43 12 0.03
44 129 0.36
45 145 0.41
46 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (45 bp):
AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
Found at i:16486548 original size:219 final size:217
Alignment explanation
Indices: 16486087--16486612 Score: 671
Period size: 219 Copynumber: 2.4 Consensus size: 217
16486077 GGATTAGAGT
* * * *** *
16486087 AAGCAAGTCTTATCCTCTTGAAGTTGCAGTGGGACAGACTGAAGATAGCGAATCTTATCTCCCTG
1 AAGCAAGTCTTATCCCCTTGAAATTGCAGTGGG-CAGACTGAATA-AAAAAATCTTATCTCCCTA
* * * *
16486152 AAGTTGCAATGGAGCGGATTA-AAGTGATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
64 AAGTTGCAGTGGAGTGGATTAGAAGTGATAGATCTTATCTCTATGAAGTTGCAGAGAGCAGATCA
* * * * *
16486216 CATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGA
129 CATCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCCCCTGA
*
16486281 AGTTGCAGTGGAGCAGACTCAAGA
194 AGTTGCAGTGGAGCACACTCAAGA
* * * * *
16486305 AAGCAAGTTTTATCCCCCTGAAATTGCAGTAGCGTAGACTGAATAAAAAAATCCTATCTCCCTAA
1 AAGCAAGTCTTATCCCCTTGAAATTGCAGT-GGGCAGACTGAATAAAAAAATCTTATCTCCCTAA
* *
16486370 AGTTGTAGTGGAGTGGATTAGAA-TGATGGATCTTATCTCTATGAAGTTGCAGTAGAGCAGATCA
65 AGTTGCAGTGGAGTGGATTAGAAGTGATAGATCTTATCTCTATGAAGTTGCAG-AGAGCAGATCA
* * *
16486434 TATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATG-AAGTCTTATCTCCCT
129 CATCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-AAGAAA-GCAAGTCTTATCCCCCT
16486498 GAAGTTGCAGTGGAGCACACTCAAGA
192 GAAGTTGCAGTGGAGCACACTCAAGA
* * * *
16486524 AAGCAAGTCTTATCCCCTTGAAATTACAATGGGGCAGATTGAATAAATAAATCTTATCTCCCTAA
1 AAGCAAGTCTTATCCCCTTGAAATTGCAGT-GGGCAGACTGAATAAAAAAATCTTATCTCCCTAA
*
16486589 AGTTGCAGTGGAGTAGATTGAGAA
65 AGTTGCAGTGGAGTGGATT-AGAA
16486613 AACCAATCCA
Statistics
Matches: 263, Mismatches: 39, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
217 59 0.22
218 83 0.32
219 116 0.44
220 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (217 bp):
AAGCAAGTCTTATCCCCTTGAAATTGCAGTGGGCAGACTGAATAAAAAAATCTTATCTCCCTAAA
GTTGCAGTGGAGTGGATTAGAAGTGATAGATCTTATCTCTATGAAGTTGCAGAGAGCAGATCACA
TCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCCCCTGAAG
TTGCAGTGGAGCACACTCAAGA
Found at i:16498816 original size:2 final size:2
Alignment explanation
Indices: 16498809--16498836 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16498799 TGCTTTATTC
16498809 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
16498837 TTCGATTTAT
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):
AT
Found at i:16503301 original size:25 final size:24
Alignment explanation
Indices: 16503267--16503359 Score: 87
Period size: 25 Copynumber: 3.8 Consensus size: 24
16503257 CATCGATTTC
* *
16503267 AGCTCTTATGAGCTTACCGTTACTT
1 AGCTCGTAGGAGCTTACCGTTA-TT
* * *
16503292 AGCTCGTATGAGTTTACTGTTATT
1 AGCTCGTAGGAGCTTACCGTTATT
* *
16503316 CAGCTTGGAGGAGCTTACCGTTATTT
1 -AGCTCGTAGGAGCTTACCGTTA-TT
*
16503342 AGCTCGAAGGAGCTTACC
1 AGCTCGTAGGAGCTTACC
16503360 ATTTATCGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 2 0.04
25 52 0.93
26 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (24 bp):
AGCTCGTAGGAGCTTACCGTTATT
Found at i:16507896 original size:21 final size:18
Alignment explanation
Indices: 16507853--16507903 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 18
16507843 ATTTTTTTAA
*
16507853 TTGAACTTTTTTCTATGT
1 TTGAATTTTTTTCTATGT
16507871 TTGAATTTTTTATCTATTGTT
1 TTGAATTTTTT-TCTA-TG-T
16507892 TTGAATTTTTTT
1 TTGAATTTTTTT
16507904 ATAATTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.34
19 4 0.14
20 3 0.10
21 12 0.41
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.67
Consensus pattern (18 bp):
TTGAATTTTTTTCTATGT
Found at i:16508746 original size:8 final size:8
Alignment explanation
Indices: 16508733--16508764 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
16508723 CAAAAAATAT
16508733 AAATTAAA
1 AAATTAAA
16508741 AAATTAAA
1 AAATTAAA
*
16508749 AAAATAAA
1 AAATTAAA
16508757 AAATTAAA
1 AAATTAAA
16508765 TAAAAGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAATTAAA
Found at i:16508758 original size:17 final size:17
Alignment explanation
Indices: 16508731--16508769 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
16508721 GACAAAAAAT
*
16508731 ATAAATTAAAAAATTAA
1 ATAAAATAAAAAATTAA
16508748 A-AAAATAAAAAATTAA
1 ATAAAATAAAAAATTAA
16508764 ATAAAA
1 ATAAAA
16508770 GAATAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
ATAAAATAAAAAATTAA
Found at i:16511099 original size:25 final size:26
Alignment explanation
Indices: 16511052--16511104 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
16511042 TGTATTAATC
*
16511052 ATAATTAAAATATATGAATAATAAAA
1 ATAAATAAAATATATGAATAATAAAA
16511078 ATAAATAAAA-ATAT-AATCAATAAAA
1 ATAAATAAAATATATGAAT-AATAAAA
16511103 AT
1 AT
16511105 GTAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (26 bp):
ATAAATAAAATATATGAATAATAAAA
Found at i:16515182 original size:14 final size:14
Alignment explanation
Indices: 16515165--16515202 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
16515155 CTTTCGTACG
16515165 ATTTC-TTTCACTTT
1 ATTTCATTTCA-TTT
16515179 ATTTCATTTCATTT
1 ATTTCATTTCATTT
*
16515193 ATTTTATTTC
1 ATTTCATTTC
16515203 TACTGATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTCATTTCATTT
Found at i:16518017 original size:3 final size:3
Alignment explanation
Indices: 16517997--16518048 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
16517987 TTTAAGTTTT
* *
16517997 TTA TTA ATA TTG TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
16518042 TTA TTA T
1 TTA TTA T
16518049 ACCTACATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:16518031 original size:24 final size:23
Alignment explanation
Indices: 16517998--16518045 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
16517988 TTAAGTTTTT
*
16517998 TATTAATATTGTTATTATTATTA
1 TATTAATATTATTATTATTATTA
16518021 TATTATATATTATTATTATTATTA
1 TATTA-ATATTATTATTATTATTA
16518045 T
1 T
16518046 TATACCTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTAATATTATTATTATTATTA
Found at i:16518179 original size:6 final size:6
Alignment explanation
Indices: 16518168--16518211 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
16518158 ATAGTTTTTA
*
16518168 TATATT TATATT TATATT TATATT TATATT T-TA-T AATATT TATA
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATA
16518212 CATTTTCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 4 0.12
6 29 0.85
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:16518191 original size:18 final size:16
Alignment explanation
Indices: 16518163--16518211 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 16
16518153 TTTTCATAGT
16518163 TTTTA-TATATTTATA
1 TTTTATTATATTTATA
16518178 TTTATATTTATATTTATA
1 TTT-TA-TTATATTTATA
*
16518196 TTTTATAATATTTATA
1 TTTTATTATATTTATA
16518212 CATTTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.10
16 12 0.40
17 2 0.07
18 13 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTATTATATTTATA
Found at i:16518277 original size:28 final size:27
Alignment explanation
Indices: 16518167--16518280 Score: 90
Period size: 28 Copynumber: 4.1 Consensus size: 27
16518157 CATAGTTTTT
* *
16518167 ATATATTTAT-AT-TTATATTTATATTT
1 ATAT-TTTATAATATTATATATATATTC
* *
16518193 ATATTTTATAATATT-TATACATTTTCC
1 ATATTTTATAATATTATATATATATT-C
* *
16518220 ATATTTTATAATCTATATATATGTTTATTC
1 ATATTTTATAA--TAT-TATATATATATTC
*
16518250 ATTTTTTATAATATGTATATATATATTC
1 ATATTTTATAATAT-TATATATATATTC
16518278 ATA
1 ATA
16518281 CACTATTCAA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
25 5 0.07
26 13 0.19
27 13 0.19
28 16 0.24
29 3 0.04
30 12 0.18
31 6 0.09
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (27 bp):
ATATTTTATAATATTATATATATATTC
Found at i:16525808 original size:229 final size:229
Alignment explanation
Indices: 16525407--16525865 Score: 918
Period size: 229 Copynumber: 2.0 Consensus size: 229
16525397 ACATATCCAA
16525407 GATCTTTGTATCAGGAGGGTTCATTCATCCTGAGCGAAGAATGCTTAAAGAAGAAGGTCTTTGAA
1 GATCTTTGTATCAGGAGGGTTCATTCATCCTGAGCGAAGAATGCTTAAAGAAGAAGGTCTTTGAA
16525472 GGAATGTTGGAAGAGATTCACATCAATACCATAGACACAATTGAGAGAGAGACATTGCTAAAGAT
66 GGAATGTTGGAAGAGATTCACATCAATACCATAGACACAATTGAGAGAGAGACATTGCTAAAGAT
16525537 TCGCCCTTATGAACCTGGAAGCGAACTGAACAATTGGACTGCGGAAGAGATTCTTGTAGTTTTTA
131 TCGCCCTTATGAACCTGGAAGCGAACTGAACAATTGGACTGCGGAAGAGATTCTTGTAGTTTTTA
16525602 GAGCTTGTTCAGAGTAAATGTCCAGAACATCCTT
196 GAGCTTGTTCAGAGTAAATGTCCAGAACATCCTT
16525636 GATCTTTGTATCAGGAGGGTTCATTCATCCTGAGCGAAGAATGCTTAAAGAAGAAGGTCTTTGAA
1 GATCTTTGTATCAGGAGGGTTCATTCATCCTGAGCGAAGAATGCTTAAAGAAGAAGGTCTTTGAA
16525701 GGAATGTTGGAAGAGATTCACATCAATACCATAGACACAATTGAGAGAGAGACATTGCTAAAGAT
66 GGAATGTTGGAAGAGATTCACATCAATACCATAGACACAATTGAGAGAGAGACATTGCTAAAGAT
16525766 TCGCCCTTATGAACCTGGAAGCGAACTGAACAATTGGACTGCGGAAGAGATTCTTGTAGTTTTTA
131 TCGCCCTTATGAACCTGGAAGCGAACTGAACAATTGGACTGCGGAAGAGATTCTTGTAGTTTTTA
16525831 GAGCTTGTTCAGAGTAAATGTCCAGAACATCCTT
196 GAGCTTGTTCAGAGTAAATGTCCAGAACATCCTT
16525865 G
1 G
16525866 TTGTTTTTTA
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 230 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (229 bp):
GATCTTTGTATCAGGAGGGTTCATTCATCCTGAGCGAAGAATGCTTAAAGAAGAAGGTCTTTGAA
GGAATGTTGGAAGAGATTCACATCAATACCATAGACACAATTGAGAGAGAGACATTGCTAAAGAT
TCGCCCTTATGAACCTGGAAGCGAACTGAACAATTGGACTGCGGAAGAGATTCTTGTAGTTTTTA
GAGCTTGTTCAGAGTAAATGTCCAGAACATCCTT
Found at i:16531196 original size:44 final size:44
Alignment explanation
Indices: 16531128--16531231 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
16531118 TGGCAAGTCT
* *
16531128 TATCTCCCTGAAGTTTCAGCGGAGCAGATGAAAGCCAATA-ATCC
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATGAAAACC-ATAGATCC
* * *
16531172 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATGAAAACCATAGATCC
*
16531216 TATCTCTCTGAAGTTG
1 TATCTCCCTGAAGTTG
16531232 AAGAGAGCAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 3 0.06
44 50 0.94
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGCGGAGCAGATGAAAACCATAGATCC
Found at i:16531867 original size:17 final size:18
Alignment explanation
Indices: 16531826--16531870 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
16531816 TACTGTATTG
*
16531826 AAAAGTAAAAGAAAACAC
1 AAAAGTAAAAGAAAACAA
* *
16531844 GAAAGTAAAAG-AATCAA
