Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold914
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: 63784
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:7942 original size:22 final size:22
Alignment explanation
Indices: 7890--7950 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 22
7880 AGAAAATTAA
7890 AAATAATTTTTATATTAATATTT
1 AAATAATTTTTA-ATTAATATTT
*
7913 ATAT-ATTTTATAATTAA-ATTT
1 AAATAATTTT-TAATTAATATTT
7934 AAATAATTTGTTAATTA
1 AAATAATTT-TTAATTA
7951 TTAAATATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 7 0.21
22 20 0.61
23 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AAATAATTTTTAATTAATATTT
Found at i:8188 original size:17 final size:18
Alignment explanation
Indices: 8149--8191 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 18
8139 TTTAAATTTA
8149 AATTTTTAATATATAAAT
1 AATTTTTAATATATAAAT
8167 -A---TTAATATA-AAAT
1 AATTTTTAATATATAAAT
8180 AATTTTTAATAT
1 AATTTTTAATAT
8192 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 9
0.70 0.00 0.30
Matches are distributed among these distances:
13 4 0.19
14 9 0.43
17 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTTTAATATATAAAT
Found at i:10930 original size:155 final size:157
Alignment explanation
Indices: 10714--11069 Score: 379
Period size: 158 Copynumber: 2.3 Consensus size: 157
10704 CTTGGCTTTA
*
10714 CAAGAAAAGCTTTTTTTACCACCATTTTTCATAGAATCAAAGTTCATCTCTTAAATGAGACAAAC
1 CAAG-AAAGCTTTTTTT-CCACCATTTTTCATAAAATCAAAGTTCATCTCTTAAATGAGACAAAC
* *
10779 ATCGATTCTCA-TAAT-CTC-T-ATTCTTTGCAAGATTAGGCACCATAAACACATTATT-CTCAC
64 ATCGATTCT-AGTAATGATCTTCAATCTTTGCAAGATTAGGCACCATAAACACATT-TTCCTCAC
** *
10839 TAGGATACATGATATTGATGTTTTAG-TTTCG
127 TAGGATACACAATATTGATGATTT-GCTTTCG
* * * *
10870 CAAGAAAGGTTTTTCTTCCACCA-TTTTCATAAAAGTCTAAGTTCGTGC-CTTAAATTAGACAAA
1 CAAGAAAGCTTTTT-TTCCACCATTTTTCATAAAA-TCAAAGTTCAT-CTCTTAAATGAGACAAA
* * * * * *
10933 TATGGATTCTAGTAATGATCTTCAATCTTTTCATGATTAGGCACCATAAACACGTTTTCCTCATT
63 CATCGATTCTAGTAATGATCTTCAATCTTTGCAAGATTAGGCACCATAAACACATTTTCCTCACT
*
10998 TGGATACACAATATTGATGATTTGCTTTCG
128 AGGATACACAATATTGATGATTTGCTTTCG
* *
11028 CAAAGAAAGCTTTTTTT-CACCACATTTTCCTTAAAATCAAAG
1 C-AAGAAAGCTTTTTTTCCA-C-CATTTTTCATAAAATCAAAG
11070 CTTGTCCTCG
Statistics
Matches: 166, Mismatches: 21, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
154 11 0.07
155 50 0.30
156 9 0.05
157 6 0.04
158 62 0.37
159 19 0.11
160 9 0.05
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (157 bp):
CAAGAAAGCTTTTTTTCCACCATTTTTCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACAT
CGATTCTAGTAATGATCTTCAATCTTTGCAAGATTAGGCACCATAAACACATTTTCCTCACTAGG
ATACACAATATTGATGATTTGCTTTCG
Found at i:13788 original size:19 final size:20
Alignment explanation
Indices: 13761--13799 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
13751 ATGACTATGA
*
13761 ATTTGGAGTT-GCCATGATC
1 ATTTCGAGTTAGCCATGATC
*
13780 ATTTCGAGTTAGGCATGATC
1 ATTTCGAGTTAGCCATGATC
13800 GGATGCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (20 bp):
ATTTCGAGTTAGCCATGATC
Found at i:14785 original size:81 final size:78
Alignment explanation
Indices: 14571--14844 Score: 265
Period size: 77 Copynumber: 3.5 Consensus size: 78
14561 TGAAGTATTC
* * * *
14571 GATATTTTGG-AGATAAAAATGGGGTTGGAGTATCCCTTCATAAATGATAAGGTTGGAGTAACCG
1 GATATTTTGGAAG-TAAAAATGGGGTTGGAGTATCCCTTCATAAATAAT-GGGTTGGAGTATCCC
14635 CAATG-GCAAAATATTT
64 CAATGTG-AAAAT-TTT
* * *
14651 GATATTTTTGGAAGTAGAAA--CGG--GGAGTATCCCCTCATAAATAATGAGGTTGGAGTATCCC
1 GATA-TTTTGGAAGTAAAAATGGGGTTGGAGTATCCCTTCATAAATAATG-GGTTGGAGTATCCC
14712 CAATAGTGAAAATTTT
64 CAAT-GTGAAAATTTT
* *
14728 GATATTTTTGGAAGTAAAAATGGGGTTAGAGTATCCCTTCAAAAATAATGGGATTGGAGTATCCC
