Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 12 of 343
Found at i:4123542 original size:18 final size:18
Alignment explanation
Indices: 4123504--4123542 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4123494 AAATTGAGAT
* * *
4123504 TTTTATTATTTTTTATTA
1 TTTTATAATTTTTAATAA
4123522 TTTTATAATTTTTAATAA
1 TTTTATAATTTTTAATAA
4123540 TTT
1 TTT
4123543 ATTTAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATAATTTTTAATAA
Found at i:4127738 original size:24 final size:26
Alignment explanation
Indices: 4127704--4127778 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 26
4127694 CAAAGTCCTG
*
4127704 ATTCATAGCTCGTGTGAGCAATATAT
1 ATTCACAGCTCGTGTGAGCAATATAT
* * *
4127730 -TTCA-AGCTCATGTTAGTAATA-AT
1 ATTCACAGCTCGTGTGAGCAATATAT
*
4127753 ATTCACAGCTCGTGTGAGCAAAATAT
1 ATTCACAGCTCGTGTGAGCAATATAT
4127779 GTCATGTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
23 2 0.05
24 18 0.46
25 17 0.44
26 2 0.05
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (26 bp):
ATTCACAGCTCGTGTGAGCAATATAT
Found at i:4127999 original size:19 final size:19
Alignment explanation
Indices: 4127975--4128011 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4127965 ACGTGTCCCC
4127975 TATTTTT-TAAAAATTTTCA
1 TATTTTTCT-AAAATTTTCA
4127994 TATTTTTCTAAAATTTTC
1 TATTTTTCTAAAATTTTC
4128012 TGACTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTCTAAAATTTTCA
Found at i:4138981 original size:24 final size:24
Alignment explanation
Indices: 4138925--4138981 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
4138915 GTTACATAAA
*
4138925 AATTTAAAATACTAATTCAAAAAT
1 AATTTAAAATAATAATTCAAAAAT
***
4138949 AAGACAAAATAATAATT-AAAAATT
1 AATTTAAAATAATAATTCAAAAA-T
4138973 AATTTAAAA
1 AATTTAAAA
4138982 CTAAGATAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (24 bp):
AATTTAAAATAATAATTCAAAAAT
Found at i:4147681 original size:3 final size:3
Alignment explanation
Indices: 4147663--4147713 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
4147653 TCAAATACCC
* * * * *
4147663 TTA TTA TT- TTA ATA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4147710 TTA T
1 TTA T
4147714 GTGCTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:4147846 original size:3 final size:3
Alignment explanation
Indices: 4147838--4147873 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4147828 TATTCCAATG
4147838 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4147874 GTTTATGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4160020 original size:88 final size:88
Alignment explanation
Indices: 4159867--4161502 Score: 834
Period size: 88 Copynumber: 18.6 Consensus size: 88
4159857 ATAGGTCCTA
* * * *
4159867 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGA
1 TCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGG-GA
4159930 AGTAGATCGAAGAAAGCAGATCTTG
64 AGTAGATCGAAGAAAGCAGATCTTG
* * * * **
4159955 TCTTCATGTATTGGCGTGAAGAAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAAGAAG
1 TCTTCCTGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGGAAG
* *
4160020 TGGATCGAAG-ATGCAGATCTTG
66 TAGATCGAAGAAAGCAGATCTTG
** * * * * * * * *
4160042 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
1 TCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGGAA
* * * *
4160107 GTAGATCGAAGATAGCAGGTCCTA
65 GTAGATCGAAGAAAGCAGATCTTG
* * * * *
4160131 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGTAA
1 TCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGG-GA
4160194 AGTAGATCGAAGAAAGCAGATCTTG
64 AGTAGATCGAAGAAAGCAGATCTTG
* * * * *
4160219 TCTTCATGTATTTGGCAGTGAAGTAGATCGAGGATTGCAGATCCTGTCTTCCTATATTTGGTAGC
1 TCTTCCTGTA-TTGGC-GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA-TTGGT-GG
** *
4160284 GAAGCT-GATCGAAGATGGCAGATCTTA
62 GAAG-TAGATCGAAGAAAGCAGATCTTG
* *** * * ** * * * * *
4160311 TCTCCCTG-A-CCACAGTGGAGTACATCGAAG-CCG-ATAACTCTATC-TCACTGTATTTGGCAG
1 TCTTCCTGTATTGGC-GTGAAGTAGATCGAAGATAGCAGATCT-TGTCTTC-CTATA-TTGG-TG
* **
4160371 TGGAA-TAGATTGAAGATTGCAGATCTTG
61 -GGAAGTAGATCGAAGAAAGCAGATCTTG
* ** * * ** * * ** * **
4160399 CCTTCCTGTATTTGGCAGCAAAGTAGGTTGAAGACGGCGGATTTTACCTCCCTGAT-TACAGT-G
1 TCTTCCTGTA-TTGGC-GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCT-ATAT-TGGTGG
* * ** * * *
4160462 G-AGTACATTGAAG-CTGATAGTTC-TA
62 GAAGTAGATCGAAGAAAG-CAGATCTTG
* * ** * * * * *
4160487 TC-TCCCG---GGGCAAGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAA
1 TCTTCCTGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGGAAG
* *
4160548 TGGATCGAAG-ATGCAGATCTTG
66 TAGATCGAAGAAAGCAGATCTTG
** * * * * * * *
4160570 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
1 TCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGGAA
* * *
4160635 GTAGATCGAAGATAGCTGATCTTA
65 GTAGATCGAAGAAAGCAGATCTTG
* *** * *
4160659 TCTTCCTATATTGGTAAGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAA
1 TCTTCCTGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGG-GAA
*
4160723 GTAGATCGCAGAAAGCAGATCTTG
65 GTAGATCGAAGAAAGCAGATCTTG
* * * * *
4160747 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCATG-TCCTATCTTCCTATATTGATAGGAA
1 TCTTCCTGTATTGGCGTGAAGTAGATCGAAGATAGCA-GATCTTGTCTTCCTATATTGGTGGGAA
* * *
4160811 GTGGATCCAAGATA-CAGATCTTG
65 GTAGATCGAAGAAAGCAGATCTTG
** * * * * *
4160834 TCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC--CCTGTATTTGACAGT-
1 TCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA-TTG---GTG
* * **
4160896 GGAA-TAGATTGAGGATTGCAGATCTTG
61 GGAAGTAGATCGAAGAAAGCAGATCTTG
* * * * * * ** * * **
4160923 CCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCA-CAGT-G
1 TCTTCCTGTA-TTGGC-GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCT-A-TATTGGTGG
* * ** * * *
4160986 G-AGTACATTGAAG-CCG-ATAACTCTA
62 GAAGTAGATCGAAGAAAGCAGATCT-TG
* * * * * * * *
4161011 TCTCCCTGTATTTGGTAGTGGAA-TGGATCGAAGAT-GCAGATCTTGTCTTCATGTATCGGCGTG
1 TCTTCCTGTA-TTGG-CGT-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGG
** * *
4161074 AAGTAGATCGAAGGTAGCAGATCCTA
63 AAGTAGATCGAAGAAAGCAGATCTTG
* * * * *
4161100 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCAA
1 TCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGG-GA
* *
4161163 AGTAGATCGCAGAAAGTAGATCTTG
64 AGTAGATCGAAGAAAGCAGATCTTG
* * * *
4161188 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAG
1 TCTTCCTGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGGAAG
* * *
4161253 TGGATCGACG-ATGCAGATCTTG
66 TAGATCGAAGAAAGCAGATCTTG
** * * * * * * * *
4161275 TCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
1 TCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGGAA
* * *
4161340 GTAGATCGAAGATAGCAGGTCCTG
65 GTAGATCGAAGAAAGCAGATCTTG
* * * * * * * * *
4161364 TCTTTCTATATCGGTAG-GAAGTGGATCGACGAT-GCAGATCTTGTCTTCCCATACTAGTGGCGA
1 TCTTCCTGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGG-GA
*
4161427 AGTAGATCGAAGAAAGCAGATCTTA
64 AGTAGATCGAAGAAAGCAGATCTTG
* * * *
4161452 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATTGTAGATCTTGCCTTCCT
1 TCTTCCTGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCT
4161503 GTAGTTGACA
Statistics
Matches: 1156, Mismatches: 321, Indels: 141
0.71 0.20 0.09
Matches are distributed among these distances:
81 4 0.00
82 31 0.03
83 16 0.01
84 4 0.00
85 1 0.00
86 10 0.01
87 194 0.17
88 541 0.47
89 227 0.20
90 46 0.04
91 32 0.03
92 43 0.04
93 6 0.01
94 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (88 bp):
TCTTCCTGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGGAAG
TAGATCGAAGAAAGCAGATCTTG
Found at i:4160099 original size:132 final size:132
Alignment explanation
Indices: 4159862--4160877 Score: 1153
Period size: 132 Copynumber: 7.7 Consensus size: 132
4159852 CGTAAATAGG
4159862 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
4159927 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGATAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
4159992 GA
131 GA
*
4159994 TCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
4160059 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
*
4160124 GG
131 GA
4160126 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
** * *
4160191 TAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTTGGCAGTGAAGTAGATCGAGGATTG
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA-TTGGC-GTGAAGTAGATCGAAGATAG
4160256 CAGA
129 CAGA
* *
4160260 TCCTGTCTTCCTATATTTGGTAGCGAAGCT-GATCGAAGATGGCAGATCTTATC-TCCC-TGACC
1 TCCTATCTTCCTATA-TTGGTAG-GAAG-TGGATCGAAGAT-GCAGATCTTGTCTTCCCAT-A--
*** * ** * * *
4160322 ACAGT-G-G-AGTACATCGAAG-CCG-ATAACTCTATC-TCACTGTATTTGGCAGTGGAA-TAGA
59 TTGGTGGCGAAGTAGATCGAAGAAAGCAGATCT-TGTCTTCA-TGTA-TTGGC-GT-GAAGTAGA
* *
4160380 TTGAAGATTGCAGA
119 TCGAAGATAGCAGA
* ** * * * * * * *
4160394 TCTTGCCTTCCTGTATTTGGCAGCAAAGTAGG-TTGAAGACGGCGGAT-TT-TACCTCCC-TGAT
1 TCCTATCTTCCTATA-TTGGTAG-GAAGT-GGATCGAAGA-TGCAGATCTTGT-CTTCCCAT-AT
* * * * ** ***** **
4160455 TACAGT-G-G-AGTACAT---TG-AAGCTGATAGT-TCTATC-TCCCGGGGCAAGAAGTAGATCG
60 T--GGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCT-TCATGTATTGGCGTGAAGTAGATCG
*
4160511 AAGATAGCTGA
122 AAGATAGCAGA
*
4160522 TCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
4160587 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCT
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
4160652 GA
131 GA
* *
4160654 TCTTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
4160719 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
4160784 TG-
131 -GA
* * * *
4160786 TCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
4160851 TGAAGTAGATCGAAGAAAGCAGATCTT
66 CGAAGTAGATCGAAGAAAGCAGATCTT
4160878 ATCCCTGTAT
Statistics
Matches: 757, Mismatches: 90, Indels: 74
0.82 0.10 0.08
Matches are distributed among these distances:
124 2 0.00
125 8 0.01
126 20 0.03
127 17 0.02
128 26 0.03
129 3 0.00
130 4 0.01
131 13 0.02
132 469 0.62
133 17 0.02
134 121 0.16
135 23 0.03
136 19 0.03
137 13 0.02