1 AAAAGTAAAAGAAAACAA
16531861 AAAAGTAAAA
1 AAAAGTAAAA
16531871 TTTTGAAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.07, G:0.13, T:0.09
Consensus pattern (18 bp):
AAAAGTAAAAGAAAACAA
Found at i:16531928 original size:21 final size:21
Alignment explanation
Indices: 16531890--16531929 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16531880 TGATCTTTTT
* **
16531890 TGTTTTTTTTTTTGTTTTTAC
1 TGTTTTTTATTTCATTTTTAC
16531911 TGTTTTTTATTTCATTTTT
1 TGTTTTTTATTTCATTTTT
16531930 CTATTGGTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (21 bp):
TGTTTTTTATTTCATTTTTAC
Found at i:16533215 original size:40 final size:40
Alignment explanation
Indices: 16533130--16533217 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
16533120 CGTTTGGATA
* **
16533130 AAAAACGCTGCTAAAGATTGAGCATTAGCAGCACTTTTTG
1 AAAAACGCCGCTAAAGATTGAGCATTAGCAGCACTTTACG
* * *
16533170 GAAAACGCCGCTAAAGATTGAG-ATTTAGCGGCGCTTTACG
1 AAAAACGCCGCTAAAGATTGAGCA-TTAGCAGCACTTTACG
16533210 AAAAACGC
1 AAAAACGC
16533218 ATCTAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGATTGAGCATTAGCAGCACTTTACG
Found at i:16533224 original size:40 final size:39
Alignment explanation
Indices: 16533130--16533237 Score: 94
Period size: 40 Copynumber: 2.7 Consensus size: 39
16533120 CGTTTGGATA
**
16533130 AAAAACGCTGCTAAAGATTGAGCATTAGCAGCACTTTTTG
1 AAAAACGCT-CTAAAGATTGAGCATTAGCAGCACTTTACG
* * * *
16533170 GAAAACGCCGCTAAAGATTGAG-ATTTAGCGGCGCTTTACG
1 AAAAACG-CTCTAAAGATTGAGCA-TTAGCAGCACTTTACG
* *
16533210 AAAAACGCATCTAAA-AATAAGCATTAGC
1 AAAAACGC-TCTAAAGATTGAGCATTAGC
16533238 CGCGTTTTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
39 11 0.20
40 42 0.78
41 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (39 bp):
AAAAACGCTCTAAAGATTGAGCATTAGCAGCACTTTACG
Found at i:16533423 original size:41 final size:41
Alignment explanation
Indices: 16533298--16533657 Score: 394
Period size: 41 Copynumber: 8.9 Consensus size: 41
16533288 TGTGAGCTTT
* ** *
16533298 CAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCT
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCC
* * * * *
16533339 CAAGGCTTTAGCGAC-ATTTTCGG---CCG-CGCTAATGCC
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCC
* *
16533375 CAGGGCTTTAGCGGCATTTTTGGGGAAGCGCCGCTAATGCC
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCC
* * *
16533416 CAAGGCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAATGCC
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCC
16533457 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAACT-CC
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAA-TGCC
16533498 CAGGGCTTTAGCGGCGTTTGTT-GGAAAGCGCCGCT-ATGCC
1 CAGGGCTTTAGCGGCGTTT-TTGGGAAAGCGCCGCTAATGCC
* * * * *
16533538 CATGGCTTTAACGACGTTTTTGGTAAAGCGCCGATAATGCC
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCC
* * **
16533579 CATGGCTTTAGGGGCGTTTTCAGGAAAGCGCCGCTAATGCC
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCC
* ** * *
16533620 CATGGCTTTAGTTGCGTTTTTGAGAAAGTGCCGCTAAT
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
16533658 AATGCTCAGG
Statistics
Matches: 270, Mismatches: 39, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
36 22 0.08
37 8 0.03
39 3 0.01
40 37 0.14
41 197 0.73
42 3 0.01
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (41 bp):
CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCC
Found at i:16533586 original size:122 final size:121
Alignment explanation
Indices: 16533365--16533655 Score: 388
Period size: 122 Copynumber: 2.4 Consensus size: 121
16533355 TTTTCGGCCG
* * * *
16533365 CGCTAATGCCCAGGGCTTTAGCGGCATTTTTGGGGAAGCGCCGCTAATGCCCAAGGCTTTAGCGG
1 CGCTAATGCCCAGGGCTTTAGCGGCGTTTTT-GGAAAGCGCCGCT-ATGCCCAAGGCTTTAACGA
**
16533430 CGTTTTTGGAAAAGCGCCACTAATGCCCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGC
64 CGTTTTTGGAAAAGCGCCACTAATGCCCAGGGCTTTAGCGGCGTTTTCAGGAAAGCGC
*
16533488 CGCTAACT-CCCAGGGCTTTAGCGGCGTTTGTTGGAAAGCGCCGCTATGCCCATGGCTTTAACGA
1 CGCTAA-TGCCCAGGGCTTTAGCGGCGTTT-TTGGAAAGCGCCGCTATGCCCAAGGCTTTAACGA
* * *
16533552 CGTTTTTGGTAAAGCGCCGA-TAATGCCCATGGCTTTAGGGGCGTTTTCAGGAAAGCGC
64 CGTTTTTGGAAAAGCGCC-ACTAATGCCCAGGGCTTTAGCGGCGTTTTCAGGAAAGCGC
* ** *
16533610 CGCTAATGCCCATGGCTTTAGTTGCGTTTTTGAGAAAGTGCCGCTA
1 CGCTAATGCCCAGGGCTTTAGCGGCGTTTTTG-GAAAGCGCCGCTA
16533656 ATAATGCTCA
Statistics
Matches: 149, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
121 4 0.03
122 103 0.69
123 39 0.26
124 3 0.02
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (121 bp):
CGCTAATGCCCAGGGCTTTAGCGGCGTTTTTGGAAAGCGCCGCTATGCCCAAGGCTTTAACGACG
TTTTTGGAAAAGCGCCACTAATGCCCAGGGCTTTAGCGGCGTTTTCAGGAAAGCGC
Found at i:16534461 original size:22 final size:21
Alignment explanation
Indices: 16534436--16534510 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
16534426 ATTAAATGAT
16534436 TTTAAGGTTTA-GAGATTATGTG
1 TTTAAGGTTTATG-GATTATG-G
* *
16534458 TTTAGGGATTATGGATTATGG
1 TTTAAGGTTTATGGATTATGG
* * * **
16534479 TTTATGGTTTAAGGGTTGGGG
1 TTTAAGGTTTATGGATTATGG
16534500 TTTAAGGTTTA
1 TTTAAGGTTTA
16534511 GGGGTTAAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
21 26 0.60
22 16 0.37
23 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (21 bp):
TTTAAGGTTTATGGATTATGG
Found at i:16534501 original size:21 final size:21
Alignment explanation
Indices: 16534477--16534516 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16534467 TATGGATTAT
*
16534477 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGTTTAAGGGTTGG
*
16534498 GGTTTAAGGTTTAGGGGTT
1 GGTTTAAGGTTTAAGGGTT
16534517 AAAGGTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGTTTAAGGGTTGG
Found at i:16534543 original size:7 final size:7
Alignment explanation
Indices: 16534487--16534551 Score: 60
Period size: 7 Copynumber: 9.3 Consensus size: 7
16534477 GGTTTATGGT
16534487 TTAAGGG
1 TTAAGGG
*
16534494 TT-GGGG
1 TTAAGGG
*
16534500 TTTAAGGT
1 -TTAAGGG
*
16534508 TTAGGGG
1 TTAAGGG
*
16534515 TTAAAGG
1 TTAAGGG
16534522 TTAAGGG
1 TTAAGGG
*
16534529 TTAGGGG
1 TTAAGGG
16534536 TTAAGGG
1 TTAAGGG
*
16534543 TTAGGGG
1 TTAAGGG
16534550 TT
1 TT
16534552 GTGGGTTTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
6 3 0.07
7 40 0.89
8 2 0.04
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.34
Consensus pattern (7 bp):
TTAAGGG
Found at i:16534563 original size:21 final size:21
Alignment explanation
Indices: 16534501--16534551 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
16534491 GGGTTGGGGT
* *
16534501 TTAAGGTTTAGGGGTTAAAGG
1 TTAAGGGTTAGGGGTTAAGGG
16534522 TTAAGGGTTAGGGGTTAAGGG
1 TTAAGGGTTAGGGGTTAAGGG
*
16534543 TTAGGGGTT
1 TTAAGGGTT
16534552 GTGGGTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTAAGGG
Found at i:16534912 original size:24 final size:24
Alignment explanation
Indices: 16534866--16534913 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
16534856 ATTTTTACTT
* *
16534866 TAAAATAATTTTTAGTAGACAAAA
1 TAAAATAAATTTTAGGAGACAAAA
16534890 TAAAA-AAATTTTAGGAGAGCAAAA
1 TAAAATAAATTTTAGGAGA-CAAAA
16534914 CGGCCTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.27
Consensus pattern (24 bp):
TAAAATAAATTTTAGGAGACAAAA
Found at i:16538826 original size:43 final size:43
Alignment explanation
Indices: 16538766--16538856 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
16538756 CTTTGAGTTC
* * *
16538766 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
16538808 ATTACCAAGATTTACTTGATTAAGAAAATGCATTCTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
16538851 ATTACC
1 ATTACC
16538857 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:16539096 original size:15 final size:16
Alignment explanation
Indices: 16539073--16539103 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16539063 ATTTATCATA
16539073 GAAATAAAAATTATTT
1 GAAATAAAAATTATTT
16539089 GAAA-AAAAATTATTT
1 GAAATAAAAATTATTT
16539104 TTTTAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
GAAATAAAAATTATTT
Found at i:16539225 original size:44 final size:44
Alignment explanation
Indices: 16539118--16539311 Score: 347
Period size: 44 Copynumber: 4.5 Consensus size: 44
16539108 AAAGATATAT
*
16539118 TTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
16539162 -TTTAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
16539205 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
16539249 TTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
16539293 -TTTAGCGGCGTTTGTGGGA
1 TTTTAGCGGCGTTTGTGGGA
16539312 TCGCCGCTAA
Statistics
Matches: 144, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
43 59 0.41
44 85 0.59
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (44 bp):
TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:16539297 original size:87 final size:87
Alignment explanation
Indices: 16539118--16539311 Score: 345
Period size: 87 Copynumber: 2.2 Consensus size: 87
16539108 AAAGATATAT
* * *
16539118 TTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGTGTTTGTGGGAAA
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAA
16539183 AGCGCCGCTAAAGGTCTTGGTC
66 AGCGCCGCTAAAGGTCTTGGTC
16539205 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTTAGCGGCGTTTGTGAGAA
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC-TTTAGCGGCGTTTGTGAGAA
16539270 AAGCGCCGCTAAAGGTCTTGGTC
65 AAGCGCCGCTAAAGGTCTTGGTC
16539293 -TTTAGCGGCGTTTGTGGGA
1 TTTTAGCGGCGTTTGTGGGA
16539312 TCGCCGCTAA
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
87 62 0.60
88 41 0.40
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (87 bp):
TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAA
AGCGCCGCTAAAGGTCTTGGTC
Found at i:16540219 original size:13 final size:13
Alignment explanation
Indices: 16540201--16540234 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
16540191 TTTAAATTGA
*
16540201 TTTATATAAAGAT
1 TTTATATAAAAAT
16540214 TTTATATAAAAAT
1 TTTATATAAAAAT
16540227 TATTATAT
1 T-TTATAT
16540235 TAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TTTATATAAAAAT
Found at i:16540338 original size:21 final size:21
Alignment explanation
Indices: 16540313--16540354 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16540303 TTTTATTTTC
16540313 TATATTTA-AAAATTAAAAATA
1 TATATTTAGAAAA-TAAAAATA
*
16540334 TATATTTAGTAAATAAAAATA
1 TATATTTAGAAAATAAAAATA
