Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3169409
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 16
Found at i:2280735 original size:105 final size:105
Alignment explanation
Indices: 2280520--2281037 Score: 506
Period size: 105 Copynumber: 5.0 Consensus size: 105
2280510 TCGTGCCACT
* * *
2280520 CAAGACAACACAAATTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACGAACAACTTT-CCAA
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAA-TTTCCCAG
** ** * *
2280584 TTTCAAAGCTGATTT----TCCAC-GACGGAGGATATCATGCTACC
64 TTTCAGGGCCAATTTCAACTTCACAG-CGGAGGATAT--TG-GACC
*
2280625 TAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
2280690 TCAGGGCCAATTTCAACTTCACAGCGGAGGATATTGGACC
66 TCAGGGCCAATTTCAACTTCACAGCGGAGGATATTGGACC
* * * ** *
2280730 CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAA-AA------AATT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
* * * *
2280788 TC-GGAGCCAATCTCAACTTCACAACGAAGGATATTGGACT
66 TCAGG-GCCAATTTCAACTTCACAGCGGAGGATATTGGACC
* * *
2280828 CGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGTTGGTTGTCAACAACAATTTCCCAGTT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
* * *
2280893 CCAGGGCCAGTTTCAACTTCACAGCGAAGGATATTGGACC
66 TCAGGGCCAATTTCAACTTCACAGCGGAGGATATTGGACC
* * * * * ** * *
2280933 CAAGACATCACAAGCTCAACTTCGCAGCGAAGGGGCGGCTGACTGTCAATAAACAATTTCCCGGT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA-CAACAATTTCCCAGT
* ** * *
2280998 TCCAGAACCAATCTCAACTTCACAGCAGAGGATATTGGAC
65 TTCAGGGCCAATTTCAACTTCACAGCGGAGGATATTGGAC
2281038 TCAGAACAAT
Statistics
Matches: 344, Mismatches: 53, Indels: 31
0.80 0.12 0.07
Matches are distributed among these distances:
97 2 0.01
98 80 0.23
99 2 0.01
103 3 0.01
104 21 0.06
105 170 0.49
106 51 0.15
108 14 0.04
109 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (105 bp):
CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
TCAGGGCCAATTTCAACTTCACAGCGGAGGATATTGGACC
Found at i:2280873 original size:203 final size:203
Alignment explanation
Indices: 2280627--2280992 Score: 651
Period size: 203 Copynumber: 1.8 Consensus size: 203
2280617 ATGCTACCTA
*
2280627 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTTCC
*
2280692 AGGGCCAATTTCAACTTCACAGCGGAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAG
66 AGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAG
2280757 CGAAGGGGCGGCTGACTGTCAACAAAAAATTTCGGAGCCAATCTCAACTTCACAACGAAGGATAT
131 CGAAGGGGCGGCTGACTGTCAACAAAAAATTTCGGAGCCAATCTCAACTTCACAACGAAGGATAT
2280822 TGGACTCG
196 TGGACTCG
* *
2280830 AGACAACACAAGTTCAACTTCACAACGAAGGGATGGTTGGTTGTCAACAACAATTTCCCAGTTCC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTTCC
* * *
2280895 AGGGCCAGTTTCAACTTCACAGCGAAGGATATTGGACCCAAGACATCACAAGCTCAACTTCGCAG
66 AGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAG
* *
2280960 CGAAGGGGCGGCTGACTGTCAATAAACAATTTC
131 CGAAGGGGCGGCTGACTGTCAACAAAAAATTTC
2280993 CCGGTTCCAG
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
203 154 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (203 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTTCC
AGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAG
CGAAGGGGCGGCTGACTGTCAACAAAAAATTTCGGAGCCAATCTCAACTTCACAACGAAGGATAT
TGGACTCG
Found at i:2282848 original size:2 final size:2
Alignment explanation
Indices: 2282837--2282870 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2282827 TTCCTCACAT
2282837 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2282871 TTATTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2285511 original size:20 final size:20
Alignment explanation
Indices: 2285488--2285529 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2285478 GGATCGAACC
*
2285488 GAGTCAACCCCAACCAATCT
1 GAGTCAACCCAAACCAATCT
* *
2285508 GAGTCAACTCAAACCATTCT
1 GAGTCAACCCAAACCAATCT
2285528 GA
1 GA
2285530 CCCATTGACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.12, T:0.19
Consensus pattern (20 bp):
GAGTCAACCCAAACCAATCT
Found at i:2285563 original size:19 final size:19
Alignment explanation
Indices: 2285528--2285601 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 19
2285518 AAACCATTCT
2285528 GACCCATTGAC-TTGACCC
1 GACCCATTGACTTTGACCC
*
2285546 GACCCATTAACTTTGACCC
1 GACCCATTGACTTTGACCC
* * ** *
2285565 AAACTGTTGACTTTGACCT
1 GACCCATTGACTTTGACCC
*
2285584 GACCCGTTGACTTTGACC
1 GACCCATTGACTTTGACC
2285602 AAAGTTGATC
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 10 0.22
19 35 0.78
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.28
Consensus pattern (19 bp):
GACCCATTGACTTTGACCC
Found at i:2290256 original size:17 final size:17
Alignment explanation
Indices: 2290234--2290271 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
2290224 AAGAAAATAT
2290234 TATAATATAATCATGTA
1 TATAATATAATCATGTA
2290251 TATAATATAATCATGTA
1 TATAATATAATCATGTA
2290268 TATA
1 TATA
2290272 GTTTTATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (17 bp):
TATAATATAATCATGTA
Found at i:2290370 original size:13 final size:12
Alignment explanation
Indices: 2290347--2290377 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
2290337 TTCAGGTTCG
2290347 GTCCAAATTAGA
1 GTCCAAATTAGA
2290359 GTCCATAATTAGA
1 GTCCA-AATTAGA
2290372 GTCCAA
1 GTCCAA
2290378 TACTCCATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (12 bp):
GTCCAAATTAGA
Found at i:2297024 original size:225 final size:228
Alignment explanation
Indices: 2296621--2297065 Score: 763
Period size: 225 Copynumber: 2.0 Consensus size: 228
2296611 GTAAATTATC
* * *
2296621 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
2296686 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
2296751 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
2296816 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTTCAAAAAAGTATA
*
2296849 TATCATTTTTATAAAAGTGTCCATACTTA-TTCACTGTTGAAAACATATTTA-TATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
2296912 TTAATATTGTTAAATTTAAATTCTAAAT-A-ATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* * *
2296975 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
2297040 GAAACATAAATTACATAACTTTCAAA
195 GAAACATAAATTACATAACTTTCAAA
2297066 GCAGTTTTAA
Statistics
Matches: 206, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
225 120 0.58
226 1 0.00
227 44 0.21
228 41 0.20
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTCAAAAAAGTATA
Found at i:2297153 original size:20 final size:19
Alignment explanation
Indices: 2297130--2297175 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
2297120 CGATATACCA
2297130 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
2297150 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
2297170 GGTAAA
1 GGTAAA
2297176 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2297320 original size:20 final size:20
Alignment explanation
Indices: 2297297--2297344 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
2297287 CGATATAACA
2297297 GGTAAAAATATGAT-AAAACC
1 GGTAAAAA-ATGATAAAAACC
*
2297317 GGTATCAAAATGATAAAAACC
1 GGTA-AAAAATGATAAAAACC
2297338 GGTAAAA
1 GGTAAAA
2297345 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.19
Consensus pattern (20 bp):
GGTAAAAAATGATAAAAACC
Found at i:2299685 original size:33 final size:33
Alignment explanation
Indices: 2299643--2299708 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2299633 AAATAGATGG
*
2299643 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
2299676 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2299709 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2301512 original size:19 final size:19
Alignment explanation
Indices: 2301488--2301535 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
2301478 AATGTCGAGT
2301488 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2301507 TAA-TTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
2301525 TATTTTTGTAT
1 TAATTTTGTAT
2301536 GTGAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2302241 original size:198 final size:198
Alignment explanation
Indices: 2301683--2303167 Score: 2808
Period size: 197 Copynumber: 7.5 Consensus size: 198
2301673 TGTCGATCCA
2301683 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
*
2301748 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATTAATGGAAAAC
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
2301813 AGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
131 AGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
2301878 AAG
196 AAG
*
2301881 TATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
2301945 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
*
2302010 AAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
131 AGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
2302075 AAG
196 AAG
2302078 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
2302143 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAA
2302208 CAGGGTGCACCCATAAAGTGTCGATCC-TATAT-AAAAGTGTCGATCCCAAAA--ATCGAACCCA
130 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
2302269 AAAG
195 AAAG
*
2302273 TAT-ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
2302336 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAA
2302401 CAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
130 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
2302465 AAAG
195 AAAG
*
2302469 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
2302534 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAA
2302599 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
130 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
2302664 AAAG
195 AAAG
2302668 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
*
2302733 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATTAATGGAAAAC
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
2302798 AGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAA
131 AGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
2302862 AAG
196 AAG
2302865 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
2302930 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
*
2302995 AAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
131 AGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
2303060 AAG
196 AAG
*
2303063 TATAATGTAATATGTAATTTTTCAATCTAATCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