138 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
GA
Found at i:4161114 original size:573 final size:572
Alignment explanation
Indices: 4160500--4161618 Score: 1864
Period size: 573 Copynumber: 2.0 Consensus size: 572
4160490 CCCGGGGCAA
*
4160500 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
*
4160565 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
* *
4160630 GTGAAGTAGATCGAAGATAGCTGATCTTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCA
131 GTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCA
* *
4160695 GATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTG
196 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
* *
4160760 GCGTGAAGTAGATCGAAGATAGCATGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATA
261 GCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATCGATAGGAAGTGGATCCAAGATA
* * *
4160825 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC-CCTGTATT
326 CAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTCATGTA-T
* * * *
4160889 TGACAGTGGAA-TAGATTGAGGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCA
390 TGAC-GT-GAAGTAGATCGAAGATTGCAGATCTTGCCTTCCTGTAGTTGACAGCGAAGCAGATCA
4160953 AAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
453 AAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
* *
4161018 GTATTTGGTAGTGGAATGGATCGAAGATGCAGATCTTGTCTTCATGTATCGGCGT
518 GTATTTGGCAGTGGAATAGATCGAAGATGCAGATCTTGTCTTCATGTATCGGCGT
* *
4161073 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
* *
4161138 TCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
* * * *
4161203 GTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCA
131 GTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCA
4161268 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
196 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
* * * * * *
4161333 GCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTTCTATATCGGTAGGAAGTGGATCGACGATG
261 GCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATCGATAGGAAGTGGATCCAAGATA
4161398 CAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTAT
326 CAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATC-TCATGTAT
* * *
4161463 TGGCGTGAAGTAGATCGAAGATTGTAGATCTTGCCTTCCTGTAGTTGACAGCGAAGCAGATCGAA
390 TGACGTGAAGTAGATCGAAGATTGCAGATCTTGCCTTCCTGTAGTTGACAGCGAAGCAGATCAAA
*
4161528 GATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
455 GATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
*
4161593 ATTTGGCAGTGGAATAGATTGAAGAT
520 ATTTGGCAGTGGAATAGATCGAAGAT
4161619 CAAAGATGGC
Statistics
Matches: 507, Mismatches: 36, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
572 3 0.01
573 495 0.98
574 4 0.01
575 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (572 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCA
GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
GCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATCGATAGGAAGTGGATCCAAGATA
CAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTCATGTATT
GACGTGAAGTAGATCGAAGATTGCAGATCTTGCCTTCCTGTAGTTGACAGCGAAGCAGATCAAAG
ATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTA
TTTGGCAGTGGAATAGATCGAAGATGCAGATCTTGTCTTCATGTATCGGCGT
Found at i:4161208 original size:132 final size:132
Alignment explanation
Indices: 4161036--4161484 Score: 765
Period size: 132 Copynumber: 3.4 Consensus size: 132
4161026 TAGTGGAATG
* * * * *
4161036 GATCGAAG-ATGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTG
* * *
4161100 TCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAG
66 TCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAG
4161165 TA
131 TA
* *
4161167 GATCGCAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTG
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTG
4161232 TCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAG
66 TCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAG
4161297 TA
131 TA
4161299 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTG
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTG
* * *
4161364 TCTTTCTATATCGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAG
66 TCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAG
4161429 TA
131 TA
*
4161431 GATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
4161485 TGTAGATCTT
Statistics
Matches: 301, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
131 7 0.02
132 294 0.98
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (132 bp):
GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTG
TCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAG
TA
Found at i:4161790 original size:97 final size:95
Alignment explanation
Indices: 4161520--4161803 Score: 487
Period size: 95 Copynumber: 3.0 Consensus size: 95
4161510 ACAGCGAAGC
*
4161520 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
4161585 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGACAGTGGAATAGATTGA
4161615 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
4161680 CTCCCTGCATTTGACGGTGGAATGGATTGA
66 CTCCCTGCATTTGACAGTGGAATAGATTGA
*
4161710 AGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
4161775 ATCTCCCTGCGTTTGACAGTGGAATAGAT
64 ATCTCCCTGCATTTGACAGTGGAATAGAT
4161804 CGGAGATTAC
Statistics
Matches: 178, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
95 118 0.66
97 60 0.34
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGCATTTGACAGTGGAATAGATTGA
Found at i:4163307 original size:3 final size:3
Alignment explanation
Indices: 4163289--4163339 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
4163279 TCAAATACCC
* * * * *
4163289 TTA TTA TT- TTA ATA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4163336 TTA T
1 TTA T
4163340 GTGCTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:4163472 original size:3 final size:3
Alignment explanation
Indices: 4163464--4163493 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4163454 TATTCCAATG
4163464 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4163494 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4165691 original size:80 final size:80
Alignment explanation
Indices: 4165595--4165754 Score: 284
Period size: 80 Copynumber: 2.0 Consensus size: 80
4165585 AAAATATTTG
4165595 GACATACGCCACATATGTGGCCAATAACCTTTTCATATCACATTGATAACAAAAGTTATATTTAC
1 GACATACGCCACATATGTGGCCAATAACCTTTTCATATCACATTGATAACAAAAGTTATATTTAC
4165660 CCTTTCAAAAGTTAT
66 CCTTTCAAAAGTTAT
* * *
4165675 GACATATGTCACATATGTGGCCAATAACCTTTTCATATCACATTGATAACAAAAGTTATCTTTAC
1 GACATACGCCACATATGTGGCCAATAACCTTTTCATATCACATTGATAACAAAAGTTATATTTAC
*
4165740 CCTTTTAAAAGTTAT
66 CCTTTCAAAAGTTAT
4165755 CTTGAGAACT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (80 bp):
GACATACGCCACATATGTGGCCAATAACCTTTTCATATCACATTGATAACAAAAGTTATATTTAC
CCTTTCAAAAGTTAT
Found at i:4167878 original size:20 final size:20
Alignment explanation
Indices: 4167849--4167888 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4167839 TGACAAGAAC
* * *
4167849 TGTCCTATCATAGGCATCTT
1 TGTCCCATCAAAGACATCTT
4167869 TGTCCCATCAAAGACATCTT
1 TGTCCCATCAAAGACATCTT
4167889 ACTCACGCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTCCCATCAAAGACATCTT
Found at i:4168192 original size:15 final size:16
Alignment explanation
Indices: 4168172--4168213 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
4168162 TAAATTGGTA
4168172 AAATAAATTAAAA-AT
1 AAATAAATTAAAATAT
4168187 AAATAAA-TAAAATAT
1 AAATAAATTAAAATAT
4168202 ATATATAAATTA
1 A-A-ATAAATTA
4168214 GTTGCTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 10 0.43
16 1 0.04
17 5 0.22
18 2 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATAAATTAAAATAT
Found at i:4173960 original size:23 final size:22
Alignment explanation
Indices: 4173930--4174001 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
4173920 AATAATCTAG
4173930 TAATTTAAATAAATATTTTTAAA
1 TAATTTAAATAAATATTTTT-AA
**
4173953 TAATTT-AATAGTTA-TTTT-A
1 TAATTTAAATAAATATTTTTAA
* *
4173972 TAACTTAAAATAAATTTTTTTAA
1 TAA-TTTAAATAAATATTTTTAA
4173995 TAATTTA
1 TAATTTA
4174002 GTTCATTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.11
20 2 0.05
21 9 0.24
22 13 0.34
23 10 0.26
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (22 bp):
TAATTTAAATAAATATTTTTAA
Found at i:4182377 original size:31 final size:31
Alignment explanation
Indices: 4182294--4182384 Score: 89
Period size: 31 Copynumber: 2.9 Consensus size: 31
4182284 AAAAAACTTG
* **
4182294 TTTTTATTTTTA-TTTAAGGAA-ATTTTTATT
1 TTTTTATTTTTATTTTAA-AAATATTTTTACA
*
4182324 TTTTTCGTTTTT-TTTATAAAAAATATTTTTACA
1 TTTTT-ATTTTTATTT-T-AAAAATATTTTTACA
4182357 TTTTTATTTTTATTTTAAAAATATTTTT
1 TTTTTATTTTTATTTTAAAAATATTTTT
4182385 GTAATTGTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
30 5 0.10
31 19 0.38
32 9 0.18
33 17 0.34
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTTATTTTTATTTTAAAAATATTTTTACA
Found at i:4189200 original size:29 final size:29
Alignment explanation
Indices: 4189166--4189226 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
4189156 CATTAAATAT
* *
4189166 CATTTCAAACACAAGTGATTAAAATGTAA
1 CATTTCAAACACAAATAATTAAAATGTAA
* *
4189195 CATTTCAAATATAAATAATTAAAATGTAA
1 CATTTCAAACACAAATAATTAAAATGTAA
4189224 CAT
1 CAT
4189227 AATGTAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (29 bp):
CATTTCAAACACAAATAATTAAAATGTAA
Found at i:4192766 original size:31 final size:31
Alignment explanation
Indices: 4192731--4192831 Score: 152
Period size: 31 Copynumber: 3.3 Consensus size: 31
4192721 TAAGGTTCAA
*
4192731 TGACTAAAATGTTACAACATGATAATATAAG
1 TGACTAAAATGTTACAATATGATAATATAAG
4192762 TGACTAAAATGTTACAATATGATAATATAAG
1 TGACTAAAATGTTACAATATGATAATATAAG
* * *
4192793 TGACTAAAATGTAAC-ATTTCA-AATATAAG
1 TGACTAAAATGTTACAATATGATAATATAAG
4192822 TGACTAAAAT
1 TGACTAAAAT
4192832 ATAATTTGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
29 18 0.27
30 4 0.06
31 44 0.67