16540355 AACATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TATATTTAGAAAATAAAAATA
Found at i:16543795 original size:27 final size:27
Alignment explanation
Indices: 16543765--16543822 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
16543755 CTAGCTCATG
* *
16543765 TTTACTATCCCAATGGACTATCCCGTA
1 TTTACTATCCCAATAGACTACCCCGTA
* * *
16543792 TTTACTGTCCCGATAGACTACCCCTTA
1 TTTACTATCCCAATAGACTACCCCGTA
16543819 TTTA
1 TTTA
16543823 GTGTCCTGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.36
Consensus pattern (27 bp):
TTTACTATCCCAATAGACTACCCCGTA
Found at i:16543838 original size:27 final size:27
Alignment explanation
Indices: 16543781--16543838 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
16543771 ATCCCAATGG
* * *
16543781 ACTATCCCGTATTTACTGTCCCGATAG
1 ACTACCCCGTATTTACTGTCCCGACAA
* * *
16543808 ACTACCCCTTATTTAGTGTCCTGACAA
1 ACTACCCCGTATTTACTGTCCCGACAA
16543835 ACTA
1 ACTA
16543839 TACTGGTTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (27 bp):
ACTACCCCGTATTTACTGTCCCGACAA
Found at i:16544865 original size:16 final size:16
Alignment explanation
Indices: 16544846--16544877 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16544836 TCACTGTATC
*
16544846 GGAATAGAGGTGTAAT
1 GGAATAGAGGCGTAAT
16544862 GGAATAGAGGCGTAAT
1 GGAATAGAGGCGTAAT
16544878 AGCAAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.38, T:0.22
Consensus pattern (16 bp):
GGAATAGAGGCGTAAT
Found at i:16545139 original size:14 final size:15
Alignment explanation
Indices: 16545100--16545141 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16545090 TTTTAACATA
*
16545100 ATTATTATTAAATAT
1 ATTATAATTAAATAT
16545115 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
16545129 A-TATAATTTAATA
1 ATTATAATTAAATA
16545142 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:16545234 original size:43 final size:41
Alignment explanation
Indices: 16545185--16545369 Score: 107
Period size: 43 Copynumber: 4.6 Consensus size: 41
16545175 ACTCAAATCA
*
16545185 TAATATATGATACTATAAAATATAATTTAACATAATTATTAT
1 TAATATATGATAAT-TAAAATATAATTTAACATAATTATTAT
** * * * *
16545227 TAAATATATTTTAATTAAAAATATAATTTAATAAAATTCTTAA
1 T-AATATATGATAATT-AAAATATAATTTAACATAATTATTAT
* ** * * * *
16545270 TAATAAAT-ATTCTT-ATATGT-ATTT-AC-TAA-AATCA-
1 TAATATATGATAATTAAAATATAATTTAACATAATTATTAT
*
16545304 TAATATATGATAATATAAAATATAATTTGAA-ATAATTAATAT
1 TAATATATGATAAT-TAAAATATAATTT-AACATAATTATTAT
**
16545346 TAAATATATTTTAATTAAAATATA
1 T-AATATATGATAATTAAAATATA
16545370 TGATTTAATA
Statistics
Matches: 103, Mismatches: 28, Indels: 24
0.66 0.18 0.15
Matches are distributed among these distances:
34 7 0.07
35 5 0.05
36 3 0.03
37 5 0.05
38 8 0.08
39 4 0.04
40 4 0.04
41 5 0.05
42 18 0.17
43 44 0.43
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (41 bp):
TAATATATGATAATTAAAATATAATTTAACATAATTATTAT
Found at i:16545250 original size:17 final size:16
Alignment explanation
Indices: 16545228--16545262 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
16545218 AATTATTATT
*
16545228 AAATATATTTTAATTAA
1 AAATATAATTTAA-TAA
16545245 AAATATAATTTAATAA
1 AAATATAATTTAATAA
16545261 AA
1 AA
16545263 TTCTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:16545273 original size:15 final size:16
Alignment explanation
Indices: 16545255--16545284 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16545245 AAATATAATT
16545255 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
16545270 TAATAAATATTCTTA
1 TAATAAATATTCTTA
16545285 TATGTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:16545302 original size:119 final size:119
Alignment explanation
Indices: 16545091--16545384 Score: 493
Period size: 119 Copynumber: 2.5 Consensus size: 119
16545081 TTAATCATAT
*
16545091 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
16545156 CAATATTTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 AAATATTTTATATGAATTTACTAAAATCATAATATATGATAATATAAAATATAA
16545210 TTTAACATAATTATTATTAAATATATTTTAATTAAAA-ATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
16545274 AAATATTCTTATATGTATTTACTAAAATCATAATATATGATAATATAAAATATAA
66 AAATATT-TTATATGAATTTACTAAAATCATAATATATGATAATATAAAATATAA
* *
16545329 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
16545385 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
118 33 0.20
119 113 0.68
120 19 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (119 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTTTATATGAATTTACTAAAATCATAATATATGATAATATAAAATATAA
Found at i:16545435 original size:47 final size:46
Alignment explanation
Indices: 16545366--16545715 Score: 232
Period size: 47 Copynumber: 7.7 Consensus size: 46
16545356 TTAATTAAAA
*
16545366 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
16545413 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* ** * * *
16545458 TA-ATAAAAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
16545504 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
16545549 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
16545595 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
16545640 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
16545686 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
16545716 ATATTAAATA
Statistics
Matches: 234, Mismatches: 37, Indels: 65
0.70 0.11 0.19
Matches are distributed among these distances:
43 6 0.03
44 70 0.30
45 27 0.12
46 26 0.11
47 95 0.41
48 10 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:16545495 original size:91 final size:91
Alignment explanation
Indices: 16545400--16545788 Score: 733
Period size: 91 Copynumber: 4.3 Consensus size: 91
16545390 TAATTATAAC
* * *
16545400 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
16545465 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
16545491 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
16545556 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
16545582 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
16545647 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
16545673 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
16545738 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
*
16545764 TAATAAATGTTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
16545789 CTAAAATCAT
Statistics
Matches: 293, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 293 1.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:16545771 original size:47 final size:46
Alignment explanation
Indices: 16545447--16545771 Score: 257
Period size: 47 Copynumber: 7.1 Consensus size: 46
16545437 TAATTATTAT
*
16545447 TAAATATAATTTAATAAAAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAAT-AATATATATAATTTCATAAAATTCTTGATAA
* * ** * *
16545494 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTGATAA
16545538 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTGATAA
* * ** * *
16545585 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTGATAA
16545629 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTGATAA
* * ** * *
16545676 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTGATAA
16545720 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTGATAA
16545767 TAAAT
1 TAAAT
16545772 GTTCTTATAT
Statistics
Matches: 214, Mismatches: 38, Indels: 52
0.70 0.12 0.17
Matches are distributed among these distances:
43 9 0.04
44 75 0.35
45 21 0.10
46 21 0.10
47 82 0.38
48 6 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
TAAATATAATTTAATAATATATATAATTTCATAAAATTCTTGATAA
Found at i:16548900 original size:6 final size:6
Alignment explanation
Indices: 16548889--16548914 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16548879 TAGTTTGAAC
16548889 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
16548915 ATAATTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:16549700 original size:13 final size:13
Alignment explanation
Indices: 16549682--16549706 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16549672 ATCAAATTTG
16549682 TATGTACTCTTTA
1 TATGTACTCTTTA
16549695 TATGTACTCTTT
1 TATGTACTCTTT
16549707 CACTAATAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:16549726 original size:51 final size:51
Alignment explanation
Indices: 16549671--16549775 Score: 147
Period size: 51 Copynumber: 2.1 Consensus size: 51
16549661 TATATATTAG
** * *
16549671 TATCAAATTTGTATGTACTCTTTATATGTACTCTTTCACTAATAAGTTATA
1 TATCAAATTTGTATCAACTCTTTATATGTACGCTTTCACTAATAAATTATA
* * *
16549722 TATCAAATTTGTATCAATTTTTTTTATGTACGCTTTCACTAATAAATTATA
1 TATCAAATTTGTATCAACTCTTTATATGTACGCTTTCACTAATAAATTATA
16549773 TAT
1 TAT
16549776 TAGTAAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (51 bp):
TATCAAATTTGTATCAACTCTTTATATGTACGCTTTCACTAATAAATTATA
Found at i:16550415 original size:23 final size:24
Alignment explanation
Indices: 16550355--16550417 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
16550345 TCTACTCACT
16550355 AACAAATCAAGAACAATTTACAGC
1 AACAAATCAAGAACAATTTACAGC
* *
16550379 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTACAGC
16550401 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
16550418 ATAAAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 17 0.52
24 6 0.18
25 2 0.06
ACGTcount: A:0.54, C:0.21, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTACAGC
Found at i:16560940 original size:22 final size:23
Alignment explanation
Indices: 16560891--16560940 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
16560881 CCCGGCCCGG
16560891 TTTTTAATAAACACAAAAAAAAT
1 TTTTTAATAAACACAAAAAAAAT
* *
16560914 ATTTTAA-AAATA-AAAAAATAAT
1 TTTTTAATAAACACAAAAAA-AAT
16560936 TTTTT
1 TTTTT
16560941 TTAAAGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 11 0.48
23 6 0.26
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTTTAATAAACACAAAAAAAAT
Found at i:16560985 original size:34 final size:33
Alignment explanation
Indices: 16560910--16560977 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
16560900 AACACAAAAA
* *
16560910 AAATATTTTAAAAATAAAAAAATAATTTTTTTT
1 AAATATTTTAAAAATAAAAAAATAATTATATTT
*
16560943 AAAGTATTTTAAAATTAAAAAAA-AATATATATTT
1 AAA-TATTTTAAAAATAAAAAAATAAT-TATATTT
16560977 A
1 A
16560978 TTATATTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 6 0.20