1 GATA-TTTTGGAAGTAAAAATGGGGTTGGAGTATCCCTTCATAAATAATGGG-TTGGAGTATCCC
**
14793 TGATGGTGAAACA-TTT
64 CAAT-GTGAAA-ATTTT
* * * *
14809 GATATTTAGGAAGTAAACACGAGGTTGGAGTATCCC
1 GATATTTTGGAAGTAAAAATGGGGTTGGAGTATCCC
14845 CAATGGTGAA
Statistics
Matches: 163, Mismatches: 20, Indels: 22
0.80 0.10 0.11
Matches are distributed among these distances:
77 58 0.36
78 6 0.04
79 5 0.03
80 33 0.20
81 58 0.36
82 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (78 bp):
GATATTTTGGAAGTAAAAATGGGGTTGGAGTATCCCTTCATAAATAATGGGTTGGAGTATCCCCA
ATGTGAAAATTTT
Found at i:14952 original size:131 final size:133
Alignment explanation
Indices: 14696--14941 Score: 340
Period size: 131 Copynumber: 1.9 Consensus size: 133
14686 CATAAATAAT
* * * *
14696 GAGGTTGGAGTATCCCCAATAGTGAAAATTTTGATATTTTTGGAAGTAAAAATGGGGTTAGAGTA
1 GAGGTTGGAGTATCCCCAATAGTGAAAATATCGATATTTTTGGAAATAAAAATAGGGTTAGAGTA
* * *
14761 TCCCTTCAAAAATAATGGGATTGGAGTATCCCTGATGGTGAAACATTTGATATTTAGGAAGTAAA
66 TCCCTTCAAAAATAATGGGATTGGAGTATCCCTGAAGATGAAAAATTTGATATTTAGGAAGTAAA
14826 CAC
131 CAC
*
14829 GAGGTTGGAGTATCCCCAATGGTGAAAA-ATCGATA-TTTTGGAAATAAAAATAGGGTTAGAGTA
1 GAGGTTGGAGTATCCCCAATAGTGAAAATATCGATATTTTTGGAAATAAAAATAGGGTTAGAGTA
* * *
14892 T-CCTATCAGAAATGATGGGGTTGGAGTATCCTCT-AAGAT-AAAAATTTGAT
66 TCCCT-TCAAAAATAATGGGATTGGAGTATCC-CTGAAGATGAAAAATTTGAT
14942 GCTTTTGGAA
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
130 13 0.13
131 53 0.53
132 7 0.07
133 27 0.27
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.30
Consensus pattern (133 bp):
GAGGTTGGAGTATCCCCAATAGTGAAAATATCGATATTTTTGGAAATAAAAATAGGGTTAGAGTA
TCCCTTCAAAAATAATGGGATTGGAGTATCCCTGAAGATGAAAAATTTGATATTTAGGAAGTAAA
CAC
Found at i:18791 original size:467 final size:462
Alignment explanation
Indices: 17893--19651 Score: 1603
Period size: 467 Copynumber: 3.8 Consensus size: 462
17883 ATTTTTTATT
** * *
17893 CCTAATC-TCGAAAAGAATAGAGACTATTATGAGAATCTATGTTTGTCTCATTTAAGTAATGAAC
1 CCTAATCAT-GAAAAGAATAGAGACTATTACAAGAATCCATGTTTGTCTCATTTAAGGAATGAAC
*
17957 TTTGATTTTAAGGAAAATAGGACAAAGAAAAGCTTTCTT-T----ACGAAAGCATCACTATC--G
65 TTTGATTTTAAGGAAAATAGGACAAAGAAAAGCTTTCTTGTGAAAAC-AAAGCATCAATATCATG
* * * *
18015 TGTCCTAATGAGGA-AA-AGTGTTTATGGTGCCCAATCTTGAAAATAATG-AAGATCATTACTAG
129 TATCCTAAAGAGGAGAACA-TGTTTATGGTGCCCAATCATGAAAAGAATGAAAGATCATTACTAG
* * * * * *
18077 AATCCATGTTTGTCTTATTTAAGGCATAAACTTAAACTCTACAAAAACTAGTGGAAGAAAAGCCT
193 AATCCATGTTTGTCTCATTTGAGGCACAAACTTAGACTCTACAAAAA-TGGTGGAAGAAAAGGCT
* * * *
18142 TTCTTGA-GAAA--AAAGCATAAATACCATGTATCCTCATGAGAAAAATGTGTTTATGGTGCCTA
257 TTCTT-ACGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGAATGTG-TTATGGTGCCTA
* * * *
18204 TTCTTAAAAGGAATGGGGATTATCATGAGAATCCATGTTTGTTTTATTTAAGAGGTGAACTTTGA
320 ATCTTAAAA-GAATGGGGATTATTATGAGAATCCATGTTTGTCTCATTTAAGA--TGAACTTTGA
* *
18269 TTTTATGAAAAATAGTGGTAAAAAAGGCTTTTACC-CCAAAGCCAAACCATCAATGTCATGTATC
382 TTTTATGAAAAATAGTGTTAAAAAA-GC-TTT-CCTACAAAGCCAAACCATCAATGTCATGTATC
* *
18333 CCAAAGAAGATTTTTGGTG
444 CCAATGAGGATTTTTGGTG
* * * *
18352 TCTAATCATGAAAAGAATAGAGACTATTACAAAAATCCATGTTTGTCTCATTTGAGGAATAAACT
1 CCTAATCATGAAAAGAATAGAGACTATTACAAGAATCCATGTTTGTCTCATTTAAGGAATGAACT
* * ** * *
18417 TTAATTTTAAGAAAAATGAGG-CAAAGAAAAGCTTTCCTTGCAAAAAAAAATCATCAATATCATG
66 TTGATTTTAAGGAAAAT-AGGACAAAGAAAAGCTTT-CTTGTGAAAACAAAGCATCAATATCATG
* *
18481 TATCCTAAAGAGGAGAACATATTTATGGTGCCCAATCATGAAAAGAATGAAAG-TCACTACTAGA
129 TATCCTAAAGAGGAGAACATGTTTATGGTGCCCAATCATGAAAAGAATGAAAGATCATTACTAGA
* *
18545 ATCCATGTTTGTCTTATTTGAGGCACAAACTTAGACTCTATGAAAAATGGTGGAAGAAAAGGCTT
194 ATCCATGTTTGTCTCATTTGAGGCACAAACTTAGACTCTA-CAAAAATGGTGGAAGAAAAGGCTT
* * *
18610 TCTTATGAAACCAAAGCATCAATATCATGTATCCTAACGAGAAGAAGGTGCTTATGGTGCCTAAT