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.31
Consensus pattern (31 bp):
TGACTAAAATGTTACAATATGATAATATAAG
Found at i:4201131 original size:8 final size:8
Alignment explanation
Indices: 4201120--4201152 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
4201110 GATAAAATAA
4201120 AAAAAAAG
1 AAAAAAAG
4201128 AAAAAAA-
1 AAAAAAAG
*
4201135 AAGAAAAG
1 AAAAAAAG
4201143 AAAAAAAG
1 AAAAAAAG
4201151 AA
1 AA
4201153 TCCAATGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4201131 original size:10 final size:10
Alignment explanation
Indices: 4201113--4201147 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
4201103 CAAAAGAGAT
*
4201113 AAAATAAAAA
1 AAAAGAAAAA
4201123 AAAAGAAAAA
1 AAAAGAAAAA
4201133 AAAAGAAAAGA
1 AAAAGAAAA-A
4201144 AAAA
1 AAAA
4201148 AAGAATCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:4201131 original size:15 final size:15
Alignment explanation
Indices: 4201113--4201149 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4201103 CAAAAGAGAT
4201113 AAAATAAAAA-AAAAG
1 AAAA-AAAAAGAAAAG
4201128 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
4201143 AAAAAAA
1 AAAAAAA
4201150 GAATCCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:4206405 original size:2 final size:2
Alignment explanation
Indices: 4206400--4206442 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4206390 ACACATGCAT
4206400 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
4206442 A
1 A
4206443 TCCGTACTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4209374 original size:72 final size:72
Alignment explanation
Indices: 4209253--4209440 Score: 360
Period size: 72 Copynumber: 2.6 Consensus size: 72
4209243 GCTTACAACT
*
4209253 TAAC-AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
4209317 ACTACAC
66 ACTACAC
4209324 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
4209389 ACTACAC
66 ACTACAC
4209396 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
4209441 AATAATAATA
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 4 0.03
72 111 0.97
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (72 bp):
TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
ACTACAC
Found at i:4209449 original size:3 final size:3
Alignment explanation
Indices: 4209441--4209478 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4209431 ATTACATCCA
4209441 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4209479 AACATGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4213809 original size:72 final size:72
Alignment explanation
Indices: 4213688--4213875 Score: 360
Period size: 72 Copynumber: 2.6 Consensus size: 72
4213678 GCTTACAACT
*
4213688 TAAC-AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
4213752 ACTACAC
66 ACTACAC
4213759 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
4213824 ACTACAC
66 ACTACAC
4213831 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
4213876 AATAATAATA
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 4 0.03
72 111 0.97
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (72 bp):
TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
ACTACAC
Found at i:4213884 original size:3 final size:3
Alignment explanation
Indices: 4213876--4213913 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4213866 ATTACATCCA
4213876 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4213914 AACATGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4222110 original size:4 final size:4
Alignment explanation
Indices: 4222100--4222133 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
4222090 TCATGGTTCC
* *
4222100 TTGT TTTT TTTT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
4222134 TTTATAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (4 bp):
TTGT
Found at i:4231822 original size:38 final size:39
Alignment explanation
Indices: 4231758--4231868 Score: 110
Period size: 37 Copynumber: 2.9 Consensus size: 39
4231748 AAAGGCATTT
*
4231758 TTAAG-AATAT-AAAGAATATATATAAGTATGTATATG-A
1 TTAAGAAATATGAAA-AATATATATAAGTATGTATAAGAA
* *
4231795 -TATA-AAATATGCATAAATATATGTAAGTA--TATAAGAA
1 TTA-AGAAATATG-AAAAATATATATAAGTATGTATAAGAA
*
4231832 TTAAGAAATATGAAAAATATATTTAAGTATGTATAAG
1 TTAAGAAATATGAAAAATATATATAAGTATGTATAAG
4231869 TACGTATATC
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
36 7 0.12
37 23 0.38
38 22 0.37
39 8 0.13
ACGTcount: A:0.52, C:0.01, G:0.13, T:0.34
Consensus pattern (39 bp):
TTAAGAAATATGAAAAATATATATAAGTATGTATAAGAA
Found at i:4234483 original size:12 final size:12
Alignment explanation
Indices: 4234462--4234495 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4234452 TATATATTTT
*
4234462 AAAATTATATAA
1 AAAATAATATAA
4234474 AAAATAATATAA
1 AAAATAATATAA
*
4234486 AAATTAATAT
1 AAAATAATAT
4234496 GGGCAGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:4235477 original size:10 final size:10
Alignment explanation
Indices: 4235420--4235487 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 10
4235410 TTTAAAATTT
4235420 AAAAATTATTA
1 AAAAATTA-TA
*
4235431 AAAGAATCAT-
1 AAA-AATTATA
4235441 AAAAATTATA
1 AAAAATTATA
4235451 GACAAAATTTATGA
1 -A-AAAA-TTAT-A
*
4235465 AAAAGTTATA
1 AAAAATTATA
4235475 AAAAATT-TA
1 AAAAATTATA
4235484 AAAA
1 AAAA
4235488 TATATTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
9 11 0.23
10 10 0.21
11 9 0.19
12 11 0.23
13 5 0.11
14 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:4235479 original size:22 final size:23
Alignment explanation
Indices: 4235441--4235483 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
4235431 AAAGAATCAT
4235441 AAAAATTATAGACAAAATTTATG
1 AAAAATTATAGACAAAATTTATG
4235464 AAAAAGTTATA-A-AAAATTTA
1 AAAAA-TTATAGACAAAATTTA
4235484 AAAATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAAATTATAGACAAAATTTATG
Found at i:4235638 original size:21 final size:22
Alignment explanation
Indices: 4235614--4235657 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
4235604 TTTTTATAAA
4235614 TTTAAA-TTT-TTTATAACTTTT
1 TTTAAACTTTATTTATAA-TTTT
4235635 TTTAAACTTTATTTATAATTTT
1 TTTAAACTTTATTTATAATTTT
4235657 T
1 T
4235658 ATGACATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 7 0.33
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTAAACTTTATTTATAATTTT
Found at i:4237869 original size:21 final size:21
Alignment explanation
Indices: 4237845--4237885 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4237835 TTTAGAAAAG
* *
4237845 TTTTAACATTCTTTATATATT
1 TTTTAAAATTCTTTAAATATT
*
4237866 TTTTAAAATTTTTTAAATAT
1 TTTTAAAATTCTTTAAATAT
4237886 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAAATTCTTTAAATATT
Found at i:4237891 original size:25 final size:26
Alignment explanation
Indices: 4237858--4237919 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 26
4237848 TAACATTCTT
* **
4237858 TATATATTTTTTAAAATTTT-TTAAA
1 TATAAATTTTTTAAAATTTTAACAAA
4237883 TATAAA--TTTTAAAATTTTAACAAA
1 TATAAATTTTTTAAAATTTTAACAAA
4237907 TATTAAATTTTTT
1 TA-TAAATTTTTT
4237920 TTTAATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 12 0.40
24 5 0.17
25 9 0.30
27 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TATAAATTTTTTAAAATTTTAACAAA
Found at i:4237907 original size:24 final size:24
Alignment explanation
Indices: 4237866--4237917 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
4237856 TTTATATATT
**
4237866 TTTTAAAATTTTTTAAATA-TAAA
1 TTTTAAAATTTTACAAATATTAAA
4237889 TTTTAAAATTTTAACAAATATTAAA
1 TTTTAAAATTTT-ACAAATATTAAA
4237914 TTTT
1 TTTT
4237918 TTTTTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.48
24 5 0.20
25 8 0.32
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTAAAATTTTACAAATATTAAA
Found at i:4240477 original size:21 final size:23
Alignment explanation
Indices: 4240426--4240477 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
4240416 TATGTTAAGT
*
4240426 TATTT-TTTCGTGTATTTATATA
1 TATTTATTTCGTGTATTAATATA
*
4240448 TATTAATTTCGTG-ATTAATA-A
1 TATTTATTTCGTGTATTAATATA
4240469 TATTTATTT
1 TATTTATTT
4240478 GTTCACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 9 0.35
22 10 0.38
23 7 0.27
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.60
Consensus pattern (23 bp):
TATTTATTTCGTGTATTAATATA
Found at i:4244869 original size:21 final size:21
Alignment explanation
Indices: 4244843--4244883 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4244833 AGACGAGCAA
* *
4244843 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4244864 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4244884 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4272872 original size:85 final size:85
Alignment explanation
Indices: 4272729--4272899 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
4272719 CAATCATAGT
*
4272729 TCCCTAACAAACCTGCTGTAGGAATTTCGCATGTAAACAATCACCTTACTCTTCAAATTTGACAT
1 TCCCTAACAAACCTGCTGTAAGAATTTCGCATGTAAACAATCACCTTACTCTTCAAATTTGACAT
4272794 TATTATACAAATACAATAAA
66 TATTATACAAATACAATAAA
*
4272814 TCCCTAACAAACCTGCTGTAAGAATTTCTCATGTAAACAATCACCTTACTCTTCAAATTTGACAT
1 TCCCTAACAAACCTGCTGTAAGAATTTCGCATGTAAACAATCACCTTACTCTTCAAATTTGACAT
* *
4272879 TCTTATACAATTACAATAAA
66 TATTATACAAATACAATAAA
4272899 T
1 T
4272900 GTCTACTTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (85 bp):
TCCCTAACAAACCTGCTGTAAGAATTTCGCATGTAAACAATCACCTTACTCTTCAAATTTGACAT
TATTATACAAATACAATAAA
Found at i:4277543 original size:11 final size:11
Alignment explanation
Indices: 4277527--4277551 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4277517 CTAAGTTTGC
4277527 TTAATAAGTAG
1 TTAATAAGTAG
4277538 TTAATAAGTAG
1 TTAATAAGTAG
4277549 TTA
1 TTA
4277552 GTAGAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (11 bp):
TTAATAAGTAG
Found at i:4282456 original size:50 final size:51
Alignment explanation
Indices: 4282389--4282517 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
4282379 GACCATGGAA