2303128 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
2303168 CCAATTTAAA
Statistics
Matches: 1266, Mismatches: 11, Indels: 20
0.98 0.01 0.02
Matches are distributed among these distances:
192 17 0.01
193 98 0.08
194 59 0.05
195 17 0.01
196 17 0.01
197 448 0.35
198 397 0.31
199 213 0.17
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (198 bp):
TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
AGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
AAG
Found at i:2304622 original size:18 final size:18
Alignment explanation
Indices: 2304601--2304668 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
2304591 AGCGGTCGCA
2304601 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
2304619 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
2304640 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
2304661 GAAGATGA
1 GAAGATGA
2304669 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:2304625 original size:6 final size:6
Alignment explanation
Indices: 2304601--2304698 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
2304591 AGCGGTCGCA
* * * * * *
2304601 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
2304649 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
2304697 GA
1 GA
2304699 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:2304636 original size:3 final size:3
Alignment explanation
Indices: 2304616--2304702 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
2304606 TGAAGCTGAC
* * * * * ** *
2304616 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
2304664 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2304703 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:2304651 original size:42 final size:42
Alignment explanation
Indices: 2304604--2304694 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
2304594 GGTCGCAGAA
*
2304604 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
2304646 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
2304688 GATGAAG
1 GATGAAG
2304695 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:2304702 original size:18 final size:18
Alignment explanation
Indices: 2304601--2304698 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
2304591 AGCGGTCGCA
* *
2304601 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
2304619 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
2304637 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
2304655 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
2304673 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
2304691 GAAGATGA
1 GAAGATGA
2304699 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:2306610 original size:184 final size:183
Alignment explanation
Indices: 2306132--2306655 Score: 883
Period size: 183 Copynumber: 2.9 Consensus size: 183
2306122 CTTTCAACAT
** * * * *
2306132 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGAT-AATTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
* * * * *
2306197 GGTCTACAACCTATATCG--ACTTTTTAATAGTGTGTCGGTACTTTATGTACATATTGGAAGAAA
65 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAA
2306260 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
130 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
2306314 ATTATAATGTAATAGATAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
1 ATTATAATGTAATAGATAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
*
2306379 GTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAAA
66 GTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAAA
2306444 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
131 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
2306497 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAA-TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
*
2306562 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCCCATTGGAAT-AA
65 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAA
*
2306626 AATGTGTCGATACCATTTAAAAAAGTGTCG
130 AATGTGTCGATACGATTTAAAAAAGTGTCG
2306656 GTAATTTGAA
Statistics
Matches: 325, Mismatches: 14, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
181 62 0.19
182 14 0.04
183 144 0.44
184 105 0.32
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
GTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAAA
ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
Found at i:2309272 original size:22 final size:23
Alignment explanation
Indices: 2309216--2309278 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
2309206 ATAGGTAAAC
*
2309216 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2309239 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2309262 ATAT-ATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2309279 TGGTTATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2309285 original size:22 final size:23
Alignment explanation
Indices: 2309216--2309287 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
2309206 ATAGGTAAAC
* **
2309216 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
2309239 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2309262 ATAT-ATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2309284 ATAT
1 ATAT
2309288 TGTAAAGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
22 19 0.45
23 23 0.55
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:2309665 original size:21 final size:23
Alignment explanation
Indices: 2309634--2309695 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 23
2309624 ATAGGTAAAC
*
2309634 ATATGATGTAATAGGTAGC-CCT
1 ATATAATGTAATAGGTAGCGCCT
* **
2309656 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCCT
2309678 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2309696 TGGTTATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 16 0.48
22 1 0.03
23 16 0.48
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCCT
Found at i:2309702 original size:23 final size:23
Alignment explanation
Indices: 2309656--2309704 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
2309646 AGGTAGCCCT
*
2309656 TATAATGTAATAGGTATCGTTTA
1 TATAATGTAATAGGTATCGGTTA
2309679 TATAATGTAATAGGTAGT-GGTTA
1 TATAATGTAATAGGTA-TCGGTTA
2309702 TAT
1 TAT
2309705 TGTAAAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (23 bp):
TATAATGTAATAGGTATCGGTTA
Found at i:2309708 original size:21 final size:21
Alignment explanation
Indices: 2309640--2309709 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
2309630 AAACATATGA
** *
2309640 TGTAATAGGTAGCCCTTATAA
1 TGTAATAGGTAGTGCTTATAT
*
2309661 TGTAATAGGTA-TCGTTTATAT
1 TGTAATAGGTAGT-GCTTATAT
*
2309682 AATGTAATAGGTAGTGGTTATAT
1 --TGTAATAGGTAGTGCTTATAT
2309705 TGTAA
1 TGTAA
2309710 AGTTTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 21 0.52
23 18 0.45
24 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (21 bp):
TGTAATAGGTAGTGCTTATAT
Found at i:2310089 original size:23 final size:23
Alignment explanation
Indices: 2310054--2310117 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
2310044 ATAGGTAAAC
*
2310054 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* * * **
2310077 ATATAATGAAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2310100 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2310118 TGGTTATATT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2310124 original size:23 final size:23
Alignment explanation
Indices: 2310054--2310126 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
2310044 ATAGGTAAAC
* **
2310054 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
* * *
2310077 ATATAATGAAATATGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2310100 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2310123 ATAT
1 ATAT
2310127 TGTAAAGTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:2310509 original size:23 final size:23
Alignment explanation
Indices: 2310478--2310541 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
2310468 ATAGGTAAAC
*
2310478 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2310501 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2310524 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2310542 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2310548 original size:23 final size:23
Alignment explanation
Indices: 2310478--2310550 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2310468 ATAGGTAAAC
* **
2310478 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
2310501 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2310524 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2310547 ATAT
1 ATAT
2310551 TGTAAAGTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:2310891 original size:422 final size:427
Alignment explanation
Indices: 2309119--2311628 Score: 4405
Period size: 423 Copynumber: 5.9 Consensus size: 427
2309109 AATTCGCAGT
2309119 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2309182 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
2309247 TAATAGGTATCGTTTATATATGTAATAGGTAGTGGTTATATTGTAAAGTTTCTATCCTTTTTAT-
131 TAATAGGTATCGTTTATATATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
* *
2309311 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAATATTAATTTT---TGAGTTTTAA
196 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTATTTTTGAGTGAGTTTTAA
2309373 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATA-TATTATTA
261 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATTA
2309437 AATT-AAAATTCTAAAT-ATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAATG
326 AATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAATG
2309500 AAATTATTAAATCAATA-TGTAGGTGGAAAACATGAA
391 AAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
2309536 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCC-TTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2309600 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCC-T-TATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
2309663 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTTTCTATCC-TTTTAT
131 TAATAGGTATCGTTTATAT-ATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
* *
2309727 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAATA-TAATTTTGAGTGAG-TTTA
195 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTATTTTTGAGTGAGTTTTA
2309790 AGATATTAATTTAGTAATTATAGGCGTCTAATGA-TTATTTTTTACGTTACGGTATATTATTATT