258 TCTTACGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGAATGTG-TTATGGTGCCTAAT
* * * *
18675 CATGAAAAGAATGGGAATTATTATGAAAATCCATGTTTGCCTCATTTCAAGATGAACTTTGATTT
322 C-TTAAAAGAATGGGGATTATTATGAGAATCCATGTTTGTCTCATTT-AAGATGAACTTTGATTT
* * *
18740 TATGAAAAATAGTGTTAAAAAAGCTTTCCTTGCAAAGTCAAACCTTCAATGTCATGTATCCCAAT
385 TATGAAAAATAGTGTTAAAAAAGCTTTCC-TACAAAGCCAAACCATCAATGTCATGTATCCCAAT
18805 GAGGATTTTTGGTG
449 GAGGATTTTTGGTG
* * * * * * *
18819 CCCAATCTTGAAAAGAATGGATACTGTTACAAGAATCCAT-TCTTGTCTCATTTAAGGGAGGAAC
1 CCTAATCATGAAAAGAATAGAGACTATTACAAGAATCCATGT-TTGTCTCATTTAAGGAATGAAC
* * ** * * *
18883 TTTGATTTCAAGGAAAATGGGGTAAAGAAAAGCTTTCTTGTGAAAGCAAATCATTAATATCATGT
65 TTTGATTTTAAGGAAAATAGGACAAAGAAAAGCTTTCTTGTGAAAACAAAGCATCAATATCATGT
** * * * *
18948 AT-CT--AGAATAGAACGTGTTTATAGG-GCCTAATCATGACAAG-A-GCAAAGATCGTTACTAG
130 ATCCTAAAGAGGAGAACATGTTTAT-GGTGCCCAATCATGAAAAGAATG-AAAGATCATTACTAG
* **** * ** * **
19007 AATCCTTGTTTGTCTCATTTGAGGCATGGGCTTATACTCTACAGAAAATGGTATATGAAAAGAAT
193 AATCCATGTTTGTCTCATTTGAGGCACAAACTTAGACTCTACA-AAAATGGTGGAAGAAAAGGCT
* * ** * * *
19072 TTCTTGCGAAGCCAAAGCATCAATATTTTATATCCTAATAAGAAGAATATGTCTATGGTGCCTAA
257 TTCTTACGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGAATGTGT-TATGGTGCCTAA
* * *
19137 TTTTTTTAAAA-AAGTGGGGATTATTATGAGAATCAATGTTTGTCTCATTTTGGAGATGAACTTT
321 ---TCTTAAAAGAA-TGGGGATTATTATGAGAATCCATGTTTGTCTCA-TTT-AAGATGAACTTT
* * * * ** * *
19201 AATTCTATGAAAAATAGTTGTAAAAAAAGCTTTCCCTATAAAGCCAATTCATAAATGTCATGGAT
380 GATTTTATGAAAAATAG-TGTTAAAAAAGCTTT-CCTACAAAGCCAAACCATCAATGTCATGTAT
*
19266 TCCAATGAGGATTTTTGGTG
443 CCCAATGAGGATTTTTGGTG
** * * * * * *
19286 CCTAATCACCAAAAGAATGGAGACTACTGCAAGAATCCATGTTTGTTTCATTT---GAGTGGACT
1 CCTAATCATGAAAAGAATAGAGACTATTACAAGAATCCATGTTTGTCTCATTTAAGGAATGAACT
* ** *
19348 TTGATTTTAAGGAAAATAGGTCAAAGAAAAGCTCTTCTTGTGAAGTCAAAGCATTAATATCATGT
66 TTGATTTTAAGGAAAATAGGACAAAGAAAAGCT-TTCTTGTGAAAACAAAGCATCAATATCATGT
* * * * * ** *
19413 ATCCCAATA-AGGAGAACGTGTTTGTAGTGCCCAATCATGAAAAGAA--AGAGATTGTTA-TGAC
130 ATCCTAA-AGAGGAGAACATGTTTATGGTGCCCAATCATGAAAAGAATGAAAGATCATTACT-AG
* * * * *
19474 AATCCATGTTTGTCTCATTTG-TGCAACAAACTTTGATTCTATAAAAAATGGTGAAAAGAAAA-G
193 AATCCATGTTTGTCTCATTTGAGGC-ACAAACTTAGACTCTA-CAAAAATGGTG-GAAGAAAAGG
** * * * * * * * * *
19537 CTTTTCTTACGGCATCAAAGCATCACTATAATGTATCCCAATGA-AGGGAACGTATTTTTGGT-T
255 C-TTTCTTACGAAACCAAAGCATCAATATCATGTATCCTAATGAGA-AGAATGT-GTTATGGTGC
* * * *
19600 CTCAATCTTGAAAAGAAT-GGAACTAATATGAGAATCCATATTTGTCTCATTT
317 CT-AATCTT-AAAAGAATGGGGATTATTATGAGAATCCATGTTTGTCTCATTT
19652 GAGGCACGAA
Statistics
Matches: 1060, Mismatches: 187, Indels: 101
0.79 0.14 0.07
Matches are distributed among these distances:
459 84 0.08
460 7 0.01
461 1 0.00
462 7 0.01
463 139 0.13
464 53 0.05
465 98 0.09
466 85 0.08
467 373 0.35
468 122 0.12
469 82 0.08
470 9 0.01
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (462 bp):
CCTAATCATGAAAAGAATAGAGACTATTACAAGAATCCATGTTTGTCTCATTTAAGGAATGAACT
TTGATTTTAAGGAAAATAGGACAAAGAAAAGCTTTCTTGTGAAAACAAAGCATCAATATCATGTA
TCCTAAAGAGGAGAACATGTTTATGGTGCCCAATCATGAAAAGAATGAAAGATCATTACTAGAAT
CCATGTTTGTCTCATTTGAGGCACAAACTTAGACTCTACAAAAATGGTGGAAGAAAAGGCTTTCT
TACGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGAATGTGTTATGGTGCCTAATCTTA
AAAGAATGGGGATTATTATGAGAATCCATGTTTGTCTCATTTAAGATGAACTTTGATTTTATGAA
AAATAGTGTTAAAAAAGCTTTCCTACAAAGCCAAACCATCAATGTCATGTATCCCAATGAGGATT
TTTGGTG
Found at i:20299 original size:159 final size:159
Alignment explanation
Indices: 17796--20949 Score: 1168
Period size: 158 Copynumber: 20.3 Consensus size: 159
17786 TTGATCAACA
* * * *
17796 AACTTTGATTCTATA-AAAGATGATGGAAAGAAAAGCTTTTCTTGC-AACATCAAAGCATCAGTG