4282389 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGAAAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-AAAATG
*
4282440 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGAAAATG
* * * *
4282490 ACAACTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
4282518 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGAAAATG
Found at i:4282533 original size:31 final size:31
Alignment explanation
Indices: 4282495--4282685 Score: 301
Period size: 31 Copynumber: 6.2 Consensus size: 31
4282485 AAATGACAAC
4282495 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
4282526 TGAAAAGTGGTAGTTTCAGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
4282557 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
4282588 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
4282619 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
4282650 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
4282681 TGAAA
1 TGAAA
4282686 GTGACAAGTG
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 148 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:4282810 original size:47 final size:47
Alignment explanation
Indices: 4282707--4282821 Score: 142
Period size: 47 Copynumber: 2.4 Consensus size: 47
4282697 CAAGTGATTT
* * * *
4282707 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATATACTA
* *
4282754 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTAATTA
1 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATAT-ACTA
* *
4282802 C-GTGTAAGACCATAGCTGGG
1 CTGTATAAGACCATATCTGGG
4282822 CTATAGCATC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
47 56 0.95
48 3 0.05
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATATACTA
Found at i:4282839 original size:42 final size:42
Alignment explanation
Indices: 4282792--4282873 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
4282782 ATCAGTGAGA
** **
4282792 TATGTAATTACGTGTAAGACCATAGCTGGGCTATAGCATCAT
1 TATGTAAAGACGTGTAAGACCATAGCTGAACTATAGCATCAT
* *
4282834 TATGTAAAGATGTGTAAGACCATAGTTGAACTATAGCATC
1 TATGTAAAGACGTGTAAGACCATAGCTGAACTATAGCATC
4282874 GAAAAAAACG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (42 bp):
TATGTAAAGACGTGTAAGACCATAGCTGAACTATAGCATCAT
Found at i:4284485 original size:133 final size:132
Alignment explanation
Indices: 4284120--4284505 Score: 446
Period size: 133 Copynumber: 2.9 Consensus size: 132
4284110 TAGAAAACAC
* ** * *
4284120 GAGTGAAATTTCAAAGGAATATTTAATTATTTTTAACAAACGGGAAATCGAAACCCAGCACGATA
1 GAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGCACGATA
* * *
4284185 GGGCACTATTCCTCGAATTGCCAAACATCA-A-ACATTACCTTCGTTTTGA-AA--ATTCTTTAA
66 GGGCACGATT-CTCGAATTGCCAAACA-CAGATA-ATTGCCTT-GTTTTGAGAATTTTTCTTTAA
4284245 AGACAT
127 AGACAT
*
4284251 GAGTGAAATTTCC-AAGGAATATTCGATTATTTTGAACAAACGTGAAATCGCAACCCAGCACGAT
1 GAGTGAAA-TTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGCACGAT
* * *
4284315 AGGGCACGATTCCCGAATTGCCAAACACCGAGT-ATTGCCTTGTTTTGTAGAATTTTTTTTTAAA
65 AGGGCACGATTCTCGAATTGCCAAACACAGA-TAATTGCCTTGTTTTG-AGAATTTTTCTTTAAA
4284379 -AGCAT
128 GA-CAT
* * * *
4284384 GAGTGAAATCCCAAAGGAATATTCGATTGTTTTGAACAAACGGGGAATTGCAACCCAGCACGATA
1 GAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGCACGATA
* * * *
4284449 AGGCACGATTTTCGAATTGCCAAACACAGATAATTGCCTCCGTTTTAAAGAATTTTT
66 GGGCACGATTCTCGAATTGCCAAACACAGATAATTGCCT-TGTTTT-GAGAATTTTT
4284506 AGATGAATAA
Statistics
Matches: 219, Mismatches: 23, Indels: 23
0.83 0.09 0.09
Matches are distributed among these distances:
129 7 0.03
130 24 0.11
131 66 0.30
132 8 0.04
133 100 0.46
134 14 0.06
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (132 bp):
GAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGCACGATA
GGGCACGATTCTCGAATTGCCAAACACAGATAATTGCCTTGTTTTGAGAATTTTTCTTTAAAGAC
AT
Found at i:4287610 original size:133 final size:133
Alignment explanation
Indices: 4287221--4287628 Score: 647
Period size: 133 Copynumber: 3.1 Consensus size: 133
4287211 CTTCGATAAG
* *
4287221 ACAAGATCTGCAATCTTCGGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATC
1 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATC
* * ** * * *
4287286 TACTTCACTGCAACTTCAGGAAGATAAGATTCATCGTCTTCGATCTGCTCCACTATAACTTCAGG
66 TGCTTCACTGCAACTTCAGAAAGATAAGATTCGCCGTCCTCGATCTGCTCCACTGTAACTTTAGG
*
4287351 GAG
131 GAA
4287354 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATC
1 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATC
* * *
4287419 TGCTTCATTGTAACTTCAGAAAGATAAGATTCGCCGTCCTCGACCTGCTCCACTGTAACTTTAGG
66 TGCTTCACTGCAACTTCAGAAAGATAAGATTCGCCGTCCTCGATCTGCTCCACTGTAACTTTAGG
4287484 GAA
131 GAA
*
4287487 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATATGATGGTGGCTTAAATC
1 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATC
* *
4287552 TGCTTCACTGCAACTTTAGAAAGACAAGATTCGCCGTCCTCGATCTGCTCCA-TCGTAACTTTAG
66 TGCTTCACTGCAACTTCAGAAAGATAAGATTCGCCGTCCTCGATCTGCTCCACT-GTAACTTTAG
*
4287616 GCAA
130 GGAA
4287620 ACAAGATCT
1 ACAAGATCT
4287629 GTAGAATTGG
Statistics
Matches: 254, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 1 0.00
133 253 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (133 bp):
ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATC
TGCTTCACTGCAACTTCAGAAAGATAAGATTCGCCGTCCTCGATCTGCTCCACTGTAACTTTAGG
GAA
Found at i:4294626 original size:20 final size:21
Alignment explanation
Indices: 4294603--4294658 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
4294593 AATACTACAT
*
4294603 AAATATGTACATAT-ATATTA
1 AAATATATACATATAATATTA
*
4294623 AAATAAATACATAATAATATTA
1 AAATATATACAT-ATAATATTA
4294645 AAAGTATATACATA
1 AAA-TATATACATA
4294659 AAATGGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 10 0.33
21 2 0.07
22 10 0.33
23 8 0.27
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATATATACATATAATATTA
Found at i:4294628 original size:24 final size:22
Alignment explanation
Indices: 4294610--4294659 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
4294600 CATAAATATG
4294610 TACAT-AT-ATATTAAAATAAA
1 TACATAATAATATTAAAATAAA
*
4294630 TACATAATAATATTAAAAGTATA
1 TACATAATAATATTAAAA-TAAA
4294653 TACATAA
1 TACATAA
4294660 AATGGTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 5 0.19
21 2 0.08
22 9 0.35
23 10 0.38
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (22 bp):
TACATAATAATATTAAAATAAA
Found at i:4294659 original size:157 final size:153
Alignment explanation
Indices: 4294487--4294798 Score: 330
Period size: 157 Copynumber: 2.0 Consensus size: 153
4294477 AATAGGAATG
* * *
4294487 AAAAGTGTATACATAATAA-TACTAAATATATATATACATAATATA-TATAAAATGAACATATAC
1 AAAAGTATATACATAA-AAGTACTAAA-A-ATACATACATAATATAGT-T---ATGAAAATATA-
* * * *
4294550 AATATATATTAGAAATACTAATAA-CA-AAAAAATATATATTAATAATACTACATAAATATGTAC
58 AATACATATTAGAAATAATAATAATCACAAAAAA-AT-TATTAATAATACTACATAAACATATAC
4294613 ATATATATTAAA-ATAAATACATA-ATAATATT
121 ATATATATTAAAGATAAATACATATATAATATT
** * *
4294644 AAAAGTATATACATAAAATGGTGTTAAAAATACATACATAATATAGTTATTAAAATATATATACA
1 AAAAGTATATACATAAAA--GTACTAAAAATACATACATAATATAGTTATGAAAATATAAATACA
* *
4294709 TATTAGAAATAATAATAATGTCACAAAACAATTATTAATAATACTGCATAAACATATACATATAT
64 TATTAGAAATAATAATAA--TCACAAAAAAATTATTAATAATACTACATAAACATATACATATAT
*
4294774 ATTAAAGATATATACATATATAATA
127 ATTAAAGATAAATACATATATAATA
4294799 AACATATACT
Statistics
Matches: 131, Mismatches: 14, Indels: 20
0.79 0.08 0.12
Matches are distributed among these distances:
153 21 0.16
154 9 0.07
155 36 0.27
156 16 0.12
157 42 0.32
158 2 0.02
159 5 0.04
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.33
Consensus pattern (153 bp):
AAAAGTATATACATAAAAGTACTAAAAATACATACATAATATAGTTATGAAAATATAAATACATA
TTAGAAATAATAATAATCACAAAAAAATTATTAATAATACTACATAAACATATACATATATATTA
AAGATAAATACATATATAATATT
Found at i:4294698 original size:25 final size:25
Alignment explanation
Indices: 4294618--4294710 Score: 77
Period size: 25 Copynumber: 3.7 Consensus size: 25
4294608 TGTACATATA
4294618 TATTAAAATAAATACATAATA-A--
1 TATTAAAATAAATACATAATATAGT
* * *
4294640 TATTAAAAGTATATACATAAAATGGT
1 TATTAAAA-TAAATACATAATATAGT
* *
4294666 GT-TAAAAATACATACATAATATAGT
1 -TATTAAAATAAATACATAATATAGT
4294691 TATTAAAATATATATACATA
1 TATTAAAATA-A-ATACATA
4294711 TTAGAAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
22 8 0.15
23 11 0.20
24 1 0.02
25 21 0.39
26 5 0.09
27 8 0.15
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (25 bp):
TATTAAAATAAATACATAATATAGT
Found at i:4294788 original size:21 final size:21
Alignment explanation
Indices: 4294762--4294819 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
4294752 CTGCATAAAC
* *
4294762 ATATACATATATATTAAAGAT
1 ATATACATATATAATAAACAT
4294783 ATATACATATATAATAAACAT
1 ATATACATATATAATAAACAT
4294804 ATACTA-ATA-ATAATAA
1 ATA-TACATATATAATAA
4294820 TAATAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 7 0.21
21 25 0.74
22 2 0.06
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (21 bp):
ATATACATATATAATAAACAT
Found at i:4294814 original size:3 final size:3
Alignment explanation
Indices: 4294808--4294849 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
4294798 AAACATATAC
*
4294808 TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4294850 GATGTATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4294953 original size:17 final size:16
Alignment explanation
Indices: 4294931--4294976 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
4294921 GTATAATAAT
4294931 AAATATAATGATATATA
1 AAATATAAT-ATATATA
*
4294948 AAATATCACTATATAT-
1 AAATAT-AATATATATA
4294964 AAATAT-ATATATA
1 AAATATAATATATA
4294977 CGCGTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.23
16 6 0.23
17 12 0.46
18 2 0.08
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (16 bp):
AAATATAATATATATA
Found at i:4295031 original size:80 final size:79
Alignment explanation
Indices: 4294924--4295082 Score: 175
Period size: 80 Copynumber: 2.0 Consensus size: 79
4294914 ATAATAAGTA
* * *
4294924 TAATAATAAATATAATGATATATAAAATATCACTAT-AT-ATAA-ATATATAT-ATACGCGTATA