260 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATT
2309854 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAAT
325 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAAT
2309919 GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
2309957 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2310021 -AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
* *
2310085 AAATATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATAT-ATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
* *
2310150 AAAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
195 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTAT-TTTTGAGTGAGTTTT
2310215 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATA-TATTAT
259 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTAT
*
2310279 TAAATTAAAAATTCT--A-AATATTTTATAAAATATAAAAAACAATCAAATAA-TTTTTGTGCAA
324 TAAATTAAAAATTCTAAATAATATTTTATAAAATAT-AAAAACAATCAAATAATTTTTTCTGCAA
2310340 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
388 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
2310380 ACAATGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2310445 AAAAGTATGGACACTTTC-ATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2310509 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGT-TCTATCCTTTTTAT
131 TAATAGGTATCGTTTATAT-ATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
2310573 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAATATTAATTTTTGAGTGAGTTTT
195 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATT-ATTTTTGAGTGAGTTTT
2310637 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATA-TATTAT
259 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTAT
2310701 TAAATT-AAAATTCTAAATAATATTTTAT-AAA-ATAAAAACAATC-AATAATTTTTTCTGCAAA
324 TAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAA
2310762 TGAAATTATTAAATC-ATATTGTAGGTGGAAAACATGAA
389 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
2310800 ACACTGTTAAAAAAAGTGAAACATAAATTACATAAGTTTTAAAAAAAAGTATCGATCCTTTTTAT
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAAGTATCGATCCTTTTTAT
2310865 AAAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAAT
65 AAAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAAT
2310930 GTAATAGGTATCGTTTATATATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
130 GTAATAGGTATCGTTTATATATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
* *
2310995 AAAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
195 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTAT-TTTTGAGTGAGTTTT
2311060 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
259 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG--TATATTATT
*
2311125 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
322 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCA
2311190 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
387 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
2311231 ACAATGTT-AAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2311294 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2311359 TAATAGGTATCG-TT-TATATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
131 TAATAGGTATCGTTTATATATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
* *
2311422 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTGAGTGAGTTTTAA
196 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTATTTTTGAGTGAGTTTTAA
* *
2311487 GATATTAATTTAGTAATTATAGGCGTCTAATGA-TTA-TTTTTACGTTGCGATATATATTATTAT
261 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG--GTATATTATTAT
* * *
2311550 TAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
324 TAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAA
2311615 TGAAATTATTAAAT
389 TGAAATTATTAAAT
2311629 TAAATAATTC
Statistics
Matches: 2020, Mismatches: 31, Indels: 78
0.95 0.01 0.04
Matches are distributed among these distances:
416 39 0.02
417 113 0.06
418 143 0.07
419 32 0.02
420 184 0.09
421 193 0.10
422 279 0.14
423 409 0.20
424 126 0.06
425 81 0.04
426 167 0.08
427 46 0.02
428 104 0.05
429 12 0.01
430 62 0.03
431 30 0.01
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (427 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTATTTTTGAGTGAGTTTTAA
GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATTA
AATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAATG
AAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:2310956 original size:22 final size:23
Alignment explanation
Indices: 2310900--2310962 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
2310890 ATAGGTAAAC
*
2310900 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2310923 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2310946 ATAT-ATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2310963 TGGTTATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2310969 original size:22 final size:23
Alignment explanation
Indices: 2310900--2310971 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
2310890 ATAGGTAAAC
* **
2310900 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
2310923 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2310946 ATAT-ATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2310968 ATAT
1 ATAT
2310972 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
22 19 0.45
23 23 0.55
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:2311381 original size:20 final size:23
Alignment explanation
Indices: 2311328--2311388 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
2311318 ATAGGTAAAC
*
2311328 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* *
2311351 ATATAATGTAATAGGTA-TCGTT
1 ATATAATGTAATAGGTAGCCCTT
2311373 -TAT-ATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2311389 TGGTTATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.35
21 3 0.09
22 3 0.09
23 16 0.47
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2311395 original size:20 final size:20
Alignment explanation
Indices: 2311356--2311402 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
2311346 CCCTTATATA
*
2311356 ATGTAATAGGTATCGTTTAT
1 ATGTAATAGGTATCGGTTAT
2311376 ATGTAATAGGTAGT-GGTTAT
1 ATGTAATAGGTA-TCGGTTAT
2311396 ATTGTAA
1 A-TGTAA
2311403 AGTGTCTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (20 bp):
ATGTAATAGGTATCGGTTAT
Found at i:2311967 original size:24 final size:25
Alignment explanation
Indices: 2311940--2311994 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
2311930 TTTCAAATTC
*
2311940 ATTTCATATGT-AATTGGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
* *
2311964 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
2311988 ATTTCAA
1 ATTTCAA
2311995 TATATATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 20 0.77
25 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTTCAAATGTCAATTGGAGTTTGA
Found at i:2311980 original size:18 final size:18
Alignment explanation
Indices: 2311959--2311995 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2311949 GTAATTGGAG
2311959 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
2311977 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2311995 T
1 T
2311996 ATATATTTCG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2312298 original size:38 final size:38
Alignment explanation
Indices: 2312255--2312333 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
2312245 ATGCTCATCA
*
2312255 AAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATC
1 AAATCCAAAGCTCATATGATGCCAAGCAAAAGGAAATC
*
2312293 AAATCCAAATCTCATATGATGCCAAGCAAAAGGAAATC
1 AAATCCAAAGCTCATATGATGCCAAGCAAAAGGAAATC
2312331 AAA
1 AAA
2312334 AATCTACAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.16
Consensus pattern (38 bp):
AAATCCAAAGCTCATATGATGCCAAGCAAAAGGAAATC
Found at i:2312691 original size:23 final size:23
Alignment explanation
Indices: 2312660--2312722 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
2312650 ATAGGTAAAC
*
2312660 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2312683 ATATAATGTAA-AGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2312705 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2312723 TGGTTATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2312729 original size:23 final size:23
Alignment explanation
Indices: 2312660--2312731 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
2312650 ATAGGTAAAC
* **
2312660 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
2312683 ATATAATGTAA-AGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2312705 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2312728 ATAT
1 ATAT
2312732 TGTAAAGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 18 0.44
23 22 0.54
24 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:2314363 original size:21 final size:21
Alignment explanation
Indices: 2314339--2314379 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2314329 TATTTTAACC
*
2314339 CAAATATGAA-ATATTTTTTCT
1 CAAATA-GAACATATCTTTTCT
2314360 CAAATAGAACATATCTTTTC
1 CAAATAGAACATATCTTTTC
2314380 AAAATTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (21 bp):
CAAATAGAACATATCTTTTCT
Found at i:2315674 original size:45 final size:43
Alignment explanation
Indices: 2315490--2315675 Score: 134
Period size: 45 Copynumber: 4.3 Consensus size: 43
2315480 ATCCAAAGCT
* * *
2315490 TTTGATTATTGGATTGCCAGAAGTAAAAGT-AAATGATTAGTTCC
1 TTTGATTATTGTATTGCAAAAAGTAAAA-TCAAATGA-TAGTTCC
* *
2315534 TTTTATTTATTG-AGCTGTC-AAAAGTAAAATCAAATGATTAGTTCC
1 TTTGA-TTATTGTA-TTG-CAAAAAGTAAAATCAAATGA-TAGTTCC
* *** *
2315579 TTCTGATTATTGTGTTGTGGAAAGTAAAAT-AAA--AT-GATCC
1 TT-TGATTATTGTATTGCAAAAAGTAAAATCAAATGATAGTTCC
*
2315619 TTTCGATTATTGTATTGCAAAAATTAAAATCAAATGACTAGTTCC
1 TTT-GATTATTGTATTGCAAAAAGTAAAATCAAATGA-TAGTTCC
2315664 ATTTGATTATTG
1 -TTTGATTATTG
2315676 GGTTGCTAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 27
0.73 0.10 0.17
Matches are distributed among these distances:
39 1 0.01
40 27 0.24
41 4 0.04
42 1 0.01
43 1 0.01
44 10 0.09
45 63 0.56
46 6 0.05
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (43 bp):
TTTGATTATTGTATTGCAAAAAGTAAAATCAAATGATAGTTCC
Found at i:2315910 original size:58 final size:58
Alignment explanation
Indices: 2315820--2316094 Score: 284
Period size: 58 Copynumber: 4.7 Consensus size: 58
2315810 GAGAGAGAGG
* * * * *