34 24 0.80
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (33 bp):
AAATATTTTAAAAATAAAAAAATAATTATATTT
Found at i:16561319 original size:29 final size:28
Alignment explanation
Indices: 16561287--16561356 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
16561277 AAAAAATTTT
16561287 AAATTTAAAAATATAAAAAGAGTATATAA
1 AAATTTAAAAATATAAAAA-AGTATATAA
* * **
16561316 AAATTATGAAAATTTCGAAAAGTATATAA
1 AAATT-TAAAAATATAAAAAAGTATATAA
*
16561345 AAATCTAAAAAT
1 AAATTTAAAAAT
16561357 TCATTTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 6 0.18
29 18 0.53
30 10 0.29
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (28 bp):
AAATTTAAAAATATAAAAAAGTATATAA
Found at i:16561916 original size:22 final size:22
Alignment explanation
Indices: 16561891--16561936 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
16561881 TTTTTTCAAA
16561891 TTTTA-AATAATTTATAATTTTT
1 TTTTATAA-AATTTATAATTTTT
* *
16561913 TTTTATAAATTTTATGATTTTT
1 TTTTATAAAATTTATAATTTTT
16561935 TT
1 TT
16561937 GTAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATAAAATTTATAATTTTT
Found at i:16579310 original size:24 final size:21
Alignment explanation
Indices: 16579267--16579310 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16579257 TTATAATAAA
16579267 ATACATGTGTAATAAATATAT
1 ATACATGTGTAATAAATATAT
* *
16579288 ATACATTTGTAAT-AATATGT
1 ATACATGTGTAATAAATATAT
16579308 ATA
1 ATA
16579311 ATTTACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
ATACATGTGTAATAAATATAT
Found at i:16580759 original size:25 final size:27
Alignment explanation
Indices: 16580731--16580789 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
16580721 GTATATAAAT
16580731 TGAAATGAACT-ATTGGAA-TGAGAT-G
1 TGAAAT-AACTCATTGGAATTGAGATAG
*
16580756 TGAAA-AATTCATTGGAATTGAGATAG
1 TGAAATAACTCATTGGAATTGAGATAG
16580782 TGAAATAA
1 TGAAATAA
16580790 GGTATGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 3 0.10
24 7 0.24
25 11 0.38
26 6 0.21
27 2 0.07
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (27 bp):
TGAAATAACTCATTGGAATTGAGATAG
Found at i:16586603 original size:44 final size:44
Alignment explanation
Indices: 16586554--16586747 Score: 189
Period size: 44 Copynumber: 4.5 Consensus size: 44
16586544 CGTTCCACTG
* * *
16586554 CAACTTCAGGGAGATAGGATTGGTCGCTTCAATCTGCTCGACTA
1 CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTA
* * * * * * *
16586598 CAACTTCAGAGAGATAAGATT--TGTCAT-GATATGCTCTACTG
1 CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTA
* * *
16586639 CAACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGCTCCACTA
1 CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTA
* * * *
16586683 CAACTTTAGGGAGATAAGATTTGTGGCTTCAATCAGCT-AATCTG
1 CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAA-CTA
*
16586727 TAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATT
16586748 TGCCATGATC
Statistics
Matches: 122, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
41 31 0.25
42 3 0.02
43 5 0.04
44 83 0.68
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTA
Found at i:16586653 original size:85 final size:85
Alignment explanation
Indices: 16586550--16586706 Score: 251
Period size: 85 Copynumber: 1.8 Consensus size: 85
16586540 AATTCGTTCC
* * *
16586550 ACTGCAACTTCAGGGAGATAGGATTGGTCGCTTCAATCTGCTCGACTACAACTTCAGAGAGATAA
1 ACTGCAACTTCAGAGAGATAAGATTGGTCGCTTCAATCTGCTCCACTACAACTTCAGAGAGATAA
16586615 GATTTGTCATGATATGCTCT
66 GATTTGTCATGATATGCTCT
* * * *
16586635 ACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGCTCCACTACAACTTTAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGATTGGTCGCTTCAATCTGCTCCACTACAACTTCAGAGAGATAA
16586700 GATTTGT
66 GATTTGT
16586707 GGCTTCAATC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (85 bp):
ACTGCAACTTCAGAGAGATAAGATTGGTCGCTTCAATCTGCTCCACTACAACTTCAGAGAGATAA
GATTTGTCATGATATGCTCT
Found at i:16586735 original size:129 final size:129
Alignment explanation
Indices: 16586547--16586787 Score: 340
Period size: 129 Copynumber: 1.9 Consensus size: 129
16586537 TTTAATTCGT
* * * *
16586547 TCCACTGCAACTTCAGGGAGATAGGATTGGTCGCTTCAATCTGCTCGACTACAACTTCAGAGAGA
1 TCCACTACAACTTCAGGGAGATAAGATTGGTCGCTTCAATCAGCTCAACTACAACTTCAGAGAGA
*
16586612 TAAGATTTGTCATGATATGCTCTACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGC
66 TAAGATTTGCCATGATATGCTCTACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGC
* * * ** *
16586676 TCCACTACAACTTTAGGGAGATAAGATTTGTGGCTTCAATCAGCT-AATCTGTAACTTCAGGGAG
1 TCCACTACAACTTCAGGGAGATAAGATTGGTCGCTTCAATCAGCTCAA-CTACAACTTCAGAGAG
* * *
16586740 ATAAGATTTGCCATGATCTGTTCTACTGCAACTTTAGAGAGATAAGAT
65 ATAAGATTTGCCATGATATGCTCTACTGCAACTTCAGAGAGATAAGAT
16586788 CTGTTATTTG
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 1 0.01
129 96 0.99
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (129 bp):
TCCACTACAACTTCAGGGAGATAAGATTGGTCGCTTCAATCAGCTCAACTACAACTTCAGAGAGA
TAAGATTTGCCATGATATGCTCTACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGC
Found at i:16595511 original size:19 final size:18
Alignment explanation
Indices: 16595464--16595511 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
16595454 ATTACTCTTT
* *
16595464 TGATGGAATTTAATACATA
1 TGAT-GAATGTAATACAAA
16595483 TGATGTAATGTAATACAAA
1 TGATG-AATGTAATACAAA
16595502 TGCATGAATG
1 TG-ATGAATG
16595512 CAAAAAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.84
20 3 0.12
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (18 bp):
TGATGAATGTAATACAAA
Found at i:16604432 original size:28 final size:29
Alignment explanation
Indices: 16604401--16604456 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
16604391 TTAATAATTT
16604401 TAATAATTATATATTTC-AAAAAATAATA
1 TAATAATTATATATTTCAAAAAAATAATA
*
16604429 TAATAATTTTATATTTCAAAAAAATAAT
1 TAATAATTATATATTTCAAAAAAATAAT
16604457 TTTAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (29 bp):
TAATAATTATATATTTCAAAAAAATAATA
Found at i:16604465 original size:29 final size:29
Alignment explanation
Indices: 16604393--16604467 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
16604383 ATATGCATTT
16604393 AATAATTTTAATAATTATATATTTCAAAA
1 AATAATTTTAATAATTATATATTTCAAAA
* *
16604422 AATAA-TATAATAATTTTATATTTCAAAAA
1 AATAATTTTAATAATTATATATTTC-AAAA
16604451 AATAATTTTAA-AATTAT
1 AATAATTTTAATAATTAT
16604468 TTGTTGACGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 17 0.43
29 19 0.47
30 4 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (29 bp):
AATAATTTTAATAATTATATATTTCAAAA
Found at i:16609094 original size:20 final size:21
Alignment explanation
Indices: 16609069--16609114 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
16609059 AGATTGATGG
*
16609069 TTAAATTTAACTAAAA-AAAT
1 TTAAATTTAACAAAAAGAAAT
16609089 TTAAA-TTAACAAAAAGAAAT
1 TTAAATTTAACAAAAAGAAAT
*
16609109 ATAAAT
1 TTAAAT
16609115 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
TTAAATTTAACAAAAAGAAAT
Found at i:16609578 original size:10 final size:9
Alignment explanation
Indices: 16609539--16609584 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
16609529 TGTGGCAAAA
16609539 AAAAAATTT
1 AAAAAATTT
16609548 --AAAATTT
1 AAAAAATTT
*
16609555 AAAAATATAT
1 AAAAA-ATTT
16609565 AAAAAATTT
1 AAAAAATTT
16609574 CAAAAAATTT
1 -AAAAAATTT
16609584 A
1 A
16609585 TAAACTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 7 0.23
9 7 0.23
10 17 0.55
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAAATTT
Found at i:16609594 original size:21 final size:21
Alignment explanation
Indices: 16609548--16609588 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16609538 AAAAAAATTT
16609548 AAAATTT--AAAAATATATAA
1 AAAATTTCAAAAAATATATAA
*
16609567 AAAATTTCAAAAAATTTATAA
1 AAAATTTCAAAAAATATATAA
16609588 A
1 A
16609589 CTATTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATTTCAAAAAATATATAA
Found at i:16609757 original size:22 final size:22
Alignment explanation
Indices: 16609723--16609764 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16609713 ATATTATTTT
**
16609723 TTTGAAATTAAAATATATAATA
1 TTTGAAAAAAAAATATATAATA
*
16609745 TTTGAAAAAAAAATTTATAA
1 TTTGAAAAAAAAATATATAA
16609765 AAATTATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (22 bp):
TTTGAAAAAAAAATATATAATA
Found at i:16611398 original size:15 final size:14
Alignment explanation
Indices: 16611367--16611413 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
16611357 ATATTTTTCT
* *
16611367 TTATTTTTATTTTC
1 TTATTTTTATATAC
16611381 TTAGTTTTTATATAC
1 TTA-TTTTTATATAC
*
16611396 TTA-TTATATATAC
1 TTATTTTTATATAC
16611409 TTATT
1 TTATT
16611414 CATTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 12 0.43
14 4 0.14
15 12 0.43
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTTTTATATAC
Found at i:16611616 original size:12 final size:12
Alignment explanation
Indices: 16611601--16611629 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16611591 CATGCATACC
16611601 TACATATTTTAA
1 TACATATTTTAA
16611613 TACATATTTTAA
1 TACATATTTTAA
16611625 TACAT
1 TACAT
16611630 TCATTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
TACATATTTTAA
Found at i:16616342 original size:46 final size:45
Alignment explanation
Indices: 16616285--16616374 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 45
16616275 AAAAAGGTGG
* * * *
16616285 GACCAAGGTGAAAGCCTATAAAGGGCGCTTTGAGTCAAAAAAAAAA
1 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGT-AAAAAAAAAA
*
16616331 GACCAGGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAA
1 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAA
16616375 TGGAGAGGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 9 0.23
46 30 0.77
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (45 bp):
GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAAA
Found at i:16617740 original size:43 final size:44
Alignment explanation
Indices: 16617677--16618111 Score: 178
Period size: 43 Copynumber: 9.6 Consensus size: 44
16617667 CAGGTCTTGT
* * * *
16617677 CTTCCTATATTGGTAGCGAAGTAGAT-AAATATACAGATCTCAC
1 CTTCCCATACTGGTGGCGAAGTAGATCAAATATACAGATCTCGC
* * * * *
16617720 CTTCCCATACTGGTGGCGAAGAAGATCGAAGGAAAAAGCAGATCTTGT
1 CTTCCCATACTGGTGGCGAAGTAGATC-AA--ATATA-CAGATCTCGC
*** * *
16617768 CTTCATGTACTGG-CGTGAAGTAGATCAAATATACAGATCTCGC