1 TAATAATAAATATAATGAGATATAAAATA--AATATAATAATAACATATACATAATACG-GTATA
4294985 ATAAAATATATACTAATAT
63 A-AAAATATATA-TAATAT
* * *
4295004 TAATAATAAATATAATAGGGGTA-AAAATAAATATAATAATAACATATACATAATACGGTATTAA
1 TAATAATAAATATAAT-GAGATATAAAATAAATATAATAATAACATATACATAATACGGTATAAA
4295068 AAATATATATAATAT
65 AAATATATATAATAT
4295083 AGTATTTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
78 4 0.06
79 8 0.12
80 36 0.53
81 15 0.22
82 5 0.07
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (79 bp):
TAATAATAAATATAATGAGATATAAAATAAATATAATAATAACATATACATAATACGGTATAAAA
AATATATATAATAT
Found at i:4295078 original size:27 final size:25
Alignment explanation
Indices: 4295047--4295108 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 25
4295037 TAATAATAAC
4295047 ATATACATAATACGGTA-TTAAAAATAT
1 ATATACATAATA--GTATTTAAAAA-AT
4295074 ATATA-AT-ATAGTATTTAAAAAAT
1 ATATACATAATAGTATTTAAAAAAT
*
4295097 GTATACATAATA
1 ATATACATAATA
4295109 TATATACTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
23 9 0.29
24 9 0.29
25 6 0.19
26 2 0.06
27 5 0.16
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (25 bp):
ATATACATAATAGTATTTAAAAAAT
Found at i:4295275 original size:46 final size:47
Alignment explanation
Indices: 4295188--4295280 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 47
4295178 TAGTATATAC
* *
4295188 ATAATATAGTTATTAAAAAAATACGTAAGATAATATGAAAAATACAA
1 ATAATATAGTTATTAAAAAAATACATAACATAATATGAAAAATACAA
*
4295235 ATAATATAG-TATTAAAGATATATACATAACAT-ATAT-AAAAATACAA
1 ATAATATAGTTATTAAA-A-AAATACATAACATAATATGAAAAATACAA
4295281 TATTAAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
46 17 0.41
47 14 0.34
48 10 0.24
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.29
Consensus pattern (47 bp):
ATAATATAGTTATTAAAAAAATACATAACATAATATGAAAAATACAA
Found at i:4295283 original size:15 final size:15
Alignment explanation
Indices: 4295263--4295299 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
4295253 TATATACATA
4295263 ACATATATAAAA-AT
1 ACATATATAAAAGAT
4295277 ACA-ATATTAAAAGAT
1 ACATATA-TAAAAGAT
4295292 ACATATAT
1 ACATATAT
4295300 GTAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.15
14 8 0.40
15 6 0.30
16 3 0.15
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (15 bp):
ACATATATAAAAGAT
Found at i:4295349 original size:23 final size:23
Alignment explanation
Indices: 4295313--4295356 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4295303 ATATATATAA
*
4295313 AAAAAATGTATACATAATATAGT
1 AAAAAATATATACATAATATAGT
*
4295336 AAAAAATATTTACATAATATA
1 AAAAAATATATACATAATATA
4295357 TACATATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (23 bp):
AAAAAATATATACATAATATAGT
Found at i:4295540 original size:34 final size:35
Alignment explanation
Indices: 4295465--4295548 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 35
4295455 TATACTACTA
*
4295465 TTAATAATAATAAGAATAATATAAATAGTAGTAAAT
1 TTAATAAT-ATAAGAATAATATAAATAGTAATAAAT
* * *
4295501 ATAATAATATTA-AATAATATTAAA-AGTAATTAAT
1 TTAATAATATAAGAATAATA-TAAATAGTAATAAAT
4295535 TTAATAATA-AAGAA
1 TTAATAATATAAGAA
4295549 ATGAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
33 1 0.03
34 25 0.62
35 7 0.17
36 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (35 bp):
TTAATAATATAAGAATAATATAAATAGTAATAAAT
Found at i:4296149 original size:20 final size:20
Alignment explanation
Indices: 4296124--4296176 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
4296114 AAAAAGAAGG
4296124 TATTTTTTTTTATTTTTTAT
1 TATTTTTTTTTATTTTTTAT
* **
4296144 TATTTTCTTTGCTTTTTTAT
1 TATTTTTTTTTATTTTTTAT
*
4296164 TATATATTTTTTA
1 TAT-TTTTTTTTA
4296177 AAAATATGTG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (20 bp):
TATTTTTTTTTATTTTTTAT
Found at i:4297545 original size:89 final size:85
Alignment explanation
Indices: 4297213--4297598 Score: 483
Period size: 85 Copynumber: 4.4 Consensus size: 85
4297203 CCTGTGACCC
* * **
4297213 GAGGCTCAACTCACCTCTCACAATATGAGCTGACTTTTAAT-AAAAACAGAATTTGAAAAACAAA
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTT--TGAAAAATA-AA-TTGAAAAACGGA
* *
4297277 AACTGAAAA-TACCTCAGCGTGTCCC
61 AA-TTAAAATTACCTCAGCGTGTCCT
4297302 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-AAAACATAAATTGAAAAACGGAAATT
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAA-ATAAATTGAAAAACGGAAATT
*
4297366 GAAAA-TACCTTAGCGTGTCCT
65 -AAAATTACCTCAGCGTGTCCT
* *
4297387 GTGGCTCAACTCAACTCTCACAATATGAGTTGATTTTTGAAAAATAAATTGAAAAACGGAAATTA
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATAAATTGAAAAACGGAAATTA
** *
4297452 AAATTACCTCAGTATGTTCT
66 AAATTACCTCAGCGTGTCCT
* * *
4297472 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAATAAATTGAAAACCGGAA
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGA----TTTTTGAAAAATAAATTGAAAAACGGAA
*
4297537 ATTAAAATTATCTCAGCGTGTCCT
62 ATTAAAATTACCTCAGCGTGTCCT
*
4297561 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
4297599 TTTTTAAAGT
Statistics
Matches: 266, Mismatches: 23, Indels: 20
0.86 0.07 0.06
Matches are distributed among these distances:
84 5 0.02
85 133 0.50
86 11 0.04
87 2 0.01
88 4 0.02
89 111 0.42
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (85 bp):
GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATAAATTGAAAAACGGAAATTA
AAATTACCTCAGCGTGTCCT
Found at i:4297557 original size:174 final size:171
Alignment explanation
Indices: 4297213--4297598 Score: 485
Period size: 174 Copynumber: 2.2 Consensus size: 171
4297203 CCTGTGACCC
*
4297213 GAGGCTCAACTCACCTCTCACAATATGAGCTGACTTTTAATAAAAACAGAATTTGAAAAACAAAA
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTT--TAAAAACAGAATTTGAAAAACAAAA
* *
4297278 ACTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAA
63 ACTGAAAATACCTCAGCATGTCCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAA
*
4297343 ACATAAATTGAAAAACGGAAATTGAAAATACCTTAGCGTGTCCT
128 ACATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCT
* * * **
4297387 GTGGCTCAACTCAACTCTCACAATATGAGTTGATTTTTGAAAAATA-AA-TTGAAAAACGGAAA-
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-AAAAACAGAATTTGAAAAACAAAAAC
* * * * *
4297449 TTAAAATTACCTCAGTATGTTCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
65 TGAAAA-TACCTCAGCATGTCCCAAGGCTCAACTCACCTCTCACAATATGAGTTGA----TTTTT
* *
4297514 GAAAA-ATAAATTGAAAACCGGAAATT-AAAATTATCTCAGCGTGTCCT
125 -AAAACATAAATTGAAAAACGGAAATTGAAAA-TACCTCAGCGTGTCCT
*
4297561 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
4297599 TTTTTAAAGT
Statistics
Matches: 185, Mismatches: 19, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
169 5 0.03
170 55 0.30
171 3 0.02
172 6 0.03
173 8 0.04
174 104 0.56
175 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (171 bp):
GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAAACAGAATTTGAAAAACAAAAACT
GAAAATACCTCAGCATGTCCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAACA
TAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCT
Found at i:4303332 original size:38 final size:39
Alignment explanation
Indices: 4303282--4303577 Score: 290
Period size: 46 Copynumber: 6.9 Consensus size: 39
4303272 CTGATATGAA
* *
4303282 ATGTGTAAGACCATAGTTGAAAGATACTATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
4303321 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
4303364 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
4303405 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
4303448 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
4303496 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
4303535 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
4303578 ATGACAGAAA
Statistics
Matches: 228, Mismatches: 4, Indels: 43
0.83 0.01 0.16
Matches are distributed among these distances:
38 70 0.31
39 1 0.00
41 6 0.03
43 4 0.02
44 1 0.00
46 145 0.64
48 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:4303388 original size:46 final size:46
Alignment explanation
Indices: 4303321--4303621 Score: 422
Period size: 46 Copynumber: 6.7 Consensus size: 46
4303311 TGGCAACCTG
4303321 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
4303367 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
4303405 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
4303451 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
4303497 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
4303543 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
4303589 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
4303622 TCACGTCAAA
Statistics
Matches: 233, Mismatches: 13, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 36 0.15
41 2 0.01
43 2 0.01
45 1 0.00
46 192 0.82
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:4303407 original size:84 final size:84
Alignment explanation
Indices: 4303272--4303577 Score: 477
Period size: 84 Copynumber: 3.5 Consensus size: 84
4303262 AGTGTGCTCT
* *
4303272 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACTATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
4303337 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
4303356 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
4303421 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
4303440 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
4303505 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
4303532 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
4303578 ATGACAGAAA
Statistics
Matches: 207, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
84 129 0.62
89 1 0.00
91 1 0.00
92 76 0.37
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:4303929 original size:16 final size:17
Alignment explanation
Indices: 4303908--4303940 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4303898 ATGATGAAGC
*
4303908 ATAAAAT-ATTGATATA
1 ATAAAATGAATGATATA
4303924 ATAAAATGAATGATATA
1 ATAAAATGAATGATATA