2315820 AATAAATCGTTGAATTTATTTTCTTAAGAATCTTAAATGATTATAATTTTGTAAGGAA
1 AATAAATAGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAATTTTATAAGGAA
* * *
2315878 AATAAATAGTTGAATTTA-TTTCATTGAGAATCTTGAATGATTCTAACTTTGTAATGAA
1 AATAAATAGTTGAATTTATTTTC-TTGAGAATCTTGAATGATTCTAATTTTATAAGGAA
* * * * * *
2315936 AATAAATTGTTTAAGTTATTTCCTTGAGAATCTTGAATGATTCTAAATTTATAAGAAA
1 AATAAATAGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAATTTTATAAGGAA
* * * * * * * *
2315994 AATAAAGAGTTGAATTCATTTTCTTCATAATCTCGAATGATTCTATCTTTTAAAATG-A
1 AATAAATAGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTA-ATTTTATAAGGAA
* * * *
2316052 AATAAATTGTTAAATTTATTTTCTTTAGAATCTTAAATGATTC
1 AATAAATAGTTGAATTTATTTTCTTGAGAATCTTGAATGATTC
2316095 CCTTTTGTAA
Statistics
Matches: 178, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
57 4 0.02
58 165 0.93
59 9 0.05
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (58 bp):
AATAAATAGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAATTTTATAAGGAA
Found at i:2316026 original size:116 final size:115
Alignment explanation
Indices: 2315820--2316094 Score: 338
Period size: 116 Copynumber: 2.4 Consensus size: 115
2315810 GAGAGAGAGG
* * * * * * *
2315820 AATAAATCGTTGAATTTATTTTCTTAAGAATCTTAAATGATTATAATTTTGTAAGGAAAATAAAT
1 AATAAATTGTTAAATTTATTTTCTTAAGAATCTTAAATGATTCTAAATTTATAAGAAAAATAAAG
* * *
2315885 AGTTGAATTTATTTCATTGAGAATCTTGAATGATTCTAACTTTGT-AATGAA
66 AGTTGAATTCATTTCATTCAGAATCTCGAATGATTCTAACTTT-TAAATG-A
* * * * *
2315936 AATAAATTGTTTAAGTTATTTCCTTGAGAATCTTGAATGATTCTAAATTTATAAGAAAAATAAAG
1 AATAAATTGTTAAATTTATTTTCTTAAGAATCTTAAATGATTCTAAATTTATAAGAAAAATAAAG
* *
2316001 AGTTGAATTCATTTTC-TTCATAATCTCGAATGATTCTATCTTTTAAAATGA
66 AGTTGAATTCA-TTTCATTCAGAATCTCGAATGATTCTAACTTTT-AAATGA
*
2316052 AATAAATTGTTAAATTTATTTTCTTTAGAATCTTAAATGATTC
1 AATAAATTGTTAAATTTATTTTCTTAAGAATCTTAAATGATTC
2316095 CCTTTTGTAA
Statistics
Matches: 135, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
115 1 0.01
116 126 0.93
117 8 0.06
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (115 bp):
AATAAATTGTTAAATTTATTTTCTTAAGAATCTTAAATGATTCTAAATTTATAAGAAAAATAAAG
AGTTGAATTCATTTCATTCAGAATCTCGAATGATTCTAACTTTTAAATGA
Found at i:2316117 original size:47 final size:48
Alignment explanation
Indices: 2316063--2316167 Score: 133
Period size: 47 Copynumber: 2.2 Consensus size: 48
2316053 ATAAATTGTT
* *
2316063 AAATTTATTTTCTTTAGAATCTT-AAATGATTCCCTTTTGTAAAA-AGA
1 AAATTTATTTTCTTGAGAATCTTAAAAT-ATTCCATTTTGTAAAAGAGA
* *
2316110 AAATTTATTTTCTTGAGTATCTTAAAATATTCTATTTTGTAAAAGAGA
1 AAATTTATTTTCTTGAGAATCTTAAAATATTCCATTTTGTAAAAGAGA
*
2316158 ATAAATTATT
1 A-AATTTATT
2316168 AAATTTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
47 35 0.70
48 8 0.16
49 7 0.14
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (48 bp):
AAATTTATTTTCTTGAGAATCTTAAAATATTCCATTTTGTAAAAGAGA
Found at i:2316232 original size:43 final size:44
Alignment explanation
Indices: 2316151--2316233 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
2316141 CTATTTTGTA
* *
2316151 AAAGAGAATAAATTATTAAATTTATTTTTTTGAGAATCTTGAAT
1 AAAGAGAATAAATTATTAAATTTATTTTCTTGAAAATCTTGAAT
2316195 AAAGA-AATAAATTATTAAATTTATTTTCTT-ACAAATCTT
1 AAAGAGAATAAATTATTAAATTTATTTTCTTGA-AAATCTT
2316234 AAATGATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 1 0.03
43 30 0.83
44 5 0.14
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (44 bp):
AAAGAGAATAAATTATTAAATTTATTTTCTTGAAAATCTTGAAT
Found at i:2316345 original size:39 final size:39
Alignment explanation
Indices: 2316302--2316392 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
2316292 CAATCTTTGG
** *
2316302 ATTTATTTTCCTATTTTTTAAAATAAAATAAATTGTTGA
1 ATTTATTTTCCTATTTTGAAAAAGAAAATAAATTGTTGA
*
2316341 ATTTATTTTTCTATTTTGAAAAAGAAAATAAATTGTTGA
1 ATTTATTTTCCTATTTTGAAAAAGAAAATAAATTGTTGA
2316380 ATTTATTTTCCTA
1 ATTTATTTTCCTA
2316393 AGAATCTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (39 bp):
ATTTATTTTCCTATTTTGAAAAAGAAAATAAATTGTTGA
Found at i:2316497 original size:53 final size:52
Alignment explanation
Indices: 2316433--2316538 Score: 128
Period size: 53 Copynumber: 2.0 Consensus size: 52
2316423 AAATAAATTG
*
2316433 TTGGATCTA-TTT-TACTGTTTTGCAAAAGGAAATAAATCGTT-AGATTTATTTTC
1 TTGGATCTATTTTATACT-TTTT--AAAAGAAAATAAATCGTTGA-ATTTATTTTC
*
2316486 TTGGATTTATTTTCATACTTTTTAAAAGAAAATAAATCGTTGAATTTATTTTC
1 TTGGATCTATTTT-ATACTTTTTAAAAGAAAATAAATCGTTGAATTTATTTTC
2316539 CTGAAAATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
53 35 0.74
54 4 0.09
55 4 0.09
56 4 0.09
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.47
Consensus pattern (52 bp):
TTGGATCTATTTTATACTTTTTAAAAGAAAATAAATCGTTGAATTTATTTTC
Found at i:2323374 original size:50 final size:50
Alignment explanation
Indices: 2323314--2323423 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 50
2323304 TTAACAGAAA
* * * *
2323314 AGCGCCCCCCTTACACCGCGCTATA-TGCTGATTTGACGCCACGTGGGTAT
1 AGCGCGCCCCTTACACCGCGATATACAG-TGATCTGACGCCACGTGGGTAT
* *
2323364 AGCGCGCCCCTTACCCCGCGATATACAGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCTTACACCGCGATATACAGTGATCTGACGCCACGTGGGTAT
2323414 AGCGCGCCCC
1 AGCGCGCCCC
2323424 CTGATCCACG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.17, C:0.36, G:0.26, T:0.20
Consensus pattern (50 bp):
AGCGCGCCCCTTACACCGCGATATACAGTGATCTGACGCCACGTGGGTAT
Found at i:2324664 original size:50 final size:50
Alignment explanation
Indices: 2324556--2324666 Score: 159
Period size: 50 Copynumber: 2.2 Consensus size: 50
2324546 TAGCGCGGAT
* * * *
2324556 CAGGGGGCACGCTATACCCACGTGGCGCCAGATCACCTTATATCGCGGGG
1 CAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACCATATAACGCGGGG
* *
2324606 CAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAGCATATAACGCGGTG
1 CAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACCATATAACGCGGGG
*
2324656 TAGGGGGCGCG
1 CAGGGGGCGCG
2324667 TTTTTCTGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.21, C:0.30, G:0.35, T:0.14
Consensus pattern (50 bp):
CAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACCATATAACGCGGGG
Found at i:2325634 original size:2 final size:2
Alignment explanation
Indices: 2325627--2325752 Score: 252
Period size: 2 Copynumber: 63.0 Consensus size: 2
2325617 TTAACAAGCA
2325627 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2325669 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2325711 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2325753 TTTTATAACT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 124 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2332664 original size:23 final size:24
Alignment explanation
Indices: 2332620--2332665 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
2332610 TATATATATA
*
2332620 TAATAATATTACATATTTAATTAT
1 TAATAATATTACATATTAAATTAT
*
2332644 TAATAAT-TTATATATTAAATTA
1 TAATAATATTACATATTAAATTA
2332666 AACTAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TAATAATATTACATATTAAATTAT
Found at i:2335330 original size:17 final size:18
Alignment explanation
Indices: 2335293--2335334 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2335283 TTTTTTTTAA
*
2335293 AAAATAAAAGATTAGAAT
1 AAAATAAAAGATTAAAAT
2335311 AAAATAAAAGA-TAAAAT
1 AAAATAAAAGATTAAAAT
2335328 -AAATAAA
1 AAAATAAA
2335335 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.30
17 5 0.22
18 11 0.48
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (18 bp):
AAAATAAAAGATTAAAAT
Found at i:2336233 original size:53 final size:52
Alignment explanation
Indices: 2336136--2336238 Score: 127
Period size: 53 Copynumber: 2.0 Consensus size: 52
2336126 AATGAAAATA
* *
2336136 CTTAAACTATTTAAACTAAAATACTAAAAACAAAGATAAGATAAAATATAACT
1 CTTAAAATATTTAAACTAAAATACTAAAAACAAACATAAGATAAAA-ATAACT
* * * *
2336189 CTTAAAATATTTAAACTAAAATCCTAAAGATAAACAT-GGAATAAAAATAA
1 CTTAAAATATTTAAACTAAAATACTAAAAACAAACATAAG-ATAAAAATAA
2336239 TCCTAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
52 5 0.12
53 38 0.88
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (52 bp):
CTTAAAATATTTAAACTAAAATACTAAAAACAAACATAAGATAAAAATAACT
Found at i:2338193 original size:21 final size:21
Alignment explanation
Indices: 2338167--2338252 Score: 127
Period size: 21 Copynumber: 4.1 Consensus size: 21
2338157 GAAGAAGTGG
*
2338167 AAGTAGATGAATTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
**
2338188 AAGTAGAACAAGTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
*
2338209 AAGTAGATAAAGTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
*
2338230 AAATAGATGAAGTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
2338251 AA
1 AA
2338253 CTGTCTCTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (21 bp):
AAGTAGATGAAGTACCTTGGT
Found at i:2339804 original size:11 final size:10
Alignment explanation
Indices: 2339790--2339846 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
2339780 TATTTTTAAA
*
2339790 TTTTTTTCTC
1 TTTTTTTTTC
*
2339800 TTTTTTGTTCC
1 TTTTTT-TTTC
*
2339811 TTTTTATTTTA
1 TTTTT-TTTTC
*
2339822 TTTTATTTTC
1 TTTTTTTTTC
*
2339832 TTTTCTTTTC
1 TTTTTTTTTC
2339842 TTTTT
1 TTTTT
2339847 GATGAAAAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 23 0.62
11 13 0.35
12 1 0.03
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:2347834 original size:15 final size:15
Alignment explanation
Indices: 2347814--2347843 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2347804 AGCTAGCTGT
2347814 CTTGGGTTTACCTGG
1 CTTGGGTTTACCTGG
2347829 CTTGGGTTTACCTGG
1 CTTGGGTTTACCTGG
2347844 ATAATACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.33, T:0.40
Consensus pattern (15 bp):
CTTGGGTTTACCTGG
Found at i:2349807 original size:37 final size:37
Alignment explanation
Indices: 2349717--2349821 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
2349707 CCTTTTCGTC
* *
2349717 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
2349754 TTGCTAAGATTCAAACTCTTAAAAATAGGATAGAGTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
2349791 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
2349822 CCACAAGCAT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.32
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:2350272 original size:22 final size:24
Alignment explanation
Indices: 2350238--2350284 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
2350228 TATATATATA
2350238 TATTTAATTATATTTTATTT-ATT
1 TATTTAATTATATTTTATTTCATT