1 AACTTTGATTCTATAGAAA-ATGGTGGAAAGAAAAGCTTTTCTTGCGAA-ACCAAAGCATCAATA
* * * * * * ** * * *
17859 TCATGTACCCCAATGA-AAAAATTTATTTTTTATTCCTAATC-TCGAAAAGAATAGAGACTATTA
64 TCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCAT-GAAAAGAATGGAGATTATTA
* * *
17922 TGAGAATCTATGTTTGTCTCATTTAAGTA-ATG
128 TAAGAATCCATGTTTGTCTCATTTAA-AAGATG
* ** * * *
17954 AACTTTGATTTTA-AGGAAAATAGG-ACAAAGAAAAGC-TTTCTT----TACGAAAGCATCACTA
1 AACTTTGATTCTATA-GAAAAT-GGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATA
* * * * * *
18012 TC--GTGTCCTAATGAGGAA-AA-GTGTTTATGGTGCCCAATCTTGAAAATAATGAAGATCATTA
64 TCATGTATCCTAATGA-GAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATTA
* * *
18073 CT-AGAATCCATGTTTGTCTTATTT-AAGGCATA
128 -TAAGAATCCATGTTTGTCTCATTTAAAAG-ATG
** * * * * * * *
18105 AACTTAAACTCTACA-AAAACTAGTGG-AAGAAAAGCCTTTCTTGAGAAA--AAAGCATAAATAC
1 AACTTTGATTCTATAGAAAA-TGGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATAT
* * * * * *
18166 CATGTATCCTCATGAGAAAAATGTGTTTATGGTGCCTATTC-TTAAAAGGAATGGGGATTATCAT
65 CATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAA-GAATGGAGATTATTAT
* * * * *
18230 GAGAATCCATGTTTGTTTTATTTAAGAGGTG
129 AAGAATCCATGTTTGTCTCATTTAAAAGATG
* * * * * *
18261 AACTTTGATTTTAT-GAAAAATAGTGGTAAA-AAAGGCTTTTAC--CCCAAAGCCAAACCATCAA
1 AACTTTGATTCTATAG-AAAATGGTGG-AAAGAAAAGCTTTT-CTTGCGAAA-CCAAAGCATCAA
* * * * *
18322 TGTCATGTATCCCAA--AGAAG-A--T-TTT-TGGTGTCTAATCATGAAAAGAATAGAGACTATT
62 TATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATT
* * * * *
18380 ACAAAAATCCATGTTTGTCTCATTT-GAGGAATA
127 ATAAGAATCCATGTTTGTCTCATTTAAAAG-ATG
* * * * * ** *
18413 AACTTTAATTTTA-AGAAAAATGAG-GCAAAGAAAAGCTTTCCTTGCAAAAAAAAATCATCAATA
1 AACTTTGATTCTATAG-AAAATG-GTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATA
* * ** * * * * *
18476 TCATGTATCCTAAAGAGGAGAACATATTTATGGTGCCCAATCATGAAAAGAAT-GAAAGTCACTA
64 TCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGA-TTATTA
* * * **
18540 CT-AGAATCCATGTTTGTCTTATTT-GAGGCACA
128 -TAAGAATCCATGTTTGTCTCATTTAAAAG-ATG
* * **
18572 AACTTAGACTCTAT-GAAAAATGGTGG-AAGAAAAGGC-TTTCTTATGAAACCAAAGCATCAATA
1 AACTTTGATTCTATAG-AAAATGGTGGAAAGAAAA-GCTTTTCTTGCGAAACCAAAGCATCAATA
* * *
18634 TCATGTATCCTAACGAGAAGAAGGTGCTTATGGTGCCTAATCATGAAAAGAATGG-GAATTATTA
64 TCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAG-ATTATTA
* *
18698 TGAA-AATCCATGTTTGCCTCATTT-CAAGATG
128 T-AAGAATCCATGTTTGTCTCATTTAAAAGATG
* * ** * * * * *
18729 AACTTTGATTTTAT-GAAAAATAGTGTTAA-AAAAGCTTTCCTTGC-AAAGTCAAACCTTCAATG
1 AACTTTGATTCTATAG-AAAATGGTGGAAAGAAAAGCTTTTCTTGCGAAA-CCAAAGCATCAATA
* * * * * * *
18791 TCATGTATCCCAATGAG--G-A--T-TTT-TGGTGCCCAATCTTGAAAAGAATGGATACTGTTAC
64 TCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATTAT
** *
18849 AAGAATCCAT-TCTTGTCTCATTTAAGGGAGG
129 AAGAATCCATGT-TTGTCTCATTTAAAAGATG
* * * *
18880 AACTTTGATT-TCA-AGGAAAATGG-GGTAAAGAAAAGC-TTTCTTGTGAAAGCAAATCATTAAT
1 AACTTTGATTCT-ATA-GAAAATGGTGG-AAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAAT
* * **** **
18941 ATCATGTAT-CT-A-GA-ATAGAACGTGTTTATAGG-GCCTAATCATGACAAGAGCAAAGATCGT
63 ATCATGTATCCTAATGAGA-AGAATGTGTTTAT-GGTGCCTAATCATGAAAAGAATGGAGATTAT
* * *
19001 TACT-AGAATCCTTGTTTGTCTCATTT-GAGGCATG
126 TA-TAAGAATCCATGTTTGTCTCATTTAAAAG-ATG
** * * * ** *
19035 GGCTTAT-ACTCTACAGAAAATGGT--ATATGAAAAGAATTTCTTGCGAAGCCAAAGCATCAATA
1 AACTT-TGATTCTATAGAAAATGGTGGA-AAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATA
** * * * * ** * *
19097 TTTTATATCCTAATAAGAAGAATATGTCTATGGTGCCTAATTTTTTTAAAA-AAGTGGGGATTAT
64 TCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAA--TCATGAAAAGAA-TGGAGATTAT
* * ***
19161 TATGAGAATCAATGTTTGTCTCATTTTGGAGATG
126 TATAAGAATCCATGTTTGTCTCATTTAAAAGATG
