Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 65 of 117
Found at i:14133178 original size:21 final size:21
Alignment explanation
Indices: 14133131--14133205 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
14133121 TCTTTTGATA
* *
14133131 AGAATTTTTGAGTTTTCAAATG
1 AGAATCTTTGAATTTT-AAATG
*
14133153 TGAATCTTTGAATTTTAAATG
1 AGAATCTTTGAATTTTAAATG
* *
14133174 AGAATCTTTGAATTTCAAATA
1 AGAATCTTTGAATTTTAAATG
14133195 AGAATCTTTGA
1 AGAATCTTTGA
14133206 GATGTGAAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 34 0.72
22 13 0.28
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.43
Consensus pattern (21 bp):
AGAATCTTTGAATTTTAAATG
Found at i:14133631 original size:42 final size:42
Alignment explanation
Indices: 14133567--14133864 Score: 395
Period size: 42 Copynumber: 7.1 Consensus size: 42
14133557 AATTGTCCAA
*
14133567 GAGCAATTTATTTTTTTCAAAGTTTTGTTACCTCTATTTAGAG
1 GAGCAATTTA-TTTTTTCAAAGTTTTGTTGCCTCTATTTAGAG
* * *
14133610 GAGTAATTTATTTTTTCAAAGTTTTATTGCCTCTATTTAGAA
1 GAGCAATTTATTTTTTCAAAGTTTTGTTGCCTCTATTTAGAG
*
14133652 GAGCAATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTTTGTTGCCTCTATTTAGAG
* *
14133694 GAGCAATTTA-TTTTTCAAAAGTTCTGTTGCCTCTATTTAGAA
1 GAGCAATTTATTTTTTC-AAAGTTTTGTTGCCTCTATTTAGAG
* *
14133736 GAGCAATTTA-TTTTTCAAAAGTTATGTTGCCTATATTTAGAG
1 GAGCAATTTATTTTTTC-AAAGTTTTGTTGCCTCTATTTAGAG
* * * * *
14133778 GTGTAATTTA-TTCTTCAAAGTTGTGTTACCTCTATTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTTTGTTGCCTCTATTTAGAG
* * *
14133819 GAGCAATTTATTTTTTCAAAGTTTTATTGCCTCTGTTTATAG
1 GAGCAATTTATTTTTTCAAAGTTTTGTTGCCTCTATTTAGAG
14133861 GAGC
1 GAGC
14133865 TTTGTTTATT
Statistics
Matches: 227, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
41 36 0.16
42 182 0.80
43 9 0.04
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (42 bp):
GAGCAATTTATTTTTTCAAAGTTTTGTTGCCTCTATTTAGAG
Found at i:14133829 original size:125 final size:126
Alignment explanation
Indices: 14133567--14133857 Score: 399
Period size: 125 Copynumber: 2.3 Consensus size: 126
14133557 AATTGTCCAA
* * *
14133567 GAGCAATTTATTTTTTTCAAAGTTTTGTTACCTCTATTTAGAGGAGTAATTTATTTTTTCAAAGT
1 GAGCAATTTA-TTTTTTCAAAGTTTTGTTGCCTCTATTTAGAAGAGCAATTTATTTTTTCAAAGT
* * * *
14133632 TTTATTGCCTCTATTTAGAAGAGCAATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAG
65 TATATTGCCTATATTTAGAAGAGCAATTTATTTCTTCAAAGTTCTGTTACCTCTATTTAGAG
*
14133694 GAGCAATTTA-TTTTTCAAAAGTTCTGTTGCCTCTATTTAGAAGAGCAATTTA-TTTTTCAAAAG
1 GAGCAATTTATTTTTTC-AAAGTTTTGTTGCCTCTATTTAGAAGAGCAATTTATTTTTTC-AAAG
* * * * *
14133757 TTATGTTGCCTATATTTAGAGGTGTAATTTA-TTCTTCAAAGTTGTGTTACCTCTATTTAGAG
64 TTATATTGCCTATATTTAGAAGAGCAATTTATTTCTTCAAAGTTCTGTTACCTCTATTTAGAG
* *
14133819 GAGCAATTTATTTTTTCAAAGTTTTATTGCCTCTGTTTA
1 GAGCAATTTATTTTTTCAAAGTTTTGTTGCCTCTATTTA
14133858 TAGGAGCTTT
Statistics
Matches: 145, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
125 69 0.48
126 66 0.46
127 10 0.07
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (126 bp):
GAGCAATTTATTTTTTCAAAGTTTTGTTGCCTCTATTTAGAAGAGCAATTTATTTTTTCAAAGTT
ATATTGCCTATATTTAGAAGAGCAATTTATTTCTTCAAAGTTCTGTTACCTCTATTTAGAG
Found at i:14134952 original size:11 final size:11
Alignment explanation
Indices: 14134936--14134975 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
14134926 CGTTTCGATT
14134936 TTTTTTGGGTA
1 TTTTTTGGGTA
**
14134947 TTTTTTTTAGTA
1 -TTTTTTGGGTA
14134959 TTTTTTGGGTA
1 TTTTTTGGGTA
14134970 TTTTTT
1 TTTTTT
14134976 TATTTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.72
Consensus pattern (11 bp):
TTTTTTGGGTA
Found at i:14134952 original size:12 final size:12
Alignment explanation
Indices: 14134935--14134976 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
14134925 CCGTTTCGAT
14134935 TTTTTTTGGGTA
1 TTTTTTTGGGTA
**
14134947 TTTTTTTTAGTA
1 TTTTTTTGGGTA
14134959 -TTTTTTGGGTA
1 TTTTTTTGGGTA
14134970 TTTTTTT
1 TTTTTTT
14134977 ATTTTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.74
Consensus pattern (12 bp):
TTTTTTTGGGTA
Found at i:14135358 original size:183 final size:183
Alignment explanation
Indices: 14135044--14135380 Score: 386
Period size: 183 Copynumber: 1.8 Consensus size: 183
14135034 TATAAAACTT
* **
14135044 AATAAATATTTTGAGAATAAATATTAATTATCCAGAGATGGAATTTATAGAAATTCAAATGGTAA
1 AATAAAAATTTTGAGAATAAATACAAATTATCCAGAGATGGAATTTATAGAAATTCAAATGGTAA
* * * * * * * *
14135109 ATTTCTATAAAATTTTTGGGTGAGAAATTTTTGTCTAAACTTGTCTAAAATGATGGAATTATTTA
66 ATTCCTATAAAATCTCTAGGTGAGAAATTTTTGTCTAAACTTGACCAAAATGATGAAATAATTTA
*
14135174 GAT-AAAGTTTTAATAACAA-TAATTAATATTTATTTTCAAACCAAAAAAATAAA
131 GATGAAA-TTTCAAT-ACAAGTAATTAATATTTATTTTCAAACCAAAAAAATAAA
14135227 AATAAAAATTTTG-GAATTAAATACAAATTATCCA-AGAAT-GAGATTCT-TAGAAATTTCAAAT
1 AATAAAAATTTTGAGAA-TAAATACAAATTATCCAGAG-ATGGA-ATT-TATAGAAA-TTCAAAT
* * * *
14135288 GGTAAATTCCTA-ACAAATCTCTAGGTGA-AATTTTTTTTTCTAAATTTGACCCAAATG-TGAAA
61 GGTAAATTCCTATA-AAATCTCTAGGTGAGAA-ATTTTTGTCTAAACTTGACCAAAATGATGAAA
14135350 TAATTTAGATGAAATTTCAATACAAGTAATT
124 TAATTTAGATGAAATTTCAATACAAGTAATT
14135381 GTATTCTTTT
Statistics
Matches: 129, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
182 11 0.09
183 65 0.50
184 53 0.41
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (183 bp):
AATAAAAATTTTGAGAATAAATACAAATTATCCAGAGATGGAATTTATAGAAATTCAAATGGTAA
ATTCCTATAAAATCTCTAGGTGAGAAATTTTTGTCTAAACTTGACCAAAATGATGAAATAATTTA
GATGAAATTTCAATACAAGTAATTAATATTTATTTTCAAACCAAAAAAATAAA
Found at i:14138141 original size:52 final size:52
Alignment explanation
Indices: 14138084--14138188 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
14138074 TGGACAAGAA
*
14138084 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAATATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGTAAGTTT
* ** * *
14138136 GACTTGTAGGAGAAGAATTCTAAGAGAAAATAGATTTTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGTAAGTTT
14138188 G
1 G
14138189 TATGGTTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGTAAGTTT
Found at i:14138713 original size:25 final size:24
Alignment explanation
Indices: 14138685--14138764 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
14138675 AAGTGGTATC
*
14138685 AGAGCCAAAGGTTCAAGACGTGAGA
1 AGAGCCAAAGGTTCAAGATGTG-GA
**
14138710 AGAGTTGAAA-GTTCAAGATGTGGAA
1 AGAG-CCAAAGGTTCAAGATGTGG-A
**
14138735 AGAGATAAAGGTTCAAGATGTGGGA
1 AGAGCCAAAGGTTCAAGATGT-GGA
14138760 AGAGC
1 AGAGC
14138765 ATGGTTTAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
24 4 0.09
25 36 0.80
26 5 0.11
ACGTcount: A:0.40, C:0.09, G:0.34, T:0.17
Consensus pattern (24 bp):
AGAGCCAAAGGTTCAAGATGTGGA
Found at i:14139662 original size:25 final size:25
Alignment explanation
Indices: 14139633--14139728 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 25
14139623 TATCAAAGCC
*
14139633 GAAGGTTCAAGAAGTGAGAAGAGCT
1 GAAGGTTCAAGATGTGAGAAGAGCT
* *
14139658 GAAGGTTTGAA-ATGTGAAAAGAGCT
1 GAAGG-TTCAAGATGTGAGAAGAGCT
* *
14139683 AAAGGTTCAAGATGTGGGAAGAGC-
1 GAAGGTTCAAGATGTGAGAAGAGCT
* * *
14139707 -ATGGTTTAAGATATGAGAAGAG
1 GAAGGTTCAAGATGTGAGAAGAG
14139729 GCAAGCTTAG
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
23 18 0.31
24 4 0.07
25 32 0.55
26 4 0.07
ACGTcount: A:0.40, C:0.05, G:0.34, T:0.21
Consensus pattern (25 bp):
GAAGGTTCAAGATGTGAGAAGAGCT
Found at i:14140445 original size:959 final size:957
Alignment explanation
Indices: 14137993--14140568 Score: 3714
Period size: 959 Copynumber: 2.7 Consensus size: 957
14137983 AGTGAAAATG
* * *
14137993 TTAGGAATAATGACTCAAATCCCATAAGAGATTTATTTGAGATTTGTTAGAGATTTTTTAAGATT
1 TTAGGAATAATGACTCAAATCCCATAAGAGATTTGTTTGGGATTTGTTAGAGATTTTTTGAGATT
* *
14138058 GGT-TGATATTGCTTGATGGACAAGAAGACTTGCAAAAGAAGAATTCTAAGAGAAAAAATATTCT
66 GGTCAGATATTGCTTGATGGACAAGAAGACTTGCAAAAGAAGAATTCTAAGAGAAAAAAAATTCT
* * * *
14138122 TAATAGGTAAGTTTGACTTG-TAGGAGAAGAATTCTAAGA-GAAAATAGATTTTTAATAGGTAAG
131 TAATAGGCAAGTTTGACTTGCT-GGAAAAGAATTCTAAGAGGAAAGT-GATTTTTAATAGGCAAG
* *
14138185 TTTGTATGGTTATAAATAAGTGAAGTCTTTATAGGGTTAGGTATGAGAAAAAGATGTAAGAGAGT
194 TTTGTATAGTTATAAATAAGTGAAGTCTCTATAGGGTTAGGTATGAGAAAAAGATGTAAGAGAGT
* * * * * *
14138250 TATAAGATTTTATAAGATAGACACCCCATAAGAGTACT-GATAATTTACTTTTTATGGGTGTGTA
259 TATAGGATTTTGTAGGATAGACACCCCATAAGAGTACTAGA-GATTTACGTCTTATGGGTGTGTA
* * *
14138314 TGTTTATTTGTGAGTGGACTAGAGAAGACTGAGAGGGTCCACATAGGTATGATGAATGAGTACAT
323 TGTTTATTTGT-AGTGGACTAGAGGAGACTGAGAGGATCCACATAGGTATGATGAATGGGTACAT
* * *
14138379 ATGGGTATGTGTTTGTTTATGTTGAAAAGATGCACAAAGATTTGTGTTTGTTTGGGTTTAAAATA
387 ATGGGTATGTGTTTGTTTATGTTGAAAAGATGCACAAGGATTTGTGTTTGTTTGGGTTGAGAATA
* * *
14138444 CTTCATAGGACTAGAAGAGATTGAA-AGTGTCTTATGAGTATTGATTATTGAGTGAGGTTGATGA
452 CTTCATAGGACTAGAGGAGATT-AAGAATGTCTTATGAGTATTGATTGTTGAGTGAGGTTGATGA
*
14138508 TTTGATTTGTATGTTTGTAATTCTTTACAACTAGTAGATCTTTTTTCTTATCTA-TGGACATAGG
516 TTTGATTTGTATGTTTGTAATTCTTTACAACTAGTAGATCTTTTTTCTTATC-AGTGGACGTAGG
* *
14138572 TAAGTTGGACTGAACCACGTTAAATTATTATCTCTTATGTGATTGATTAATTACTTGATTATGCT
580 TCAGTTGGACTGAACCACGTTAAATTATTATCTCTTATGTGATTGATTAATTGCTTGATTATGCT
* *
14138637 TTCATTAGTTTGATTAGATTGAGGCTTTTTAGCCTAACAAGTGGTATCAGAGCCAAAGGTTCAAG
645 TTC----G-CTGA-T---TTGA-------TAGCCTAACAAGTGGTATCAAAGCCAAAGGTTCAAG
* * *
14138702 ACGTGAGAAGAGTTGAAAGTTCAAGATGTGGAAAGAGATAAAGGTTCAAGATGTGGGAAGAGCAT
694 AAGTGAGAAGAGCTGAAAGTTCAAGATGTGAAAAGAGATAAAGGTTCAAGATGTGGGAAGAGCAT
*
14138767 GGTTTAAGATATGAGAAGAGGCAAGCTTAAAGGAGCTTGATTCAAGGAAAAAGTTTGAGTTCGTG
759 GGTTTAAGATATGAGAAGAGGCAAGCTTAAAGGAGCTCGATTCAAGGAAAAAGTTTGAGTTCGTG
14138832 TTTTGAAGATCGATTTGCATGAAATGTAAAGGCACATAAGAGAAAATGATTGTGAGACTTCTAGT
824 TTTTGAAGATCGATTTGCATGAAATGTAAAGGCACATAAGAGAAAATGATTGTGAGACTTCTAGT
* * * * * * *
14138897 GTAGGTGAAGCTAAGCATATTTAGCATAAAGATAGATGATTGATGGAATTTGAGTCAAGGTGAAG
889 GCAAGTGAAGCCAAGCATATCTAGCATAAAGACAGATGATTGATGAAATTTGAGTCAAAGTGAAG
14138962 ATTA
954 ATTA
* *
14138966 TTAGGAATAA-GACTCAAATCCTATAAGAGATTTGTTTGGGATTTGTTAGAGATTTTTTGGGATT
1 TTAGGAATAATGACTCAAATCCCATAAGAGATTTGTTTGGGATTTGTTAGAGATTTTTTGAGATT
* * * *
14139030 GGCCAGATATTGCTTGATGGGCAAGAAAACTTGCAAAAGAAGAATTCTAAGAGAAAAAAGATTCT
66 GGTCAGATATTGCTTGATGGACAAGAAGACTTGCAAAAGAAGAATTCTAAGAGAAAAAAAATTCT
* * *
14139095 TAATAGGCAAGTTTGACTTGCTGGAGAAA-AATTTTAAGAGGAAAG-GAATTCTTAATTGGCAAG
131 TAATAGGCAAGTTTGACTTGCTGGA-AAAGAATTCTAAGAGGAAAGTG-ATTTTTAATAGGCAAG
* * *
14139158 TTTATATAGTTATAAATAAGTGCAGTCTCTATAGGGTTAGGTATGAAAAAAAGATGTAAGAGAGT
194 TTTGTATAGTTATAAATAAGTGAAGTCTCTATAGGGTTAGGTATGAGAAAAAGATGTAAGAGAGT
* *
14139223 TACAGGATTTTGTAGGATAGACACCCCATATGAGTACTAGAGATTT--G-C--AT---T-T-TAT
259 TATAGGATTTTGTAGGATAGACACCCCATAAGAGTACTAGAGATTTACGTCTTATGGGTGTGTAT
** * *
14139278 G--GGTGTGTA-TGGACTAGAGGAGACTGAGA-GAGTCCACATAGGTATGATGAATGGGTATATA
324 GTTTATTTGTAGTGGACTAGAGGAGACTGAGAGGA-TCCACATAGGTATGATGAATGGGTACATA
* *
14139339 TGGGTGTGTGTTTGTTTATGTTGAAATGATGCACAAGGATTTGTGTTTGTTTGGGTTGAGAATAC
388 TGGGTATGTGTTTGTTTATGTTGAAAAGATGCACAAGGATTTGTGTTTGTTTGGGTTGAGAATAC
* *
14139404 TTTATAGGACTAGAGGAGATTAAGAATGTCTTATGAGTATTGATTGTTGAGTGAGGTTGATAATT
453 TTCATAGGACTAGAGGAGATTAAGAATGTCTTATGAGTATTGATTGTTGAGTGAGGTTGATGATT
* * * *
14139469 TGATTTGTATGTTTGTAATTCTCTACAACTAGTGGATCTTTTTTCTCATCAGTGGACGTAGATCA
518 TGATTTGTATGTTTGTAATTCTTTACAACTAGTAGATCTTTTTTCTTATCAGTGGACGTAGGTCA
*
14139534 GTTGGA-TCGAACCACGTTATATTATTATCTCTTATGTGA-TGATTAATTGCTTGATTATGCTTT
583 GTTGGACT-GAACCACGTTAAATTATTATCTCTTATGTGATTGATTAATTGCTTGATTATGCTTT
* *
14139597 CGCTGATTTGATAGCCTAACAAGTGGTATCAAAGCCGAAGGTTCAAGAAGTGAGAAGAGCTGAAG
647 CGCTGATTTGATAGCCTAACAAGTGGTATCAAAGCCAAAGGTTCAAGAAGTGAGAAGAGCTGAAA
* *
14139662 GTTTGAA-ATGTGAAAAGAGCTAAAGGTTCAAGATGTGGGAAGAGCATGGTTTAAGATATGAGAA
712 G-TTCAAGATGTGAAAAGAGATAAAGGTTCAAGATGTGGGAAGAGCATGGTTTAAGATATGAGAA