*
2350261 TATTT-ATTATATTTTTTTTCATT
1 TATTTAATTATATTTTATTTCATT
2350284 T
1 T
2350285 TTCTTTACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTTAATTATATTTTATTTCATT
Found at i:2350574 original size:17 final size:17
Alignment explanation
Indices: 2350533--2350571 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
2350523 ATACATACAT
2350533 TTTTA-TATTTTATATA
1 TTTTATTATTTTATATA
2350549 TTTTATTATTTTAT-TA
1 TTTTATTATTTTATATA
2350565 TTTTATT
1 TTTTATT
2350572 TATACCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTATTTTATATA
Found at i:2355370 original size:24 final size:23
Alignment explanation
Indices: 2355343--2355387 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2355333 CAAAAAGAAG
2355343 AAAACAAAAAAAAGAACAAAAATC
1 AAAA-AAAAAAAAGAACAAAAATC
* * *
2355367 AAAAATAAAAATGGACAAAAA
1 AAAAAAAAAAAAGAACAAAAA
2355388 AACACATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.78, C:0.09, G:0.07, T:0.07
Consensus pattern (23 bp):
AAAAAAAAAAAAGAACAAAAATC
Found at i:2356217 original size:23 final size:21
Alignment explanation
Indices: 2356191--2356253 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 21
2356181 TGAAAGAGAC
2356191 AATATTTTCAAAACTTTTGATT
1 AATATTTTCAAAACTTTT-ATT
*
2356213 AAATATTTTTCGAAACTCTTTATT
1 -AATA-TTTTCAAAACT-TTTATT
* *
2356237 GATATTTTCAGAACTTT
1 AATATTTTCAAAACTTT
2356254 GAAAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 9 0.26
23 7 0.21
24 13 0.38
25 3 0.09
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.49
Consensus pattern (21 bp):
AATATTTTCAAAACTTTTATT
Found at i:2357094 original size:106 final size:106
Alignment explanation
Indices: 2356972--2358136 Score: 1866
Period size: 106 Copynumber: 11.0 Consensus size: 106
2356962 GTGCCACTAG
* * * *
2356972 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
2357037 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
2357078 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
2357143 CAGAGCCAATTTCAACTTCAC-GACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTCC
* * * *
2357184 AGACAACGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
2357249 CAGAGCCAATTTCAACTTCACAGCGAAGAATATTAGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
2357290 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
2357355 CAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
2357396 AGACAACGCAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
2357461 CATAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
2357502 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
2357567 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
2357608 AGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
2357673 CGGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
2357714 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
2357779 CAGAGCCAATTTTAACTTCACAACGAAGGATATTAGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
2357820 AGACAACGCATGTTCAACTACACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
2357885 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
2357926 AGACAACGCAAGTTCGACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * * *
2357991 CGGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * * ** *
2358032 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCTGATTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
2358097 CAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
66 CAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
2358137 GGAACAATGC
Statistics
Matches: 985, Mismatches: 71, Indels: 6
0.93 0.07 0.01
Matches are distributed among these distances:
105 1 0.00
106 983 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
Found at i:2358975 original size:37 final size:37
Alignment explanation
Indices: 2358885--2358989 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
2358875 CCTTTTCGTC
*
2358885 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
2358922 TTGCTAGGATTCAAACTCTTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
2358959 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2358990 CCACAAGCAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:2359470 original size:2 final size:2
Alignment explanation
Indices: 2359447--2359511 Score: 105
Period size: 2 Copynumber: 32.5 Consensus size: 2
2359437 TCATTTTCTT
*
2359447 TA TA T- TA TA TA GTA TA TC TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2359489 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
2359512 TTTTATCTAT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.95
3 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2359641 original size:22 final size:21
Alignment explanation
Indices: 2359608--2359649 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
2359598 CTATAATTAC
2359608 TATTTTAGTTATATATGTATTT
1 TATTTTAGTTATATAT-TATTT
*
2359630 TATTTTCA-TTATTTATTATT
1 TATTTT-AGTTATATATTATT
2359650 ATTGTTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 13 0.72
23 1 0.06
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (21 bp):
TATTTTAGTTATATATTATTT
Found at i:2359709 original size:15 final size:16
Alignment explanation
Indices: 2359681--2359713 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2359671 TTATATATAC
*
2359681 ATACATTTTATATTTT
1 ATACATTATATATTTT
2359697 ATACATTAT-TATTTT
1 ATACATTATATATTTT
2359712 AT
1 AT
2359714 TATTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ATACATTATATATTTT
Found at i:2359885 original size:27 final size:27
Alignment explanation
Indices: 2359829--2359898 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
2359819 ATATATATTT
*
2359829 TTTTTTTATTTTATTTATTCAATTTCA
1 TTTTTTTATTTTATTTATCCAATTTCA
*
2359856 TTTTTTTATATTTGTTTCATCCAA-TT-A
1 TTTTTTTAT-TTTATTT-ATCCAATTTCA
*
2359883 TTTTGTTATTATTATT
1 TTTTTTTATT-TTATT
2359899 GGTTTCATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.03
27 22 0.61
28 8 0.22
29 5 0.14
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (27 bp):
TTTTTTTATTTTATTTATCCAATTTCA
Found at i:2363966 original size:13 final size:13
Alignment explanation
Indices: 2363948--2363975 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2363938 AATGCATCCA
2363948 TTTTAACTACACT
1 TTTTAACTACACT
2363961 TTTTAACTACACT
1 TTTTAACTACACT
2363974 TT
1 TT
2363976 GAGCATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAACTACACT
Found at i:2364875 original size:63 final size:62
Alignment explanation
Indices: 2364796--2364961 Score: 164
Period size: 61 Copynumber: 2.7 Consensus size: 62
2364786 ACCTTCATTG
* * *
2364796 TTAAACATAAATTATATTATAATAGAAAAAAATTAATTTTTGATTGAAGTCC-ATCCAG-AC-AG
1 TTAAAAATTAATTATATTATAATA-AAAAAAATTAATTTTTGATTGAAGCCCAAT--AGAACTA-
2364858 T
62 T
* * *
2364859 TTAAAAATTAATTATATTATAAT--AAAAAATAAATTTTTGGTTTGAGGCCCAATAGAACTAT
1 TTAAAAATTAATTATATTATAATAAAAAAAATTAATTTTT-GATTGAAGCCCAATAGAACTAT
*
2364920 TTAAAAATTAATTATATTATAATATAAAATTAATT-ATTTTTG
1 TTAAAAATTAATTATATTATAATA-AAAA-AAATTAATTTTTG
2364962 GTTTGGAGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 16
0.78 0.07 0.14
Matches are distributed among these distances:
60 16 0.18
61 34 0.39
62 3 0.03
63 22 0.25
64 9 0.10
65 3 0.03
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (62 bp):
TTAAAAATTAATTATATTATAATAAAAAAAATTAATTTTTGATTGAAGCCCAATAGAACTAT
Found at i:2364927 original size:61 final size:64
Alignment explanation
Indices: 2364858--2365001 Score: 190
Period size: 64 Copynumber: 2.3 Consensus size: 64
2364848 ATCCAGACAG
2364858 TTTAAAAATTAATTATATTATAATA-AAAAATAA-ATTTTTGGTTT-GAGGCCCA-ATAGAACTA
1 TTTAAAAATTAATTATATTATAATATAAAAATAATATTTTTGGTTTGGAGGCCCACAT-GAACTA
* * *
2364919 TTTAAAAATTAATTATATTATAATATAAAATTAATTATTTTTGGTTTGGAGGTCCACCTGAACTA
1 TTTAAAAATTAATTATATTATAATATAAAAATAA-TATTTTTGGTTTGGAGGCCCACATGAACTA
* *
2364984 -TTAAAAGTTTATTATATT
1 TTTAAAAATTAATTATATT
2365002 GCAATAAATA
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
61 25 0.34
62 7 0.10
64 27 0.37
65 13 0.18
66 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (64 bp):
TTTAAAAATTAATTATATTATAATATAAAAATAATATTTTTGGTTTGGAGGCCCACATGAACTA
Found at i:2366055 original size:216 final size:217
Alignment explanation
Indices: 2365681--2366117 Score: 867
Period size: 216 Copynumber: 2.0 Consensus size: 217
2365671 TTAGTTCTTT
2365681 TTTCCATCCAATTTTGAATAACATACAAATATGTATATTTCATTACCCTATGAAAAAGTTTACCG
1 TTTCCATCCAATTTTGAATAACATACAAATATGTATATTTCATTACCCTATGAAAAAGTTTACCG
2365746 TCAAAGTCTTGTGTTTGTCCAAGAAAATAAGCTTATGGTTGAAAGAATACCATTTCTTTCCCGTT
66 TCAAAGTCTTGTGTTTGTCCAAGAAAATAAGCTTATGGTTGAAAGAATACCATTTCTTTCCCGTT
2365811 AATTTGGCACTTTATTAACCAAAAATTAATAATTTGGCACTTTAATTTCCA-TTTAGGTAGAATA
131 AATTTGGCACTTTATTAACCAAAAATTAATAATTTGGCACTTTAATTTCCATTTTAGGTAGAATA
2365875 TAAAATCAGGTAATCGTTCAGG
196 TAAAATCAGGTAATCGTTCAGG
2365897 TTTCCATCCAATTTTGAATAACATACAAATATGTATATTTCATTACCCTATGAAAAAGTTTACCG
1 TTTCCATCCAATTTTGAATAACATACAAATATGTATATTTCATTACCCTATGAAAAAGTTTACCG
2365962 TCAAAGTCTTGTGTTTGTCCAAGAAAATAAGCTTATGGTTGAAAGAATACCATTTCTTTCCCGTT
66 TCAAAGTCTTGTGTTTGTCCAAGAAAATAAGCTTATGGTTGAAAGAATACCATTTCTTTCCCGTT
2366027 AATTTGGCACTTTATTAACCAAAAATTAATAATTTGGCACTTTAATTTCCATTTTAGGTAGAATA
131 AATTTGGCACTTTATTAACCAAAAATTAATAATTTGGCACTTTAATTTCCATTTTAGGTAGAATA
2366092 TAAAATCAGGTAATCGTTCAGG
196 TAAAATCAGGTAATCGTTCAGG
2366114 TTTC
1 TTTC
2366118 AGTCAGATCC
Statistics
Matches: 220, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
216 181 0.82
217 39 0.18
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (217 bp):
TTTCCATCCAATTTTGAATAACATACAAATATGTATATTTCATTACCCTATGAAAAAGTTTACCG
TCAAAGTCTTGTGTTTGTCCAAGAAAATAAGCTTATGGTTGAAAGAATACCATTTCTTTCCCGTT
AATTTGGCACTTTATTAACCAAAAATTAATAATTTGGCACTTTAATTTCCATTTTAGGTAGAATA
TAAAATCAGGTAATCGTTCAGG
Found at i:2366722 original size:70 final size:70
Alignment explanation
Indices: 2366648--2366782 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 70
2366638 GATCAAATTG
* *
2366648 AAATATAAATAAGTAT-GGTCAATTTCATATA-AATATATAATTTTAAGGACTAAATTGAAGTAA
1 AAATATAAATAAGTATGGGCCAATTTCATATACAA-ATATAACTTTAAGGACTAAATTGAA-TAA
2366711 ATTGCAA
64 ATTGCAA
*
2366718 AAATATAAATAAGTATGGGCCAATTTTATATACAAATATAACTTTAAGGACTAAATTGAATAAAT
1 AAATATAAATAAGTATGGGCCAATTTCATATACAAATATAACTTTAAGGACTAAATTGAATAAAT
2366783 ATGAAATTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
70 21 0.35
71 37 0.62