* * * * * ** ** *
19195 AACTTTAATTCTAT-GAAAAATAGTTGTAAA-AAAAGCTTTCCCT-ATAAAGCCAATTCATAAAT
1 AACTTTGATTCTATAG-AAAAT-GGTGGAAAGAAAAGCTTTTCTTGCGAAA-CCAAAGCATCAAT
* * ** * *
19257 GTCATGGATTCC-AATGAG--G-A--T-TTT-TGGTGCCTAATCACCAAAAGAATGGAGACTACT
63 ATCATGTA-TCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATT
** * *
19314 GCAAGAATCCATGTTTGTTTCATTT--GAG-TG
127 ATAAGAATCCATGTTTGTCTCATTTAAAAGATG
* * * * * ** *
19344 GACTTTGATTTTA-AGGAAAATAGGT-CAAAGAAAAGCTCTTCTTGTGAAGTCAAAGCATTAATA
1 AACTTTGATTCTATA-GAAAAT-GGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATA
* * * * * * * * *
19407 TCATGTATCCCAATAAGGAGAACGTGTTTGTAGTGCCCAATCATGAAAAGAA-AGAGATTGTTAT
64 TCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATTAT
* * ** *
19471 GACAATCCATGTTTGTCTCATTTGTGCAACA--
129 AAGAATCCATGTTTGTCTCA-TT-TAAAAGATG
* * * ** * * *
19502 AACTTTGATTCTATAAAAAATGGTGAAAAGAAAAGCTTTTCTTACGGCATCAAAGCATCACTATA
1 AACTTTGATTCTATAGAAAATGGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATATC
* * * * * * * * *
19567 ATGTATCCCAATGA-AGGGAACGTATTTTTGGT-TCTCAATCTTGAAAAGAATGGA-ACTAATAT
66 ATGTATCCTAATGAGA-AGAATGTGTTTATGGTGCCT-AATCATGAAAAGAATGGAGATTATTAT
* * * * *
19629 GAGAATCCATATTTGTCTCATTT-GAGGCACG
129 AAGAATCCATGTTTGTCTCATTTAAAAG-ATG
** * * * * * *
19660 AAC-TAAACTCTATTGAAAATAGT-GAGAGGAAAAG-TCTTTCCTACGAAACCAAAGTCA-CTAA
1 AACTTTGATTCTATAGAAAATGGTGGA-AAGAAAAGCT-TTTCTTGCGAAACCAAAG-CATC-AA
* * ** * * * *
19721 TACCATATATGTTAAAGAGAAGAATATGTTTATGGTACCTAATCTTGAACAA-AATTGG-GATTA
62 TATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAA-AAGAA-TGGAGATTA
* * * ** ** *
19784 TTATGAGAATTCAAGTTCATCTCATTTAAGGGATA
125 TTATAAGAATCCATGTTTGTCTCATTTAAAAGATG
* *
19819 AACTTTGATTCTAT-GAAAATGGT-GATAA-AAAAACTTTTCTTGC-AAAGCCAAA-CTATTAAT
1 AACTTTGATTCTATAGAAAATGGTGGA-AAGAAAAGCTTTTCTTGCGAAA-CCAAAGC-ATCAAT
* * * * **
19879 GTCATGTAT-CTCAACGAG--G-AT-T-TTT-T-GTGCCCAATAATGAAAAGAATGGAGACAATT
63 ATCATGTATCCT-AATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATT
* *** *
19936 ACAAGAATCCATGTTCAACTCATTTAAGAGATG
127 ATAAGAATCCATGTTTGTCTCATTTAAAAGATG
* * * * * * *
19969 AACTTTGATTCTAT-GAAAAATAGG-GGTAAGAAAAACTTTTCTTGCGACATCAAAGCATTATTG
1 AACTTTGATTCTATAG-AAAAT-GGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATA
* ** * * ** * *** *
20032 TCATGTATCC-AATGA-AGGGAACATATTTTTCAT-TCTCAATC-TCGAAAAGAAAAAAGACTAT
64 TCATGTATCCTAATGAGA-AGAATGTGTTTATGGTGCCT-AATCAT-GAAAAGAATGGAGATTAT
* * * * * *
20093 TACAAGAATCAATGTTCGTCTCATTT-GAGGCACG
126 TATAAGAATCCATGTTTGTCTCATTTAAAAG-ATG
* * * *
20127 AACTTAGACTCTATAGAAAATGGTGGAAAGAAAAGCTTTTCTTGCCAAACCAAAACATCAATATC
1 AACTTTGATTCTATAGAAAATGGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATATC
* * * * *
20192 ATGTAACTTAATGAGAAAAATGTGTTTATGGTGCCTAATCTTAAAAAGAATGGAGATTATTATAA
66 ATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATTATAA
20257 GAATCCATGTTTGTCTCATTTAAAAGATG
131 GAATCCATGTTTGTCTCATTTAAAAGATG
* * * *
20286 AACTTTGATTCTAT-GAAAAATGGTGGTAAA-AAAAGCTTTTCCTG-TAAAGCCAAACCATTAAT
1 AACTTTGATTCTATAG-AAAATGGTGG-AAAGAAAAGCTTTTCTTGCGAAA-CCAAAGCATCAAT
* * * * **
20348 GTCATGCATCCTAATGAG--G-A--T-TTT-TGGTGCCCAATCACGAAAAGAA-GGAGACAATTA
63 ATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATTA
* * ** * *
20405 CAATAATCCATGTTCATCTCATTTAAGAGCTG
128 TAAGAATCCATGTTTGTCTCATTTAAAAGATG
* ** * * * *
20437 AACTTTGATTCTA-CGAAAAATAGG-GGGGA-AAAAG-TTTTCCTTG-TAAAGCCAAACCATTAG
1 AACTTTGATTCTATAG-AAAAT-GGTGGAAAGAAAAGCTTTT-CTTGCGAAA-CCAAAGCATCAA
* * * * *
20497 TATCATGCATACC-AAT---AAGGAT-T-TTT-T-GTG-CTCAGTCATGAAAA-AATGGAAACTA
62 TATCATGTAT-CCTAATGAGAAGAATGTGTTTATGGTGCCT-AATCATGAAAAGAATGGAGATTA
* ** *
20552 TTATAAGAATCCATGTTTGTCTCATTTGAGGGATA