4303941 TGCTTGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (17 bp):
ATAAAATGAATGATATA
Found at i:4309669 original size:22 final size:22
Alignment explanation
Indices: 4309638--4309682 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4309628 AATGAGTGAA
*
4309638 TGAATGAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
4309660 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
4309682 T
1 T
4309683 AGTCATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:4315523 original size:21 final size:23
Alignment explanation
Indices: 4315497--4315540 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
4315487 TCATTAAATA
4315497 TATATT-TAT-ATAAAAATATTT
1 TATATTATATGATAAAAATATTT
4315518 TATATTAATATGATAAAAATATT
1 TATATT-ATATGATAAAAATATT
4315541 GAATTAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATATTATATGATAAAAATATTT
Found at i:4315617 original size:16 final size:15
Alignment explanation
Indices: 4315592--4315630 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4315582 CTTAATAAAT
4315592 TTAAAAATTAAATTA
1 TTAAAAATTAAATTA
*
4315607 TTAAAATATTAATTTA
1 TTAAAA-ATTAAATTA
4315623 TATAAAAA
1 T-TAAAAA
4315631 AGTCCTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAAATTAAATTA
Found at i:4316174 original size:21 final size:21
Alignment explanation
Indices: 4316148--4316190 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
4316138 AACTATAAAA
4316148 AATTA-TAAAAAAAATTTAGTC
1 AATTATTAAAAAAAATTT-GTC
*
4316169 AATTATTCAAAAAAATTTGTC
1 AATTATTAAAAAAAATTTGTC
4316190 A
1 A
4316191 TCAGCTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (21 bp):
AATTATTAAAAAAAATTTGTC
Found at i:4331045 original size:15 final size:15
Alignment explanation
Indices: 4331027--4331075 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
4331017 TAGGGTTAAA
4331027 AATAATTATAAAAAT
1 AATAATTATAAAAAT
4331042 AATAATTATATTAAAAAT
1 AATAA-T-TA-TAAAAAT
4331060 AAATAA-TATAAAAAT
1 -AATAATTATAAAAAT
4331075 A
1 A
4331076 CTCAATATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.03
15 12 0.40
16 3 0.10
17 2 0.07
18 7 0.23
19 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATTATAAAAAT
Found at i:4331069 original size:18 final size:17
Alignment explanation
Indices: 4331026--4331073 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
4331016 TTAGGGTTAA
4331026 AAATAAT-TATAAAAAT
1 AAATAATATATAAAAAT
4331042 -AATAATTATATTAAAAAT
1 AAATAA-TATA-TAAAAAT
4331060 AAATAATATA-AAAA
1 AAATAATATATAAAA
4331074 TACTCAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 5 0.18
16 5 0.18
17 2 0.07
18 11 0.39
19 5 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATAATATATAAAAAT
Found at i:4341077 original size:20 final size:20
Alignment explanation
Indices: 4341041--4341080 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4341031 TAGAAAGACT
4341041 AAATTCATAAAAAATAAAAA
1 AAATTCATAAAAAATAAAAA
*
4341061 AAATT-ATAAATATATAAAAA
1 AAATTCATAAA-AAATAAAAA
4341081 TTACACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATTCATAAAAAATAAAAA
Found at i:4346140 original size:16 final size:17
Alignment explanation
Indices: 4346105--4346151 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
4346095 GAAAGATATT
4346105 TATTAAATAAATAATTA
1 TATTAAATAAATAATTA
* *
4346122 TATTAAA-ATATATTTA
1 TATTAAATAAATAATTA
4346138 TATGATAAATAAAT
1 TAT--TAAATAAAT
4346152 GTAAAATAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 4 0.17
19 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TATTAAATAAATAATTA
Found at i:4348442 original size:46 final size:46
Alignment explanation
Indices: 4348389--4348662 Score: 449
Period size: 46 Copynumber: 6.0 Consensus size: 46
4348379 AGTGTGCTCT
*
4348389 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
4348435 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
4348481 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
4348527 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
4348573 GTGATATGAAATGAATAAGTCCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
4348619 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
4348663 TCATGTCAAA
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 218 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:4350222 original size:47 final size:48
Alignment explanation
Indices: 4350150--4350327 Score: 191
Period size: 47 Copynumber: 3.8 Consensus size: 48
4350140 CACAATCGAT
* *
4350150 AAGTACCTATACCATAACCCGTAGCCAAATCAAGGTAACTT-ATCCCG
1 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTCATCCCA
* * * *
4350197 GAGTACCTATACCATGACCCTTAGCCAAATCAAGGTAA-TTCCTCTCA
1 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTCATCCCA
* * * * **
4350244 AAATACGTATATCATGACCCGTAGCCAAATCAAGGTAACTAC-TCTAA
1 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTCATCCCA
* * * *
4350291 AAATACCTATATCATGGCCCGTAGCTAAATCAAGGTA
1 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTA
4350328 TTGTTCGCAC
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
46 2 0.02
47 109 0.96
48 2 0.02
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (48 bp):
AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTCATCCCA
Found at i:4350327 original size:94 final size:94
Alignment explanation
Indices: 4350157--4350327 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 94
4350147 GATAAGTACC
*** * *
4350157 TATACCATAACCCGTAGCCAAATCAAGGTAACTTATCCCGGAGTACCTATACCATGACCCTTAGC
1 TATACCATAACCCGTAGCCAAATCAAGGTAACTTATCCAAAAATACCTATACCATGACCCGTAGC
4350222 CAAATCAAGGTAATTCCTCTCAAAATACG
66 CAAATCAAGGTAATTCCTCTCAAAATACG
* * * * *
4350251 TATATCATGACCCGTAGCCAAATCAAGGTAAC-TACTCTAAAAATACCTATATCATGGCCCGTAG
1 TATACCATAACCCGTAGCCAAATCAAGGTAACTTA-TCCAAAAATACCTATACCATGACCCGTAG
*
4350315 CTAAATCAAGGTA
65 CCAAATCAAGGTA
4350328 TTGTTCGCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
93 2 0.03
94 63 0.97
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.24
Consensus pattern (94 bp):
TATACCATAACCCGTAGCCAAATCAAGGTAACTTATCCAAAAATACCTATACCATGACCCGTAGC
CAAATCAAGGTAATTCCTCTCAAAATACG
Found at i:4353621 original size:19 final size:20
Alignment explanation
Indices: 4353588--4353625 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4353578 TTGTTTGCTT
4353588 AAATTATAACATATAATATA
1 AAATTATAACATATAATATA
*
4353608 AAATTATAA-TTATAATAT
1 AAATTATAACATATAATAT
4353626 TAACATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTATAACATATAATATA
Found at i:4359471 original size:20 final size:21
Alignment explanation
Indices: 4359420--4359490 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 21
4359410 GAAAGTAATG
* *
4359420 ATTATGTTT-ATGATATTTTAT
1 ATTAT-TTTAATGAGATATTAT
*
4359441 GATTA-TTTAATTAGATA-TAT
1 -ATTATTTTAATGAGATATTAT
*
4359461 ATTATTTTAATGAGATATTTT
1 ATTATTTTAATGAGATATTAT
4359482 ATTATTTTA
1 ATTATTTTA
4359491 TTATTAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
19 4 0.10
20 17 0.41
21 16 0.39
22 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
ATTATTTTAATGAGATATTAT
Found at i:4361744 original size:46 final size:46
Alignment explanation
Indices: 4361637--4361744 Score: 128
Period size: 46 Copynumber: 2.3 Consensus size: 46
4361627 GCTCTCTGAT
* * * * * *
4361637 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACGTTAT
1 ATGAAATGAGTAAGACCATGGTTGAAAAATACCATGGCAACATGAC
**
4361683 ATGAAATGAACAAGACCATGGTTGAAAAATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAAATACCATGGCAACATGAC
4361729 A-GAAAATGAGTAAGAC
1 ATG-AAATGAGTAAGAC
4361745 TATAATTGAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 1 0.02
46 50 0.98
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAAATACCATGGCAACATGAC
Found at i:4364251 original size:25 final size:27
Alignment explanation
Indices: 4364218--4364276 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
4364208 ATTATAGCAA
* *
4364218 ATTACAATATATTATA-TAAAATA-AT
1 ATTAAAATATAATATATTAAAATATAT
*
4364243 ATTAAAATATAATATATTAAACTATAT
1 ATTAAAATATAATATATTAAAATATAT
4364270 ATTAAAA
1 ATTAAAA
4364277 ATTTATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 14 0.48
26 6 0.21
27 9 0.31
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (27 bp):
ATTAAAATATAATATATTAAAATATAT
Found at i:4366815 original size:31 final size:31
Alignment explanation
Indices: 4366779--4366841 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
4366769 TGATACTTTA
* * *
4366779 ATTTGATTAATTTTAGTTCTTATATTTTTTG
1 ATTTGATCAATTTTAGTCCTTATATATTTTG
* *
4366810 ATTTGATCAATTTTCGTCCTTGTATATTTTG
1 ATTTGATCAATTTTAGTCCTTATATATTTTG
4366841 A
1 A
4366842 ATCTTAAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.08, G:0.11, T:0.59
Consensus pattern (31 bp):
ATTTGATCAATTTTAGTCCTTATATATTTTG
Found at i:4370421 original size:17 final size:17
Alignment explanation
Indices: 4370399--4370449 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
4370389 AATATATATT
*
4370399 TAAAAT-ATTTGATATAA
1 TAAAATCATTT-AAATAA
4370416 TAAAATCATTTAAATAA
1 TAAAATCATTTAAATAA
4370433 TAATTAATACATTTAAA
1 TAA--AAT-CATTTAAA
4370450 AAATGTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 14 0.48
18 4 0.14
19 3 0.10
20 8 0.28
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAAATCATTTAAATAA
Found at i:4384621 original size:4 final size:4
Alignment explanation
Indices: 4384612--4384656 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
4384602 TTCTAATATC
4384612 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
4384657 ACAGTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:4385000 original size:21 final size:21
Alignment explanation
Indices: 4384968--4385008 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4384958 TTTAATGTTT
4384968 AATTTAGAATTTGAATTTTTC
1 AATTTAGAATTTGAATTTTTC
*
4384989 AATTT-GATATTTGAGTTTTT
1 AATTTAGA-ATTTGAATTTTT
4385009 TTATTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (21 bp):
AATTTAGAATTTGAATTTTTC
Found at i:4404671 original size:90 final size:90