72 2 0.03
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (70 bp):
AAATATAAATAAGTATGGGCCAATTTCATATACAAATATAACTTTAAGGACTAAATTGAATAAAT
TGCAA
Found at i:2366955 original size:23 final size:22
Alignment explanation
Indices: 2366904--2366956 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
2366894 AACAATTTTA
*
2366904 ATATAT-ATATATGATGAATGT
1 ATATATAATATATAATGAATGT
*
2366925 -TATGATAATATGATAATGCATGT
1 ATAT-ATAATAT-ATAATGAATGT
2366948 ATATATAAT
1 ATATATAAT
2366957 GTACATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 2 0.08
22 4 0.15
23 14 0.54
24 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.42
Consensus pattern (22 bp):
ATATATAATATATAATGAATGT
Found at i:2367011 original size:35 final size:33
Alignment explanation
Indices: 2366947--2367020 Score: 85
Period size: 35 Copynumber: 2.2 Consensus size: 33
2366937 ATAATGCATG
* * * *
2366947 TATATATAATGTACATTATACTTATATTATATA
1 TATATATAATGTAAATTATACATACATTATAAA
*
2366980 TATATATAATGTTAAACTTATGCATACATTATAAA
1 TATATATAATG-TAAA-TTATACATACATTATAAA
2367015 TATATA
1 TATATA
2367021 CTTATATACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 11 0.32
34 3 0.09
35 20 0.59
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (33 bp):
TATATATAATGTAAATTATACATACATTATAAA
Found at i:2367045 original size:2 final size:2
Alignment explanation
Indices: 2367040--2367099 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
2367030 ATTATACTTT
2367040 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2367080 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
2367100 AAAGTATATT
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2367229 original size:38 final size:38
Alignment explanation
Indices: 2367137--2367229 Score: 100
Period size: 38 Copynumber: 2.4 Consensus size: 38
2367127 TAATCAAAAA
* * * *
2367137 TAAAGTATACATTATATTTATAATGTATACATTATACT
1 TAAAGTATATAATATATATATAATCTATACATTATACT
*
2367175 TAATAGCA-ATATATATATATATAA-CTATACATTATACT
1 TAA-AGTATATA-ATATATATATAATCTATACATTATACT
2367213 TATAAGTATATAATATA
1 TA-AAGTATATAATATA
2367230 AGTATAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
38 28 0.62
39 17 0.38
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (38 bp):
TAAAGTATATAATATATATATAATCTATACATTATACT
Found at i:2367298 original size:14 final size:14
Alignment explanation
Indices: 2367281--2367311 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2367271 AATTACACGC
2367281 ATATAAGTATCTAT
1 ATATAAGTATCTAT
*
2367295 ATATAAGTATGTAT
1 ATATAAGTATCTAT
2367309 ATA
1 ATA
2367312 AGTATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (14 bp):
ATATAAGTATCTAT
Found at i:2367319 original size:20 final size:19
Alignment explanation
Indices: 2367294--2367417 Score: 71
Period size: 20 Copynumber: 6.6 Consensus size: 19
2367284 TAAGTATCTA
2367294 TATATAAGTATGTATATAAG
1 TATATAAGTAT-TATATAAG
*
2367314 TATATATA-AATATATATAAG
1 TATATA-AGTAT-TATATAAG
2367334 TATA-AAGTATTATACATAAG
1 TATATAAGTATTAT--ATAAG
* *
2367354 TATAT--GTA-CATATAAA
1 TATATAAGTATTATATAAG
* * * *
2367370 TATATATGTATGATGTATG
1 TATATAAGTATTATATAAG
* *
2367389 TACACAAGTA-TATATAAG
1 TATATAAGTATTATATAAG
*
2367407 TATATATGTAT
1 TATATAAGTAT
2367418 GATGTATATA
Statistics
Matches: 77, Mismatches: 18, Indels: 19
0.68 0.16 0.17
Matches are distributed among these distances:
16 9 0.12
18 21 0.27
19 17 0.22
20 29 0.38
21 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (19 bp):
TATATAAGTATTATATAAG
Found at i:2367357 original size:10 final size:10
Alignment explanation
Indices: 2367292--2367337 Score: 65
Period size: 10 Copynumber: 4.4 Consensus size: 10
2367282 TATAAGTATC
2367292 TATATATAAG
1 TATATATAAG
2367302 TATGTATATAAG
1 TA--TATATAAG
*
2367314 TATATATAAA
1 TATATATAAG
2367324 TATATATAAG
1 TATATATAAG
2367334 TATA
1 TATA
2367338 AAGTATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 22 0.69
12 10 0.31
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (10 bp):
TATATATAAG
Found at i:2367357 original size:26 final size:27
Alignment explanation
Indices: 2367281--2367376 Score: 83
Period size: 26 Copynumber: 3.5 Consensus size: 27
2367271 AATTACACGC
* *
2367281 ATATAAGTATCTATATATAAGTAT-GT
1 ATATAAGTATATATAAATAAGTATAGT
2367307 ATATAAGTATATATAAATATA-TATAAGT
1 ATATAAGTATATATAAATA-AGTAT-AGT
*
2367335 ATA-AAGTAT-TATACATAAGTATATGT
1 ATATAAGTATATATAAATAAGTATA-GT
*
2367361 ACATATAAATATATAT
1 --ATATAAGTATATAT
2367377 GTATGATGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
25 2 0.04
26 32 0.56
27 7 0.12
28 8 0.14
29 5 0.09
30 3 0.05
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (27 bp):
ATATAAGTATATATAAATAAGTATAGT
Found at i:2367448 original size:37 final size:38
Alignment explanation
Indices: 2367365--2367450 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 38
2367355 ATATGTACAT
* *
2367365 ATAA-ATATATATGTATGATGTATGTACACAAGTATAT
1 ATAAGATATATATGTATGATGTATATACACAAGTATAC
*
2367402 ATAAG-TATATATGTATGATGTATATA-ACTA-TATAC
1 ATAAGATATATATGTATGATGTATATACACAAGTATAC
2367437 ATAAGTATATATAT
1 ATAAG-ATATATAT
2367451 ATATATATCA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
35 9 0.21
36 3 0.07
37 31 0.72
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (38 bp):
ATAAGATATATATGTATGATGTATATACACAAGTATAC
Found at i:2368812 original size:2 final size:2
Alignment explanation
Indices: 2368805--2368889 Score: 135
Period size: 2 Copynumber: 45.0 Consensus size: 2
2368795 ACTCACGTGA
2368805 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2368845 AT AT AT AT AT AT -T AT AT AT AT AT AT -T A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2368884 AT AT AT
1 AT AT AT
2368890 TATTTTAAAG
Statistics
Matches: 78, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
1 5 0.06
2 73 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2369319 original size:79 final size:79
Alignment explanation
Indices: 2369164--2369320 Score: 244
Period size: 79 Copynumber: 2.0 Consensus size: 79
2369154 TTATTAATTT
* * * *
2369164 AATTATCATAACTAACAATTTGTTTTAACTTTTAAAGAGTAGTCATATTAATTATCATAGTTTAT
1 AATTATCATAACTAACAAATTGTTTTAACTTTTAAAAAGTAATCATATTAATTATCATAATTTAT
*
2369229 TTAATTGTCAAAAA
66 TTAAATGTCAAAAA
*
2369243 AATTATTATAACTAACAAATTGTTTTAACTTTTAAAAAGTAATCATATTAATTATCATAATTTAT
1 AATTATCATAACTAACAAATTGTTTTAACTTTTAAAAAGTAATCATATTAATTATCATAATTTAT
2369308 TATAAAT-TCAAAA
66 T-TAAATGTCAAAA
2369321 TCTTAAAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
79 67 0.94
80 4 0.06
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (79 bp):
AATTATCATAACTAACAAATTGTTTTAACTTTTAAAAAGTAATCATATTAATTATCATAATTTAT
TTAAATGTCAAAAA
Found at i:2369366 original size:15 final size:16
Alignment explanation
Indices: 2369346--2369378 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2369336 AATTGTAACT
2369346 TATAAG-TCAGTTAAA
1 TATAAGTTCAGTTAAA
*
2369361 TATAAGTTCAGTTTAA
1 TATAAGTTCAGTTAAA
2369377 TA
1 TA
2369379 ACAGGTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (16 bp):
TATAAGTTCAGTTAAA
Found at i:2371134 original size:17 final size:19
Alignment explanation
Indices: 2371102--2371136 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2371092 AAACTTTATT
2371102 AAATATATATATAAATTAG
1 AAATATATATATAAATTAG
2371121 AAATA-ATATA-AAATTA
1 AAATATATATATAAATTA
2371137 TATTAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATATATATATAAATTAG
Found at i:2372477 original size:28 final size:30
Alignment explanation
Indices: 2372446--2372504 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
2372436 AATTATTTTG
2372446 AATTAT-ATATTAAT-AAAATAATG-ATAAA
1 AATTATCAT-TTAATAAAAATAATGAATAAA
* *
2372474 AATTGTCATTTCATAAAAATAATGAATAAA
1 AATTATCATTTAATAAAAATAATGAATAAA
2372504 A
1 A
2372505 TAAATTAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 9 0.35
29 11 0.42
30 6 0.23
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (30 bp):
AATTATCATTTAATAAAAATAATGAATAAA
Found at i:2375767 original size:30 final size:30
Alignment explanation
Indices: 2375727--2375807 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 30
2375717 ATGTGAAATC
*
2375727 TATGTTCCGAAGAACATAG-ATACCTGTCCA
1 TATGTTCCGAAGGACATAGAATA-CTGTCCA
*
2375757 TATGTCCCGAAGGACATAGGTAATACTGTCCA
1 TATGTTCCGAAGGACATA-G-AATACTGTCCA
2375789 TATGTTCCGAAGGACATAG
1 TATGTTCCGAAGGACATAG
2375808 GTAACCCTCG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
30 16 0.36
31 2 0.04
32 24 0.53
33 3 0.07
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (30 bp):
TATGTTCCGAAGGACATAGAATACTGTCCA
Found at i:2375791 original size:32 final size:32
Alignment explanation
Indices: 2375750--2375811 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
2375740 ACATAGATAC
2375750 CTGTCCATATGTCCCGAAGGACATAGGTAATA
1 CTGTCCATATGTCCCGAAGGACATAGGTAATA
*
2375782 CTGTCCATATGTTCCGAAGGACATAGGTAA
1 CTGTCCATATGTCCCGAAGGACATAGGTAA
2375812 CCCTCGACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (32 bp):
CTGTCCATATGTCCCGAAGGACATAGGTAATA
Found at i:2380743 original size:30 final size:32
Alignment explanation
Indices: 2380707--2380792 Score: 122
Period size: 32 Copynumber: 2.8 Consensus size: 32
2380697 GAAGGACCTA
* *
2380707 TCCATATGTTCTGAAGAACATAGGT-AT-CTG
1 TCCATATGTTCCGAAGGACATAGGTAATACTG
*
2380737 TCCATATGTCCCGAAGGACATAGGTAATACTG
1 TCCATATGTTCCGAAGGACATAGGTAATACTG
*
2380769 TCTATATGTTCCGAAGGACATAGG
1 TCCATATGTTCCGAAGGACATAGG
2380793 CAACCCTCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
30 22 0.45
31 2 0.04
32 25 0.51
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (32 bp):
TCCATATGTTCCGAAGGACATAGGTAATACTG
Found at i:2382932 original size:16 final size:16
Alignment explanation
Indices: 2382911--2382950 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2382901 AATTATTTTA
2382911 TTATTTTTTTGAAA-TT
1 TTATTTTTTT-AAAGTT
*
2382927 TTATTTTGTTAAAGTT
1 TTATTTTTTTAAAGTT
2382943 TTATTTTT
1 TTATTTTT
2382951 AATGGACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTATTTTTTTAAAGTT
Found at i:2383644 original size:80 final size:80
Alignment explanation
Indices: 2383545--2383708 Score: 274
Period size: 80 Copynumber: 2.0 Consensus size: 80
2383535 CTATTTTATA
* * *
2383545 TATTAAATATGATTTTAATATAAATTATTCTTAAAATTTTTATGTTTATTAGGATTAGATTCTAT
1 TATTAAATATGATTTTAATATAAATTATTATTAAAATTTTTATGTTTAATAGGATTAAATTCTAT
2383610 ATAACTACTACTCTT
66 ATAACTACTACTCTT