1 CTTCCCATACTGGTGGCGAAGTAGATCAAATATACAGATCTCGC
** * * * * *
16617811 CTTCCCATACTGGTGGCGAAACAGATCGAAGGAAAAAGTAGATCTTGT
1 CTTCCCATACTGGTGGCGAAGTAGATC-AA--ATATA-CAGATCTCGC
*** ***
16617859 CTTCATGTACTGG-CATGAAGTAGATCAAATATACAGATCTCGC
1 CTTCCCATACTGGTGGCGAAGTAGATCAAATATACAGATCTCGC
* * * * * *
16617902 CTTCCCATACTGGTGGCGAAGCAGATCGAAAGAAAAAGTAGATCTTGT
1 CTTCCCATACTGGTGGCGAAGTAGATC--AA-ATATA-CAGATCTCGC
**** *** * *
16617950 CTTTATGTACT-AACGTGAAGTAGATCAAAGATACAGATCTCGC
1 CTTCCCATACTGGTGGCGAAGTAGATCAAATATACAGATCTCGC
* * * * * *
16617993 CTTCCCATACTAGTGGCGAAGCAGATCGAAGGAAAAAACAGATCTTGT
1 CTTCCCATACTGGTGGCGAAGTAGATC--A--AATATACAGATCTCGC
*** * * *
16618041 CTTCATGTACTGG-CGTGAAGTAGATCAAAGATAACAGATCTCGC
1 CTTCCCATACTGGTGGCGAAGTAGATCAAATAT-ACAGATCTCGC
* *
16618085 CTTCCCATATTGGTGGCGAAGCAGATC
1 CTTCCCATACTGGTGGCGAAGTAGATC
16618112 GAAAGAAAGT
Statistics
Matches: 269, Mismatches: 101, Indels: 42
0.65 0.25 0.10
Matches are distributed among these distances:
43 74 0.28
44 55 0.20
45 17 0.06
46 7 0.03
47 47 0.17
48 69 0.26
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (44 bp):
CTTCCCATACTGGTGGCGAAGTAGATCAAATATACAGATCTCGC
Found at i:16617820 original size:91 final size:90
Alignment explanation
Indices: 16617694--16618425 Score: 869
Period size: 91 Copynumber: 8.1 Consensus size: 90
16617684 TATTGGTAGC
* *
16617694 GAAGTAGAT-AAATATACAGATCTCACCTTCCCATACTGGTGGCGAAGAAGATCGAAGGAAAAAG
1 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-GAAAAAG
16617758 CAGATCTTGTCTTCATGTACTGGCGT
65 CAGATCTTGTCTTCATGTACTGGCGT
*
16617784 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAACAGATCGAAGGAAAAAG
1 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-GAAAAAG
* *
16617849 TAGATCTTGTCTTCATGTACTGGCAT
65 CAGATCTTGTCTTCATGTACTGGCGT
16617875 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAAGAAAAAG
1 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCG-AAGAAAAAG
* * **
16617940 TAGATCTTGTCTTTATGTACTAACGT
65 CAGATCTTGTCTTCATGTACTGGCGT
* * *
16617966 GAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTAGTGGCGAAGCAGATCGAAGGAAAAAA
1 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-GAAAAAG
16618031 CAGATCTTGTCTTCATGTACTGGCGT
65 CAGATCTTGTCTTCATGTACTGGCGT
* * *
16618057 GAAGTAGATCAAAGATAACAGATCTCGCCTTCCCATATTGGTGGCGAAGCAGATCGAA-AGAAAG
1 GAAGTAGATCAAATAT-ACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAAAG
* * *
16618121 TAGATATTGTCTTCATGTA-TCAGCGT
65 CAGATCTTGTCTTCATGTACT-GGCGT
* * * * * *
16618147 GAAGTAGATCAAAGTCA-ACAGATCTTGTC-TCTCCATACTGGTGGTGGAGTAGATC-AA-AGAA
1 GAAGTAGATCAAA-T-ATACAGATCTCGCCTTC-CCATACTGGTGGCGAAGCAGATCGAAGAAAA
*
16618208 AGCAGATCTTGCCTTCATGTA-TCGGCGT
63 AGCAGATCTTGTCTTCATGTACT-GGCGT
* * * * * * *
16618236 GAAGTAGATCAAAGTCA-ACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAG-AAAA
1 GAAGTAGATCAAA-T-ATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAAA
*
16618299 -CAGATCTTGTCTTCATGTATTGGCGT
64 GCAGATCTTGTCTTCATGTACTGGCGT
* * * * * * * * * *
16618325 GAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAG-AAAA-T
1 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAAAGC
*
16618388 AGATCGTGTCTTCATGTACTGGCGT
66 AGATCTTGTCTTCATGTACTGGCGT
16618413 GAAGTAGATCAAA
1 GAAGTAGATCAAA
16618426 GATAGTAGGT
Statistics
Matches: 585, Mismatches: 44, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
87 1 0.00
88 80 0.14
89 121 0.21
90 85 0.15
91 256 0.44
92 42 0.07
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (90 bp):
GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAAAGC
AGATCTTGTCTTCATGTACTGGCGT
Found at i:16618258 original size:44 final size:43
Alignment explanation
Indices: 16618028--16618427 Score: 274
Period size: 45 Copynumber: 9.0 Consensus size: 43
16618018 TCGAAGGAAA
16618028 AAACAGATCTTGTCTTCATGTA-CTGGCGTGAAGTAGATCAAAG
1 AAACAGATCTTGTCTTCATGTATC-GGCGTGAAGTAGATCAAAG
* * *** * * * *
16618071 ATAACAGATCTCGCCTTCCCATATTGGTGGCGAAGCAGATCGAAAG
1 A-AACAGATCTTGTCTTCATGTATCGG-CGTGAAGTAGATC-AAAG
* * *
16618117 AAAGTAGATATTGTCTTCATGTATCAGCGTGAAGTAGATCAAAG
1 AAA-CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAAG
* * *
16618161 TCAACAGATCTTGTCTCTCCA--TA-CTGGTGGTGGAGTAGATCAAAG
1 -AAACAGATCTTGTCT-T-CATGTATC-GG-CGTGAAGTAGATCAAAG
*
16618206 AAAGCAGATCTTGCCTTCATGTATCGGCGTGAAGTAGATCAAAG
1 AAA-CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAAG
* * *** * *
16618250 TCAACAGATCTTGTCTCCCCATA-CTGGTGGTGGAGTAGATCAAAG
1 -AAACAGATCTTGTCTTCATGTATC-GG-CGTGAAGTAGATCAAAG
*
16618295 AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
1 -AAACAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAAG
* *** * * * *
16618339 AAACAGATCTTGTCTCCCCATA-CTGGTGGTGGAGTAGGTCGAAG
1 AAACAGATCTTGTCTTCATGTATC-GG-CGTGAAGTAGATCAAAG
* *
16618383 AAAATAGATCGTGTCTTCATGTA-CTGGCGTGAAGTAGATCAAAG
1 -AAACAGATCTTGTCTTCATGTATC-GGCGTGAAGTAGATCAAAG
16618427 A
1 A
16618428 TAGTAGGTCC
Statistics
Matches: 269, Mismatches: 67, Indels: 42
0.71 0.18 0.11
Matches are distributed among these distances:
43 26 0.10
44 110 0.41
45 111 0.41
46 22 0.08
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAACAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAAG
Found at i:16618444 original size:44 final size:44
Alignment explanation
Indices: 16617753--16618427 Score: 398
Period size: 44 Copynumber: 15.0 Consensus size: 44
16617743 GATCGAAGGA
16617753 AAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA-
1 AAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
* * * * *** * * ** *
16617797 TATACAGATCTCGCCTTCCCATACTGGTGGCGAAACAGATCGAAGG
1 AAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAAG
* *
16617843 AAAAAGTAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAA-
1 -AAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
* * * * *** * * *
16617888 TATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAAG
1 AAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAAG
* * **
16617934 AAAAAGTAGATCTTGTCTTTATGTACTAACGTGAAGTAGATCAAAG
1 -AAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
* * * * * * *
16617980 -ATACAGATCTCGCCTTCCCATACTAGTGGC--GAAGCAGATCGAAGGAA
1 AAAACAGATCTTGTCTT--CAT-GTACTGGCGTGAAGTAGATC-AA--AG
16618027 AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
* * * *** * * * *
16618071 ATAACAGATCTCGCCTTCCCATATTGGTGGCGAAGCAGATCGAAAG
1 AAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAAG
** * *
16618117 AAAGTAGATATTGTCTTCATGTA-TCAGCGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACT-GGCGTGAAGTAGATCAAAG
** * *
16618161 TCAACAGATCTTGTCTCTCCA--TACTGGTGGTGGAGTAGATCAAAG
1 AAAACAGATCTTGTCT-T-CATGTACTGG-CGTGAAGTAGATCAAAG
* *
16618206 AAAGCAGATCTTGCCTTCATGTA-TCGGCGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACT-GGCGTGAAGTAGATCAAAG
** * *** * *
16618250 TCAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
*
16618295 AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
* *** * * * *
16618339 -AAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAG
1 AAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
* *
16618383 AAAATAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
16618427 A
1 A
16618428 TAGTAGGTCC
Statistics
Matches: 453, Mismatches: 145, Indels: 66
0.68 0.22 0.10
Matches are distributed among these distances:
43 68 0.15
44 148 0.33
45 125 0.28
46 36 0.08
47 32 0.07
48 44 0.10
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
Found at i:16620455 original size:15 final size:14
Alignment explanation
Indices: 16620424--16620470 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
16620414 ATATTTTTCT
* *
16620424 TTATTTTTATTTTC
1 TTATTTTTATATAC
16620438 TTAGTTTTTATATAC
1 TTA-TTTTTATATAC
*
16620453 TTA-TTATATATAC
1 TTATTTTTATATAC
16620466 TTATT
1 TTATT
16620471 CATTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 12 0.43
14 4 0.14
15 12 0.43
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTTTTATATAC
Found at i:16622898 original size:19 final size:18
Alignment explanation
Indices: 16622857--16622899 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
16622847 CGTCTCTTTT
16622857 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
16622876 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
16622895 TGCAT
1 TGCAT
16622900 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:16624797 original size:10 final size:9
Alignment explanation
Indices: 16624735--16624795 Score: 88
Period size: 9 Copynumber: 6.9 Consensus size: 9
16624725 GCATGAGTTC
16624735 AAAAAAAAT
1 AAAAAAAAT
16624744 AAAAAAAAT
1 AAAAAAAAT
*
16624753 TAAAAAAAT
1 AAAAAAAAT
*
16624762 CAAAAAAAT
1 AAAAAAAAT
*
16624771 -CAAAAAAT
1 AAAAAAAAT
16624779 AAAAAAAAT
1 AAAAAAAAT
16624788 AAAAAAAA
1 AAAAAAAA
16624796 ATCAAAGTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
8 7 0.15
9 40 0.85
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:16625646 original size:7 final size:8
Alignment explanation
Indices: 16625635--16625681 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
16625625 TGAGTCAAAA
*
16625635 AAAAAAAG
1 AAAAAATG
*
16625643 AAAAAAAG
1 AAAAAATG
16625651 ATGAAAAATG
1 A--AAAAATG
16625661 AAAAAATG
1 AAAAAATG
16625669 AAAAAATG
1 AAAAAATG
16625677 AAAAA
1 AAAAA
16625682 GTAAAAATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 29 0.81
10 7 0.19
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.09
Consensus pattern (8 bp):
AAAAAATG
Found at i:16625688 original size:16 final size:16
Alignment explanation
Indices: 16625654--16625688 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16625644 AAAAAAGATG
*
16625654 AAAAATGAAAAAATGA
1 AAAAATGAAAAAATAA
*
16625670 AAAAATGAAAAAGTAA
1 AAAAATGAAAAAATAA
16625686 AAA
1 AAA
16625689 TAGAGAGGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAATGAAAAAATAA
Found at i:16625799 original size:21 final size:21
Alignment explanation
Indices: 16625773--16625819 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
16625763 GCTCAAATGT
16625773 TGATCAGAATAGGGCATGAAG
1 TGATCAGAATAGGGCATGAAG
* * *
16625794 TGATCAGATTGGGGCATGATG
1 TGATCAGAATAGGGCATGAAG
16625815 TGATC
1 TGATC
16625820 TTGCTATACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.34, T:0.26
Consensus pattern (21 bp):
TGATCAGAATAGGGCATGAAG
Found at i:16626946 original size:46 final size:46