* * *
14139726 GAGGCAAGCTTAGAGGAGCTCGATTCAAGGAAGAAGTTTGAGTTCGTGTTTTGAAGATTGATTTG
776 GAGGCAAGCTTAAAGGAGCTCGATTCAAGGAAAAAGTTTGAGTTCGTGTTTTGAAGATCGATTTG
* *
14139791 CATGAAATGTAAAGGCACATAAGAGAAAATGATTGTGAGACTT-TCAGTGCAAGTGGAGCCAAGT
841 CATGAAATGTAAAGGCACATAAGAGAAAATGATTGTGAGACTTCT-AGTGCAAGTGAAGCCAAGC
* * * *
14139855 ATGTCTAGCATGAAGACAGGTGATTGATGAAATTTGAGTCAAAGTGGAGATTA
905 ATATCTAGCATAAAGACAGATGATTGATGAAATTTGAGTCAAAGTGAAGATTA
* * *
14139908 TTAGGAATAATGACTAAAATCCCATAGGAGATTTGTTCGGGATTTGTTAGAGATTTTTTGAGATT
1 TTAGGAATAATGACTCAAATCCCATAAGAGATTTGTTTGGGATTTGTTAGAGATTTTTTGAGATT
* *
14139973 GGTCAGATATTGCTTGATGGACAAGAAGACTTGTAGAAGAAGAATTCTAAGAGAAAAAAAATTCT
66 GGTCAGATATTGCTTGATGGACAAGAAGACTTGCAAAAGAAGAATTCTAAGAGAAAAAAAATTCT
* *
14140038 TAATAGGCAAGTTTGATTTGCTGGAAAAGAATTCTAAGAGGAAAGTGATTTTTAATGGGCAAGTT
131 TAATAGGCAAGTTTGACTTGCTGGAAAAGAATTCTAAGAGGAAAGTGATTTTTAATAGGCAAGTT
* *
14140103 TGTATAGTTATAAATAAGTGAAGTCTCTATAAGGTTAGGTATGAGAAAAAGATGTAAGAGAGTTG
196 TGTATAGTTATAAATAAGTGAAGTCTCTATAGGGTTAGGTATGAGAAAAAGATGTAAGAGAGTTA
* * * *
14140168 TAGGATTTTGTGGGATAGACACCCTATAGGAGTACTAGGGATTTACGTCTTATGGGTGTGTATGT
261 TAGGATTTTGTAGGATAGACACCCCATAAGAGTACTAGAGATTTACGTCTTATGGGTGTGTATGT
*
14140233 TTATTTGTAAGTGGACTAGAGGAGACTGAGAGGATCTACATAGGTATGATGAATGTGGGTACATA
326 TTATTTGT-AGTGGACTAGAGGAGACTGAGAGGATCCACATAGGTATGATGAA--TGGGTACATA
* *
14140298 TGGGTATGTGTTTGTTTGTGTTGAAAAGGA-GCACAAGGATTTATGTTTGTTTGGGTTGAGAATA
388 TGGGTATGTGTTTGTTTATGTTGAAAA-GATGCACAAGGATTTGTGTTTGTTTGGGTTGAGAATA
14140362 CTTCATAGGACTAGAGGAGATTAAGAATGTCTTATGAGTATTGATTGTTGAGTGAGGTTGATGAT
452 CTTCATAGGACTAGAGGAGATTAAGAATGTCTTATGAGTATTGATTGTTGAGTGAGGTTGATGAT
* * * *
14140427 TTGATTTGTATATTTGTAATTCTTTACAACTAGTAGATCTTTTTTCTTATCCGTAGATGTAGGTC
517 TTGATTTGTATGTTTGTAATTCTTTACAACTAGTAGATCTTTTTTCTTATCAGTGGACGTAGGTC
* * *
14140492 AGTTGGACTGAACCACGTTAAATTGTTATCTCTTGTGTGATTGATTAATTGCTTGATTATGCTTC
582 AGTTGGACTGAACCACGTTAAATTATTATCTCTTATGTGATTGATTAATTGCTTGATTATGCTTT
*
14140557 CGCTGGTTTGAT
647 CGCTGATTTGAT
14140569 TGGATTAAAG
Statistics
Matches: 1438, Mismatches: 130, Indels: 83
0.87 0.08 0.05
Matches are distributed among these distances:
941 1 0.00
942 281 0.20
943 266 0.18
944 1 0.00
945 1 0.00
946 1 0.00
948 2 0.00
949 4 0.00
951 1 0.00
952 2 0.00
953 7 0.00
954 1 0.00
955 4 0.00
956 1 0.00
957 38 0.03
958 31 0.02
959 477 0.33
960 38 0.03
961 4 0.00
963 4 0.00
964 1 0.00
965 1 0.00
968 2 0.00
972 52 0.04
973 208 0.14
974 9 0.01
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.34
Consensus pattern (957 bp):
TTAGGAATAATGACTCAAATCCCATAAGAGATTTGTTTGGGATTTGTTAGAGATTTTTTGAGATT
GGTCAGATATTGCTTGATGGACAAGAAGACTTGCAAAAGAAGAATTCTAAGAGAAAAAAAATTCT
TAATAGGCAAGTTTGACTTGCTGGAAAAGAATTCTAAGAGGAAAGTGATTTTTAATAGGCAAGTT
TGTATAGTTATAAATAAGTGAAGTCTCTATAGGGTTAGGTATGAGAAAAAGATGTAAGAGAGTTA
TAGGATTTTGTAGGATAGACACCCCATAAGAGTACTAGAGATTTACGTCTTATGGGTGTGTATGT
TTATTTGTAGTGGACTAGAGGAGACTGAGAGGATCCACATAGGTATGATGAATGGGTACATATGG
GTATGTGTTTGTTTATGTTGAAAAGATGCACAAGGATTTGTGTTTGTTTGGGTTGAGAATACTTC
ATAGGACTAGAGGAGATTAAGAATGTCTTATGAGTATTGATTGTTGAGTGAGGTTGATGATTTGA
TTTGTATGTTTGTAATTCTTTACAACTAGTAGATCTTTTTTCTTATCAGTGGACGTAGGTCAGTT
GGACTGAACCACGTTAAATTATTATCTCTTATGTGATTGATTAATTGCTTGATTATGCTTTCGCT
GATTTGATAGCCTAACAAGTGGTATCAAAGCCAAAGGTTCAAGAAGTGAGAAGAGCTGAAAGTTC
AAGATGTGAAAAGAGATAAAGGTTCAAGATGTGGGAAGAGCATGGTTTAAGATATGAGAAGAGGC
AAGCTTAAAGGAGCTCGATTCAAGGAAAAAGTTTGAGTTCGTGTTTTGAAGATCGATTTGCATGA
AATGTAAAGGCACATAAGAGAAAATGATTGTGAGACTTCTAGTGCAAGTGAAGCCAAGCATATCT
AGCATAAAGACAGATGATTGATGAAATTTGAGTCAAAGTGAAGATTA
Found at i:14149503 original size:32 final size:32
Alignment explanation
Indices: 14149462--14149540 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
14149452 TAAATATAAG
*
14149462 AATGATTTGTAAGACTTTCT-GGCAAAGATGAA
1 AATGATTTGTAAGAC-TTCTGGGCAAAGACGAA
*
14149494 AATGATTTGTAAGACTTCTGGGCAAAGACGAG
1 AATGATTTGTAAGACTTCTGGGCAAAGACGAA
14149526 AATGATTTGTAAGAC
1 AATGATTTGTAAGAC
14149541 CTCCGAACAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 4 0.09
32 40 0.91
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (32 bp):
AATGATTTGTAAGACTTCTGGGCAAAGACGAA
Found at i:14149707 original size:10 final size:10
Alignment explanation
Indices: 14149694--14149720 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14149684 AAAAATCCAT
14149694 AAAAAATTTA
1 AAAAAATTTA
14149704 AAAAAATTTA
1 AAAAAATTTA
14149714 AAAAAAT
1 AAAAAAT
14149721 AAGAAAATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:14149734 original size:18 final size:19
Alignment explanation
Indices: 14149683--14149737 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
14149673 TTAAAATATT
14149683 AAAAAATCCATAAAAAATTTA
1 AAAAAATCCA-AAAAAA-TTA
**
14149704 AAAAAATTTAAAAAAA-TA
1 AAAAAATCCAAAAAAATTA
*
14149722 AGAAAATCCAAAAAAA
1 AAAAAATCCAAAAAAA
14149738 ATTAGAAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 15 0.52
20 6 0.21
21 8 0.28
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAAATCCAAAAAAATTA
Found at i:14154830 original size:16 final size:16
Alignment explanation
Indices: 14154809--14154847 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14154799 ATCATTAAAA
*
14154809 ATCATCGTAAAACATC
1 ATCATCATAAAACATC
*
14154825 ATCATCATAAATCATC
1 ATCATCATAAAACATC
*
14154841 ATTATCA
1 ATCATCA
14154848 ATTGTTTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.03, T:0.31
Consensus pattern (16 bp):
ATCATCATAAAACATC
Found at i:14159060 original size:13 final size:13
Alignment explanation
Indices: 14159039--14159079 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
14159029 AAAGTGAAAG
*
14159039 AGAGGAGAAAAAA
1 AGAGAAGAAAAAA
14159052 AGAGAAGAAAAATA
1 AGAGAAGAAAAA-A
14159066 A-AGAA-AAAAAA
1 AGAGAAGAAAAAA
14159077 AGA
1 AGA
14159080 TAAAAGAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 2 0.08
12 6 0.24
13 15 0.60
14 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (13 bp):
AGAGAAGAAAAAA
Found at i:14160073 original size:3 final size:3
Alignment explanation
Indices: 14160067--14160140 Score: 139
Period size: 3 Copynumber: 24.7 Consensus size: 3
14160057 AAAGAAGAAG
*
14160067 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14160115 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14160141 AATTTTATTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14161392 original size:21 final size:20
Alignment explanation
Indices: 14161351--14161393 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
14161341 ACAATTAAGT
**
14161351 AATCAACAACAATAAGGAAA
1 AATCAACAACAATAAAAAAA
*
14161371 AATCACCAAGCAATAAAAAAA
1 AATCAACAA-CAATAAAAAAA
14161392 AA
1 AA
14161394 AAAAAGAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.67, C:0.16, G:0.07, T:0.09
Consensus pattern (20 bp):
AATCAACAACAATAAAAAAA
Found at i:14165488 original size:6 final size:6
Alignment explanation
Indices: 14165473--14165541 Score: 56
Period size: 6 Copynumber: 12.0 Consensus size: 6
14165463 GAAAAAAGTA
* * *
14165473 AAAATG -AAATG AAAATAA AAAATG AAAATG -AAA-- AAAATA AAAATA
1 AAAATG AAAATG AAAAT-G AAAATG AAAATG AAAATG AAAATG AAAATG
* *
14165518 AAAATA AAAATA AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG
14165542 CATGTTTTGA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
4 3 0.05
5 8 0.15
6 39 0.71
7 5 0.09
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:14165493 original size:18 final size:18
Alignment explanation
Indices: 14165472--14165540 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
14165462 AGAAAAAAGT
14165472 AAAAATGAAATGAAAATA
1 AAAAATGAAATGAAAATA
14165490 AAAAATGAAAATGAAAA-A
1 AAAAATG-AAATGAAAATA
* *
14165508 AATAA--AAATAAAAAT-
1 AAAAATGAAATGAAAATA
*
14165523 AAAAATAAAAATGAAAAT
1 AAAAAT-GAAATGAAAAT
14165541 GCATGTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 12 0.29
18 21 0.50
19 9 0.21
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAAATGAAATGAAAATA
Found at i:14165497 original size:13 final size:12
Alignment explanation
Indices: 14165479--14165540 Score: 70
Period size: 12 Copynumber: 4.8 Consensus size: 12
14165469 AGTAAAAATG
14165479 AAATGAAAATAAA
1 AAATGAAAAT-AA
14165492 AAATGAAAATGAAAA
1 AAATGAAAAT---AA
*
14165507 AAATAAAAATAA
1 AAATGAAAATAA
*
14165519 AAATAAAAATAA
1 AAATGAAAATAA
14165531 AAATGAAAAT
1 AAATGAAAAT
14165541 GCATGTTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
12 23 0.51
13 10 0.22
15 12 0.27
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (12 bp):
AAATGAAAATAA
Found at i:14165533 original size:39 final size:39
Alignment explanation
Indices: 14165463--14165541 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 39
14165453 AAGCATGCAA
* * *
14165463 GAAAAAAGTAAAAATGAAATGAAAATAAAAAATGAAAAT
1 GAAAAAAATAAAAATAAAATAAAAATAAAAAATGAAAAT
14165502 GAAAAAAATAAAAATAAAAATAAAAAT-AAAAATGAAAAT
1 GAAAAAAATAAAAAT-AAAATAAAAATAAAAAATGAAAAT
14165541 G
1 G
14165542 CATGTTTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 27 0.75
40 9 0.25
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (39 bp):
GAAAAAAATAAAAATAAAATAAAAATAAAAAATGAAAAT
Found at i:14166627 original size:25 final size:25
Alignment explanation
Indices: 14166599--14166688 Score: 135
Period size: 25 Copynumber: 3.6 Consensus size: 25
14166589 TTTTGATATT
*
14166599 TGCATTTGCATAATTGTTTGAATCA
1 TGCATTTGCATAATTGTTTGGATCA
*
14166624 TGCATTTGCATCATTGTTTGGATCA
1 TGCATTTGCATAATTGTTTGGATCA
* *
14166649 TGCATTTGCATCATTGTTTGGATTA
1 TGCATTTGCATAATTGTTTGGATCA
*
14166674 TGCATTTCCATAATT
1 TGCATTTGCATAATT
14166689 TAGGGAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (25 bp):
TGCATTTGCATAATTGTTTGGATCA
Found at i:14166636 original size:13 final size:13
Alignment explanation
Indices: 14166615--14166662 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
14166605 TGCATAATTG
*
14166615 TTTGAATCATGCA
1 TTTGCATCATGCA
14166628 TTTGCATCATTG--
1 TTTGCATCA-TGCA
*
14166640 TTTGGATCATGCA
1 TTTGCATCATGCA
14166653 TTTGCATCAT
1 TTTGCATCAT
14166663 TGTTTGGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 2 0.07
12 8 0.28
13 17 0.59
14 2 0.07
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (13 bp):
TTTGCATCATGCA
Found at i:14166648 original size:12 final size:12
Alignment explanation
Indices: 14166603--14166668 Score: 55
Period size: 12 Copynumber: 5.3 Consensus size: 12
14166593 GATATTTGCA
*
14166603 TTTGCATAATTG
1 TTTGCATCATTG
*
14166615 TTTGAATCA-TG
1 TTTGCATCATTG
14166626 CATTTGCATCATTG
1 --TTTGCATCATTG
*
14166640 TTTGGATCA-TG
1 TTTGCATCATTG
14166651 CATTTGCATCATTG
1 --TTTGCATCATTG
14166665 TTTG
1 TTTG
14166669 GATTATGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
11 4 0.09
12 19 0.44
13 16 0.37
14 4 0.09
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (12 bp):
TTTGCATCATTG
Found at i:14167091 original size:32 final size:32
Alignment explanation
Indices: 14167018--14167080 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
14167008 TTAAGCCTAG
14167018 ATTAGCTAGCACATGATGAGATGTAAGTCCAA
1 ATTAGCTAGCACATGATGAGATGTAAGTCCAA
14167050 ATTAGCTAGCACATGATGAGACT-TAAGTCCA
1 ATTAGCTAGCACATGATGAGA-TGTAAGTCCA
14167081 TAATGGCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (32 bp):
ATTAGCTAGCACATGATGAGATGTAAGTCCAA
Found at i:14167463 original size:46 final size:46
Alignment explanation
Indices: 14167344--14167466 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 46
14167334 AAATTTGATT
* * *
14167344 TTTTAAAGTTTCAAAGCCTCTAGTTAAAAGAGCTTTTTGGTTACAA
1 TTTTAAAGTTTCAAAGCCTCTAATTAGAGGAGCTTTTTGGTTACAA
* * * * **
14167390 ATTTAAAGTTTCAAAGCCTCCATTTAGAGGAGTTTTTTGGTTGTGAA
1 TTTTAAAGTTTCAAAGCCTCTAATTAGAGGAGCTTTTTGGTT-ACAA