125 TTATAAGAATCCATGTTTGTCTCATTTAAAAGATG
* * * * * * *
20587 AACTTTGATTTTA-AGGAAAATGAGT-TAAAGAAAAGCTTTCCTTGCAAAAGCAAATCATTAATA
1 AACTTTGATTCTATA-GAAAATG-GTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATA
* * ** ** *
20650 ACATGTATCCTAATGAGGAGAACATGTTTATGGTGCCTAATCATGAAAAGAATAAAGATCATTAC
64 TCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATTA-
* * *
20715 T-AGAATCAATGTTTGTCTCATTTGAGGAACA--
128 TAAGAATCCATGTTTGTCTCATTT-A-AAAGATG
* * * * * * *
20746 AACTTAGACATC-ACAAAAAATGGTGGGAAGAAAAGCCTTTTC-TACGAATCCAAAGCATCAATA
1 AACTTTGA-TTCTATAGAAAATGGTGGAAAGAAAAG-CTTTTCTTGCGAAACCAAAGCATCAATA
* * * ** * * *
20809 TCGTGTATCCTAATGAAAAGGATGTAATTATGGTGCCAAATCTTG-AAAGAAAT-AAGGATTATT
64 TCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAG-AATGGA-GATTATT
* * *
20872 ATGAGAATCCTTGTTTGTCTCATTTAAGAGATG
127 ATAAGAATCCATGTTTGTCTCATTTAAAAGATG
* * * **
20905 AACTCTAATTCTAT-GAAAATGATGGTGAGAAAAGCTTTTCTTGCG
1 AACTTTGATTCTATAGAAAATGGTGGAAAGAAAAGCTTTTCTTGCG
20950 CAGCCTAACC
Statistics
Matches: 2230, Mismatches: 551, Indels: 430
0.69 0.17 0.13
Matches are distributed among these distances:
148 8 0.00
149 68 0.03
150 233 0.10
151 234 0.10
152 206 0.09
153 52 0.02
154 39 0.02
155 135 0.06
156 115 0.05
157 162 0.07
158 457 0.20
159 409 0.18
160 75 0.03
161 32 0.01
162 4 0.00
163 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (159 bp):
AACTTTGATTCTATAGAAAATGGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATATC
ATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCATGAAAAGAATGGAGATTATTATAA
GAATCCATGTTTGTCTCATTTAAAAGATG
Found at i:20565 original size:150 final size:152
Alignment explanation
Indices: 18231--20944 Score: 619
Period size: 159 Copynumber: 17.5 Consensus size: 152
18221 GATTATCATG
* * * * * * *
18231 AGAATCCATGTTTGTTTTATTTAAGAGGTGAACTTTGATTTTATGAAAAATAGTGGTAAAAAAGG
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAATGGTGGTAAAAAAAG
** * * * * * * *
18296 CTTTTACC-CCAAAGCCAAACCATCAATGTCATGTATCCCAA-AGAAGATTTTTGGTGTCTAATC
66 CTTTT-CCTGTAAAGCCAAACCATTAATATCATGCATCCTAATA-AGGATTTTTGGTGCCCAATC
* * *
18359 ATGAAAAGAATAGAGACTATTACA
129 ACGAAAAGAATGGAGACTATTATA
* * * * * * * *
18383 AAAATCCATGTTTGTCTCATTTGAG-GAATAAACTTTAATTTTAAGAAAAAT-GAGGCAAAGAAA
1 AGAATCCATGTTTGTCTCATTTAAGAG-ATGAACTTTGATTCTACGAAAAATGGTGGTAAA-AAA
* *** * * *
18446 AGC-TTTCCTTGCAAAAAAAAATCATCAATATCATGTATCCTAA-AGAGGAGAACATATTTATGG
64 AGCTTTTCC-TGTAAAGCCAAACCATTAATATCATGCATCCTAATA-A-G-G---AT-TTT-TGG
* * * *
18509 TGCCCAATCATGAAAAGAAT-GAAAGTCACTACT-
120 TGCCCAATCACGAAAAGAATGGAGACT-ATTA-TA
* * ** * * *
18542 AGAATCCATGTTTGTCTTATTTGAG-GCACAAACTTAGACTCTATGAAAAATGGTGG-AAGAAAA
1 AGAATCCATGTTTGTCTCATTTAAGAG-ATGAACTTTGATTCTACGAAAAATGGTGGTAA-AAAA
* * * * * * * * *
18605 GGC-TTTCTTATGAAA-CCAAAGCATCAATATCATGTATCCTAACGAGAAGAAGGTGCTTATGGT
64 AGCTTTTCCTGT-AAAGCCAAACCATTAATATCATGCATCCT-A--ATAAG--GAT--TTTTGGT
* * *
18668 GCCTAATCATGAAAAGAATGG-GAATTATTATGA
121 GCCCAATCACGAAAAGAATGGAG-ACTATTAT-A
* * * * * *
18701 A-AATCCATGTTTGCCTCATTTCA-AGATGAACTTTGATTTTATGAAAAATAGT-GTTAAAAAAG
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAATGGTGGTAAAAAAAG
* * * * * *
18763 C-TTTCCTTGCAAAGTCAAACC-TTCAATGTCATGTATCCCAATGAGGATTTTTGGTGCCCAATC
66 CTTTTCC-TGTAAAGCCAAACCATT-AATATCATGCATCCTAATAAGGATTTTTGGTGCCCAATC
** * * *
18826 TTGAAAAGAATGGATACTGTTACA
129 ACGAAAAGAATGGAGACTATTATA
* * * *
18850 AGAATCCAT-TCTTGTCTCATTTAAGGGAGGAACTTTGATT-TCAAGGAAAATGG-GGTAAAGAA
1 AGAATCCATGT-TTGTCTCATTTAAGAGATGAACTTTGATTCT-ACGAAAAATGGTGGTAAA-AA
* * * *
18912 AAGC-TTTCTTGTGAAAG-CAAATCATTAATATCATGTAT-CTAGAATAGAACGTG-TTTATAGG
63 AAGCTTTTCCTGT-AAAGCCAAACCATTAATATCATGCATCCT--AAT--AA-G-GATTT-TTGG
* * * **** *
18973 -GCCTAATCATGACAAGAGCAAAGA-TCGTTACT-