2383625 TATTAAATATGATTTTAATATAAATTATTATTAAAATTTTTATGTTTAATAGGATTAAATTCTAT
1 TATTAAATATGATTTTAATATAAATTATTATTAAAATTTTTATGTTTAATAGGATTAAATTCTAT
* * *
2383690 ATGATTACTCCTCTT
66 ATAACTACTACTCTT
2383705 TATT
1 TATT
2383709 TATATAAATA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.51
Consensus pattern (80 bp):
TATTAAATATGATTTTAATATAAATTATTATTAAAATTTTTATGTTTAATAGGATTAAATTCTAT
ATAACTACTACTCTT
Found at i:2389789 original size:60 final size:60
Alignment explanation
Indices: 2389686--2389805 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
2389676 TTCCATGATG
* * * * * * *
2389686 TCGACATTTAGGTAGAACAAGCTGGTAGTTGCATGTCTTCCCCTTGAACTTGAAGGCATC
1 TCGACATTTAGGTAGAAAAAGCTCGCAGTTGAATGCCTCCCCCTGGAACTTGAAGGCATC
* *
2389746 TCGACATTTAGGTCGAAAAAGCTCGCAGTTGAATGCCTCCCCCTGGAGCTTGAAGGCATC
1 TCGACATTTAGGTAGAAAAAGCTCGCAGTTGAATGCCTCCCCCTGGAACTTGAAGGCATC
2389806 GTGTCAAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (60 bp):
TCGACATTTAGGTAGAAAAAGCTCGCAGTTGAATGCCTCCCCCTGGAACTTGAAGGCATC
Found at i:2393166 original size:419 final size:419
Alignment explanation
Indices: 2392388--2393224 Score: 1674
Period size: 419 Copynumber: 2.0 Consensus size: 419
2392378 TGGTATGAGC
2392388 TATAGATGCAAAGTTAATGCAAATCATAGAGCTACACCTAAACATGTCACATGAAGAATCAATAT
1 TATAGATGCAAAGTTAATGCAAATCATAGAGCTACACCTAAACATGTCACATGAAGAATCAATAT
2392453 AGAAAAAGGGTTTTCATCTTTTATAGCTTTATAGATGCATGGTAAGTCCGAGAGCTTGTGAACTT
66 AGAAAAAGGGTTTTCATCTTTTATAGCTTTATAGATGCATGGTAAGTCCGAGAGCTTGTGAACTT
2392518 GAGTTGGTTTGGAGTTCTTGATCTCTTTAACTATTTGGTTTGTTTTTTTGTTTATTAGTCAGGAT
131 GAGTTGGTTTGGAGTTCTTGATCTCTTTAACTATTTGGTTTGTTTTTTTGTTTATTAGTCAGGAT
2392583 ATATCTTTTGAATGGGGACTGATACTATCGAAGTTCTGGAGACTCCGTCTTATTCCTATCATAGT
196 ATATCTTTTGAATGGGGACTGATACTATCGAAGTTCTGGAGACTCCGTCTTATTCCTATCATAGT
2392648 ACCTTTAAGGTACAATTGCTAAGAATGGTTCTCTATTTCTGTTTTAATATGGAATTTGAATATGA
261 ACCTTTAAGGTACAATTGCTAAGAATGGTTCTCTATTTCTGTTTTAATATGGAATTTGAATATGA
2392713 GTTACTATATTGGGCCTGCAGCCTATGTATTTGAACAAAATATATTTTTACTATAATATTTGCAT
326 GTTACTATATTGGGCCTGCAGCCTATGTATTTGAACAAAATATATTTTTACTATAATATTTGCAT
2392778 TTCAAACTATAGTTGTGTAGTTTGATTGG
391 TTCAAACTATAGTTGTGTAGTTTGATTGG
2392807 TATAGATGCAAAGTTAATGCAAATCATAGAGCTACACCTAAACATGTCACATGAAGAATCAATAT
1 TATAGATGCAAAGTTAATGCAAATCATAGAGCTACACCTAAACATGTCACATGAAGAATCAATAT
2392872 AGAAAAAGGGTTTTCATCTTTTATAGCTTTATAGATGCATGGTAAGTCCGAGAGCTTGTGAACTT
66 AGAAAAAGGGTTTTCATCTTTTATAGCTTTATAGATGCATGGTAAGTCCGAGAGCTTGTGAACTT
2392937 GAGTTGGTTTGGAGTTCTTGATCTCTTTAACTATTTGGTTTGTTTTTTTGTTTATTAGTCAGGAT
131 GAGTTGGTTTGGAGTTCTTGATCTCTTTAACTATTTGGTTTGTTTTTTTGTTTATTAGTCAGGAT
2393002 ATATCTTTTGAATGGGGACTGATACTATCGAAGTTCTGGAGACTCCGTCTTATTCCTATCATAGT
196 ATATCTTTTGAATGGGGACTGATACTATCGAAGTTCTGGAGACTCCGTCTTATTCCTATCATAGT
2393067 ACCTTTAAGGTACAATTGCTAAGAATGGTTCTCTATTTCTGTTTTAATATGGAATTTGAATATGA
261 ACCTTTAAGGTACAATTGCTAAGAATGGTTCTCTATTTCTGTTTTAATATGGAATTTGAATATGA
2393132 GTTACTATATTGGGCCTGCAGCCTATGTATTTGAACAAAATATATTTTTACTATAATATTTGCAT
326 GTTACTATATTGGGCCTGCAGCCTATGTATTTGAACAAAATATATTTTTACTATAATATTTGCAT
2393197 TTCAAACTATAGTTGTGTAGTTTGATTG
391 TTCAAACTATAGTTGTGTAGTTTGATTG
2393225 TTACCTAGTG
Statistics
Matches: 418, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
419 418 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (419 bp):
TATAGATGCAAAGTTAATGCAAATCATAGAGCTACACCTAAACATGTCACATGAAGAATCAATAT
AGAAAAAGGGTTTTCATCTTTTATAGCTTTATAGATGCATGGTAAGTCCGAGAGCTTGTGAACTT
GAGTTGGTTTGGAGTTCTTGATCTCTTTAACTATTTGGTTTGTTTTTTTGTTTATTAGTCAGGAT
ATATCTTTTGAATGGGGACTGATACTATCGAAGTTCTGGAGACTCCGTCTTATTCCTATCATAGT
ACCTTTAAGGTACAATTGCTAAGAATGGTTCTCTATTTCTGTTTTAATATGGAATTTGAATATGA
GTTACTATATTGGGCCTGCAGCCTATGTATTTGAACAAAATATATTTTTACTATAATATTTGCAT
TTCAAACTATAGTTGTGTAGTTTGATTGG
Found at i:2397141 original size:16 final size:16
Alignment explanation
Indices: 2397120--2397158 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
2397110 ATATCTTATT
*
2397120 TCTTACCTGATATGTG
1 TCTTACCTAATATGTG
2397136 TCTTACCTAATATGTG
1 TCTTACCTAATATGTG
2397152 TCTTACC
1 TCTTACC
2397159 AAAGATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (16 bp):
TCTTACCTAATATGTG
Found at i:2397169 original size:16 final size:16
Alignment explanation
Indices: 2397131--2397169 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2397121 CTTACCTGAT
* *
2397131 ATGTGTCTTACCTAAT
1 ATGTGTCTTACCAAAG
2397147 ATGTGTCTTACCAAAG
1 ATGTGTCTTACCAAAG
*
2397163 ATTTGTC
1 ATGTGTC
2397170 AGATTCGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (16 bp):
ATGTGTCTTACCAAAG
Found at i:2397598 original size:8 final size:8
Alignment explanation
Indices: 2397565--2397613 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
2397555 AGAGAAAAAG
2397565 AAAAATAA
1 AAAAATAA
*
2397573 AGATAAAGAA
1 A-A-AAATAA
2397583 AAAAATAA
1 AAAAATAA
*
2397591 ACAAATAA
1 AAAAATAA
2397599 ATAAAATAA
1 A-AAAATAA
2397608 AAAAAT
1 AAAAAT
2397614 GGTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 19 0.56
9 9 0.26
10 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:2399935 original size:43 final size:43
Alignment explanation
Indices: 2399874--2399995 Score: 183
Period size: 43 Copynumber: 2.8 Consensus size: 43
2399864 ATGCTGCTGA
*
2399874 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGG-TTATGTGGG
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATT-TGTAGG
* * *
2399917 CACGATATCCTCCATCGTGGAGTTGAAATCGTGGATTTGTAGG
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATTTGTAGG
*
2399960 CACGATATCCTTCGTCATGAAGTTGAAATCGTGGAT
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGAT
2399996 GACCCATTCG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 68 0.97
44 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATTTGTAGG
Found at i:2403613 original size:21 final size:21
Alignment explanation
Indices: 2403578--2403638 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
2403568 AGAACCCATT
* *
2403578 GGGGGTATCGATTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
2403598 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGGTTCCC--TCAAA
2403622 GGGGGAATCGGTTCCCT
1 GGGGGAATCGGTTCCCT
2403639 TATGGGGGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
23 16 0.46
24 4 0.11
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:2409703 original size:88 final size:88
Alignment explanation
Indices: 2409543--2409722 Score: 254
Period size: 88 Copynumber: 2.0 Consensus size: 88
2409533 ATTGTATAAA
* * * *
2409543 TATTCTAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCATTTAACTAATTT
1 TATTCTAATCACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCGGGACATTTAACCAATTG
2409608 CTCTATAGGGACAACTCAAGCTT
66 CTCTATAGGGACAACTCAAGCTT
* * * * *
2409631 TATTCTAATCACGC-TTATCAGGTTAGCTAAATCTTATTCATAAAGCTGGGACGTTTAACCAATT
1 TATTCTAATCAC-CTTTATCAGGCTAGCTAAATATTATCCATAAAGCCGGGACATTTAACCAATT
*
2409695 GCTTTATAGGGACAACTCAAGCTT
65 GCTCTATAGGGACAACTCAAGCTT
2409719 TATT
1 TATT
2409723 GTATATATAT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 80 0.99
89 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (88 bp):
TATTCTAATCACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCGGGACATTTAACCAATTG
CTCTATAGGGACAACTCAAGCTT
Found at i:2413427 original size:18 final size:18
Alignment explanation
Indices: 2413368--2413436 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
2413358 TATAAGGAAA
* *
2413368 AAAATAAAAAAAATAATT
1 AAAATAAAAATAATAATC
* *
2413386 ATAATAATAATAATAA-C
1 AAAATAAAAATAATAATC
* *
2413403 AGTAATAAAAATAATAATG
1 A-AAATAAAAATAATAATC
*
2413422 AAAATAAAAAGAATA
1 AAAATAAAAATAATA
2413437 CATATATATA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAAAAATAATAATC
Found at i:2413510 original size:21 final size:22
Alignment explanation
Indices: 2413446--2413511 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 22
2413436 ACATATATAT
* *
2413446 ATATATATAATAGAA-ATCAGA
1 ATATATATAATAGAATATGAAA
* *
2413467 ATATATAT-ATATAATAAGGGAAA
1 ATATATATAATAGAAT-A-TGAAA
2413490 ATATATATAATA-AATATGAAA
1 ATATATATAATAGAATATGAAA
2413511 A
1 A
2413512 AGGGTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
20 5 0.14
21 13 0.36
22 2 0.06
23 13 0.36
24 3 0.08
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (22 bp):
ATATATATAATAGAATATGAAA
Found at i:2414588 original size:2 final size:2
Alignment explanation
Indices: 2414581--2414642 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
2414571 AAATAAATAC
2414581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2414623 AT AT AT AT -T AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
2414643 GTTTGTAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2426152 original size:23 final size:23
Alignment explanation
Indices: 2426094--2426153 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
2426084 ATATTTGCTA
2426094 AATTTAAATATTAATATTAAGGT
1 AATTTAAATATTAATATTAAGGT
* * *
2426117 TATGT-AATATTAATATTTATGG-
1 AATTTAAATATTAATA-TTAAGGT
2426139 AATTTAAATATTAAT
1 AATTTAAATATTAAT
2426154 TCAAAATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 13 0.43
23 17 0.57
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (23 bp):
AATTTAAATATTAATATTAAGGT
Found at i:2430985 original size:69 final size:69
Alignment explanation
Indices: 2430847--2431033 Score: 203
Period size: 69 Copynumber: 2.7 Consensus size: 69
2430837 CGTGACTTTC
* * * * * * * * *
2430847 TTCTTGGACCCCATGTGAGTTGCCAACACAACCACTCCCAATATTTATATTTGTCGCACCTTCAT
1 TTCTTGGACCCCATGTGAGCTACCAACACAACCACCCCCAATATATATAATTGCCACACCATCAC
2430912 AATT
66 AATT
* * * *
2430916 TTCTTGGACCCCATGTGAGCTACCATCACCACTACCCCCATTATATATAATTGCCACACCATCAC
1 TTCTTGGACCCCATGTGAGCTACCAACACAACCACCCCCAATATATATAATTGCCACACCATCAC
2430981 AATT
66 AATT
* * * * * *
2430985 TCCTTGGACCCCATGTGAGTTGCCAACACAACCACTCCCATTATTTATA
1 TTCTTGGACCCCATGTGAGCTACCAACACAACCACCCCCAATATATATA
2431034 TTTTTCGCAT
Statistics
Matches: 97, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 97 1.00
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.30
Consensus pattern (69 bp):
TTCTTGGACCCCATGTGAGCTACCAACACAACCACCCCCAATATATATAATTGCCACACCATCAC
AATT
Found at i:2439802 original size:59 final size:58
Alignment explanation
Indices: 2439709--2439850 Score: 205
Period size: 59 Copynumber: 2.4 Consensus size: 58
2439699 ACGGCGCAGG
* * *
2439709 GCCCCAAAAAA-AGGGGTCCCAAAATCGAGTATATCTATCAGTTGTTGTCATTAAGAA