14167437 TTTTAAAGTTTC-AAGCCTCTAATTAGAGGA
1 TTTTAAAGTTTCAAAGCCTCTAATTAGAGGA
14167467 ACTCTTTCAT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 52 0.80
47 13 0.20
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (46 bp):
TTTTAAAGTTTCAAAGCCTCTAATTAGAGGAGCTTTTTGGTTACAA
Found at i:14167827 original size:44 final size:43
Alignment explanation
Indices: 14167715--14167827 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 43
14167705 AAGGTGGAGC
* ***
14167715 CTTTTAAAATTTTTAAAGTTTCAAAACCTCTATTGAGGGGGAA
1 CTTTTAAAATTTTCAAAGTTTCAAAACCTCTATTGAAAAGGAA
* * * * *
14167758 CTTTTTAAATTTTCCAAAAG-CTCAAAACCTCTGTTGAAAATGAG
1 CTTTTAAAATTTT-C-AAAGTTTCAAAACCTCTATTGAAAAGGAA
14167802 CTTCTTAAAATTTTCAAAGTTTCAAA
1 CTT-TTAAAATTTTCAAAGTTTCAAA
14167828 GTCTTTGTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
43 16 0.29
44 26 0.47
45 13 0.24
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (43 bp):
CTTTTAAAATTTTCAAAGTTTCAAAACCTCTATTGAAAAGGAA
Found at i:14170958 original size:27 final size:24
Alignment explanation
Indices: 14170928--14170985 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 24
14170918 GGAAAAAAGC
14170928 TTATTCTTAATTGATTCTTTTGTTAAT
1 TTATTCTT-A-TGATT-TTTTGTTAAT
* *
14170955 TTATGCTTATGATTTTTTGTTAGT
1 TTATTCTTATGATTTTTTGTTAAT
14170979 TATATTC
1 T-TATTC
14170986 ATCATGCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 10 0.37
25 9 0.33
26 1 0.04
27 7 0.26
ACGTcount: A:0.21, C:0.07, G:0.10, T:0.62
Consensus pattern (24 bp):
TTATTCTTATGATTTTTTGTTAAT
Found at i:14172718 original size:17 final size:17
Alignment explanation
Indices: 14172696--14172728 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14172686 TTTTTCAAGC
*
14172696 AATTTAATTTATGTTTT
1 AATTTAATTTAAGTTTT
14172713 AATTTAATTTAAGTTT
1 AATTTAATTTAAGTTT
14172729 AAGCACTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
AATTTAATTTAAGTTTT
Found at i:14175686 original size:140 final size:142
Alignment explanation
Indices: 14175480--14175852 Score: 332
Period size: 140 Copynumber: 2.6 Consensus size: 142
14175470 TAACCAAGAG
* * * * * *
14175480 GTGTGAAATTA-TAAAAATATCC-TTGGGGGTATTTTCATAATTTAACCTTTTAGAGGTTGGA-A
1 GTGTGAAATTACT-AAAATACCCTTTAGGGGTATTTT-GTAATTTGACCTTTTTGAGGTT-GATT
14175542 TTTCACAAAAAGCTTTAGATCATGATTT-AATATTAT-TTAATAATTTTGGTAT-ATT-AAAACC
63 TTTCACAAAAAGCTTTAGATCATGATTTGAA-ATTATCTT-ATAATTTT-GTATCATTAAAAACC
* * * *
14175603 TTGATTGTACCTTAAAAA
125 TCGATCGCACCTCAAAAA
* * *
14175621 GTGTG-AATTATTAAAATGCCTTTTAGGGGTATTTTGTAATTTGACCTTTTTGAGGTTGATTTTT
1 GTGTGAAATTACTAAAATACCCTTTAGGGGTATTTTGTAATTTGACCTTTTTGAGGTTGATTTTT
** * * * * *
14175685 CATGAAATGCTCTAGATCATGTTTTGAAATTATCTTATGATTTTTTATGCATTAAAAACCTCGAT
66 CACAAAAAGCTTTAGATCATGATTTGAAATTATCTTATAATTTTGTAT-CATTAAAAACCTCGAT
*
14175750 CGCACCTCAAAAT
130 CGCACCTCAAAAA
* * * * ** * *
14175763 GTGTGAAATTACTAAAATACCCTTTAGAAGTTTTTTTGTAATATGACCTTCCTAAGGTCGATTTT
1 GTGTGAAATTACTAAAATACCCTTTAG-GGGTATTTTGTAATTTGACCTTTTTGAGGTTGATTTT
* *
14175828 TCACAAAAA-CTTTAAATCATAATTT
65 TCACAAAAAGCTTTAGATCATGATTT
14175853 CCTACTATTT
Statistics
Matches: 184, Mismatches: 38, Indels: 18
0.77 0.16 0.08
Matches are distributed among these distances:
139 5 0.03
140 65 0.35
141 25 0.14
142 24 0.13
143 30 0.16
144 35 0.19
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (142 bp):
GTGTGAAATTACTAAAATACCCTTTAGGGGTATTTTGTAATTTGACCTTTTTGAGGTTGATTTTT
CACAAAAAGCTTTAGATCATGATTTGAAATTATCTTATAATTTTGTATCATTAAAAACCTCGATC
GCACCTCAAAAA
Found at i:14177248 original size:7 final size:7
Alignment explanation
Indices: 14177218--14177369 Score: 59
Period size: 7 Copynumber: 22.6 Consensus size: 7
14177208 ATTTCTCATG
14177218 TAAA-CC
1 TAAACCC
*
14177224 TAAAACC
1 TAAACCC
14177231 TAAACCC
1 TAAACCC
14177238 -AAACCC
1 TAAACCC
**
14177244 TAAACTT
1 TAAACCC
* *
14177251 TATACCT
1 TAAACCC
14177258 TAAA-CC
1 TAAACCC
**
14177264 TAAATCTT
1 TAAA-CCC
* *
14177272 TACACCT
1 TAAACCC
*
14177279 TAAACTC
1 TAAACCC
14177286 -AAA-CC
1 TAAACCC
* *
14177291 TAGACCT
1 TAAACCC
14177298 TAAACCC
1 TAAACCC
14177305 TAAA-CC
1 TAAACCC
14177311 TAAACCC
1 TAAACCC
*
14177318 AAAACCC
1 TAAACCC
**
14177325 T-AACTT
1 TAAACCC
*
14177331 TAAACCT
1 TAAACCC
*
14177338 TAAACCT
1 TAAACCC
*
14177345 TAAACCT
1 TAAACCC
*
14177352 TAAA-TC
1 TAAACCC
14177358 TCAAACCC
1 T-AAACCC
14177366 TAAA
1 TAAA
14177370 TCAAGGCCCA
Statistics
Matches: 109, Mismatches: 27, Indels: 19
0.70 0.17 0.12
Matches are distributed among these distances:
5 1 0.01
6 31 0.28
7 72 0.66
8 5 0.05
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.24
Consensus pattern (7 bp):
TAAACCC
Found at i:14177265 original size:20 final size:20
Alignment explanation
Indices: 14177242--14177369 Score: 84
Period size: 20 Copynumber: 6.3 Consensus size: 20
14177232 AAACCCAAAC
*
14177242 CCTAAACTTTATACCTTAAA
1 CCTAAACTTTAAACCTTAAA
*
14177262 CCTAAATCTTTACACCTTAAA
1 CCTAAA-CTTTAAACCTTAAA
* *
14177283 -CTCAAAC-CTAGACCTTAAA
1 CCT-AAACTTTAAACCTTAAA
* **
14177302 CCCTAAAC-CTAAACCCAAAA
1 -CCTAAACTTTAAACCTTAAA
14177322 CCCT-AACTTTAAACCTTAAA
1 -CCTAAACTTTAAACCTTAAA
* * *
14177342 CCTTAAACCTTAAATCTCAAA
1 CC-TAAACTTTAAACCTTAAA
14177363 CCCTAAA
1 -CCTAAA
14177370 TCAAGGCCCA
Statistics
Matches: 88, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
19 15 0.17
20 36 0.41
21 35 0.40
22 2 0.02
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (20 bp):
CCTAAACTTTAAACCTTAAA
Found at i:14177311 original size:14 final size:14
Alignment explanation
Indices: 14177226--14177355 Score: 76
Period size: 13 Copynumber: 9.7 Consensus size: 14
14177216 TGTAAACCTA
14177226 AAACC-TAAACCC-
1 AAACCTTAAACCCT
* **
14177238 AAACCCTAAACTTT
1 AAACCTTAAACCCT
*
14177252 ATACCTTAAA-CCT
1 AAACCTTAAACCCT
* * *
14177265 AAATCTTTACACCTT
1 AAA-CCTTAAACCCT
*
14177280 AAA-CTCAAA-CCT
1 AAACCTTAAACCCT
*
14177292 AGACCTTAAACCCT
1 AAACCTTAAACCCT
*
14177306 AAACC-TAAACCCA
1 AAACCTTAAACCCT
* **
14177319 AAACCCT-AACTTT
1 AAACCTTAAACCCT
*
14177332 AAACCTTAAACCTT
1 AAACCTTAAACCCT
14177346 AAACCTTAAA
1 AAACCTTAAA
14177356 TCTCAAACCC
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
12 9 0.10
13 37 0.43
14 36 0.41
15 5 0.06
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.24
Consensus pattern (14 bp):
AAACCTTAAACCCT
Found at i:14178515 original size:17 final size:18
Alignment explanation
Indices: 14178495--14178530 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14178485 CTAATATAGT
14178495 AATTT-AATATATATTAA
1 AATTTAAATATATATTAA
14178512 AATTTAAATATATATTAA
1 AATTTAAATATATATTAA
14178530 A
1 A
14178531 TACATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTAAATATATATTAA
Found at i:14178741 original size:29 final size:29
Alignment explanation
Indices: 14178672--14178746 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
14178662 GTTCATGCTC
*
14178672 GTCATGTTTATTCATATATATCCATGTTA
1 GTCATGTTTATTCATATATATCCATATTA
* * * * *
14178701 GTCGTGTCTATTTATGTATATCCGTATTA
1 GTCATGTTTATTCATATATATCCATATTA
14178730 -TCCATGTTTATTCATAT
1 GT-CATGTTTATTCATAT
14178747 CATTTTTAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
28 1 0.03
29 34 0.97
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (29 bp):
GTCATGTTTATTCATATATATCCATATTA
Found at i:14188237 original size:21 final size:20
Alignment explanation
Indices: 14188211--14188250 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
14188201 ATTCTAATGC
14188211 ATCAAGAATCATTCAAGATTG
1 ATCAAGAATCA-TCAAGATTG
*
14188232 ATCAAGAATTATCAAGATT
1 ATCAAGAATCATCAAGATT
14188251 CTTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
ATCAAGAATCATCAAGATTG
Found at i:14189259 original size:2 final size:2
Alignment explanation
Indices: 14189252--14189277 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14189242 AAATAAAAGA
14189252 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14189278 TAGGCTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14191621 original size:167 final size:167
Alignment explanation
Indices: 14191345--14191681 Score: 629
Period size: 167 Copynumber: 2.0 Consensus size: 167
14191335 ACACCTATCA
14191345 CTATAATAATATTCAACATAAAAATCACCATCTAAGCAATTAGATGACCATTGAGCTTGTGGAGT
1 CTATAATAATATTCAACATAAAAATCACCATCTAAGCAATTAGATGACCATTGAGCTTGTGGAGT
*
14191410 CTCCAAAAGGAGTAGCATAATCCCTATGGTTCCTAGCCTCATATAATAGAACCCTGACATAAATG
66 CTCCAAAAGGAGTAGCATAATCCCTATGGTTCCTAGCCTCATATAATAGAACCCTAACATAAATG
*
14191475 AAAAAACATAGATTAGTACAAGAAAATAAACTCTCAG
131 AAAAAACATAGATTAGTACAAGAAAATAAACTCCCAG
14191512 CTATAATAATATTCAACATAAAAATCACCATCTAAGCAATTAGATGACCATTGAGCTTGTGGAGT
1 CTATAATAATATTCAACATAAAAATCACCATCTAAGCAATTAGATGACCATTGAGCTTGTGGAGT
** *
14191577 CTCCAAAAGGAGTAGCATAATCTTTATGGTTCCTAGCCTCATATAATATAACCCTAACATAAATG
66 CTCCAAAAGGAGTAGCATAATCCCTATGGTTCCTAGCCTCATATAATAGAACCCTAACATAAATG
14191642 AAAAAACATAGATTAGTACAAGAAAATAAACTCCCAG
131 AAAAAACATAGATTAGTACAAGAAAATAAACTCCCAG
14191679 CTA
1 CTA
14191682 CAAGAAAAAT
Statistics
Matches: 165, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
167 165 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (167 bp):
CTATAATAATATTCAACATAAAAATCACCATCTAAGCAATTAGATGACCATTGAGCTTGTGGAGT
CTCCAAAAGGAGTAGCATAATCCCTATGGTTCCTAGCCTCATATAATAGAACCCTAACATAAATG
AAAAAACATAGATTAGTACAAGAAAATAAACTCCCAG
Found at i:14192231 original size:31 final size:32
Alignment explanation
Indices: 14192169--14192231 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
14192159 ACAACGTCTC
* *
14192169 CCAATAATTTGGTGGGACCAAAAAATAATCTT
1 CCAATAATTTAGTAGGACCAAAAAATAATCTT
*
14192201 CCAATAATTTAG-AGGATCAAAAGAAT-ATCTT
1 CCAATAATTTAGTAGGACCAAAA-AATAATCTT
14192232 TTACTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (32 bp):
CCAATAATTTAGTAGGACCAAAAAATAATCTT
Found at i:14192386 original size:17 final size:16
Alignment explanation
Indices: 14192366--14192407 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
14192356 ATTTTGTAAG
14192366 GATTTTTATTCGAAAAA
1 GATTTTTATTCG-AAAA
*
14192383 GATTTTT-TTTGAAAA
1 GATTTTTATTCGAAAA
*
14192398 GATATTTATT
1 GATTTTTATT
14192408 TTTTTGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 10 0.45
16 5 0.23
17 7 0.32
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (16 bp):
GATTTTTATTCGAAAA
Found at i:14192399 original size:15 final size:15
Alignment explanation
Indices: 14192379--14192451 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
14192369 TTTTATTCGA
14192379 AAAAGATTTTTTTTG
1 AAAAGATTTTTTTTG
*
14192394 AAAAGATATTTATTTTTT
1 AAAAG--ATTT-TTTTTG
** * * *
14192412 TGAAGACTTTATTTA
1 AAAAGATTTTTTTTG
14192427 AAAAGATTTTTTTTG
1 AAAAGATTTTTTTTG
14192442 AAAAGATTTT
1 AAAAGATTTT
14192452 CCTTTTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
15 29 0.66
16 3 0.07
17 4 0.09
18 8 0.18
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (15 bp):
AAAAGATTTTTTTTG
Found at i:14192409 original size:17 final size:17
Alignment explanation
Indices: 14192352--14192409 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
14192342 GAATTCATGA
* *
14192352 ATTTATTTTGTAAGGAT
1 ATTTATTTTGAAAAGAT
* *
14192369 TTTTA-TTCGAAAAAGAT
1 ATTTATTTTG-AAAAGAT
14192386 -TTT-TTTTGAAAAGAT
1 ATTTATTTTGAAAAGAT
14192401 ATTTATTTT
1 ATTTATTTT
14192410 TTTGAAGACT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
15 7 0.22
16 12 0.38
17 13 0.41
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTTATTTTGAAAAGAT
Found at i:14192554 original size:30 final size:30
Alignment explanation
Indices: 14192520--14192587 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
14192510 TTACTTTTAG
* * *
14192520 AAATAAAATGCCAAAAATAGAATTTATTAA
1 AAATAAAATGCCAAAAAAAGAATATATAAA