Alignment explanation
Indices: 16626874--16627549 Score: 1064
Period size: 46 Copynumber: 14.7 Consensus size: 46
16626864 TATCAATGAG
16626874 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16626920 GATAGCAGATCTTATCTTCCTTTATTTGGCAGCGGAGGAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
16626966 GATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* ** *
16627012 GATAGCGGATCTTATCTTTTTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16627058 GATAGCAGATCTTATCTTCCTATATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
16627104 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16627150 GATAGCAGATCTTATCTTCCTGTATGTGGCAGTGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
16627196 GATAGCCGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16627242 GATACCAGATCTTATCTTCCTGTATTTAGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
** *
16627288 GATAGCAGATCTTATCTTCCTGTATTTGGCAGTAGAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * *
16627334 GATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGAAGATGGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16627380 GATAACAGATCTTATCTTCCTGTATTTGGCAGCGGAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
16627426 GATAGCAGATATTATCTTCCTGTATTTAGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
16627472 GATAGCAGGTCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
16627518 GATAGCAGATCTTGTCTCCCTGTAATTGGCAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAG
16627550 TAGAGGGATT
Statistics
Matches: 576, Mismatches: 54, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 576 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (46 bp):
GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
Found at i:16627798 original size:132 final size:132
Alignment explanation
Indices: 16627560--16628529 Score: 1634
Period size: 132 Copynumber: 7.3 Consensus size: 132
16627550 TAGAGGGATT
* * * * *
16627560 GAAGATTACAGATTATGCCACCCTAATCAGTAGTGGAGCAGATGAAAGATGGTGAATCTTATATT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
16627625 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
*
16627690 TT
131 TC
* * *
16627692 AAAGATTGCAGATTCTGTTACCCTAATCAGTAGTAGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
* *
16627757 CCCAATACAGTGGAGAAGTAAATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
*
16627822 TT
131 TC
*
16627824 GAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
* *
16627889 CCCAATACAGTGGGGAAGCAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
*
16627954 TT
131 TC
*
16627956 GAAGATTGCAGATTTTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
16628021 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
16628086 TC
131 TC
16628088 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
16628153 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
16628218 TC
131 TC
* * *
16628220 GAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
* *
16628285 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCGGTAGTGGAATAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
16628350 TC
131 TC
* * * * * *
16628352 GAAGATTGCAGATTTTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATATTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
*
16628417 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
16628482 TC
131 TC
* * * * *
16628484 AAAGATTGTAGATTCTGTCACCCTAAGCAGTAGTAGAGCAAATCAA
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAA
16628530 TAATAACGAA
Statistics
Matches: 797, Mismatches: 41, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 797 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
TC
Found at i:16627847 original size:44 final size:44
Alignment explanation
Indices: 16627794--16628523 Score: 252
Period size: 44 Copynumber: 16.6 Consensus size: 44
16627784 GCCATTAGTC
* * *
16627794 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* * * * *
16627838 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGT-GAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* * * ** * *
16627881 CTTATCTTCCC-AATACAGT-GGGGAAGCAGATTTAGGCCA-T-TAG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGG-AGCAGATCGAAG--ATTGTAGATT
* * * *
16627926 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* * * * * *
16627970 TTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGT-GAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* * * * * ** *
16628013 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGTAGATT
* * *
16628058 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* * * * *
16628102 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGT-GAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* * * * * ** *
16628145 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGTAGATT
* * *
16628190 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* ** *
16628234 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGACGGT-GAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* * * * * ** *
16628277 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGTAGATT
* ** * *
16628322 CTATCACCCTAAGCGGTAGTGGAATAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* * * * *
16628366 TTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGAT-T
* * * * * ** *
16628411 -TATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TC
1 CTATC-ACCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGTAGATT
** * *
16628454 CTATCACCCTAAGCAGTAGTGGAATAGGTCAAAGATTGTAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
* *
16628498 CTGTCACCCTAAGCAGTAGTAGAGCA
1 CTATCACCCTAAGCAGTAGTGGAGCA
16628524 AATCAATAAT
Statistics
Matches: 476, Mismatches: 158, Indels: 104
0.64 0.21 0.14
Matches are distributed among these distances:
41 5 0.01
42 5 0.01
43 106 0.22
44 249 0.52
45 102 0.21
46 4 0.01
47 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATT
Found at i:16628992 original size:19 final size:20
Alignment explanation
Indices: 16628968--16629005 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
16628958 CGCTTTAGCA
16628968 GCCACCAGCTC-CTGCCACC
1 GCCACCAGCTCTCTGCCACC
*
16628987 GCCACCTGCTCTCTGCCAC
1 GCCACCAGCTCTCTGCCAC
16629006 TGTCGTCGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.55, G:0.16, T:0.16
Consensus pattern (20 bp):
GCCACCAGCTCTCTGCCACC
Found at i:16631407 original size:12 final size:12
Alignment explanation
Indices: 16631390--16631418 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16631380 TATGCATACC
16631390 TACATATTTTAA
1 TACATATTTTAA
16631402 TACATATTTTAA
1 TACATATTTTAA
16631414 TACAT
1 TACAT
16631419 TCATTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
TACATATTTTAA
Found at i:16639384 original size:18 final size:18
Alignment explanation
Indices: 16639358--16639394 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16639348 GCTTTCATTT
*
16639358 TTTTTATAACATTTTATA
1 TTTTAATAACATTTTATA
*
16639376 TTTTAATAATATTTTATA
1 TTTTAATAACATTTTATA
16639394 T
1 T
16639395 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAATAACATTTTATA
Found at i:16651590 original size:43 final size:43
Alignment explanation
Indices: 16651523--16651636 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
16651513 AACGTTTGCA
* *
16651523 GCGTTTTTTATGTGAGCGCTGCTAAAGAACATGTTCTTTAGCG
1 GCGTTTTTTATGTAAGCGCCGCTAAAGAACATGTTCTTTAGCG
* *
16651566 GCGTTTTTTATGTAAGAGCCGCTAAAGAACATGTTCTTTAGTG
1 GCGTTTTTTATGTAAGCGCCGCTAAAGAACATGTTCTTTAGCG
* *
16651609 GCATTTTTT-TCTAAGCGCCGCTAAAGAA
1 GCGTTTTTTATGTAAGCGCCGCTAAAGAA
16651637 GCCGCTAGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 17 0.27
43 47 0.73
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (43 bp):
GCGTTTTTTATGTAAGCGCCGCTAAAGAACATGTTCTTTAGCG
Found at i:16652119 original size:21 final size:21
Alignment explanation
Indices: 16652095--16652143 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
16652085 TTCTTTTGAA
* *
16652095 CCTCTGTTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
16652116 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
16652137 CCTCTGC
1 CCTCTGC
16652144 CATAAGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.47, G:0.18, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:16652198 original size:87 final size:87
Alignment explanation
Indices: 16652030--16652191 Score: 216
Period size: 87 Copynumber: 1.9 Consensus size: 87
16652020 TTCTGCTCTG
* ** * *
16652030 CTCTGCTTCTCTCGCTGCAGCCTCTGCTTTAAGTTGTAGCTGCAGTTTTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGCTGCAGCCTCTGCCATAAGTTGTAGCTGCAGTTCTTCATATTTCCTTTGAA
** * *
16652095 CCTCTGTTTCTCTCGCTGCAGC
66 CCTCACTGTCGCTCGCTGCAGC
* *
16652117 CTCTGCTTCCCTCGCTGCCGCCTCTGCCATAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCCCTCGCTGCAGCCTCTGCCATAAGTTGTAGCTGCAGTTCTTCATATTTCCTTTGAA
16652182 CCTCAACTGT
66 CCTC-ACTGT
16652192 GGTCGCTTGC
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.13, C:0.30, G:0.17, T:0.40
Consensus pattern (87 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTGCCATAAGTTGTAGCTGCAGTTCTTCATATTTCCTTTGAA
CCTCACTGTCGCTCGCTGCAGC
Found at i:16653474 original size:9 final size:9
Alignment explanation
Indices: 16653460--16653786 Score: 83
Period size: 9 Copynumber: 37.4 Consensus size: 9
16653450 ACCTCTGCGC
16653460 GTAAGTTAT
1 GTAAGTTAT
16653469 GTAAGTTAT
1 GTAAGTTAT
* *
16653478 TTAATTTAT
1 GTAAGTTAT
16653487 GTAAGTTAT
1 GTAAGTTAT
16653496 GTAAGTTAT
1 GTAAGTTAT
* *
16653505 TTAGGTTAT
1 GTAAGTTAT
16653514 GT-A-TTAT
1 GTAAGTTAT
*
16653521 GTTAGTTAT
1 GTAAGTTAT
*
16653530 -TATGTTATTAT
1 GTAAG---TTAT
*
16653541 ATAAGTTAT
1 GTAAGTTAT
*
16653550 GCAAGTT-T
1 GTAAGTTAT
*
16653558 CT-A-TATAT
1 GTAAGT-TAT
*
16653566 GTTTA-TATATT
1 G-TAAGT-TA-T
*
16653577 GTATGTTA-
1 GTAAGTTAT
*
16653585 GTTA-TTAT
1 GTAAGTTAT
*
16653593 GTTA-TTAT
1 GTAAGTTAT
*
16653601 ATAAGTTAT
1 GTAAGTTAT
*
16653610 GCT-AGATAT
1 G-TAAGTTAT
*
16653619 ATAAGTTAT
1 GTAAGTTAT
*
16653628 TTAAGTTAT
1 GTAAGTTAT
*
16653637 -TATGTTAT
1 GTAAGTTAT
* *
16653645 -TATA-TAAA
1 GTA-AGTTAT
16653653 GT-A-TTAT
1 GTAAGTTAT
*
16653660 GTAATTTAT
1 GTAAGTTAT
*
16653669 -TATGTTAT
1 GTAAGTTAT
16653677 -T-A--TAT
1 GTAAGTTAT
16653682 GTAAGTTAT
1 GTAAGTTAT
16653691 GTAAGTTATTAT
1 GTAAG---TTAT