120 TGCCCAATCACGAAAAGAATGGAGACT-ATTA-TA
* * ** * * **
19005 AGAATCCTTGTTTGTCTCATTTGAG-GCATGGGCTTAT-ACTCTAC-AGAAAATGGT-ATATGAA
1 AGAATCCATGTTTGTCTCATTTAAGAG-ATGAACTT-TGATTCTACGA-AAAATGGTGGTAAAAA
** * ** * * ** **
19066 AAGAATTTCTTGCGAAGCCAAAGCATCAATATTTTATATCCTAATAAGAAGAATATGTCTATGGT
63 AAGCTTTTCCTGTAAAGCCAAACCATTAATATCATGCATCCTAATAAG--G-AT-T-T-T-TGGT
* **** * * *
19131 GCCTAATTTTTTTAAAA-AAGTGGGGATTATTATG
121 GCCCAA--TCACGAAAAGAA-TGGAGACTATTATA
* ** * * * *
19165 AGAATCAATGTTTGTCTCATTTTGGAGATGAACTTTAATTCTATGAAAAATAGTTGTAAAAAAAG
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAATGGTGGTAAAAAAAG
* * ** * * * * *
19230 CTTTCCCTATAAAGCCAATTCATAAATGTCATGGATTCC-AATGAGGATTTTTGGTGCCTAATCA
66 CTTTTCCTGTAAAGCCAAACCATTAATATCATGCA-TCCTAATAAGGATTTTTGGTGCCCAATCA
* * **
19294 CCAAAAGAATGGAGACTACTGCA
130 CGAAAAGAATGGAGACTATTATA
* * * * * *
19317 AGAATCCATGTTTGTTTCATTT--GAG-TGGACTTTGATTTTAAGGAAAATAGGT--CAAAGAAA
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAAT-GGTGGTAAA-AAA
* * * * * * * *
19377 AGCTCTTCTTGTGAAGTCAAAGCATTAATATCATGTATCCCAATAAGGAGAACGTGTTTGTAGTG
64 AGCTTTTCCTGTAAAGCCAAACCATTAATATCATGCATCCTAATAA-G-G-A--T-TTT-TGGTG
* * * * *
19442 CCCAATCATGAAAAGAA-AGAGATTGTTATG
122 CCCAATCACGAAAAGAATGGAGACTATTATA
* ** ** ** *
19472 ACAATCCATGTTTGTCTCATTTGTGCA-ACAAACTTTGATTCTATAAAAAATGGT-GAAAAGAAA
1 AGAATCCATGTTTGTCTCATTTAAG-AGATGAACTTTGATTCTACGAAAAATGGTGGTAAA-AAA
** * * * * * *
19535 AGCTTTT-CT-TACGGCATCAAAGCATCACTATAATGTATCCCAATGAAGGGAACGTATTTTTGG
64 AGCTTTTCCTGTAAAGC--CAAACCATTAATATCATGCATCCTAAT-AA--G---G-ATTTTTGG
* * ** * *
19598 TTCTCAATCTTGAAAAGAATGGA-ACTAATATG
120 TGCCCAATCACGAAAAGAATGGAGACTATTATA
* * * ** * * * **
19630 AGAATCCATATTTGTCTCATTTGAG-GCACGAAC-TAAACTCTATTG-AAAATAGTGAG-AGGAA
1 AGAATCCATGTTTGTCTCATTTAAGAG-ATGAACTTTGATTCTA-CGAAAAATGGTG-GTAAAAA
* * * ** **
19691 AAG-TCTTTCCTACG-AAA-CCAAAGTCACTAATACCATATATGTTAA-AGAGAAGAATATGTTT
63 AAGCT-TTTCCT--GTAAAGCCAAA-CCATTAATATCATGCATCCTAATA-AG--G---AT-TTT
* * ** * *
19752 ATGGTACCTAATCTTGAACAA-AATTGG-GATTATTATG
117 -TGGTGCCCAATCACGAA-AAGAA-TGGAGACTATTATA
* * ** * * * *
19789 AGAATTCAAGTTCATCTCATTTAAGGGATAAACTTTGATTCTATG-AAAATGGTGATAAAAAAA-
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAATGGTGGTAAAAAAAG
* * * * * ** * *
19852 CTTTTCTTGCAAAGCCAAACTATTAATGTCATGTAT-CTCAACGAGGATTTTTTGTGCCCAATAA
66 CTTTTCCTGTAAAGCCAAACCATTAATATCATGCATCCT-AATAAGGATTTTTGGTGCCCAATCA
* * *
19916 TGAAAAGAATGGAGACAATTACA
130 CGAAAAGAATGGAGACTATTATA
*** *
19939 AGAATCCATGTTCAACTCATTTAAGAGATGAACTTTGATTCTATGAAAAATAGG-GGTAAGAAAA
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAAT-GGTGGTAA-AAAA
* * * * * * * * **
20003 A-CTTTTCTTGCGACA-TCAAAGCATTATTGTCATGTATCC-AATGAAGGGAACATATTTTTCAT
64 AGCTTTTCCTG-TAAAGCCAAACCATTAATATCATGCATCCTAAT-AA-GG-----ATTTTTGGT
* * * *** *
20065 TCTCAATCTCGAAAAGAAAAAAGACTATTACA
121 GCCCAATCACGAAAAGAATGGAGACTATTATA
* * * * * * *
20097 AGAATCAATGTTCGTCTCATTTGAG-GCACGAACTTAGACTCTA-TAGAAAATGGTGG-AAAGAA
1 AGAATCCATGTTTGTCTCATTTAAGAG-ATGAACTTTGATTCTACGA-AAAATGGTGGTAAA-AA
* * * * * * * **
20159 AAGCTTTTCTTGCCAAA-CCAAAACATCAATATCATGTAACTTAATGAGAAAAATGTGTTTATGG
63 AAGCTTTTCCTG-TAAAGCCAAACCATTAATATCATGCATCCTAAT---AAGGA--T-TTT-TGG
* *** *
20223 TGCCTAATCTTAAAAAGAATGGAGATTATTATA
120 TGCCCAATCACGAAAAGAATGGAGACTATTATA
* *
20256 AGAATCCATGTTTGTCTCATTTAAAAGATGAACTTTGATTCTATGAAAAATGGTGGTAAAAAAAG
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAATGGTGGTAAAAAAAG
* *
20321 CTTTTCCTGTAAAGCCAAACCATTAATGTCATGCATCCTAATGAGGATTTTTGGTGCCCAATCAC
66 CTTTTCCTGTAAAGCCAAACCATTAATATCATGCATCCTAATAAGGATTTTTGGTGCCCAATCAC
* *
20386 GAAAAGAA-GGAGACAATTACA
131 GAAAAGAATGGAGACTATTATA