*
14192550 AAATAAAA--CCAAAAAAATAATATATAAA
1 AAATAAAATGCCAAAAAAAGAATATATAAA
*
14192578 AAATGAAATG
1 AAATAAAATG
14192588 GGTTAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 23 0.74
30 8 0.26
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (30 bp):
AAATAAAATGCCAAAAAAAGAATATATAAA
Found at i:14192633 original size:17 final size:17
Alignment explanation
Indices: 14192613--14192647 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14192603 AAAATCAAAT
14192613 AAAATCAAAAAAGAAAA
1 AAAATCAAAAAAGAAAA
**
14192630 AAAATGGAAAAAGAAAA
1 AAAATCAAAAAAGAAAA
14192647 A
1 A
14192648 CCTACGACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAATCAAAAAAGAAAA
Found at i:14193590 original size:3 final size:3
Alignment explanation
Indices: 14193582--14193641 Score: 93
Period size: 3 Copynumber: 19.3 Consensus size: 3
14193572 GAAAATTAAA
*
14193582 AAT AAT AAT AAT AAT AAT CACAT AGT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -A-AT AAT AAT AAT AAT AAT AAT AAT AAT
14193629 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
14193642 GTGACATTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 49 0.92
4 2 0.04
5 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14198471 original size:21 final size:20
Alignment explanation
Indices: 14198446--14198485 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
14198436 ATTCTAATGC
14198446 ATCAAGAATTATCCAAGATTG
1 ATCAAGAATTAT-CAAGATTG
14198467 ATCAAGAATTATCAAGATT
1 ATCAAGAATTATCAAGATT
14198486 CTTTAAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
ATCAAGAATTATCAAGATTG
Found at i:14198480 original size:10 final size:10
Alignment explanation
Indices: 14198446--14198483 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
14198436 ATTCTAATGC
14198446 ATCAAGAATT
1 ATCAAGAATT
14198456 ATCCAAG-ATT
1 AT-CAAGAATT
14198466 GATCAAGAATT
1 -ATCAAGAATT
14198477 ATCAAGA
1 ATCAAGA
14198484 TTCTTTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (10 bp):
ATCAAGAATT
Found at i:14202866 original size:6 final size:6
Alignment explanation
Indices: 14202855--14202902 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
14202845 AGATTGTATA
* * *
14202855 TTTCTT TTTCTT TTTCTT TTTCTT CTTCTT CTTCTT CTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
14202903 CAAAGTAGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:14202872 original size:12 final size:12
Alignment explanation
Indices: 14202856--14202903 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
14202846 GATTGTATAT
*
14202856 TTCTTTTTCTTT
1 TTCTTTTTCTTC
14202868 TTCTTTTTCTTC
1 TTCTTTTTCTTC
*
14202880 TTCTTCTTCTTC
1 TTCTTTTTCTTC
14202892 TTCTTTTTCTTC
1 TTCTTTTTCTTC
14202904 AAAGTAGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTCTTTTTCTTC
Found at i:14202886 original size:9 final size:9
Alignment explanation
Indices: 14202856--14202903 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
14202846 GATTGTATAT
*
14202856 TTCTTTTTC
1 TTCTTCTTC
* *
14202865 TTTTTCTTT
1 TTCTTCTTC
14202874 TTCTTCTTC
1 TTCTTCTTC
14202883 TTCTTCTTC
1 TTCTTCTTC
*
14202892 TTCTTTTTC
1 TTCTTCTTC
14202901 TTC
1 TTC
14202904 AAAGTAGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTCTTCTTC
Found at i:14203163 original size:14 final size:14
Alignment explanation
Indices: 14203126--14203155 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14203116 CAATGAAAAA
14203126 ATGAATGAAAATTG
1 ATGAATGAAAATTG
14203140 ATGAATGAAAATTG
1 ATGAATGAAAATTG
14203154 AT
1 AT
14203156 TATTGAAATG
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:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (14 bp):
ATGAATGAAAATTG
Found at i:14203254 original size:23 final size:24
Alignment explanation
Indices: 14203227--14203273 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
14203217 AATGATGAAT
14203227 GAAATGAAAAATGA-AAAAAATGG
1 GAAATGAAAAATGATAAAAAATGG
14203250 GAAATGAAAAATGATTAAAAAATG
1 GAAATGAAAAATGA-TAAAAAATG
14203274 AATAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (24 bp):
GAAATGAAAAATGATAAAAAATGG
Found at i:14203865 original size:48 final size:49
Alignment explanation
Indices: 14203758--14203938 Score: 204
Period size: 49 Copynumber: 3.7 Consensus size: 49
14203748 CAAAATTAAC
* ** * * * * * *
14203758 ATTTTTAGAGTTTCCCTGCCTTTCTTTAAAAGAACCTTTTAAATATGAG
1 ATTTTTAAAGTTTCTTTGCCTTTCTTTAGAGGAGCTTTTTAAAGATAAG
** *
14203807 ATTTTTAAAGTTTCTTTGCCACTCTTTAGAGGAGCTTTTTAAGGATAAG
1 ATTTTTAAAGTTTCTTTGCCTTTCTTTAGAGGAGCTTTTTAAAGATAAG
*
14203856 A-TTTTAAAGTTT-TCTTGCCTTTCTTTAGATGAGCTTTTTAAAGATAAG
1 ATTTTTAAAGTTTCT-TTGCCTTTCTTTAGAGGAGCTTTTTAAAGATAAG
* *
14203904 ATTTTTAAAGTTTCTTAGCCTTTATTTAGAGGAGC
1 ATTTTTAAAGTTTCTTTGCCTTTCTTTAGAGGAGC
14203939 CTTTCAAAAT
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
47 1 0.01
48 42 0.38
49 66 0.60
50 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (49 bp):
ATTTTTAAAGTTTCTTTGCCTTTCTTTAGAGGAGCTTTTTAAAGATAAG
Found at i:14203878 original size:97 final size:97
Alignment explanation
Indices: 14203760--14203938 Score: 241
Period size: 97 Copynumber: 1.8 Consensus size: 97
14203750 AAATTAACAT
* * * *
14203760 TTTTAGAGTTTCCCTGCCTTTCTTTAAAAGAACCTTTTAAATATGAGATTTTTAAAGTTTCTTTG
1 TTTTAAAGTTTCCCTGCCTTTCTTTAAAAGAACCTTTTAAAGATAAGATTTTTAAAGTTTCTTAG
*
14203825 CCACTCTTTAGAGGAGCTTTTTAAGGATAAGA
66 CCACTATTTAGAGGAGCTTTTTAAGGATAAGA
* * * * * *
14203857 TTTTAAAGTTTTCTTGCCTTTCTTTAGATGAGCTTTTTAAAGATAAGATTTTTAAAGTTTCTTAG
1 TTTTAAAGTTTCCCTGCCTTTCTTTAAAAGAACCTTTTAAAGATAAGATTTTTAAAGTTTCTTAG
**
14203922 CCTTTATTTAGAGGAGC
66 CCACTATTTAGAGGAGC
14203939 CTTTCAAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
97 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.45
Consensus pattern (97 bp):
TTTTAAAGTTTCCCTGCCTTTCTTTAAAAGAACCTTTTAAAGATAAGATTTTTAAAGTTTCTTAG
CCACTATTTAGAGGAGCTTTTTAAGGATAAGA
Found at i:14204064 original size:52 final size:49
Alignment explanation
Indices: 14203961--14204070 Score: 123
Period size: 52 Copynumber: 2.2 Consensus size: 49
14203951 AGAATAGAGT
* *
14203961 TTTTTCAAATTTGAGATTTATAAAGTTTCATAACCTATGTATAGAGGAG
1 TTTTTCAAAGTTGAGATTTATAAAGTTTCATAACCTATGTATAAAGGAG
* * * *
14204010 TTTTTCAAAGTTGAGATTGTCTTTAAAGTTTCA-AATCCTCTGTTTAAATGAG
1 TTTTTCAAAGTTGAGA-T-T-TATAAAGTTTCATAA-CCTATGTATAAAGGAG
14204062 TTTTTCAAA
1 TTTTTCAAA
14204071 ATTCAAGTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
49 15 0.29
50 1 0.02
51 3 0.06
52 32 0.63
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (49 bp):
TTTTTCAAAGTTGAGATTTATAAAGTTTCATAACCTATGTATAAAGGAG
Found at i:14204244 original size:20 final size:20
Alignment explanation
Indices: 14204221--14204262 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14204211 ATTTGCAAAG
14204221 AAAGGTAATTGTAAGCAACT
1 AAAGGTAATTGTAAGCAACT
14204241 AAAGGTAATTGTAAGCAACT
1 AAAGGTAATTGTAAGCAACT
14204261 AA
1 AA
14204263 TTTTGTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.24
Consensus pattern (20 bp):
AAAGGTAATTGTAAGCAACT
Found at i:14204878 original size:141 final size:141
Alignment explanation
Indices: 14204643--14204915 Score: 302
Period size: 141 Copynumber: 1.9 Consensus size: 141
14204633 ACTTATAGAT
* * *
14204643 CATGATTAAATATTATTTTATGATTTTTAATACACTAAAAACCCTGATCGCACCTTAAAAGATGA
1 CATGATTAAATATTATTTGATGATTTTT-ATACACTAAAAACCCTAATCACACCTTAAAAGATGA
* **
14204708 AATTACTAAAATATCCTTAAAAAAAA-TTTTATAATTTAATCTTTTCGAGGTCAGA-TTTTCATG
65 AATTACTAAAATATCCTTAAAAAAAATTTTTATAATTTAACCTTTTCGAAATCA-ATTTTTCATG
14204771 AAAAGCTCCAAAA
129 AAAAGCTCCAAAA
** * * * * *
14204784 CATGATTTGATATTATTTGATGATTTTT-TATATTAAAAACCTTAATCATACCTTAACAGGTATG
1 CATGATTAAATATTATTTGATGATTTTTATACACTAAAAACCCTAATCACACCTTAA-AAG-ATG
** ** * *
14204848 AAATTACTAAAATA-CCATTAAGGAGTATTTTTTTAATTTGACCTTTTCGAAATCAATTTTTCAT
64 AAATTACTAAAATATCC-TTAAAAAAAATTTTTATAATTTAACCTTTTCGAAATCAATTTTTCAT
14204912 GAAA
128 GAAA
14204916 TACTATAGAT
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
139 22 0.20
140 4 0.04
141 49 0.45
142 33 0.31
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (141 bp):
CATGATTAAATATTATTTGATGATTTTTATACACTAAAAACCCTAATCACACCTTAAAAGATGAA
ATTACTAAAATATCCTTAAAAAAAATTTTTATAATTTAACCTTTTCGAAATCAATTTTTCATGAA
AAGCTCCAAAA
Found at i:14206546 original size:6 final size:6
Alignment explanation
Indices: 14206472--14206600 Score: 84
Period size: 6 Copynumber: 20.8 Consensus size: 6
14206462 ATTTCTCATG
* * * * * *
14206472 TAAATC TAAACCC TAAACC -AAACGC TAAACTA TAAATC AAAACT TAAACA
1 TAAACC TAAA-CC TAAACC TAAAC-C TAAAC-C TAAACC TAAACC TAAACC
* *
14206522 TAAACC TAAAACC TAAACC TAAACCC TGAACC -AAACT TAAACCC TAAACCC
1 TAAACC T-AAACC TAAACC TAAA-CC TAAACC TAAACC TAAA-CC TAAA-CC
* *
14206573 TAAACC TAACCC TAACCC TAAA-C TAAAC
1 TAAACC TAAACC TAAACC TAAACC TAAAC
14206601 TCCAAACCCT
Statistics
Matches: 98, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
5 12 0.12
6 50 0.51
7 36 0.37
ACGTcount: A:0.50, C:0.31, G:0.02, T:0.18
Consensus pattern (6 bp):
TAAACC
Found at i:14206562 original size:18 final size:19
Alignment explanation
Indices: 14206511--14206618 Score: 91
Period size: 19 Copynumber: 5.7 Consensus size: 19
14206501 CTATAAATCA
* *
14206511 AAACTTAAACATAAA-CCT
1 AAACCTAAACCTAAACCCT
14206529 AAAACCTAAACCTAAACCCT
1 -AAACCTAAACCTAAACCCT
* *
14206549 GAACC-AAACTTAAACCCT
1 AAACCTAAACCTAAACCCT
14206567 AAACCCTAAACCT-AACCCT
1 AAA-CCTAAACCTAAACCCT
*
14206586 AACCCTAAA-CTAAACTCC-
1 AAACCTAAACCTAAAC-CCT
*
14206604 AAACCCTAAAACTAA
1 AAA-CCTAAACCTAA
14206619 CACTTGATCC
Statistics
Matches: 74, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.03
18 25 0.34
19 35 0.47
20 12 0.16
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (19 bp):
AAACCTAAACCTAAACCCT
Found at i:14206567 original size:25 final size:26
Alignment explanation
Indices: 14206522--14206595 Score: 91
Period size: 25 Copynumber: 2.9 Consensus size: 26
14206512 AACTTAAACA
14206522 TAAACCTAAAACCTAAA-CCTAAACCC
1 TAAACCT-AAACCTAAACCCTAAACCC
* *
14206548 TGAACC-AAACTTAAACCCTAAACCC
1 TAAACCTAAACCTAAACCCTAAACCC
*
14206573 TAAACCTAACCCT-AACCCTAAAC
1 TAAACCTAAACCTAAACCCTAAAC
14206596 TAAACTCCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 8 0.20
25 24 0.59
26 9 0.22
ACGTcount: A:0.46, C:0.36, G:0.01, T:0.16
Consensus pattern (26 bp):
TAAACCTAAACCTAAACCCTAAACCC
Found at i:14206600 original size:37 final size:38
Alignment explanation
Indices: 14206516--14206619 Score: 119
Period size: 37 Copynumber: 2.8 Consensus size: 38
14206506 AATCAAAACT
*
14206516 TAAACATAAA-CCTAAAACCTAAACCTAAACCCTGAACC
1 TAAACATAAACCCTAAACCCTAAACCT-AACCCTGAACC
*
14206554 -AAACTTAAACCCTAAACCCTAAACCTAACCCT-AACCC
1 TAAACATAAACCCTAAACCCTAAACCTAACCCTGAA-CC
*
14206591 TAAAC-TAAACTCC-AAACCCTAAAACTAAC
1 TAAACATAAAC-CCTAAACCCTAAACCTAAC
14206620 ACTTGATCCC
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
36 2 0.03
37 36 0.61
38 21 0.36
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.16
Consensus pattern (38 bp):
TAAACATAAACCCTAAACCCTAAACCTAACCCTGAACC
Found at i:14206610 original size:19 final size:18
Alignment explanation
Indices: 14206484--14206618 Score: 80
Period size: 19 Copynumber: 7.2 Consensus size: 18
14206474 AATCTAAACC
*
14206484 CTAAA-CCAAACGCTAAA
1 CTAAACCCAAACCCTAAA
** * *
14206501 CTATAAATCAAAACTTAAA
1 CTA-AACCCAAACCCTAAA
* *
14206520 CATAAACCTAAAACCTAAA
1 C-TAAACCCAAACCCTAAA
*
14206539 CCTAAACCCTGAA-CC-AAA
1 -CTAAACCC-AAACCCTAAA
14206557 CTTAAACCCTAAACCCTAAA
1 C-TAAACCC-AAACCCTAAA
*
14206577 CCT-AACCCTAACCCTAAA
1 -CTAAACCCAAACCCTAAA
14206595 CTAAACTCCAAACCCTAAAA
1 CTAAAC-CCAAACCCT-AAA
14206615 CTAA
1 CTAA
14206619 CACTTGATCC
Statistics