16653703 GTAAGTTAT
1 GTAAGTTAT
*
16653712 GCAAGCTTAAAT
1 GTAAG-TT--AT
*
16653724 ATAAGTTAT
1 GTAAGTTAT
16653733 GT-A-TTAT
1 GTAAGTTAT
* *
16653740 ATAAGTTTT
1 GTAAGTTAT
16653749 GTAAGTTAT
1 GTAAGTTAT
**
16653758 GTAAGTGGT
1 GTAAGTTAT
16653767 GT-A-TTAT
1 GTAAGTTAT
*
16653774 GTAACTTAT
1 GTAAGTTAT
16653783 GTAA
1 GTAA
16653787 AAAACTTATA
Statistics
Matches: 236, Mismatches: 48, Indels: 68
0.67 0.14 0.19
Matches are distributed among these distances:
5 3 0.01
6 2 0.01
7 26 0.11
8 41 0.17
9 127 0.54
10 11 0.05
11 9 0.04
12 17 0.07
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.50
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:16653491 original size:27 final size:27
Alignment explanation
Indices: 16653460--16653530 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
16653450 ACCTCTGCGC
*
16653460 GTAAGTTATGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAAGTTAT
*
16653487 GTAAGTTATGTAAGTTATTTAGGTTAT
1 GTAAGTTATGTAAGTTATTTAAGTTAT
*
16653514 GT-A-TTATGTTAGTTATT
1 GTAAGTTATGTAAGTTATT
16653531 ATGTTATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.32
26 1 0.02
27 27 0.66
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (27 bp):
GTAAGTTATGTAAGTTATTTAAGTTAT
Found at i:16653549 original size:29 final size:29
Alignment explanation
Indices: 16653517--16653704 Score: 98
Period size: 31 Copynumber: 6.6 Consensus size: 29
16653507 AGGTTATGTA
16653517 TTATGTTAGTTATTATGTTATTATATAAG
1 TTATGTTAGTTATTATGTTATTATATAAG
** *
16653546 TTATGCAAGTTTCTATATATG-T-TTATAT-AT
1 TTATGTTAG--T-TAT-TATGTTATTATATAAG
16653576 TGTATGTTAGTTATTATGTTATTATATAAG
1 T-TATGTTAGTTATTATGTTATTATATAAG
* * *
16653606 TTATGCTAGATATATAAGTTA-T-T-TAAG
1 TTATGTTAGTTAT-TATGTTATTATATAAG
*
16653633 TTA--TTATGTTATTA---TA-TAAAGT-A-
1 TTATGTTA-GTTATTATGTTATTATA-TAAG
* *
16653656 TTATGTAATTTATTATGTTATTATATGTAAG
1 TTATGTTAGTTATTATGTTATTATA--TAAG
*
16653687 TTATGTAAGTTATTATGT
1 TTATGTTAGTTATTATGT
16653705 AAGTTATGCA
Statistics
Matches: 121, Mismatches: 16, Indels: 42
0.68 0.09 0.23
Matches are distributed among these distances:
22 3 0.02
23 3 0.02
24 7 0.06
25 7 0.06
26 4 0.03
27 13 0.11
28 8 0.07
29 27 0.22
30 11 0.09
31 30 0.25
32 4 0.03
33 4 0.03
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (29 bp):
TTATGTTAGTTATTATGTTATTATATAAG
Found at i:16653669 original size:12 final size:11
Alignment explanation
Indices: 16653633--16653711 Score: 51
Period size: 12 Copynumber: 7.4 Consensus size: 11
16653623 GTTATTTAAG
*
16653633 TTATTATGTTA
1 TTATTATGTAA
*
16653644 TTA-TAT-AAA
1 TTATTATGTAA
*
16653653 GTATTATGTAA
1 TTATTATGTAA
*
16653664 TTTATTATGTTA
1 -TTATTATGTAA
16653676 TTA-TATGTAA
1 TTATTATGTAA
*
16653686 --GTTATGTAA
1 TTATTATGTAA
16653695 GTTATTATGTAA
1 -TTATTATGTAA
16653707 GTTAT
1 -TTAT
16653712 GCAAGCTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
9 10 0.19
10 12 0.23
11 8 0.15
12 22 0.42
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (11 bp):
TTATTATGTAA
Found at i:16653674 original size:32 final size:31
Alignment explanation
Indices: 16653621--16653704 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 31
16653611 CTAGATATAT
*
16653621 AAGTTATTTAAGTTATTATGTTATTATAT-A
1 AAGTTATGTAAGTTATTATGTTATTATATGA
* *
16653651 AAGTATTATGTAATTTATTATGTTATTATATGT
1 AAG--TTATGTAAGTTATTATGTTATTATATGA
16653684 AAGTTATGTAAGTTATTATGT
1 AAGTTATGTAAGTTATTATGT
16653705 AAGTTATGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 3 0.06
31 17 0.36
32 24 0.51
33 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (31 bp):
AAGTTATGTAAGTTATTATGTTATTATATGA
Found at i:16653743 original size:16 final size:16
Alignment explanation
Indices: 16653722--16653785 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
16653712 GCAAGCTTAA
16653722 ATATAAGTTATGTATT
1 ATATAAGTTATGTATT
*
16653738 ATATAAGTTTTGTAAGTT
1 ATATAAGTTATGT-A-TT
* **
16653756 ATGTAAGTGGTGTATT
1 ATATAAGTTATGTATT
* *
16653772 ATGTAACTTATGTA
1 ATATAAGTTATGTA
16653786 AAAAACTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 25 0.64
17 2 0.05
18 12 0.31
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (16 bp):
ATATAAGTTATGTATT
Found at i:16653862 original size:31 final size:29
Alignment explanation
Indices: 16653827--16653928 Score: 73
Period size: 30 Copynumber: 3.3 Consensus size: 29
16653817 TATTACTAAC
16653827 AAATTTAGAACACTTATTTAGAAAACGAAGT
1 AAATTTAGAACACTTATTTAGAAAAC-AA-T
* * * *
16653858 AAATTTA-ATACTAATAAATTT-TAATACAAAT
1 AAATTTAGA-AC-ACT-TATTTAGAAAAC-AAT
* *
16653889 AAATTTAGAAGACTTATTTAGAAAACTTAT
1 AAATTTAGAACACTTATTTAGAAAAC-AAT
16653919 AAATTTAGAA
1 AAATTTAGAA
16653929 ATCTTATATA
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
29 4 0.07
30 19 0.35
31 18 0.33
32 9 0.17
33 4 0.07
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (29 bp):
AAATTTAGAACACTTATTTAGAAAACAAT
Found at i:16653877 original size:62 final size:62
Alignment explanation
Indices: 16653795--16653914 Score: 195
Period size: 62 Copynumber: 1.9 Consensus size: 62
16653785 AAAAAACTTA
* *
16653795 TAAAATTAATACTAATAAATTTTATTACTAACAAATTTAGAACACTTATTTAGAAAACGAAG
1 TAAAATTAATACTAATAAATTTTAATACAAACAAATTTAGAACACTTATTTAGAAAACGAAG
* * *
16653857 TAAATTTAATACTAATAAATTTTAATACAAATAAATTTAGAAGACTTATTTAGAAAAC
1 TAAAATTAATACTAATAAATTTTAATACAAACAAATTTAGAACACTTATTTAGAAAAC
16653915 TTATAAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (62 bp):
TAAAATTAATACTAATAAATTTTAATACAAACAAATTTAGAACACTTATTTAGAAAACGAAG
Found at i:16653882 original size:16 final size:16
Alignment explanation
Indices: 16653857--16653894 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
16653847 GAAAACGAAG
*
16653857 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
16653872 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
16653888 TAAATTT
1 TAAATTT
16653895 AGAAGACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:16653926 original size:17 final size:17
Alignment explanation
Indices: 16653904--16653936 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16653894 TAGAAGACTT
16653904 ATTTAGAAAACTTATAA
1 ATTTAGAAAACTTATAA
*
16653921 ATTTAGAAATCTTATA
1 ATTTAGAAAACTTATA
16653937 TAGATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
ATTTAGAAAACTTATAA
Found at i:16653957 original size:62 final size:57
Alignment explanation
Indices: 16653776--16653983 Score: 152
Period size: 62 Copynumber: 3.5 Consensus size: 57
16653766 TGTATTATGT
* * * * *
16653776 AACTTATGTAAAAAACTTATAAAATTAATACTAATAAATTTTATTACTAACAA-ATTTAGA
1 AACTTATTTAGAAAACTTATAAATTTAAAACTAATAAA---TATTA-AAACAATATTTAGA
** * * *
16653836 ACACTTATTTAGAAAACGAAGTAAATTTAATACTAATAAATTTTAATACAAATAAATTTAGA
1 A-ACTTATTTAGAAAACTTA-TAAATTTAAAACTAATAAATATTAAAAC-AAT--ATTTAGA
* *
16653898 AGACTTATTTAGAAAACTTATAAATTTAGAAATCTTATATAGATATTAAAACAATATTTA-C
1 A-ACTTATTTAGAAAACTTATAAATTTA-AAA-C-TA-ATAAATATTAAAACAATATTTAGA
*
16653959 AA-TTATTTAGAAAACTTACAAATTT
1 AACTTATTTAGAAAACTTATAAATTT
16653984 TATAGTAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
58 2 0.02
59 28 0.23
60 2 0.02
61 23 0.19
62 49 0.40
63 1 0.01
64 5 0.04
65 11 0.09
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (57 bp):
AACTTATTTAGAAAACTTATAAATTTAAAACTAATAAATATTAAAACAATATTTAGA
Found at i:16658195 original size:20 final size:21
Alignment explanation
Indices: 16658141--16658195 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
16658131 CGCTGAAATG
* *
16658141 TAAACTCTAAACCTTAAACCT
1 TAAACTCTAAGCCCTAAACCT
* * *
16658162 CAATCTCCAAGCCCTAAA-CT
1 TAAACTCTAAGCCCTAAACCT
16658182 TAAACTCTAAGCCC
1 TAAACTCTAAGCCC
16658196 AGAACACAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.38, C:0.35, G:0.04, T:0.24
Consensus pattern (21 bp):
TAAACTCTAAGCCCTAAACCT
Found at i:16658739 original size:134 final size:133
Alignment explanation
Indices: 16658564--16658975 Score: 512
Period size: 133 Copynumber: 3.1 Consensus size: 133
16658554 TTTAACATTT
* * * * *
16658564 CGCCACTAAAG-CATAAAAGGAAACAACAAAACGATACTGTTTTGCTCAAAATTTTTCCTCAAAT
1 CGCCACTAAAGAAATAAAATGAAACAATAAAACGGTACTGTTTTGCTCAAATTTTTTCCTCAAAT
* * * * *
16658628 TAGATATCATTACCGGTGTTTCTCCAATAACGCCACTATATCCCAATATTTGCGGCGTTTTTTGC
66 TAGATATCTTTACCGGCGTTTCTCCAAAAACGCCGCTATAT-CCAATTTTTGCGGCGTTTTTTGC
16658693 AATG
130 AATG
* *
16658697 CGCCACTAAAGAAATAAAATGAAGCAATAAAACGGTAGTGTTTTG-TCCAAATTTTTTCCTCAAA
1 CGCCACTAAAGAAATAAAATGAAACAATAAAACGGTACTGTTTTGCT-CAAATTTTTTCCTCAAA
* ** *
16658761 TCAGATATCTTTACCGGCGTTTC-CCTAAAAACGCCGCTA-ATTGAATCTTTTCCGGCGTTTTTT
65 TTAGATATCTTTACCGGCGTTTCTCC-AAAAACGCCGCTATATCCAAT-TTTTGCGGCGTTTTTT
*
16658824 ACAATG
128 GCAATG
*
16658830 CGCCACTAAAGAAATAAAATGAAACAATAAAACGGTACTGTTTTGCTCAGATTTTTTCCTCAAAT
1 CGCCACTAAAGAAATAAAATGAAACAATAAAACGGTACTGTTTTGCTCAAATTTTTTCCTCAAAT
* *
16658895 TCGTTATCTTTACCGGCGTTTCT-CAGAAAACGCCGCTATATTCCAATTTTTTGCGGCGTTTTTA
66 TAGATATCTTTACCGGCGTTTCTCCA-AAAACGCCGCTATA-TCCAA-TTTTTGCGGCGTTTTT-
* *
16658959 TGGAA-A
127 TGCAATG
16658965 CGCCACTAAAG
1 CGCCACTAAAG
16658976 CCATAAAGTA
Statistics
Matches: 239, Mismatches: 29, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
132 4 0.02
133 127 0.53
134 76 0.32
135 28 0.12
136 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (133 bp):
CGCCACTAAAGAAATAAAATGAAACAATAAAACGGTACTGTTTTGCTCAAATTTTTTCCTCAAAT
TAGATATCTTTACCGGCGTTTCTCCAAAAACGCCGCTATATCCAATTTTTGCGGCGTTTTTTGCA
ATG
Found at i:16667508 original size:27 final size:28
Alignment explanation
Indices: 16667431--16667508 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 28
16667421 AAAACTTAAA
*
16667431 AAAAAGTT-TAAAACAAATTAAAAATACAT
1 AAAAA-TTATAAAAGAAA-TAAAAATACAT
** *
16667460 AAAGTTTATAAAAGAAAT-AAAATATAT
1 AAAAATTATAAAAGAAATAAAAATACAT
*
16667487 AAAAATTAT-AAAGTAATAAAAA
1 AAAAATTATAAAAGAAATAAAAA
16667509 AACTTGAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
26 7 0.17
27 19 0.47
28 3 0.08
29 11 0.28
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (28 bp):
AAAAATTATAAAAGAAATAAAAATACAT
Found at i:16668438 original size:39 final size:39
Alignment explanation
Indices: 16668379--16668466 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
16668369 AAAAATTATA
* * *
16668379 TTTAATACAATAAAATATTTATTATATTTAT-TTATATTT
1 TTTAATATAATAAAAAATTTATTATATTTATGGTA-ATTT
*
16668418 TTTAGTATAATAAAAAATTTATTATATTTATGGTAATTT