1 GCCCAAAAAAATAGGGGCCCCAAAATCGAGTATATCTATCAGTTGCTGTCATTAAGAA
*
2439766 GCTCCAAAAAAATAGGGGCCCCGAAATCGAGTATATCTATCAGTTGCTGTCATTAAGAA
1 GC-CCAAAAAAATAGGGGCCCCAAAATCGAGTATATCTATCAGTTGCTGTCATTAAGAA
* * *
2439825 GCCCCAAAAAATAGGGACCCAAAAAT
1 GCCCAAAAAAATAGGGGCCCCAAAAT
2439851 AAATTCGAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
57 2 0.03
58 28 0.37
59 45 0.60
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (58 bp):
GCCCAAAAAAATAGGGGCCCCAAAATCGAGTATATCTATCAGTTGCTGTCATTAAGAA
Found at i:2441362 original size:313 final size:313
Alignment explanation
Indices: 2440794--2441419 Score: 1243
Period size: 313 Copynumber: 2.0 Consensus size: 313
2440784 AACTGCATTC
2440794 ATAAGGTCTTACCCTAAGCACACAACAAAGGAGCCACCCTAAGGGAGTACCTTGGGGTCTGTGGG
1 ATAAGGTCTTACCCTAAGCACACAACAAAGGAGCCACCCTAAGGGAGTACCTTGGGGTCTGTGGG
2440859 CCTACCCAAGGGTCTCCTTAGGTCCGTAAGGAATTACCAACTTGATCAGAATTAAACCTCCATAC
66 CCTACCCAAGGGTCTCCTTAGGTCCGTAAGGAATTACCAACTTGATCAGAATTAAACCTCCATAC
2440924 TCCAGAATCCTACCCATACAGTATCCAGTAGAAATCAGATTTAACAATATATTGTAATATCAGGA
131 TCCAGAATCCTACCCATACAGTATCCAGTAGAAATCAGATTTAACAATATATTGTAATATCAGGA
*
2440989 TCGTGATCTAGTAAAATCTCATAAGAGTGACAATTAAATAAACCACATTACTGCCCTCCACCCAT
196 TCGTGATCTAGTAAAATCTCATAAGAGTGACAATAAAATAAACCACATTACTGCCCTCCACCCAT
2441054 ACACCATATGCAATCCCAAGATTTACCCAAGGTGGTGCCTTGGGGCCTGAGAG
261 ACACCATATGCAATCCCAAGATTTACCCAAGGTGGTGCCTTGGGGCCTGAGAG
2441107 ATAAGGTCTTACCCTAAGCACACAACAAAGGAGCCACCCTAAGGGAGTACCTTGGGGTCTGTGGG
1 ATAAGGTCTTACCCTAAGCACACAACAAAGGAGCCACCCTAAGGGAGTACCTTGGGGTCTGTGGG
2441172 CCTACCCAAGGGTCTCCTTAGGTCCGTAAGGAATTACCAACTTGATCAGAATTAAACCTCCATAC
66 CCTACCCAAGGGTCTCCTTAGGTCCGTAAGGAATTACCAACTTGATCAGAATTAAACCTCCATAC
2441237 TCCAGAATCCTACCCATACAGTATCCAGTAGAAATCAGATTTAACAATATATTGTAATATCAGGA
131 TCCAGAATCCTACCCATACAGTATCCAGTAGAAATCAGATTTAACAATATATTGTAATATCAGGA
2441302 TCGTGATCTAGTAAAATCTCATAAGAGTGACAATAAAATAAACCACATTACTGCCCTCCACCCAT
196 TCGTGATCTAGTAAAATCTCATAAGAGTGACAATAAAATAAACCACATTACTGCCCTCCACCCAT
2441367 ACACCATATGCAATCCCAAGATTTACCCAAGGTGGTGCCTTGGGGCCTGAGAG
261 ACACCATATGCAATCCCAAGATTTACCCAAGGTGGTGCCTTGGGGCCTGAGAG
2441420 CCTACCCAAG
Statistics
Matches: 312, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
313 312 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (313 bp):
ATAAGGTCTTACCCTAAGCACACAACAAAGGAGCCACCCTAAGGGAGTACCTTGGGGTCTGTGGG
CCTACCCAAGGGTCTCCTTAGGTCCGTAAGGAATTACCAACTTGATCAGAATTAAACCTCCATAC
TCCAGAATCCTACCCATACAGTATCCAGTAGAAATCAGATTTAACAATATATTGTAATATCAGGA
TCGTGATCTAGTAAAATCTCATAAGAGTGACAATAAAATAAACCACATTACTGCCCTCCACCCAT
ACACCATATGCAATCCCAAGATTTACCCAAGGTGGTGCCTTGGGGCCTGAGAG
Found at i:2441748 original size:96 final size:96
Alignment explanation
Indices: 2441561--2441735 Score: 224
Period size: 96 Copynumber: 1.8 Consensus size: 96
2441551 TTCAAGTAGT
* * ** *
2441561 AACCAGTAGATTCCATGATCCATAAATCAGGAATGATTATATTTTCTAATGAAAACAAGAAACCA
1 AACCAGTAGATTACATGATCCATAAATCAAGAACAATTATATTTTCCAATGAAAACAAGAAACCA
* * * * *
2441626 TATAACACGTTTTAGGAAACCATAGTTTATA
66 GAGAACACATATCAGGAAACCATAGTTTATA
* * *
2441657 AACCAGTAGATTACATGATCCATAAATCAAGAACAATTATATTTTCCAGTGAAAATAGGAAACCA
1 AACCAGTAGATTACATGATCCATAAATCAAGAACAATTATATTTTCCAATGAAAACAAGAAACCA
*
2441722 GAGGACACATATCA
66 GAGAACACATATCA
2441736 TGTAGACATA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
96 65 1.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (96 bp):
AACCAGTAGATTACATGATCCATAAATCAAGAACAATTATATTTTCCAATGAAAACAAGAAACCA
GAGAACACATATCAGGAAACCATAGTTTATA
Found at i:2443417 original size:32 final size:34
Alignment explanation
Indices: 2443381--2443457 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 34
2443371 ATCTTTATAA
2443381 TTATCTTATAATTATTATT-TATTA-TTTTACCC
1 TTATCTTATAATTATTATTATATTATTTTTACCC
* * *
2443413 TTATCTT-T-ATT-TTATTATTTTATTTTTATCT
1 TTATCTTATAATTATTATTATATTATTTTTACCC
2443444 TTATCTTA-AATTAT
1 TTATCTTATAATTAT
2443458 ATCTTCTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 5 0.14
30 7 0.19
31 14 0.38
32 10 0.27
33 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (34 bp):
TTATCTTATAATTATTATTATATTATTTTTACCC
Found at i:2446272 original size:6 final size:6
Alignment explanation
Indices: 2446261--2446315 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
2446251 AATTTGTTCA
* * * * *
2446261 ATTTTT ATTTTT ATTTTC AATTTT ATTTTT CTGATTT ATTTTT GTTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT-TTTT ATTTTT ATTTTT
2446310 ATTTTT
1 ATTTTT
2446316 CTTTGATTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:2446298 original size:25 final size:25
Alignment explanation
Indices: 2446270--2446317 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2446260 AATTTTTATT
2446270 TTTATTTTCAATTTTATTTTTCTGA
1 TTTATTTTCAATTTTATTTTTCTGA
***
2446295 TTTATTTTTGTTTTTATTTTTCT
1 TTTATTTTCAATTTTATTTTTCT
2446318 TTGATTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTATTTTCAATTTTATTTTTCTGA
Found at i:2446530 original size:28 final size:28
Alignment explanation
Indices: 2446490--2446548 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
2446480 TACACTATTT
2446490 GAACAGTGCAGAAAAACTGATTTGGTTC
1 GAACAGTGCAGAAAAACTGATTTGGTTC
*
2446518 GAACAGTGCAGAAAAACTGATTTGTTTC
1 GAACAGTGCAGAAAAACTGATTTGGTTC
2446546 GAA
1 GAA
2446549 TAATGCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (28 bp):
GAACAGTGCAGAAAAACTGATTTGGTTC
Found at i:2446555 original size:28 final size:28
Alignment explanation
Indices: 2446490--2446555 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
2446480 TACACTATTT
*
2446490 GAACAGTGCAGAAAAACTGATTTGGTTC
1 GAACAATGCAGAAAAACTGATTTGGTTC
* *
2446518 GAACAGTGCAGAAAAACTGATTTGTTTC
1 GAACAATGCAGAAAAACTGATTTGGTTC
*
2446546 GAATAATGCA
1 GAACAATGCA
2446556 AAATAATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (28 bp):
GAACAATGCAGAAAAACTGATTTGGTTC
Found at i:2446707 original size:35 final size:35
Alignment explanation
Indices: 2446668--2446744 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
2446658 ATACAGTGCA
* * *
2446668 AAAAAAACAGCAGTATAATTTTGGTTTAAACAATT
1 AAAAAAACAGCAGTACAATTTTGGTTCAAACAATG
* *
2446703 AAAAAAATAGCAGTACAATTTTGGTTCGAACAATG
1 AAAAAAACAGCAGTACAATTTTGGTTCAAACAATG
2446738 AAAAAAA
1 AAAAAAA
2446745 AAAGAGAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (35 bp):
AAAAAAACAGCAGTACAATTTTGGTTCAAACAATG
Found at i:2448693 original size:70 final size:70
Alignment explanation
Indices: 2448593--2448726 Score: 211
Period size: 70 Copynumber: 1.9 Consensus size: 70
2448583 TATTATATTA
2448593 TATTTTATCTTATCTTTGTTTTAGGTATTTTAATTTAAATAGTTTTAAGTATTTTAATTAGGATT
1 TATTTTATCTTATCTTTGTTTTAGGTATTTTAATTTAAATAGTTTT-A-T-TTTTAATTAGGATT
2448658 TAGGATAT
63 TAGGATAT
*
2448666 TATTTT-TCTTA-CTTTG-TTTAGGTATTTTAGTTTAAATAGTTTTATTTTTAATTAGGATTTA
1 TATTTTATCTTATCTTTGTTTTAGGTATTTTAATTTAAATAGTTTTATTTTTAATTAGGATTTA
2448727 TTTTATTTAT
Statistics
Matches: 60, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
67 16 0.27
68 1 0.02
69 1 0.02
70 26 0.43
71 5 0.08
72 5 0.08
73 6 0.10
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (70 bp):
TATTTTATCTTATCTTTGTTTTAGGTATTTTAATTTAAATAGTTTTATTTTTAATTAGGATTTAG
GATAT
Found at i:2448743 original size:21 final size:23
Alignment explanation
Indices: 2448717--2448762 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
2448707 TTATTTTTAA
* *
2448717 TTAGGATTTAT-TTTA-TTTATT
1 TTAGGAATTATCTTTAGCTTATT
2448738 TTAGGAATTATCTTTAGCTTATT
1 TTAGGAATTATCTTTAGCTTATT
2448761 TT
1 TT
2448763 TAAGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 4 0.19
23 7 0.33
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (23 bp):
TTAGGAATTATCTTTAGCTTATT
Found at i:2449446 original size:20 final size:20
Alignment explanation
Indices: 2449421--2449474 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2449411 ATAATTATTT
2449421 TTTATTATTTTATCCTTATC
1 TTTATTATTTTATCCTTATC
**
2449441 TTTATTATTTTATTTTTATC
1 TTTATTATTTTATCCTTATC
2449461 TTT-TTATCTTTATC
1 TTTATTAT-TTTATC
2449475 TTAAATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATTATTTTATCCTTATC
Found at i:2449453 original size:14 final size:14
Alignment explanation
Indices: 2449436--2449476 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
2449426 TATTTTATCC
2449436 TTATCTTTAT-TATT
1 TTATCTTTATCT-TT
*
2449450 TTATTTTTATCTTT
1 TTATCTTTATCTTT
2449464 TTATCTTTATCTT
1 TTATCTTTATCTT
2449477 AAATTATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 23 0.96
15 1 0.04
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATCTTTATCTTT
Found at i:2453923 original size:12 final size:12
Alignment explanation
Indices: 2453908--2453934 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2453898 CAAATTAGTG
2453908 AATTTGTTAGAA
1 AATTTGTTAGAA
2453920 AATTTGTTAGAA
1 AATTTGTTAGAA
2453932 AAT
1 AAT
2453935 CCTTAGTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (12 bp):
AATTTGTTAGAA
Found at i:2454040 original size:23 final size:23
Alignment explanation
Indices: 2454014--2454059 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2454004 CAATTTTTCT
2454014 CTATCTTTTTCTCTCATTAGTCC
1 CTATCTTTTTCTCTCATTAGTCC
2454037 CTATCTTTTTCTCTCATTAGTCC
1 CTATCTTTTTCTCTCATTAGTCC
2454060 TTTGACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.30, G:0.04, T:0.52
Consensus pattern (23 bp):
CTATCTTTTTCTCTCATTAGTCC
Found at i:2469438 original size:50 final size:50
Alignment explanation
Indices: 2469317--2469426 Score: 166
Period size: 50 Copynumber: 2.2 Consensus size: 50
2469307 CAGTAAAGCA
* * * *
2469317 CGCCCCCTGAACCACGTTATACGATGATTTGGCGCCACGTGGGTATAGCG
1 CGCCCCCTGACCCGCGATATACGATGATCTGGCGCCACGTGGGTATAGCG
* *
2469367 CGCCCCCTGCCCCGCGATATACGGTGATCTGGCGCCACGTGGGTATAGCG
1 CGCCCCCTGACCCGCGATATACGATGATCTGGCGCCACGTGGGTATAGCG
2469417 CGCCCCCTGA
1 CGCCCCCTGA
2469427 TCTGCGCTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.16, C:0.35, G:0.29, T:0.19
Consensus pattern (50 bp):
CGCCCCCTGACCCGCGATATACGATGATCTGGCGCCACGTGGGTATAGCG
Found at i:2469574 original size:10 final size:10
Alignment explanation
Indices: 2469559--2469599 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
2469549 TTTTAACACA
2469559 TCAAATTCTC
1 TCAAATTCTC
2469569 TCAAATTCTC
1 TCAAATTCTC
2469579 T-AAATTTCTC
1 TCAAA-TTCTC
*
2469589 TCAAATACTC
1 TCAAATTCTC
2469599 T
1 T
2469600 ATCTTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (10 bp):
TCAAATTCTC
Done.