Matches: 93, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
17 6 0.06
18 27 0.29
19 43 0.46
20 16 0.17
21 1 0.01
ACGTcount: A:0.50, C:0.32, G:0.01, T:0.17
Consensus pattern (18 bp):
CTAAACCCAAACCCTAAA
Found at i:14214767 original size:28 final size:27
Alignment explanation
Indices: 14214735--14214787 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
14214725 AATAAAACCA
*
14214735 AATTGAAAGAATACTTGAAACAGAATTT
1 AATTGAAAGAAAACTTGAAA-AGAATTT
**
14214763 AATTGAATTAAAACTTGAAAAGAAT
1 AATTGAAAGAAAACTTGAAAAGAAT
14214788 GTGCAGAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.53, C:0.06, G:0.13, T:0.28
Consensus pattern (27 bp):
AATTGAAAGAAAACTTGAAAAGAATTT
Found at i:14215108 original size:22 final size:22
Alignment explanation
Indices: 14215081--14215145 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
14215071 AACTAGAACA
14215081 CTTTAAAAAGAACTCTTATACT
1 CTTTAAAAAGAACTCTTATACT
*
14215103 CTTTAAAAAGAACCCTTATACT
1 CTTTAAAAAGAACTCTTATACT
* *
14215125 ATTTAAAAAAAAACTCTTATA
1 CTTT-AAAAAGAACTCTTATA
14215146 GATCAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
22 24 0.63
23 14 0.37
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (22 bp):
CTTTAAAAAGAACTCTTATACT
Found at i:14215468 original size:25 final size:26
Alignment explanation
Indices: 14215417--14215478 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
14215407 CAAATCCTAC
*
14215417 TCCAAGTAG-GAATAGGAATAACCAA
1 TCCAAGTAGAAAATAGGAATAACCAA
* *
14215442 TCCTAGT-GAAAATAGGAA-ATCCAAA
1 TCCAAGTAGAAAATAGGAATAACC-AA
14215467 TCCAAGTAGAAA
1 TCCAAGTAGAAA
14215479 TTTTAGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
24 4 0.13
25 22 0.73
26 4 0.13
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (26 bp):
TCCAAGTAGAAAATAGGAATAACCAA
Found at i:14215479 original size:25 final size:24
Alignment explanation
Indices: 14215408--14215479 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
14215398 AACTTAATGC
* *
14215408 AAATCCTACTCCAAGTAGGAATAGG
1 AAATCC-AATCCAAGTAGAAATAGG
* *
14215433 AATAACCAATCCTAGT-GAAAATAGG
1 AA-ATCCAATCCAAGTAG-AAATAGG
14215458 AAATCCAAATCCAAGTAGAAAT
1 AAATCC-AATCCAAGTAGAAAT
14215480 TTTAGATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
24 4 0.11
25 29 0.78
26 4 0.11
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.19
Consensus pattern (24 bp):
AAATCCAATCCAAGTAGAAATAGG
Found at i:14215821 original size:20 final size:20
Alignment explanation
Indices: 14215798--14215835 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14215788 TAAGATTGAT
*
14215798 CAAGAGTTATCAAGATTCTC
1 CAAGAGTTATCAAAATTCTC
*
14215818 CAAGATTTATCAAAATTC
1 CAAGAGTTATCAAAATTC
14215836 ATACTTTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
CAAGAGTTATCAAAATTCTC
Found at i:14218113 original size:17 final size:17
Alignment explanation
Indices: 14218093--14218134 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
14218083 CTGATAATTT
14218093 TAAATAAATAA-TAAAAA
1 TAAATAAATAACT-AAAA
*
14218110 TAAATATATAACTAAAA
1 TAAATAAATAACTAAAA
14218127 TAAATAAA
1 TAAATAAA
14218135 ATATATAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATAAATAACTAAAA
Found at i:14218761 original size:17 final size:18
Alignment explanation
Indices: 14218729--14218762 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14218719 AATACTTTAT
14218729 TTATGTATATTTAAAATG
1 TTATGTATATTTAAAATG
*
14218747 TTATTTATA-TTAAAAT
1 TTATGTATATTTAAAAT
14218763 AATATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TTATGTATATTTAAAATG
Found at i:14221533 original size:152 final size:151
Alignment explanation
Indices: 14221335--14221637 Score: 525
Period size: 152 Copynumber: 2.0 Consensus size: 151
14221325 AATGTGATTG
14221335 CTCCAATATTGATTTTCTTTTGAAATACCTTTCCATTAACTAAAAAAAAAAAAGAAACATTCTTA
1 CTCCAATATTGATTTTCTTTTGAAATACCTTTCCATTAACTAAAAAAAAAAAAGAAACATTCTTA
* *
14221400 ATATAAGCTAAAAGTAATACAATCATAATAAAAAAATTATGAACTTTAAAAAATGAAAATTACCA
66 ACAAAAGCTAAAAGTAATACAATCATAAT-AAAAAATTATGAACTTTAAAAAATGAAAATTACCA
*
14221465 AAATAAAGAGACTAAACTTATA
130 AAATAAAGAGACTAAAATTATA
* *
14221487 CTCCAATATTGATTTTCTTTTGAAATACCTTTTCATTAACTAAAAAAAAAAAAGAAATATTCTTA
1 CTCCAATATTGATTTTCTTTTGAAATACCTTTCCATTAACTAAAAAAAAAAAAGAAACATTCTTA
* * *
14221552 ACAAAAGCTAAAAGTAATACAATCATAATAAAAAATTATGAACTTTGAATAATTAAAATTACCAA
66 ACAAAAGCTAAAAGTAATACAATCATAATAAAAAATTATGAACTTTAAAAAATGAAAATTACCAA
14221617 AATAAAGAGACTAAAATTATA
131 AATAAAGAGACTAAAATTATA
14221638 TATATTCTAT
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
151 53 0.37
152 90 0.63
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (151 bp):
CTCCAATATTGATTTTCTTTTGAAATACCTTTCCATTAACTAAAAAAAAAAAAGAAACATTCTTA
ACAAAAGCTAAAAGTAATACAATCATAATAAAAAATTATGAACTTTAAAAAATGAAAATTACCAA
AATAAAGAGACTAAAATTATA
Found at i:14224361 original size:35 final size:35
Alignment explanation
Indices: 14224322--14224391 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
14224312 TTTTAACTTT
14224322 TTTTATA-ATTTATTTTTTCAAACCAAAGTTTATAA
1 TTTTATATA-TTATTTTTTCAAACCAAAGTTTATAA
*
14224357 TTTTATATATTATTTTTTCAAATCAAAGTTTATAA
1 TTTTATATATTATTTTTTCAAACCAAAGTTTATAA
14224392 GTATTTTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (35 bp):
TTTTATATATTATTTTTTCAAACCAAAGTTTATAA
Found at i:14224411 original size:33 final size:35
Alignment explanation
Indices: 14224332--14224411 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
14224322 TTTTATAATT
* *
14224332 TATTTTTTCAAACCAAAGTTTATAATTTTATATAT
1 TATTTTTTCAAACCAAAGTTTATAATATTATATAG
*
14224367 TATTTTTTCAAATCAAAGTTTATAAGTATT-T-TAG
1 TATTTTTTCAAACCAAAGTTTATAA-TATTATATAG
14224401 T-TTTTTTCAAA
1 TATTTTTTCAAA
14224412 AAAAAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 10 0.24
34 3 0.07
35 25 0.61
36 3 0.07
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (35 bp):
TATTTTTTCAAACCAAAGTTTATAATATTATATAG
Found at i:14226516 original size:23 final size:25
Alignment explanation
Indices: 14226490--14226540 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
14226480 AAATTATGTT
14226490 TAATAT-ATAATATTATGAA-AAAA
1 TAATATAATAATATTATGAATAAAA
14226513 TAATATAAAATAATATTATGAATAAAA
1 TAATAT--AATAATATTATGAATAAAA
14226540 T
1 T
14226541 TAGATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.25
26 13 0.54
27 5 0.21
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TAATATAATAATATTATGAATAAAA
Found at i:14235993 original size:17 final size:16
Alignment explanation
Indices: 14235963--14236004 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14235953 ATTTATTCTA
*
14235963 TATTTTTA-AACATTT
1 TATTTTTATAGCATTT
14235978 TAATTTTTATAGCATTT
1 T-ATTTTTATAGCATTT
14235995 T-TTTTTATAG
1 TATTTTTATAG
14236005 TAATAACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 7 0.29
17 7 0.29
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (16 bp):
TATTTTTATAGCATTT
Found at i:14237815 original size:16 final size:18
Alignment explanation
Indices: 14237794--14237830 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14237784 TTTTTATTTC
14237794 ATAAAA-TTAA-AAAAAT
1 ATAAAAGTTAATAAAAAT
*
14237810 ATAAAAGTTAATACAAAT
1 ATAAAAGTTAATAAAAAT
14237828 ATA
1 ATA
14237831 TGATTGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (18 bp):
ATAAAAGTTAATAAAAAT
Found at i:14238385 original size:21 final size:22
Alignment explanation
Indices: 14238351--14238392 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
14238341 TATTTTATTA
*
14238351 TTTTTATTAATTAATTATTAAC
1 TTTTTATTAATTAAATATTAAC
*
14238373 TTTTTA-TATTTAAATATTAA
1 TTTTTATTAATTAAATATTAA
14238393 AATTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTATTAATTAAATATTAAC
Found at i:14239891 original size:38 final size:39
Alignment explanation
Indices: 14239841--14239914 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
14239831 TTATCTTGAT
**
14239841 TTTCTCTATTTTTTCTT-TTTTTTTTTCCTTTTTCACATC
1 TTTCTCTATTTTTTCTTCTTTTCATTT-CTTTTTCACATC
14239880 TTTCTC-ATTTTTTCTTCTTTTCATTTCTTTTTCAC
1 TTTCTCTATTTTTTCTTCTTTTCATTTCTTTTTCAC
14239915 TTCACTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 19 0.59
39 13 0.41
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (39 bp):
TTTCTCTATTTTTTCTTCTTTTCATTTCTTTTTCACATC
Found at i:14240909 original size:20 final size:20
Alignment explanation
Indices: 14240872--14240910 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14240862 AATTTTATTA
14240872 AAATCATAAAACAAAAAATG
1 AAATCATAAAACAAAAAATG
* *
14240892 AAATCCTAATACATAAAAA
1 AAATCATAAAACA-AAAAA
14240911 AAATTCTAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.67, C:0.13, G:0.03, T:0.18
Consensus pattern (20 bp):
AAATCATAAAACAAAAAATG
Found at i:14251943 original size:20 final size:19
Alignment explanation
Indices: 14251904--14251949 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
14251894 TCCAAAATTA
14251904 ATAAAATATTATTTTTAAT
1 ATAAAATATTATTTTTAAT
14251923 ATAAAATATTATTTTTAA-
1 ATAAAATATTATTTTTAAT
14251941 ATAAAATAT
1 ATAAAATAT
14251950 AAAACTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAAAATATTATTTTTAAT
Found at i:14251953 original size:7 final size:7
Alignment explanation
Indices: 14251941--14252012 Score: 78
Period size: 7 Copynumber: 10.1 Consensus size: 7
14251931 TTATTTTTAA
14251941 ATAAAAT
1 ATAAAAT
14251948 ATAAAACT
1 ATAAAA-T
14251956 AAATAAATAT
1 --ATAAA-AT
14251966 ATAAAAT
1 ATAAAAT
14251973 ATAAAAT
1 ATAAAAT
14251980 ATAAAAT
1 ATAAAAT
14251987 ATAAAAT
1 ATAAAAT
14251994 -T-AAAT
1 ATAAAAT
14251999 A-AAAAT
1 ATAAAAT
*
14252005 AAAAAAT
1 ATAAAAT
14252012 A
1 A
14252013 ATTTATATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
5 4 0.07
6 6 0.10
7 35 0.60
8 6 0.10
10 6 0.10
11 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAAAAT
Found at i:14252010 original size:25 final size:26
Alignment explanation
Indices: 14251937--14252012 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 26
14251927 AATATTATTT
14251937 TTAAATAAAATATAAAACTAA-ATAAATA
1 TTAAATAAAA-ATAAAA--AATATAAATA
*
14251965 TATAAAATATAAAATATAAAATATAAA-A
1 T-T-AAATA-AAAATAAAAAATATAAATA
14251993 TTAAATAAAAATAAAAAATA
1 TTAAATAAAAATAAAAAATA
14252013 ATTTATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 12 0.29
26 5 0.12
27 1 0.02
28 5 0.12
29 6 0.14
30 10 0.24
31 3 0.07
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (26 bp):
TTAAATAAAAATAAAAAATATAAATA
Found at i:14252021 original size:39 final size:41
Alignment explanation
Indices: 14251936--14252021 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 41
14251926 AAATATTATT
* *
14251936 TTTAAATAAAATATAAAACTAAATAAATATATAAAATATAA
1 TTTATATAAAATATAAAACTAAATAAATATATAAAAAATAA
* *
14251977 --AATATAAAATATAAAATTAAATAAA-A-ATAAAAAATAA
1 TTTATATAAAATATAAAACTAAATAAATATATAAAAAATAA
14252014 TTTATATA
1 TTTATATA
14252022 TAATTGGCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
37 10 0.26
38 1 0.03
39 27 0.71
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (41 bp):
TTTATATAAAATATAAAACTAAATAAATATATAAAAAATAA
Found at i:14261340 original size:56 final size:56
Alignment explanation
Indices: 14261280--14261466 Score: 137
Period size: 56 Copynumber: 3.5 Consensus size: 56
14261270 GCGTTCATCG
*
14261280 GTATAGACTTATATGTTTTAATTTTTCTTACCTATACCGACGA-TTAACGCCTGTCA
1 GTATAGACTTATATGTTTTAATTTTTCTTACCTATACCGAC-ACTTAACGACTGTCA
* * * * * *
14261336 G--T--A--TATA-CTTTTACTTCTTT-TTACTTATACCAACACTTAGC-ATCTATCA
1 GTATAGACTTATATGTTTTAATT-TTTCTTACCTATACCGACACTTAACGA-CTGTCA
* * * * *
14261385 GTATAGACTTGTATTTTTTTAA-TTTTCTTACCTATACTGACAGTTAGA-GATTGTCA
1 GTATAGACTTATA-TGTTTTAATTTTTCTTACCTATACCGACACTTA-ACGACTGTCA
14261441 GTATAGACTTATATGTTTTAATTTTT