1 TTTAATATAATAAAAAATTTATTATATTTATGGTAATTT
16668457 TTTAATATAA
1 TTTAATATAA
16668467 ATATACTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 41 0.95
40 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (39 bp):
TTTAATATAATAAAAAATTTATTATATTTATGGTAATTT
Found at i:16672714 original size:25 final size:25
Alignment explanation
Indices: 16672686--16672753 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
16672676 AGCTGTATAA
* *
16672686 CGGGAAGCTCTTGTGAG-CAAATTAT
1 CGGGAAGCTCTAGAGAGCCAAA-TAT
*
16672711 CGGGAAGCTCAAGAGAGCCAAATAT
1 CGGGAAGCTCTAGAGAGCCAAATAT
* *
16672736 CGGGATGCTCTGGAGAGC
1 CGGGAAGCTCTAGAGAGC
16672754 TATTAATTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 32 0.89
26 4 0.11
ACGTcount: A:0.29, C:0.19, G:0.32, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCTAGAGAGCCAAATAT
Found at i:16683396 original size:502 final size:502
Alignment explanation
Indices: 16682450--16683956 Score: 3007
Period size: 502 Copynumber: 3.0 Consensus size: 502
16682440 TGTTTTAGAA
16682450 GAAC-TAAGTCATATTTTGAAAATGGACCTTTTTATTTTTATATAAAATTTAACTTGATTAATAA
1 GAACGTAAGTCATATTTTGAAAATGGACCTTTTTATTTTTATATAAAATTTAACTTGATTAATAA
16682514 TAAGTATTCAATTTAAGTTTTTAAATATTTGAAATATTAAAAGAAAATATTATAATGTTTACGCA
66 TAAGTATTCAATTTAAGTTTTTAAATATTTGAAATATTAAAAGAAAATATTATAATGTTTACGCA
16682579 AGGCTGGTCATCTGTTGGTGGCGTAATTGGGGACAATAATGGACAGTGGCTAACAGGGTTTTGAA
131 AGGCTGGTCATCTGTTGGTGGCGTAATTGGGGACAATAATGGACAGTGGCTAACAGGGTTTTGAA
16682644 AGGCTACAGGCATGGGTGATGTCCTCACCACTAAGCTTGGAGCAAAGGTTTTAAGAAAGCGGAGG
196 AGGCTACAGGCATGGGTGATGTCCTCACCACTAAGCTTGGAGCAAAGGTTTTAAGAAAGCGGAGG
16682709 TTGAGAGTGGCAACATGCAGTCTGTTCAATTGATAAACAGCAGAAATAATGGCACTTGCTCCACT
261 TTGAGAGTGGCAACATGCAGTCTGTTCAATTGATAAACAGCAGAAATAATGGCACTTGCTCCACT
16682774 GCTATTGTTAGACGCATTTGGGAACTTTGCGGAAGGGCCTGGCAGGTGCGGGTAATGCATGTGCT
326 GCTATTGTTAGACGCATTTGGGAACTTTGCGGAAGGGCCTGGCAGGTGCGGGTAATGCATGTGCT
16682839 GCCTGAGGCGAATTTTATAGCAGATTCGTTAGCAAAGTCTTGTGCGTTTGAGGAGACGATCGTCC
391 GCCTGAGGCGAATTTTATAGCAGATTCGTTAGCAAAGTCTTGTGCGTTTGAGGAGACGATCGTCC
16682904 GGGTTTCCGATGAACCGCTTGTGAATGTTACACATTGGCTTCAACAT
456 GGGTTTCCGATGAACCGCTTGTGAATGTTACACATTGGCTTCAACAT
16682951 GAACGTAAGTCATATTTTGAAAATGGACCTTTTTATTTTTATATAAAATTTAACTTGATTAATAA
1 GAACGTAAGTCATATTTTGAAAATGGACCTTTTTATTTTTATATAAAATTTAACTTGATTAATAA
16683016 TAAGTATTCAATTTAAGTTTTTAAATATTTGAAATATTAAAAGAAAATATTATAATGTTTACGCA
66 TAAGTATTCAATTTAAGTTTTTAAATATTTGAAATATTAAAAGAAAATATTATAATGTTTACGCA
16683081 AGGCTGGTCATCTGTTGGTGGCGTAATTGGGGACAATAATGGACAGTGGCTAACAGGGTTTTGAA
131 AGGCTGGTCATCTGTTGGTGGCGTAATTGGGGACAATAATGGACAGTGGCTAACAGGGTTTTGAA
16683146 AGGCTACAGGCATGGGTGATGTCCTCACCACTAAGCTTGGAGCAAAGGTTTTAAGAAAGCGGAGG
196 AGGCTACAGGCATGGGTGATGTCCTCACCACTAAGCTTGGAGCAAAGGTTTTAAGAAAGCGGAGG
16683211 TTGAGAGTGGCAACATGCAGTCTGTTCAATTGATAAACAGCAGAAATAATGGCACTTGCTCCACT
261 TTGAGAGTGGCAACATGCAGTCTGTTCAATTGATAAACAGCAGAAATAATGGCACTTGCTCCACT
16683276 GCTATTGTTAGACGCATTTGGGAACTTTGCGGAAGGGCCTGGCAGGTGCGGGTAATGCATGTGCT
326 GCTATTGTTAGACGCATTTGGGAACTTTGCGGAAGGGCCTGGCAGGTGCGGGTAATGCATGTGCT
16683341 GCCTGAGGCGAATTTTATAGCAGATTCGTTAGCAAAGTCTTGTGCGTTTGAGGAGACGATCGTCC
391 GCCTGAGGCGAATTTTATAGCAGATTCGTTAGCAAAGTCTTGTGCGTTTGAGGAGACGATCGTCC
16683406 GGGTTTCCGATGAACCGCTTGTGAATGTTACACATTGGCTTCAACAT
456 GGGTTTCCGATGAACCGCTTGTGAATGTTACACATTGGCTTCAACAT
16683453 GAACGTAAGTCATATTTTGAAAATGGACCTTTTTATTTTTATATAAAATTTAACTTGATTAATAA
1 GAACGTAAGTCATATTTTGAAAATGGACCTTTTTATTTTTATATAAAATTTAACTTGATTAATAA
16683518 TAAGTATTCAATTTAAGTTTTTAAATATTTGAAATATTAAAAGAAAATATTATAATGTTTACGCA
66 TAAGTATTCAATTTAAGTTTTTAAATATTTGAAATATTAAAAGAAAATATTATAATGTTTACGCA
16683583 AGGCTGGTCATCTGTTGGTGGCGTAATTGGGGACAATAATGGACAGTGGCTAACAGGGTTTTGAA
131 AGGCTGGTCATCTGTTGGTGGCGTAATTGGGGACAATAATGGACAGTGGCTAACAGGGTTTTGAA
16683648 AGGCTACAGGCATGGGTGATGTCCTCACCACTAAGCTTGGAGCAAAGGTTTTAAGAAAGCGGAGG
196 AGGCTACAGGCATGGGTGATGTCCTCACCACTAAGCTTGGAGCAAAGGTTTTAAGAAAGCGGAGG
16683713 TTGAGAGTGGCAACATGCAGTCTGTTCAATTGATAAACAGCAGAAATAATGGCACTTGCTCCACT
261 TTGAGAGTGGCAACATGCAGTCTGTTCAATTGATAAACAGCAGAAATAATGGCACTTGCTCCACT
16683778 GCTATTGTTAGACGCATTTGGGAACTTTGCGGAAGGGCCTGGCAGGTGCGGGTAATGCATGTGCT
326 GCTATTGTTAGACGCATTTGGGAACTTTGCGGAAGGGCCTGGCAGGTGCGGGTAATGCATGTGCT
16683843 GCCTGAGGCGAATTTTATAGCAGATTCGTTAGCAAAGTCTTGTGCGTTTGAGGAGACGATCGTCC
391 GCCTGAGGCGAATTTTATAGCAGATTCGTTAGCAAAGTCTTGTGCGTTTGAGGAGACGATCGTCC
16683908 GGGTTTCCGATGAACCGCTTGTGAATGTTACACATTGGCTTCAACAT
456 GGGTTTCCGATGAACCGCTTGTGAATGTTACACATTGGCTTCAACAT
16683955 GA
1 GA
16683957 TGCGGCTGGT
Statistics
Matches: 1005, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
501 4 0.00
502 1001 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (502 bp):
GAACGTAAGTCATATTTTGAAAATGGACCTTTTTATTTTTATATAAAATTTAACTTGATTAATAA
TAAGTATTCAATTTAAGTTTTTAAATATTTGAAATATTAAAAGAAAATATTATAATGTTTACGCA
AGGCTGGTCATCTGTTGGTGGCGTAATTGGGGACAATAATGGACAGTGGCTAACAGGGTTTTGAA
AGGCTACAGGCATGGGTGATGTCCTCACCACTAAGCTTGGAGCAAAGGTTTTAAGAAAGCGGAGG
TTGAGAGTGGCAACATGCAGTCTGTTCAATTGATAAACAGCAGAAATAATGGCACTTGCTCCACT
GCTATTGTTAGACGCATTTGGGAACTTTGCGGAAGGGCCTGGCAGGTGCGGGTAATGCATGTGCT
GCCTGAGGCGAATTTTATAGCAGATTCGTTAGCAAAGTCTTGTGCGTTTGAGGAGACGATCGTCC
GGGTTTCCGATGAACCGCTTGTGAATGTTACACATTGGCTTCAACAT
Found at i:16689336 original size:92 final size:92
Alignment explanation
Indices: 16689116--16689344 Score: 345
Period size: 92 Copynumber: 2.5 Consensus size: 92
16689106 ATTACTATAG
* * *
16689116 CTCAGTATGATTTTCTTCACAGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCA
1 CTCAGTATGGTTTTCTTCACTGAAATACCTTACCTACTTTTCACAACTCAGTATGGTTTTCTTCA
*
16689181 CTGAAACACCATACCTACTTTTCACAA
66 CTAAAACACCATACCTACTTTTCACAA
*
16689208 CTCAGTATGGTTTTCTTCACTGAAACACCATT-CCTACTTTTCACAACTCAGTATGGTTTTCTTC
1 CTCAGTATGGTTTTCTTCACTGAAATACC-TTACCTACTTTTCACAACTCAGTATGGTTTTCTTC
*
16689272 ACTAAAACACCATACCTATTTTTCACAA
65 ACTAAAACACCATACCTACTTTTCACAA
** *
16689300 CTCAGTATGGTTTTCTT-TGTCGAAATACCTTACCTACGTTTCACA
1 CTCAGTATGGTTTTCTTCACT-GAAATACCTTACCTACTTTTCACA
16689345 CTTTGCCATG
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
91 3 0.02
92 120 0.97
93 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.37
Consensus pattern (92 bp):
CTCAGTATGGTTTTCTTCACTGAAATACCTTACCTACTTTTCACAACTCAGTATGGTTTTCTTCA
CTAAAACACCATACCTACTTTTCACAA
Found at i:16689344 original size:46 final size:46
Alignment explanation
Indices: 16689116--16689316 Score: 348
Period size: 46 Copynumber: 4.4 Consensus size: 46
16689106 ATTACTATAG
* * *
16689116 CTCAGTATGATTTTCTTCACAGAAATACCATACCTACTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
16689162 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
*
16689208 CTCAGTATGGTTTTCTTCACTGAAACACCATTCCTACTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
* *
16689254 CTCAGTATGGTTTTCTTCACTAAAACACCATACCTATTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
16689300 CTCAGTATGGTTTTCTT
1 CTCAGTATGGTTTTCTT
16689317 TGTCGAAATA
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 148 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.37
Consensus pattern (46 bp):
CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
Found at i:16695419 original size:21 final size:20
Alignment explanation
Indices: 16695391--16695454 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 20
16695381 TTCAGGTGGA
*
16695391 TCAGCTCTTTCGAGCTTCTGT
1 TCAGCTCTTT-GAGCTTCTAT
*
16695412 TTAGCTCTTTTGAGCTTCTAT
1 TCAGCTC-TTTGAGCTTCTAT
16695433 TCAGCTCTTATGAGCTTCTAT
1 TCAGCTCTT-TGAGCTTCTAT
16695454 T
1 T
16695455 GACGATGTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 33 0.87
22 3 0.08
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (20 bp):
TCAGCTCTTTGAGCTTCTAT
Found at i:16698657 original size:22 final size:23
Alignment explanation
Indices: 16698622--16698665 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
16698612 AATAAGATTT
16698622 AATATTAAATTTAATCTAATATA
1 AATATTAAATTTAATCTAATATA
* *
16698645 AATATTATA-TTAATTTAATAT
1 AATATTAAATTTAATCTAATAT
16698666 TAAAGTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATTAAATTTAATCTAATATA
Found at i:16701732 original size:33 final size:33
Alignment explanation
Indices: 16701684--16701918 Score: 122
Period size: 33 Copynumber: 6.7 Consensus size: 33
16701674 TTAACCGTTA
*
16701684 TCGGTGGATTCAGCACTTAGCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAG
* * *
16701718 TCGGGGAATAAGCACTTAGCAACCCCTTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--TGAG
** *
16701757 ATACGGTGGGTTCAGCACTTAGCAACCACCAATGAT
1 -T-CGG-GGAATCAGCACTTAGCAACCACCAATGAG
*
16701793 TCGGGGAATCAGCACTTAGCAACC-CC--T-CG
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAG
* *
16701822 --GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAA-CCAC--CA-A--TGAG
* *
16701859 ATACAGTGGAATCAGCACTTAGCAACCACCAATGAA
1 -T-C-GGGGAATCAGCACTTAGCAACCACCAATGAG
** *
16701895 TAAGGGAATCAACACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
16701919 CCTTTTTTAT
Statistics
Matches: 154, Mismatches: 23, Indels: 49
0.68 0.10 0.22
Matches are distributed among these distances:
27 20 0.13
28 2 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.01
33 56 0.36
34 7 0.05
35 2 0.01
36 7 0.05
37 2 0.01
38 2 0.01
39 7 0.05
40 1 0.01
41 6 0.04
42 37 0.24
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAG
Found at i:16701843 original size:102 final size:102
Alignment explanation
Indices: 16701720--16701921 Score: 323
Period size: 102 Copynumber: 2.0 Consensus size: 102
16701710 CCAATGAGTC
* * **
16701720 GGGGAATAAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATAAGCACTTAGCAACCCCCTTCACATTTAAGATACAGTGGAATCAGCACTTAGCAACCA
* ** *
16701785 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAATAAGGGAATCAACACTTAGCAACCCCTCG
*
16701822 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACAGTGGAATCAGCACTTAGCAACCA
1 GGGGAATAAGCACTTAGCAACCCCCTTCACATTTAAGATACAGTGGAATCAGCACTTAGCAACCA
16701887 CCAATGAATAAGGGAATCAACACTTAGCAACCCCT
66 CCAATGAATAAGGGAATCAACACTTAGCAACCCCT
16701922 TTTTTATTCA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 91 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (102 bp):
GGGGAATAAGCACTTAGCAACCCCCTTCACATTTAAGATACAGTGGAATCAGCACTTAGCAACCA
CCAATGAATAAGGGAATCAACACTTAGCAACCCCTCG
Done.