Alignment explanation
Indices: 4404518--4404790 Score: 465
Period size: 90 Copynumber: 3.0 Consensus size: 90
4404508 TTTAGGGATA
* *
4404518 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATGTCAAAGGAGATGAATGTGAAGTCTACA
1 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
** *
4404583 TCATTCAGCAAGGAAAATAGCAACC
66 TCATTCAGCAAGGGGAATAGCAGCC
*
4404608 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGACAAATGTGAAGTCTACA
1 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
*
4404673 TCATCCAGCAAGGGGAATAGCAGCC
66 TCATTCAGCAAGGGGAATAGCAGCC
*
4404698 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGAACTCAAAGGAGATAAATGTGAAGTCTACA
1 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
*
4404763 TCATTCAGCAGGGGGAATAGCAGCC
66 TCATTCAGCAAGGGGAATAGCAGCC
4404788 AAA
1 AAA
4404791 GACCTGGAGA
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 172 1.00
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (90 bp):
AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
TCATTCAGCAAGGGGAATAGCAGCC
Found at i:4406178 original size:15 final size:15
Alignment explanation
Indices: 4406158--4406188 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4406148 CATAGGATGG
4406158 TTAATGAATCATCCA
1 TTAATGAATCATCCA
4406173 TTAATGAATCATCCA
1 TTAATGAATCATCCA
4406188 T
1 T
4406189 ATGTTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (15 bp):
TTAATGAATCATCCA
Found at i:4406502 original size:26 final size:26
Alignment explanation
Indices: 4406466--4406517 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4406456 GTCCGCTTAT
4406466 TTCCAATTCGTGAGCTTAGCTGAAAC
1 TTCCAATTCGTGAGCTTAGCTGAAAC
4406492 TTCCAATTCGTGAGCTTAGCTGAAAC
1 TTCCAATTCGTGAGCTTAGCTGAAAC
4406518 AAAGTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (26 bp):
TTCCAATTCGTGAGCTTAGCTGAAAC
Found at i:4406636 original size:14 final size:14
Alignment explanation
Indices: 4406617--4406643 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4406607 TAGCCTTAAA
4406617 AGTAAAGTAAAATT
1 AGTAAAGTAAAATT
4406631 AGTAAAGTAAAAT
1 AGTAAAGTAAAAT
4406644 AAAGGGCGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (14 bp):
AGTAAAGTAAAATT
Found at i:4408444 original size:14 final size:14
Alignment explanation
Indices: 4408422--4408451 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4408412 AAATTTTAAA
*
4408422 TTAATTTGCGAACC
1 TTAAATTGCGAACC
4408436 TTAAATTGCGAACC
1 TTAAATTGCGAACC
4408450 TT
1 TT
4408452 GAAGACTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (14 bp):
TTAAATTGCGAACC
Found at i:4411435 original size:19 final size:20
Alignment explanation
Indices: 4411411--4411456 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
4411401 TAAATTAAGA
4411411 AATTTTTATAAA-TATTTTG-
1 AATTTTTA-AAATTATTTTGT
4411430 AA-TTTTAAAATTTATTTTGT
1 AATTTTTAAAA-TTATTTTGT
4411450 AATTTTT
1 AATTTTT
4411457 GTTGAGAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.13
18 5 0.22
19 9 0.39
20 2 0.09
21 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
AATTTTTAAAATTATTTTGT
Found at i:4418238 original size:15 final size:17
Alignment explanation
Indices: 4418208--4418239 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4418198 TATATTCCAT
4418208 TAAAAATATATTTAAAA
1 TAAAAATATATTTAAAA
4418225 TAAAAA-AT-TTTAAAA
1 TAAAAATATATTTAAAA
4418240 GTGATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATATATTTAAAA
Found at i:4424495 original size:29 final size:31
Alignment explanation
Indices: 4424436--4424504 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
4424426 TAAATTTTAA
*
4424436 AATTATATATATATATTTTGATTTAATGTGT
1 AATTATATATATATATTTTAATTTAATGTGT
4424467 AATTATATATAT-TAATTTTAATTT-A-GTGT
1 AATTATATATATAT-ATTTTAATTTAATGTGT
4424496 AATTATATA
1 AATTATATA
4424505 CGTAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 13 0.36
30 2 0.06
31 21 0.58
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (31 bp):
AATTATATATATATATTTTAATTTAATGTGT
Found at i:4424721 original size:30 final size:29
Alignment explanation
Indices: 4424681--4424745 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
4424671 GTTAATAATT
*
4424681 TATA-AAAATTAAATC-AAATTAAAATTTTA
1 TATATAAAATTAAA-CAAAATTAAAA-TTCA
*
4424710 TATATAAAATTACACAAAATTAAAATTCA
1 TATATAAAATTAAACAAAATTAAAATTCA
4424739 TATATAA
1 TATATAA
4424746 TTATTTTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (29 bp):
TATATAAAATTAAACAAAATTAAAATTCA
Found at i:4425707 original size:151 final size:151
Alignment explanation
Indices: 4425433--4425729 Score: 407
Period size: 151 Copynumber: 2.0 Consensus size: 151
4425423 TTAGCTCAGC
*
4425433 CGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTCCCACAGACGGCGTCGATTTT
1 CGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTCCCACAGACGGCGTCGAGTTT
* * * * * *
4425498 TGCAACCTCTATTTTTGCATTTTTGTTTACCGAAGAGAAGATGAAGAATCCGATGATCCACTGTT
66 TGCAACCTCTATTTTTACATTTTTGCTTACCGAAGAGAAGAGGAAGAAACCGATGATCCACCGCT
*
4425563 ATGCTACTGTGCATCACCAGT
131 ATACTACTGTGCATCACCAGT
* * *
4425584 CGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTCGCACAGATGGCGTTGAGTTT
1 CGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTCCCACAGACGGCGTCGAGTTT
***** * *
4425649 TGTTGTTTCTA-TTTTACATTTTTGCTTACCGAAGAGAAGAGGGAGAACACCGGTGATCCACCGC
66 TGCAACCTCTATTTTTACATTTTTGCTTACCGAAGAGAAGAGGAAGAA-ACCGATGATCCACCGC
*
4425713 TATACTGCTGTGCATCA
130 TATACTACTGTGCATCA
4425730 TTAATCCGGC
Statistics
Matches: 126, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
150 32 0.25
151 94 0.75
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (151 bp):
CGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTCCCACAGACGGCGTCGAGTTT
TGCAACCTCTATTTTTACATTTTTGCTTACCGAAGAGAAGAGGAAGAAACCGATGATCCACCGCT
ATACTACTGTGCATCACCAGT
Found at i:4426567 original size:74 final size:74
Alignment explanation
Indices: 4426443--4426590 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
4426433 AAAAAAGAAA
4426443 GTATATATAGGTTCATCTGCTTGATTAGTTAACTTGAATTTACATAACTAGCTACATGCATGTAT
1 GTATATATAGGTTCATCTGCTTGATTAGTTAACTTGAATTTACATAACTAGCTACATGCATGTAT
4426508 GTATGCATG
66 GTATGCATG
* *
4426517 GTATATATAGGTTCATCTGCTTGATTAGTTAACTTGAATTTACATGACTAGCTCCATGCATGTAT
1 GTATATATAGGTTCATCTGCTTGATTAGTTAACTTGAATTTACATAACTAGCTACATGCATGTAT
4426582 GTATGCATG
66 GTATGCATG
4426591 ACATCCATAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (74 bp):
GTATATATAGGTTCATCTGCTTGATTAGTTAACTTGAATTTACATAACTAGCTACATGCATGTAT
GTATGCATG
Found at i:4427103 original size:5 final size:5
Alignment explanation
Indices: 4427085--4427119 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
4427075 ATTTAAATTT
*
4427085 AAAAG AAAAAG AAAGG AAAAG AAAAG AAAAG AAAA
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
4427120 AGGTTTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:4438207 original size:24 final size:24
Alignment explanation
Indices: 4438180--4438241 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
4438170 GTACATGTAT
4438180 GCTCATATGAGTT-ATAAACGGTAA
1 GCTCATATGAGTTAAT-AACGGTAA
* * *
4438204 GCTCTTCTGAGCTGAATAACGGTAA
1 GCTCATATGAG-TTAATAACGGTAA
*
4438229 GCTCATACGAGTT
1 GCTCATATGAGTT
4438242 GAGTATCAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
24 10 0.34
25 17 0.59
26 2 0.07
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (24 bp):
GCTCATATGAGTTAATAACGGTAA
Found at i:4441766 original size:25 final size:25
Alignment explanation
Indices: 4441738--4441786 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4441728 TAGGAAATAG
4441738 AAAG-AAAAAGAAAAAGAGAAAATTA
1 AAAGCAAAAAGAAAAAGA-AAAATTA
* *
4441763 AAAGCAAAAATAAAAATAAAAATT
1 AAAGCAAAAAGAAAAAGAAAAATT
4441787 CATGTGGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (25 bp):
AAAGCAAAAAGAAAAAGAAAAATTA
Found at i:4441778 original size:13 final size:12
Alignment explanation
Indices: 4441732--4441785 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
4441722 TTATCTTAGG
*
4441732 AAATAGAAAGAA
1 AAATAAAAAGAA
*
4441744 AAAGAAAAAGAGA
1 AAATAAAAAGA-A
*
4441757 AAATTAAAAGCAA
1 AAATAAAAAG-AA
*
4441770 AAATAAAAATAA
1 AAATAAAAAGAA
4441782 AAAT
1 AAAT
4441786 TCATGTGGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 15 0.44
13 18 0.53
14 1 0.03
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (12 bp):
AAATAAAAAGAA
Found at i:4442945 original size:29 final size:29
Alignment explanation
Indices: 4442902--4442960 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
4442892 GGGTGTTTGT
*
4442902 ACATCAGCATGAGATAAACGTCTCACGTC
1 ACATCAGCATAAGATAAACGTCTCACGTC
4442931 ACATCAGCATAAGATAAACGTCTCACGTC
1 ACATCAGCATAAGATAAACGTCTCACGTC
4442960 A
1 A
4442961 TATGTTACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.20
Consensus pattern (29 bp):
ACATCAGCATAAGATAAACGTCTCACGTC
Found at i:4462709 original size:106 final size:106
Alignment explanation
Indices: 4462524--4462740 Score: 434
Period size: 106 Copynumber: 2.0 Consensus size: 106
4462514 TGTTACTTTC
4462524 AGAAAAGCTGGTAGAGGCATTGCTTTGAGATCTTGTCACAAAGAGGAGGAGGCTTATGCTTTTCT
1 AGAAAAGCTGGTAGAGGCATTGCTTTGAGATCTTGTCACAAAGAGGAGGAGGCTTATGCTTTTCT
4462589 ATTTCCTTTTGGACAATAACATGGGAAATAGTATTTGAAGA
66 ATTTCCTTTTGGACAATAACATGGGAAATAGTATTTGAAGA
4462630 AGAAAAGCTGGTAGAGGCATTGCTTTGAGATCTTGTCACAAAGAGGAGGAGGCTTATGCTTTTCT
1 AGAAAAGCTGGTAGAGGCATTGCTTTGAGATCTTGTCACAAAGAGGAGGAGGCTTATGCTTTTCT
4462695 ATTTCCTTTTGGACAATAACATGGGAAATAGTATTTGAAGA
66 ATTTCCTTTTGGACAATAACATGGGAAATAGTATTTGAAGA
4462736 AGAAA
1 AGAAA
4462741 GAAATTATAT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 111 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (106 bp):
AGAAAAGCTGGTAGAGGCATTGCTTTGAGATCTTGTCACAAAGAGGAGGAGGCTTATGCTTTTCT
ATTTCCTTTTGGACAATAACATGGGAAATAGTATTTGAAGA
Found at i:4469840 original size:17 final size:17
Alignment explanation
Indices: 4469818--4469854 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4469808 ACGAATGCGA
4469818 AAAAATAAACAATAAAT