1 GTATAGACTTATATGTTTTAATTTTT
14261467 TTTATTATAT
Statistics
Matches: 97, Mismatches: 19, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
48 1 0.01
49 29 0.30
50 7 0.07
51 1 0.01
52 1 0.01
53 1 0.01
54 1 0.01
55 13 0.13
56 37 0.38
57 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (56 bp):
GTATAGACTTATATGTTTTAATTTTTCTTACCTATACCGACACTTAACGACTGTCA
Found at i:14261772 original size:15 final size:15
Alignment explanation
Indices: 14261752--14261787 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14261742 TACCAAGTCT
* *
14261752 GATAAAATAAACATC
1 GATAAAACAAACATA
14261767 GATAAAACAAACATA
1 GATAAAACAAACATA
14261782 GATAAA
1 GATAAA
14261788 GAGTTACACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.64, C:0.11, G:0.08, T:0.17
Consensus pattern (15 bp):
GATAAAACAAACATA
Found at i:14262401 original size:68 final size:67
Alignment explanation
Indices: 14262310--14262435 Score: 182
Period size: 68 Copynumber: 1.9 Consensus size: 67
14262300 ATAGAAGGTA
* *
14262310 AGAAGGTAATCATCCATTCATATA-CAAGTATAAATAATTTTACAAACATCTTATTCATTCATAT
1 AGAAGGTAATCATCCATTCATATACCAA-CAAAAATAATTTTACAAACATC-TATTCATTCATAT
14262374 ATAC
64 ATAC
* * *
14262378 AGAAGGTAATCATCGATTTATATACCAACAAAAATAATTTTATAAACATCTATTCATT
1 AGAAGGTAATCATCCATTCATATACCAACAAAAATAATTTTACAAACATCTATTCATT
14262436 AGTGTAATGC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
67 8 0.15
68 41 0.79
69 3 0.06
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (67 bp):
AGAAGGTAATCATCCATTCATATACCAACAAAAATAATTTTACAAACATCTATTCATTCATATAT
AC
Found at i:14270056 original size:61 final size:60
Alignment explanation
Indices: 14269955--14270138 Score: 183
Period size: 61 Copynumber: 3.0 Consensus size: 60
14269945 TCCTTCTTTA
* * *
14269955 AATTTTTATGAA-GGGATTATTCAATGTGTTTTTGTCCAAAAACGCCTTCAATAATCTCTTC
1 AATTTTTAT-AAGGGGATTATTCAAGGTTTTTTTGT-CAAAAACGCCTTGAATAATCTCTTC
* * *
14270016 TCATTTTT-TTAGGGGATTATTCAAGGTTTTTTTGGTCAAAAACACCTTGAATAATCCTCTTC
1 -AATTTTTATAAGGGGATTATTCAAGGTTTTTTT-GTCAAAAACGCCTTGAATAAT-CTCTTC
** * ** *
14270078 AATTTTTATAAGGTAATTATTCAAGGCATTTTTTCCCTAAAAATGCCTTGAATAATCTCTT
1 AATTTTTATAAGGGGATTATTCAAGG-TTTTTTTGTC-AAAAACGCCTTGAATAATCTCTT
14270139 ACAAAAAATT
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
60 1 0.01
61 43 0.43
62 35 0.35
63 22 0.22
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (60 bp):
AATTTTTATAAGGGGATTATTCAAGGTTTTTTTGTCAAAAACGCCTTGAATAATCTCTTC
Found at i:14270317 original size:62 final size:62
Alignment explanation
Indices: 14270065--14270319 Score: 171
Period size: 62 Copynumber: 4.1 Consensus size: 62
14270055 AAACACCTTG
* * * * ** * *
14270065 AATAATCCTCTTCAATTTTTATAAGGTA-ATTATTCAAGGCATTTTTTCCCTAAAAATGCCTTG
1 AATAATCCCCTTAAATTTTTATGA-GTAGATTATTGAAGGCA-TTTTTGACTAAAAATGCTTTC
* **** * * * * *
14270128 AATAAT-CTCTTACAAAAAAT-TGAGTGAGGTTATTGAAGGCATTTTTG-CCACAAACGTTTTC
1 AATAATCCCCTTA-AATTTTTATGAGT-AGATTATTGAAGGCATTTTTGACTAAAAATGCTTTC
* * * **
14270189 AATAATCCCCTTAAATTTTTATGAGTAGATTATTGAAGGTATTTTT-AGTAAAAAATGCATAG
1 AATAATCCCCTTAAATTTTTATGAGTAGATTATTGAAGGCATTTTTGACT-AAAAATGCTTTC
* * * *
14270251 AATAATCCCTTCTAATTTTTTA-GATTGGATTATTGAAGGCATTTTTGACTAAAAATGCTTTC
1 AATAATCCCCT-TAAATTTTTATGAGTAGATTATTGAAGGCATTTTTGACTAAAAATGCTTTC
14270313 AATAATC
1 AATAATC
14270320 TTTTCTCTTT
Statistics
Matches: 144, Mismatches: 39, Indels: 19
0.71 0.19 0.09
Matches are distributed among these distances:
61 37 0.26
62 76 0.53
63 31 0.22
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (62 bp):
AATAATCCCCTTAAATTTTTATGAGTAGATTATTGAAGGCATTTTTGACTAAAAATGCTTTC
Found at i:14270386 original size:69 final size:71
Alignment explanation
Indices: 14270301--14270440 Score: 225
Period size: 71 Copynumber: 2.0 Consensus size: 71
14270291 ATTTTTGACT
*
14270301 AAAAATGCTTTCAATAAT-CTTTTCTC-TTTTTTTTTTT-AGATTATTCAAGGTGTTTTTGTGAG
1 AAAAATGCTTTCAATAATCCTTTT-TCATTTTTTTTTTTGAGATTATTCAAGGTATTTTTGTGAG
14270363 AAAACAC
65 AAAACAC
14270370 AAAAATGCCTTT-AATAATCCTTTTTCATTTTTTTTTTTGAGATTATTCAAGGTATTTTTGTGAG
1 AAAAATG-CTTTCAATAATCCTTTTTCATTTTTTTTTTTGAGATTATTCAAGGTATTTTTGTGAG
14270434 AAAACAC
65 AAAACAC
14270441 CTTGAATAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
69 15 0.23
70 20 0.30
71 31 0.47
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (71 bp):
AAAAATGCTTTCAATAATCCTTTTTCATTTTTTTTTTTGAGATTATTCAAGGTATTTTTGTGAGA
AAACAC
Found at i:14272545 original size:16 final size:17
Alignment explanation
Indices: 14272517--14272548 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14272507 TAAAGTATAT
14272517 ATTTTATTATCAATTTA
1 ATTTTATTATCAATTTA
14272534 ATTTTA-TATCAATTT
1 ATTTTATTATCAATTT
14272549 TTTAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTATCAATTTA
Found at i:14273068 original size:26 final size:25
Alignment explanation
Indices: 14273029--14273087 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
14273019 ACTTTTTATT
* *
14273029 TTTTAATTAAATAAAATTATTAAAAAC
1 TTTTAA-TAAATAAAAATAAT-AAAAC
*
14273056 TTTTAATAAATAAAAATAATAAAAT
1 TTTTAATAAATAAAAATAATAAAAC
14273081 TTTTAAT
1 TTTTAAT
14273088 TCGTGACATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.38
26 12 0.41
27 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTTAATAAATAAAAATAATAAAAC
Found at i:14273624 original size:26 final size:28
Alignment explanation
Indices: 14273594--14273657 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
14273584 ATTTAATATT
14273594 AAATTT-TAAATTT-T-TTATAAAATAAA
1 AAATTTATAAATTTGTGTTA-AAAATAAA
*
14273620 AAATTTATAATTTTGTGTTAAAAAT-AA
1 AAATTTATAAATTTGTGTTAAAAATAAA
*
14273647 AAAGTTATAAA
1 AAATTTATAAA
14273658 AAATAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.19
27 17 0.53
28 6 0.19
29 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (28 bp):
AAATTTATAAATTTGTGTTAAAAATAAA
Found at i:14274079 original size:23 final size:24
Alignment explanation
Indices: 14274035--14274084 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 24
14274025 TATTTTTCAA
14274035 TAAAATATATTAATTTTAATTAATT
1 TAAAATATATTAATTTTAATT-ATT
14274060 TAAAATA-A-TAA-TTTATATTATT
1 TAAAATATATTAATTTTA-ATTATT
14274082 TAA
1 TAA
14274085 TAAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 1 0.04
25 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TAAAATATATTAATTTTAATTATT
Found at i:14274086 original size:20 final size:19
Alignment explanation
Indices: 14274062--14274105 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
14274052 AATTAATTTA
*
14274062 AAATAATAATTTATATTATT
1 AAATAAAAATTTAT-TTATT
*
14274082 TAATAAAAATTTATTTATT
1 AAATAAAAATTTATTTATT
14274101 AAATA
1 AAATA
14274106 TATATAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATAAAAATTTATTTATT
Found at i:14275512 original size:19 final size:19
Alignment explanation
Indices: 14275485--14275521 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14275475 TATATTAGAG
*
14275485 ATTTTAATATTTAAATATT
1 ATTTAAATATTTAAATATT
*
14275504 ATTTAAATATTTCAATAT
1 ATTTAAATATTTAAATAT
14275522 AATTCAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAAATATTTAAATATT
Found at i:14275515 original size:27 final size:28
Alignment explanation
Indices: 14275465--14275521 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
14275455 TAACCTTATA
* * *
14275465 ATTTTAATATTATATTAGAGATTTTAAT
1 ATTTAAATATTATATTAAAGATTTCAAT
*
14275493 ATTTAAATATTAT-TTAAATATTTCAAT
1 ATTTAAATATTATATTAAAGATTTCAAT
14275520 AT
1 AT
14275522 AATTCAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (28 bp):
ATTTAAATATTATATTAAAGATTTCAAT
Found at i:14278905 original size:8 final size:8
Alignment explanation
Indices: 14278892--14278918 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
14278882 CTTATGAGTA
14278892 TGTATGTT
1 TGTATGTT
14278900 TGTATGTT
1 TGTATGTT
14278908 TGTATGTT
1 TGTATGTT
14278916 TGT
1 TGT
14278919 GAGTGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.26, T:0.63
Consensus pattern (8 bp):
TGTATGTT
Found at i:14279801 original size:16 final size:16
Alignment explanation
Indices: 14279777--14279813 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
14279767 AGATATGATG
*
14279777 TATGAGTGCATATGAA
1 TATGTGTGCATATGAA
14279793 TATGTGTGCATATGAA
1 TATGTGTGCATATGAA
14279809 TATGT
1 TATGT
14279814 ATTTGTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.38
Consensus pattern (16 bp):
TATGTGTGCATATGAA
Found at i:14285727 original size:21 final size:21
Alignment explanation
Indices: 14285699--14285745 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
14285689 AATAAAAATG
*
14285699 AAAA-AAAATAAACAAAA-ACA
1 AAAACAAAACAAA-AAAAGACA
14285719 AAAACAAAACAAAAAAAGACA
1 AAAACAAAACAAAAAAAGACA
*
14285740 ACAACA
1 AAAACA
14285746 TAGCACTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.81, C:0.15, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAACAAAACAAAAAAAGACA
Found at i:14286028 original size:17 final size:17
Alignment explanation
Indices: 14285989--14286029 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
14285979 TGGGCATACA
*
14285989 AAAAAAT-TTAAATCTT
1 AAAAAATATTAAATATT
14286005 AAAAAATATTAAATATT
1 AAAAAATATTAAATATT
14286022 AAAAAATA
1 AAAAAATA
14286030 AAAAGTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAAATATTAAATATT
Found at i:14286071 original size:29 final size:29
Alignment explanation
Indices: 14286015--14286071 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
14286005 AAAAAATATT
* *
14286015 AAATATTAAAAAATAAAAAGTTATAAAAG
1 AAATATTAAAAAATAAAAAGTCAAAAAAG
*
14286044 AAATTTTAAAAAATGAAAAAG-CAAAAAA
1 AAATATTAAAAAAT-AAAAAGTCAAAAAA
14286072 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (29 bp):
AAATATTAAAAAATAAAAAGTCAAAAAAG
Found at i:14286265 original size:23 final size:23
Alignment explanation
Indices: 14286239--14286285 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
14286229 TAAAATGATG
* *
14286239 ATGTACTTTACAATTTTGTAAAT
1 ATGTACTTTACAATGTTCTAAAT
14286262 ATGTACTTTACAATGTTCTAAAT
1 ATGTACTTTACAATGTTCTAAAT
14286285 A
1 A
14286286 ATTGTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (23 bp):
ATGTACTTTACAATGTTCTAAAT
Found at i:14294869 original size:9 final size:8
Alignment explanation
Indices: 14294847--14295004 Score: 77
Period size: 9 Copynumber: 18.2 Consensus size: 8
14294837 CAAGGCTAAC
*
14294847 AAAAATTA
1 AAAAATTT
14294855 AGAAAACTTT
1 A-AAAA-TTT
14294865 AAAAATTTT
1 AAAAA-TTT
14294874 AAAAATTTT
1 AAAAA-TTT
*
14294883 AAAATTTT
1 AAAAATTT
14294891 AAAAA-TT
1 AAAAATTT
*
14294898 AAATATTTT
1 AAA-AATTT
14294907 AAGAAATTAT
1 AA-AAATT-T
14294917 AAAAAATTT
1 -AAAAATTT
*
14294926 AAAAAATCT
1 -AAAAATTT
14294935 AAAATATTTT
1 AAAA-A-TTT
**
14294945 TGAAATTAT
1 AAAAATT-T
* *
14294954 ACAAATTA
1 AAAAATTT
14294962 AAAAATTAT
1 AAAAATT-T
*
14294971 GAAAATTT
1 AAAAATTT
*
14294979 -AAAATTG
1 AAAAATTT
*
14294986 AAAAATCTA
1 AAAAAT-TT
14294995 AAAAATTT
1 AAAAATTT
14295003 AA
1 AA
14295005 TAAAAAATGA
Statistics
Matches: 118, Mismatches: 19, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
7 11 0.09
8 30 0.25
9 61 0.52
10 14 0.12
11 2 0.02
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (8 bp):
AAAAATTT
Found at i:14294877 original size:8 final size:8
Alignment explanation
Indices: 14294866--14294908 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
14294856 GAAAACTTTA
14294866 AAAATTTT
1 AAAATTTT
14294874 AAAAATTTT
1 -AAAATTTT
14294883 AAAATTTT
1 AAAATTTT
*
14294891 AAAA-ATT
1 AAAATTTT
14294898 AAATATTTT
1 AAA-ATTTT
14294907 AA
1 AA
14294909 GAAATTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 5 0.17
8 13 0.43
9 12 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:14294877 original size:17 final size:17
Alignment explanation
Indices: 14294857--14295004 Score: 97
Period size: 17 Copynumber: 8.6 Consensus size: 17
14294847 AAAAATTAAG
*
14294857 AAAACTTTAAAAATTTT
1 AAAAATTTAAAAATTTT
*
14294874 AAAAATTTTAAAATTTT
1 AAAAATTTAAAAATTTT
*
14294891 AAAAA-TTAAATATTTT
1 AAAAATTTAAAAATTTT
*
14294907 AAGAAATTATAAAAAATTTA
1 AA-AAATT-T-AAAAATTTT
*
14294927 AAAAATCTAAAATATTTT
1 AAAAATTTAAAA-ATTTT
** * *
14294945 TGAAATTATACAAA-TTA
1 AAAAATT-TAAAAATTTT
*
14294962 AAAAATTATGAAAA-TTT
1 AAAAATT-TAAAAATTTT
* * *
14294979 -AAAATTGAAAAATCTA
1 AAAAATTTAAAAATTTT
14294995 AAAAATTTAA
1 AAAAATTTAA
14295005 TAAAAAATGA
Statistics
Matches: 100, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
15 4 0.04
16 18 0.18
17 49 0.49
18 11 0.11
19 9 0.09
20 9 0.09
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAAATTTAAAAATTTT
Found at i:14294976 original size:37 final size:38
Alignment explanation
Indices: 14294847--14294976 Score: 100
Period size: 36 Copynumber: 3.6 Consensus size: 38
14294837 CAAGGCTAAC
*
14294847 AAAAA-TTAAGAAAACTTTAAAA-ATTTTAA-AAATT-T-
1 AAAAATTTAA-AAAA-TATAAAATATTTTAAGAAATTATA
* *
14294882 TAAAATTTTAAAAAT-T-AAATATTTTAAGAAATTATA
1 AAAAATTTAAAAAATATAAAATATTTTAAGAAATTATA
* *
14294918 AAAAATTTAAAAAATCTAAAATATTTT-TGAAATTAT-
1 AAAAATTTAAAAAATATAAAATATTTTAAGAAATTATA
*
14294954 ACAAA-TTAAAAAATTATGAAAAT
1 AAAAATTTAAAAAA-TAT-AAAAT
14294977 TTAAAATTGA
Statistics
Matches: 79, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
32 3 0.04
33 8 0.10
34 6 0.08
35 17 0.22
36 22 0.28
37 14 0.18
38 9 0.11
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.36
Consensus pattern (38 bp):
AAAAATTTAAAAAATATAAAATATTTTAAGAAATTATA
Found at i:14294989 original size:24 final size:24
Alignment explanation
Indices: 14294947--14295028 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
14294937 AATATTTTTG
*
14294947 AAATTATACAAATTAAAAAAT-TATGA
1 AAATT-TA-AAATTAAAAAATCTA-AA
*
14294973 AAATTTAAAATTGAAAAATCTAAA
1 AAATTTAAAATTAAAAAATCTAAA
*
14294997 AAATTT--AA-TAAAAAAT-GAAA
1 AAATTTAAAATTAAAAAATCTAAA
*
14295017 AAATTCAAAATT
1 AAATTTAAAATT
14295029 TTAAACAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
20 8 0.17
21 7 0.15
22 4 0.09
23 1 0.02
24 18 0.38
25 4 0.09
26 5 0.11
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATTTAAAATTAAAAAATCTAAA
Found at i:14295111 original size:16 final size:17
Alignment explanation
Indices: 14295070--14295118 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
14295060 TTTAGTTAAA
14295070 TAAAAAATTCATAAAAACT
1 TAAAAAA-TC-TAAAAACT
14295089 TAAAAAAT-TAAAAA-T
1 TAAAAAATCTAAAAACT
14295104 TAAAAAAATCTAAAA
1 T-AAAAAATCTAAAA
14295119 TCTAAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.07
16 13 0.46
17 5 0.18
18 1 0.04
19 7 0.25
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAAATCTAAAAACT
Found at i:14295119 original size:16 final size:17
Alignment explanation
Indices: 14295071--14295125 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
14295061 TTAGTTAAAT
* *
14295071 AAAAAATTCATAAAAACTT
1 AAAAAATT-A-AAAATCTA
14295090 AAAAAATTAAAAAT-TA
1 AAAAAATTAAAAATCTA
14295106 AAAAAATCT-AAAATCTA
1 AAAAAAT-TAAAAATCTA
14295123 AAA
1 AAA
14295126 GTTTTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 13 0.41
17 10 0.31
18 1 0.03
19 8 0.25
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATTAAAAATCTA
Found at i:14295511 original size:17 final size:18
Alignment explanation
Indices: 14295473--14295531 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 18
14295463 GAATTTTAAG
14295473 AAAATTTT-ATTTTTATT
1 AAAATTTTCATTTTTATT
14295490 AAAATTTTCATTTTT-TT
1 AAAATTTTCATTTTTATT
* *
14295507 GAAATGTTCAAAATTTTTATT
1 AAAATTTTC---ATTTTTATT
14295528 AAAA
1 AAAA
14295532 ATATGAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 17 0.50
18 6 0.18
20 6 0.18
21 5 0.15
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
AAAATTTTCATTTTTATT
Found at i:14299804 original size:33 final size:32
Alignment explanation
Indices: 14299767--14299843 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
14299757 ATATAACTCA
*
14299767 GACTTAGCTGAAA-TCAAGAAATGAAATGACTTG
1 GACTTAGC-CAAAGTCAA-AAATGAAATGACTTG
* *
14299800 GACTTAGCCAAAGTTGAAAAATGATATGACTTG
1 GACTTAGCCAAAG-TCAAAAATGAAATGACTTG
*
14299833 GACTTAACCAA
1 GACTTAGCCAA
14299844 GGTTGAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 3 0.08
33 32 0.84
34 3 0.08
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (32 bp):
GACTTAGCCAAAGTCAAAAATGAAATGACTTG
Found at i:14299849 original size:33 final size:33
Alignment explanation
Indices: 14299785--14299852 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
14299775 TGAAATCAAG
*
14299785 AAATGAAATGACTTGGACTTAGCCAAAGTTGAA
1 AAATGAAATGACTTGGACTTAACCAAAGTTGAA
* *
14299818 AAATGATATGACTTGGACTTAACCAAGGTTGAA
1 AAATGAAATGACTTGGACTTAACCAAAGTTGAA
14299851 AA
1 AA
14299853 TAAAGGTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.25
Consensus pattern (33 bp):
AAATGAAATGACTTGGACTTAACCAAAGTTGAA
Found at i:14301094 original size:17 final size:17
Alignment explanation
Indices: 14301072--14301106 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14301062 TCAATGCATT
14301072 AACTTGTCTAGTAAAGG
1 AACTTGTCTAGTAAAGG
14301089 AACTTGTCTAGTAAAGG
1 AACTTGTCTAGTAAAGG
14301106 A
1 A
14301107 TGATAGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (17 bp):
AACTTGTCTAGTAAAGG
Found at i:14301423 original size:17 final size:17
Alignment explanation
Indices: 14301403--14301436 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14301393 GAATTTTTGA
*
14301403 TTTAAGTTTTTTTTTTC
1 TTTAACTTTTTTTTTTC
*
14301420 TTTATCTTTTTTTTTTC
1 TTTAACTTTTTTTTTTC
14301437 ATTTTCATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTAACTTTTTTTTTTC
Found at i:14301796 original size:20 final size:20
Alignment explanation
Indices: 14301773--14301812 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14301763 TTTTTTCATT
* *
14301773 TTGTTCCTTTTTCATTCTCA
1 TTGTTCATTTTTCAATCTCA
14301793 TTGTTCATTTTTCAATCTCA
1 TTGTTCATTTTTCAATCTCA
14301813 CTGTCCTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.57
Consensus pattern (20 bp):
TTGTTCATTTTTCAATCTCA
Found at i:14313055 original size:160 final size:160
Alignment explanation
Indices: 14312538--14314886 Score: 1814
Period size: 161 Copynumber: 14.7 Consensus size: 160
14312528 AAAGTTGTCA
* * * * * * *
14312538 TTTATATCCGTTTAGCACTTTTTGTGCCATT-AAAGGATAAAAATGTAAATATGCATTT-TT-TT
1 TTTATGTCTGTTTAGCACTTTTTATGCCGTTAAAAGG-CAAAAATGCAAATTTGCATTTATTATT
* * * * * ****
14312600 TTGTTTTAACAGTTTGGATAGCTTCAATCAATACATTATATTAAACTTGCCCGAATGATTGAACT
65 ATATTTTAATAGTTTAGATAGCTT---T-AATACATGATATTAAACTTGTTTAAATGATTGAACT
* * * **
14312665 TGGTTTTCACAGTTAATATGTTTGAAAAAGTTATTG
126 TGGTTTTCATA-TTGATATGTGTGAAAAAGTTACCG
* * * * ** ** * * *
14312701 TTTATATCTTTTTAAG-ACTTTGTTATGCCATT-AAAGGTAAACTTTTAATTTTGTAGTTA-TAT
1 TTTATGTCTGTTT-AGCACTTT-TTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTAT
* * * * * * *
14312763 T-TATGCTTTAACCA-TTTAGACAGCTTAAATATATTATATTAAACTTGTTGAAATAATTGAACT
64 TATAT--TTTAA-TAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACT
** **
14312826 TGGTTTCCTCA-ATTGATATGCATGAAAAAGTTATTG
126 TGGTTT--TCATATTGATATGTGTGAAAAAGTTACCG
* * * * * *
14312862 TTTACG-CTTGTTTAGCACTTTTTGTACTGTTAAAAGGCCAAAATGCAAATTTGTATTTATTATT
1 TTTATGTC-TGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTATT
* * * * * * *
14312926 CTGTTTTAACAATTTAGATAGCTTTAATGCATGATATTAAACTTGTTTAAATGATTGTACTTAGT
65 ATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGT
* *
14312991 TTGCATATTGATATGTGTGAAAAAGTTACCA
130 TTTCATATTGATATGTGTGAAAAAGTTACCG
* * * ** *
14313022 TTTCTGTCTGTTTAGGATTTTTTATGTTGTTAAAAGGC-AAAATGCAAATTTACATTTATTATTA
1 TTTATGTCTGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTATTA
* * ** * *
14313086 TGTTTTAAAAGTTTAGATAG-TTTCAATACATGATATTAAACTTGTTCGAATAATTAAACTTGGT
66 TATTTTAATAGTTTAGATAGCTTT-AATACATGATATTAAACTTGTTTAAATGATTGAACTTGGT
* **
14313150 TTCCATGATTGATATGCATGAAAAAGTTACCG
130 TTTCAT-ATTGATATGTGTGAAAAAGTTACCG
* ** * * *
14313182 TTTATGTCT-TTTAAGGACTTTGTTACACTGTT-AAAGTGC-AAAATG-TAATTATGTAGTTATA
1 TTTATGTCTGTTT-AGCACTTT-TTATGCCGTTAAAAG-GCAAAAATGCAAATT-TGCA-TT-TA
*
14313243 TT-TT-TATTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTT-TTTCAAATGATTGAA
60 TTATTATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTT-AAATGATTGAA
* * * * *
14313305 CTTGATTTCCACAATTGATA-ATGTGAAAAAGTTATCG
124 CTTGGTTTTCA-TATTGATATGTGTGAAAAAGTTACCG
* * * **
14313342 TTTATGTTTGTTTAGCACTTTTTA--CAGTGATAAAAGGCCAAAATGCAAATTTGTGTTTATTAT
1 TTTATGTCTGTTTAGCACTTTTTATGCCGT--TAAAAGGCAAAAATGCAAATTTGCATTTATTAT
* * * * * * * * *
14313405 TATATTTTAACAATTTATATAGCTTCAATACACGATATGAAACTTCTTCAAATGATTAAACTTGG
64 TATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGG
* * *
14313470 TTTTCACAGTCGATATATGTGAAAAAGTTACCG
129 TTTTCATA-TTGATATGTGTGAAAAAGTTACCG
* * * * *
14313503 TTTATGTTTGTTTAGGACTTTTGTAT--TGTTAAAAAGCCAAAATGCAAATTTGCATTTATTATT
1 TTTATGTCTGTTTAGCACTTTT-TATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTATT
* ** *
14313566 ATATTTTAATAGTTTAGATAGCTTTAATATATGATATTAAACTTG-TTCGATAATTGAACTTGGT
65 ATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGT
* * * *
14313630 TTCCATAGTTGATATGTATGAAAAAGTTATCA
130 TTTCATA-TTGATATGTGTGAAAAAGTTACCG
* ** *
14313662 TTTATCT-TAGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATATAAATTTACATTTATTATT
1 TTTATGTCT-GTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTATT
* * * * * *
14313726 ATATTTTAATAGTTTAGATAGCTTTAATACATTATATTAAACTTATCTGAATGATTAAAATTGGT
65 ATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGT
* * * ** *
14313791 TTTCACAGTTGATAAGTGTGAAAAACTTGTCA
130 TTTCATA-TTGATATGTGTGAAAAAGTTACCG
* * * * * *
14313823 TTTATCTTTGTTTAGCACTTTTTGTGCCATTAAAAGACAAAAATGCAAATTTGCATTTGTTATTA
1 TTTATGTCTGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTATTA
* * * * * *
14313888 TATTTCAACT-GTTTATATAGCTTCAATACATTATATTAAACTTG--T--CTGAATG-A-TTGGT
66 TATTTTAA-TAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGT
* * *
14313946 TTCCATGGTTGATATGTGAGAAAAAGTTACCG
130 TTTCAT-ATTGATATGTGTGAAAAAGTTACCG
* * ** * * *
14313978 TTTATCTCTGTTTAGCA-TTTCTTGTGTTGTTAAAAGGCAAAAATATC-AATTTACATTTGTTAT
1 TTTATGTCTGTTTAGCACTTT-TTATGCCGTTAAAAGGCAAAAAT-GCAAATTTGCATTTATTAT
* * * * * * *
14314041 TATATTTTAATAGTTTAGAGAGCTTCATTATATGATATTAAACTTGTTTGAATGATTAAACTTAG
64 TATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGG
* * * *
14314106 TTTTTACAGTTGATATATGTAAAAAAGTTACCG
129 TTTTCATA-TTGATATGTGTGAAAAAGTTACCG
* *
14314139 TTTATCTCTGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTTTTA
1 TTTATGTCTGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTATTA
* * *
14314204 TATTTTAATAGTTTAGATAGCTTTAATACATAATATTAAACTTGTTCAAATGATTGAACTTCGTT
66 TATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGTT
*
14314269 TTCATGATTGATATATGTGAAAAAGTTACCG
131 TTCAT-ATTGATATGTGTGAAAAAGTTACCG
* * * * ** * * *
14314300 TTTATCTCTGTTTAGCACTTTTTATGCCATTAAAAAGAAAAAATATAATTTTGTAGTTA-TATTT
1 TTTATGTCTGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTA-TT
* * * * * * *
14314364 ATGTTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTGAACTTAGT
65 ATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGT
* *
14314429 TTTCATGATTGATATGTATGAAAAAGTTATCG
130 TTTCAT-ATTGATATGTGTGAAAAAGTTACCG
* * * * * * ** *
14314461 TTTATGTCTGTTTAACAC-TTTTATGTCATTAAAAGGAAAAAATGTAAAATTATATTTATTATTC
1 TTTATGTCTGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTATTA
* ** * * **