1 AAAAATAAACAATAAAT
4469835 AAAAATAAACAATAAAT
1 AAAAATAAACAATAAAT
4469852 AAA
1 AAA
4469855 GAGTAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAACAATAAAT
Found at i:4470763 original size:44 final size:44
Alignment explanation
Indices: 4470711--4471131 Score: 249
Period size: 44 Copynumber: 9.6 Consensus size: 44
4470701 TTTAATCCGT
* *
4470711 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
* * * ** **
4470755 TCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCCTT-GGTCTGC
1 TCCACTGTAATCTCAGGGAGATAAGAT-T--ACTAGCTTCAATCTGC
* * * * * *
4470801 TCCACTGTAACCTCAGGGAGATAAGA--CCT-GATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
** * * *
4470842 TCTGCTGTAA-CTTCAGGGAGATAAGATCCT-TTA-TTTTAATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCAATCTGC
* * * *
4470886 TCCACTGTAATCTCAGAGAAATAGGATTACTATCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
* * * ** *
4470930 TCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATCTTTCGGTCCGC
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTAGC-TTCAATCTGC
* * * * *
4470976 TCCACTGTAATCTCAGGGAGATAAGA--CCT-GATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
* * * * * *
4471017 TCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCAATCTGC
* *
4471061 TCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
4471105 TCCACTGTAATCTCAGGGAGATAAGAT
1 TCCACTGTAATCTCAGGGAGATAAGAT
4471132 CTGAAATTCT
Statistics
Matches: 284, Mismatches: 67, Indels: 52
0.70 0.17 0.13
Matches are distributed among these distances:
40 3 0.01
41 56 0.20
42 2 0.01
43 4 0.01
44 145 0.51
45 7 0.02
46 62 0.22
47 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
Found at i:4470980 original size:175 final size:174
Alignment explanation
Indices: 4470664--4471138 Score: 790
Period size: 175 Copynumber: 2.7 Consensus size: 174
4470654 GGCTTCAATG
* *
4470664 TACTCTACTGTAATCTT-AGAGAGATAATATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGG
1 TACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGG
* * *
4470728 GAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCCT
65 GAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAA-TCCT
*
4470793 TGGTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
129 TGGTCCGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
* * * *
4470839 TACTCTGCTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGAG
1 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
* *
4470904 AAATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATCTTTC
66 AGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATCCTT-
*
4470969 GGTCCGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATC
130 GGTCCGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
4471014 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
1 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
*
4471079 AGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
66 AGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
4471139 TCTTCGATCT
Statistics
Matches: 279, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
174 7 0.03
175 272 0.97
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (174 bp):
TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
AGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATCCTTG
GTCCGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
Found at i:4484686 original size:17 final size:17
Alignment explanation
Indices: 4484664--4484700 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4484654 CGAATGCGAA
4484664 AAAAATAAACAATAAAT
1 AAAAATAAACAATAAAT
4484681 AAAAATAAACAATAAAT
1 AAAAATAAACAATAAAT
4484698 AAA
1 AAA
4484701 GAGTAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAACAATAAAT
Found at i:4490895 original size:25 final size:24
Alignment explanation
Indices: 4490867--4490913 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
4490857 TAATTTCTGG
4490867 GTTCACGATAATTTGATTTTTTCGA
1 GTTCACGATAATTTG-TTTTTTCGA
*
4490892 GTTCATGATAATTTGTTTTTTC
1 GTTCACGATAATTTGTTTTTTC
4490914 AATACGTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.21, C:0.11, G:0.15, T:0.53
Consensus pattern (24 bp):
GTTCACGATAATTTGTTTTTTCGA
Found at i:4501072 original size:45 final size:44
Alignment explanation
Indices: 4501018--4501104 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
4501008 TTATTTTTAA
4501018 ATTAGCACAATCATAAATTAAATTC-TAATTATTTTTAAATGTGTT
1 ATTAGCACAAT-ATAAATTAAA-TCATAATTATTTTTAAATGTGTT
* * **
4501063 ATTATCACAATTTCTATTAAATCATAATTATTTTTAAATGTG
1 ATTAGCACAATATAAATTAAATCATAATTATTTTTAAATGTG
4501105 AATTTAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 2 0.05
44 25 0.68
45 10 0.27
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (44 bp):
ATTAGCACAATATAAATTAAATCATAATTATTTTTAAATGTGTT
Found at i:4503407 original size:10 final size:10
Alignment explanation
Indices: 4503388--4503417 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4503378 TATCAAGGTG
*
4503388 TTTTTGAGTA
1 TTTTTAAGTA
4503398 TTTTTAAGTA
1 TTTTTAAGTA
4503408 TTTTTAAGTA
1 TTTTTAAGTA
4503418 CAAGATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (10 bp):
TTTTTAAGTA
Found at i:4504886 original size:16 final size:19
Alignment explanation
Indices: 4504849--4504889 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4504839 TTTATGTTTT
4504849 TTTATAATTTATTTTCATA
1 TTTATAATTTATTTTCATA
4504868 TTTATAATTT-TTTT-A-A
1 TTTATAATTTATTTTCATA
4504884 TTTATA
1 TTTATA
4504890 TATACTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 4 0.18
19 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATAATTTATTTTCATA
Found at i:4507314 original size:15 final size:14
Alignment explanation
Indices: 4507281--4507310 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4507271 CTAATACCTG
4507281 AATTAAATATTAAA
1 AATTAAATATTAAA
4507295 AATTAAATATTAAA
1 AATTAAATATTAAA
4507309 AA
1 AA
4507311 ATTATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTAAATATTAAA
Found at i:4507318 original size:11 final size:11
Alignment explanation
Indices: 4507302--4507333 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
4507292 AAAAATTAAA
4507302 TATTAAAAAAT
1 TATTAAAAAAT
4507313 TATTAAAAAAT
1 TATTAAAAAAT
4507324 TATTAAAAAA
1 TATTAAAAAA
4507334 ATGTTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TATTAAAAAAT
Found at i:4507340 original size:11 final size:11
Alignment explanation
Indices: 4507285--4507341 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
4507275 TACCTGAATT
4507285 AAATATTAAAAA
1 AAATATT-AAAA
4507297 TTAAATATTAAAA
1 --AAATATTAAAA
*
4507310 AATTATTAAAA
1 AAATATTAAAA
*
4507321 AATTATTAAAA
1 AAATATTAAAA
*
4507332 AAATGTTAAA
1 AAATATTAAA
4507342 TTTAAGTACC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
11 29 0.73
13 4 0.10
14 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AAATATTAAAA
Found at i:4509426 original size:17 final size:17
Alignment explanation
Indices: 4509404--4509437 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4509394 ATAATGAAGA
4509404 ATCATTGAGGAGGTTAT
1 ATCATTGAGGAGGTTAT
4509421 ATCATTGAGGAGGTTAT
1 ATCATTGAGGAGGTTAT
4509438 CAGCAACAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (17 bp):
ATCATTGAGGAGGTTAT
Found at i:4521359 original size:20 final size:21
Alignment explanation
Indices: 4521318--4521360 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
4521308 TATTAGTATG
*
4521318 ATAAAAATAATTTCTAAACAA
1 ATAAAAATAATTTCAAAACAA
4521339 ATAAAAA-AATTT-AAAATCAA
1 ATAAAAATAATTTCAAAA-CAA
4521359 AT
1 AT
4521361 CATCATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 10 0.50
21 7 0.35
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAAAATAATTTCAAAACAA
Found at i:4523908 original size:28 final size:25
Alignment explanation
Indices: 4523862--4523920 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 25
4523852 GTTTATAAAG
*
4523862 TTTTATAAAAGCTGTATAATATATATAT
1 TTTTATAAAAGCTGCATAA-AT-TAT-T
4523890 TTTTATAAAA-CTTGCATAAATTATT
1 TTTTATAAAAGC-TGCATAAATTATT
4523915 TTTTAT
1 TTTTAT
4523921 TTGGATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.24
26 3 0.10
27 3 0.10
28 16 0.55
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (25 bp):
TTTTATAAAAGCTGCATAAATTATT
Found at i:4532605 original size:21 final size:21
Alignment explanation
Indices: 4532576--4532625 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
4532566 TTTTAAAAAC
*
4532576 TTTTCCTTTCTTCT-AGTTCTT
1 TTTTTCTTTCTT-TGAGTTCTT
*
4532597 TTTTTCTTT-TTTGATTTCTT
1 TTTTTCTTTCTTTGAGTTCTT
4532617 TTTTT-TTTC
1 TTTTTCTTTC
4532626 CCCACTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTTCTTTCTTTGAGTTCTT
Found at i:4540509 original size:30 final size:29
Alignment explanation
Indices: 4540456--4540546 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 29
4540446 TAGGTTCTTC
** * *
4540456 AAAAGTTGGTAAAAGTATATTTGGACCCTT
1 AAAAGTTGGTAAATTTTTTTTTGG-CCCTT
**
4540486 AAAAGTTGGTAAATTTTTTTTTGGCTTTT
1 AAAAGTTGGTAAATTTTTTTTTGGCCCTT
4540515 AAAAG-T--TAAATTTTTTTTTGAGCCCCTT
1 AAAAGTTGGTAAATTTTTTTTTG-G-CCCTT
4540543 AAAA
1 AAAA
4540547 TTAAAAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
26 14 0.27
27 1 0.02
28 8 0.16
29 8 0.16
30 20 0.39
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (29 bp):
AAAAGTTGGTAAATTTTTTTTTGGCCCTT
Found at i:4540550 original size:27 final size:26
Alignment explanation
Indices: 4540475--4540551 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 26
4540465 TAAAAGTATA
4540475 TTTGGACCCTTAAAAGTTGGTAAATTTTTT
1 TTTGG-CCCTTAAAAG-T--TAAATTTTTT
**
4540505 TTTGGCTTTTAAAAGTTAAATTTTTT
1 TTTGGCCCTTAAAAGTTAAATTTTTT
4540531 TTTGAGCCCCTTAAAA-TTAAA
1 TTTG-G-CCCTTAAAAGTTAAA
4540552 AAATAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 14 0.34
27 6 0.15
28 8 0.20
29 8 0.20
30 5 0.12
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (26 bp):
TTTGGCCCTTAAAAGTTAAATTTTTT
Done.