14314525 TATTTGAGCAGTTTAGATATCTTTAATACATAATATTAAACTTGTCCAAATGATTGAACTTGG-T
66 TATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGTT
* * * *
14314589 TTCTATTATTGGTATGTCTGAAAAAGGTACTG
131 TTC-A-TATTGATATGTGTGAAAAAGTTACCG
* * * ** *
14314621 -TTATGTCT-TTTAGGACTTTATTATACCGTT-AAAGGCAAAAATGTAAATTTATAGTTA-TATT
1 TTTATGTCTGTTTAGCACTTT-TTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTA-T
* * * ** * *
14314682 TATATTTTAATAGTTTAGGTAGCTTAAATACATAATATTAAACTTGTCCAAATTATTGAAATTGG
64 TATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGG
* * * * **
14314747 TTTCCACAATTTGATATGTATGAATAAGTT-GTG
129 TTTTCA-TA-TTGATATGTGTGAAAAAGTTACCG
* * * ** * * * * *
14314780 ATTTATGTCTATTTAGGACTTTTTGTAACGTCATAAGGCAAAAATGCAAATTTACAGTTATTGTT
1 -TTTATGTCTGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTATT
* * *
14314845 ATGTTTTAATAGTTTAGATAGCTCATATTACATGATATTAAA
65 ATATTTTAATAGTTTAGATAGCT-TTAATACATGATATTAAA
14314887 TTTTTCTAAA
Statistics
Matches: 1796, Mismatches: 314, Indels: 152
0.79 0.14 0.07
Matches are distributed among these distances:
154 4 0.00
155 115 0.06
156 2 0.00
157 8 0.00
158 19 0.01
159 256 0.14
160 488 0.27
161 733 0.41
162 79 0.04
163 57 0.03
164 18 0.01
165 15 0.01
166 2 0.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.43
Consensus pattern (160 bp):
TTTATGTCTGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCATTTATTATTA
TATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGTT
TTCATATTGATATGTGTGAAAAAGTTACCG
Found at i:14313163 original size:320 final size:320
Alignment explanation
Indices: 14312777--14314886 Score: 1823
Period size: 320 Copynumber: 6.6 Consensus size: 320
14312767 GCTTTAACCA
* * * * * * *
14312777 TTTAGACAGCTTAAATATATTATATTAAACTTGTT-GAAATAATTGAACTTGGTTTCC-TCAATT
1 TTTAGATAGCTTCAATACATGATATTAAACTTGTTCG-AATGATTAAACTTGGTTTCCAT-GATT
* ** * *
14312840 GATATGCATGAAAAAGTTATTGTTTACGCTTGTTTAGCACTTTTTGTACTGTTAAAAGGCCAAAA
64 GATATGTATGAAAAAGTTACCGTTTATGCTTGTTTAGCACTTTTTGTACTGTTAAAAGGCAAAAA
* * * * * *
14312905 TGCAAATTTGTATTTATTATTCTGTTTTAACAATTTAGATAGCTTTAATGCATGATATTAAACTT
129 TGCAAATTTGCATTTATTATTATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTT
* * * * *
14312970 GTTTAAATGATTGTACTTAGTTTGCATATTGATATGTGTGAAAAAGTTACCATTTCTGTCTGTTT
194 GTTTAAATGATTGAACTT-GTTTCCATATTGATATGTGTGAAAAAGTTACCGTTTATCTCTGTTT
* * ** *
14313035 AGGATTTTTTATGTTGTTAAAAGGC-AAAATGCAAATTTACATTTATTATTATGTTTTAAAAG
258 AGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTACATTTATTATTATATTTTAAAAG
* *
14313097 TTTAGATAGTTTCAATACATGATATTAAACTTGTTCGAATAATTAAACTTGGTTTCCATGATTGA
1 TTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTAAACTTGGTTTCCATGATTGA
* * * **
14313162 TATGCATGAAAAAGTTACCGTTTATGTCTT-TTAAGGACTTTGTTACACTGTT-AAAGTGC-AAA
66 TATGTATGAAAAAGTTACCGTTTATG-CTTGTTTAGCACTTT-TTGTACTGTTAAAAG-GCAAAA
* * *
14313224 ATG-TAATTATGTAGTTATATT-TT-TATTTTAATAGTTTAGATAGCTTAAATACATGATATTAA
128 ATGCAAATT-TGCA-TT-TATTATTATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAA
* * * *
14313286 ACTT-TTTCAAATGATTGAACTTGATTTCCACAATTGATA-ATGTGAAAAAGTTATCGTTTATGT
190 ACTTGTTT-AAATGATTGAACTTG-TTTCCA-TATTGATATGTGTGAAAAAGTTACCGTTTATCT
* * * ***
14313349 TTGTTTAGCACTTTTTA--CAGTGATAAAAGGCCAAAATGCAAATTTGTGTTTATTATTATATTT
252 CTGTTTAGCACTTTTTATGCCGT--TAAAAGGCAAAAATGCAAATTTACATTTATTATTATATTT
14313412 TAACAA-
315 TAA-AAG
* * * * * *
14313418 TTTATATAGCTTCAATACACGATATGAAACTTCTTCAAATGATTAAACTTGGTTTTCACA-G-TC
1 TTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTAAACTTGG-TTTC-CATGATT
* * * * * * *
14313481 GATATATGTGAAAAAGTTACCGTTTATGTTTGTTTAGGAC-TTTTGTATTGTTAAAAAGCCAAAA
64 GATATGTATGAAAAAGTTACCGTTTATGCTTGTTTAGCACTTTTTGTACTGTTAAAAGGCAAAAA
*
14313545 TGCAAATTTGCATTTATTATTATATTTTAATAGTTTAGATAGCTTTAATATATGATATTAAACTT
129 TGCAAATTTGCATTTATTATTATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTT
** * * * *
14313610 G-TTCGATAATTGAACTTGGTTTCCATAGTTGATATGTATGAAAAAGTTATCATTTATCT-TAGT
194 GTTTAAATGATTGAACTT-GTTTCCATA-TTGATATGTGTGAAAAAGTTACCGTTTATCTCT-GT
** *
14313673 TTAGCACTTTTTATGCCGTTAAAAGGCAAAAATATAAATTTACATTTATTATTATATTTTAATAG
256 TTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTACATTTATTATTATATTTTAAAAG
* * * *
14313738 TTTAGATAGCTTTAATACATTATATTAAACTT-ATCTGAATGATTAAAATTGGTTTTCACA-G-T
1 TTTAGATAGCTTCAATACATGATATTAAACTTGTTC-GAATGATTAAACTTGG-TTTC-CATGAT
* * * ** * * ** *
14313800 TGATAAGTGTGAAAAACTTGTCATTTAT-CTTTGTTTAGCACTTTTTGTGCCATTAAAAGACAAA
63 TGATATGTATGAAAAAGTTACCGTTTATGC-TTGTTTAGCACTTTTTGTACTGTTAAAAGGCAAA
* * * * *
14313864 AATGCAAATTTGCATTTGTTATTATATTTCAACT-GTTTATATAGCTTCAATACATTATATTAAA
127 AATGCAAATTTGCATTTATTATTATATTTTAA-TAGTTTAGATAGCTTTAATACATGATATTAAA
* * * *
14313928 CTTGTCTGAATGATTG-----GTTTCCATGGTTGATATGTGAGAAAAAGTTACCGTTTATCTCTG
191 CTTGTTTAAATGATTGAACTTGTTTCCAT-ATTGATATGTGTGAAAAAGTTACCGTTTATCTCTG
* ** * *
14313988 TTTAGCA-TTTCTTGTGTTGTTAAAAGGCAAAAATATC-AATTTACATTTGTTATTATATTTTAA
255 TTTAGCACTTT-TTATGCCGTTAAAAGGCAAAAAT-GCAAATTTACATTTATTATTATATTTTAA
*
14314051 TAG
318 AAG
* * * * * *
14314054 TTTAGAGAGCTTCATTATATGATATTAAACTTGTTTGAATGATTAAACTTAGTTTTTACA-G-TT
1 TTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTAAACTT-G-GTTTCCATGATT
* * * * * *
14314117 GATATATGTAAAAAAGTTACCGTTTAT-CTCTGTTTAGCACTTTTTATGCCGTTAAAAGGCAAAA
64 GATATGTATGAAAAAGTTACCGTTTATGCT-TGTTTAGCACTTTTTGTACTGTTAAAAGGCAAAA
* *
14314181 ATGCAAATTTGCATTTATTTTTATATTTTAATAGTTTAGATAGCTTTAATACATAATATTAAACT
128 ATGCAAATTTGCATTTATTATTATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACT
* * *
14314246 TGTTCAAATGATTGAACTTCGTTTTCATGATTGATATATGTGAAAAAGTTACCGTTTATCTCTGT
193 TGTTTAAATGATTGAACTT-GTTTCCAT-ATTGATATGTGTGAAAAAGTTACCGTTTATCTCTGT
* * * ** * ** * *
14314311 TTAGCACTTTTTATGCCATTAAAAAGAAAAAATATAATTTTGTAGTTA-TATTTATGTTTTAACA
256 TTAGCACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTACATTTATTA-TTATATTTTAA-A
14314375 A-
319 AG
* * * * *
14314376 TTTAGATAGCTTCAATACATGATATTAAACTT-ATCTAAATGATTGAACTTAGTTTTCATGATTG
1 TTTAGATAGCTTCAATACATGATATTAAACTTGTTC-GAATGATTAAACTTGGTTTCCATGATTG
* * * *
14314440 ATATGTATGAAAAAGTTATCGTTTATG-TCTGTTTAACACTTTTATGT-C-ATTAAAAGGAAAAA
65 ATATGTATGAAAAAGTTACCGTTTATGCT-TGTTTAGCACTTTT-TGTACTGTTAAAAGGCAAAA
* * ** * * ** * *
14314502 ATGTAAAATTATATTTATTATTCTATTTGAGCAGTTTAGATATCTTTAATACATAATATTAAACT
128 ATGCAAATTTGCATTTATTATTATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACT
** * * * * * *
14314567 TGTCCAAATGATTGAACTTGGTTTCTATTATTGGTATGTCTGAAAAAGGTACTG-TTATGTCT-T
193 TGTTTAAATGATTGAACTT-GTTTCCA-TATTGATATGTGTGAAAAAGTTACCGTTTATCTCTGT
* * * * * *
14314630 TTAGGACTTTATTATACCGTT-AAAGGCAAAAATGTAAATTTATAGTTA-TATTTATATTTTAAT
256 TTAGCACTTT-TTATGCCGTTAAAAGGCAAAAATGCAAATTTACATTTATTA-TTATATTTTAAA
14314693 AG
319 AG
* * * * * * **
14314695 TTTAGGTAGCTTAAATACATAATATTAAACTTGTCCAAATTATTGAAA-TTGGTTTCCACAATTT
1 TTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATT-AAACTTGGTTTCCATGA-TT
* ** * * * *
14314759 GATATGTATGAATAAGTT-GTGATTTATG-TCTATTTAGGACTTTTTGTAAC-GTCATAAGGCAA
64 GATATGTATGAAAAAGTTACCG-TTTATGCT-TGTTTAGCACTTTTTGT-ACTGTTAAAAGGCAA
* * * * * *
14314821 AAATGCAAATTTACAGTTATTGTTATGTTTTAATAGTTTAGATAGCTCATATTACATGATATTAA
126 AAATGCAAATTTGCATTTATTATTATATTTTAATAGTTTAGATAGCT-TTAATACATGATATTAA
14314886 A
190 A
14314887 TTTTTCTAAA
Statistics
Matches: 1471, Mismatches: 249, Indels: 138
0.79 0.13 0.07
Matches are distributed among these distances:
315 5 0.00
316 256 0.17
317 6 0.00
318 8 0.01
319 142 0.10
320 473 0.32
321 372 0.25
322 201 0.14
323 8 0.01
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.43
Consensus pattern (320 bp):
TTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTAAACTTGGTTTCCATGATTGA
TATGTATGAAAAAGTTACCGTTTATGCTTGTTTAGCACTTTTTGTACTGTTAAAAGGCAAAAATG
CAAATTTGCATTTATTATTATATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGT
TTAAATGATTGAACTTGTTTCCATATTGATATGTGTGAAAAAGTTACCGTTTATCTCTGTTTAGC
ACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTACATTTATTATTATATTTTAAAAG
Found at i:14316064 original size:74 final size:74
Alignment explanation
Indices: 14315974--14316140 Score: 185
Period size: 74 Copynumber: 2.3 Consensus size: 74
14315964 AAATTTCCTA
* ** * *
14315974 ATTTAATGGCATTTGTGTCAAAAAAGGCCATTAAA-TTAGTGACATTTTTGGACACT-AATGCCG
1 ATTTAGTGGCATTTGTGTCAAAAAACACCACTAAATTTAGTGACATTTTTGCACA-TAAATGCCG
14316037 CTAAATGATGC
65 CTAAATGAT-C
* * * * *
14316048 ATTTAGTGGCATTTGTGTCCAGAAACATCGCTAAATTTAGTGGCATTTTTGCACATAAATGCCGC
1 ATTTAGTGGCATTTGTGTCAAAAAACACCACTAAATTTAGTGACATTTTTGCACATAAATGCCGC
*
14316113 TAAATTATC
66 TAAATGATC
* *
14316122 GTTTAGTGGCATTTTTGTC
1 ATTTAGTGGCATTTGTGTC
14316141 TGCAAACATC
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
74 46 0.59
75 32 0.41
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (74 bp):
ATTTAGTGGCATTTGTGTCAAAAAACACCACTAAATTTAGTGACATTTTTGCACATAAATGCCGC
TAAATGATC
Found at i:14316150 original size:74 final size:74
Alignment explanation
Indices: 14316005--14316245 Score: 240
Period size: 75 Copynumber: 3.2 Consensus size: 74
14315995 AAAAGGCCAT
* * *
14316005 TAAA-TTAGTGACATTTTTGGACACT-AATGCCGCTAAATGATGCATTTAGTGGCATTTGTGTCC
1 TAAATTTAGTGACATTTTTGAACA-TAAATGCCGCTAAATTAT-CATTTAGTGGCATTTTTGT-C
*
14316068 AG-AAACATCGC
63 TGCAAACATCGC
* * *
14316079 TAAATTTAGTGGCATTTTTGCACATAAATGCCGCTAAATTATCGTTTAGTGGCATTTTTGTCTGC
1 TAAATTTAGTGACATTTTTGAACATAAATGCCGCTAAATTATCATTTAGTGGCATTTTTGTCTGC
*
14316144 AAACATCGT
66 AAACATCGC
* * * * * * ***
14316153 TAAATTTAATGGCGTTTCTAAACACAAATATTGCTAAATTCATCATTTAGTGGCATTTTTGTCTG
1 TAAATTTAGTGACATTTTTGAACATAAATGCCGCTAAATT-ATCATTTAGTGGCATTTTTGTCTG
14316218 C-AA-ATGCTGC
65 CAAACAT-C-GC
14316228 TAAATTTAGTGACATTTT
1 TAAATTTAGTGACATTTT
14316246 CAGACATAAA
Statistics
Matches: 139, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
73 4 0.03
74 64 0.46
75 71 0.51
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (74 bp):
TAAATTTAGTGACATTTTTGAACATAAATGCCGCTAAATTATCATTTAGTGGCATTTTTGTCTGC
AAACATCGC
Found at i:14317946 original size:23 final size:25
Alignment explanation
Indices: 14317901--14317946 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
14317891 ATTTTGTTTA
*
14317901 AACAAAGTCTCAAAACTACATTCAT
1 AACAAAGTCTCAAAACAACATTCAT
*
14317926 AACAAAG-C-CAAAACAATATTC
1 AACAAAGTCTCAAAACAACATTC
14317947 CAAGGTCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 1 0.05
25 7 0.37
ACGTcount: A:0.52, C:0.24, G:0.04, T:0.20
Consensus pattern (25 bp):
AACAAAGTCTCAAAACAACATTCAT
Found at i:14322835 original size:9 final size:9
Alignment explanation
Indices: 14322817--14323023 Score: 50
Period size: 10 Copynumber: 21.0 Consensus size: 9
14322807 AAGCAATAAT
14322817 AATAAAATA
1 AATAAAATA
*
14322826 AATAAGATAA
1 AATAAAAT-A
14322836 AATAAAAGTAA
1 AATAAAA-T-A
14322847 AGATAAGAATAA
1 A-ATAA-AAT-A
14322859 AGATAAAATAAA
1 A-ATAAAAT--A
14322871 AATAAAAGTAA
1 AATAAAA-T-A
14322882 AATAAAGATA
1 AATAAA-ATA
*
14322892 AAT-GAATAA
1 AATAAAAT-A
14322901 AATAAAAATA
1 AAT-AAAATA
14322911 AGATAAAATA
1 A-ATAAAATA
14322921 CAGAT-AAATA
1 -A-ATAAAATA
* *
14322931 CA-AGAATA
1 AATAAAATA
14322939 AATATAAA-A
1 AATA-AAATA
*
14322948 TATAAAATAA
1 AATAAAAT-A
*
14322958 TAATAAACACA
1 -AATAAA-ATA
**
14322969 CTTATAAAT-
1 AATA-AAATA
14322978 -ATAACAATA
1 AATAA-AATA
*
14322987 AATATAATA
1 AATAAAATA
*
14322996 AAT-AAATG
1 AATAAAATA
14323004 AATAAAAATGA
1 AAT-AAAAT-A
14323015 AATAAAATA
1 AATAAAATA
14323024 TAAAATTAGA
Statistics
Matches: 153, Mismatches: 19, Indels: 52
0.68 0.08 0.23
Matches are distributed among these distances:
7 1 0.01
8 22 0.14
9 25 0.16
10 42 0.27
11 42 0.27
12 19 0.12
13 2 0.01
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (9 bp):
AATAAAATA
Done.