* ** * **
20407 ATAATCCATGTTCATCTCATTTAAGAGCTGAACTTTGATTCTACGAAAAATAGG-GG-GGAAAAA
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAAT-GGTGGTAAAAAAA
* * * *
20470 G-TTTTCCTTGTAAAGCCAAACCATTAGTATCATGCATACC-AATAAGGATTTTTTGTGCTCAGT
65 GCTTTTCC-TGTAAAGCCAAACCATTAATATCATGCAT-CCTAATAAGGATTTTTGGTGCCCAAT
* *
20533 CATGAAAA-AATGGAAACTATTATA
128 CACGAAAAGAATGGAGACTATTATA
* * * * * *
20557 AGAATCCATGTTTGTCTCATTTGAGGGATAAACTTTGATTTTAAGGAAAATGAGT--TAAAGAAA
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAATG-GTGGTAAA-AAA
* * * * *
20620 AGC-TTTCCTTGCAAAAG-CAAATCATTAATAACATGTATCCTAATGAGGAGAACATGTTTATGG
64 AGCTTTTCC-TG-TAAAGCCAAACCATTAATATCATGCATCCTAAT-A--AG--GAT-TTT-TGG
* * **
20683 TGCCTAATCATGAAAAGAATAAAGA-TCATTACT-
120 TGCCCAATCACGAAAAGAATGGAGACT-ATTA-TA
* * ** * * * * *
20716 AGAATCAATGTTTGTCTCATTTGAG-GAACAAACTTAGACATC-ACAAAAAATGGTGGGAAGAAA
1 AGAATCCATGTTTGTCTCATTTAAGAG-ATGAACTTTGA-TTCTACGAAAAATGGTGGTAAAAAA
*** * * * * *
20779 AGCCTTTT-CTACGAATCCAAAGCATCAATATCGTGTATCCTAATGAAAAGGATGTAATTATGGT
64 AG-CTTTTCCTGTAAAGCCAAACCATTAATATCATGCATCCTAAT---AAGGAT-T--TT-TGGT
* ** * * *
20843 GCCAAATCTTG-AAAGAAAT-AAGGATTATTATG
121 GCCCAATCACGAAAAG-AATGGA-GACTATTATA
* * * * * * *
20875 AGAATCCTTGTTTGTCTCATTTAAGAGATGAACTCTAATTCTATG-AAAATGATGGTGAGAAAAG
1 AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAATGGTGGTAAAAAAAG
20939 CTTTTC
66 CTTTTC
20945 TTGCGCAGCC
Statistics
Matches: 1912, Mismatches: 456, Indels: 382
0.70 0.17 0.14
Matches are distributed among these distances:
148 6 0.00
149 68 0.04
150 232 0.12
151 161 0.08
152 195 0.10
153 10 0.01
154 35 0.02
155 119 0.06
156 60 0.03
157 122 0.06
158 383 0.20
159 391 0.20
160 78 0.04
161 46 0.02
162 6 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (152 bp):
AGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTCTACGAAAAATGGTGGTAAAAAAAG
CTTTTCCTGTAAAGCCAAACCATTAATATCATGCATCCTAATAAGGATTTTTGGTGCCCAATCAC
GAAAAGAATGGAGACTATTATA
Found at i:21320 original size:398 final size:400
Alignment explanation
Indices: 20564--21362 Score: 950
Period size: 398 Copynumber: 2.0 Consensus size: 400
20554 ATAAGAATCC
* * * * *
20564 ATGTTTGTCTCATTTGAGGGATAAACTTTGATTTTAAGGAAAATGAGTTAAAGAAAAGCTTTCCT
1 ATGTTTATCTCATTTGAGGCATAAACTTTGATTTTAAGGAAAATAAGTGAAAGAAAAGCTTTCCC
* * *
20629 TGCAAAAGCAAATCATTAATAACATGTATCCTAATGAGGAGAACATGTTTATGGTGCCTAATCAT
66 AGCAAAAGCAAATCATCAATAACATGTATCCTAATAAGGAGAACATGTTTATGGTGCCTAATCAT
* * *
20694 GAAAAGAATAAAGATCATTACTAGAATCAATGTTTGTCTCATTTGAGGAACAAACTTAGACATCA
131 GAAAAGAATAAAGATCACTACTAGAATCAATATTTGTCTCATTTGAGGAACAAACTTAAACATCA
* * **
20759 CAAAAAATGGTGGGAAGAAAAGCCTTTTCTACGAATCCAAAGCATCAATATCGTGTATCCTAATG
196 CAAAAAATGGTGGGAAGAAAAGCCTTTTCTACAAAGCCAAAGCATCAATATAATGTATCCTAATG
* *** * * * *
20824 AAAAGGATGTAATTATGGTGCCAAATCTTGAAAGAAATAAGGATTATTATGAGAATCCTTGTTTG
261 AAAAGAATGTAATTACAATGCCAAATCTTAAAAGAAATAAGGATTATGATGAGAATCCATATTTG
**
20889 TCTCATTTAAGAGATGAACTCTAATTCTATG-AAAATGATGGTGAGAAAAGCTTTTCTTGCGCAG
326 TCTCATTTAAGAGATGAACTCTAATTCTATGAAAAATGATGGT-AGAAAAGCTTTTCTTGCAAAG
*
20953 CCTAACCATCA
390 CCAAACCATCA
* ***
20964 ATGTTTATCTCATTTGTGGCATAAACTTTTGATTTTAAGGAAAATAAG-GAAAGATTTGCTTTCC
1 ATGTTTATCTCATTTGAGGCATAAAC-TTTGATTTTAAGGAAAATAAGTGAAAGAAAAGCTTTCC
** * * * **
21028 CAGGGAAAGCAAATCATCAATATCGTGTATGCTAATAAGGAGAATGTGTTTATGGTGCCTAATCA
65 CAGCAAAAGCAAATCATCAATAACATGTATCCTAATAAGGAGAACATGTTTATGGTGCCTAATCA
* * * ** *
21093 TGAAAA-AATAGAGATCGCTACTAGAATCCATATTTGTC-CTATTTGAGGTGCGAACTTAAAC-T
130 TGAAAAGAATAAAGATCACTACTAGAATCAATATTTGTCTC-ATTTGAGGAACAAACTTAAACAT
* * * *
21155 CTATAGAAAATGGT-GGAAGAAAAGCC-TTTCTTGCAAAGCCAAAGCATCAATTTAATGTATCCT
194 C-ACAAAAAATGGTGGGAAGAAAAGCCTTTTC-TACAAAGCCAAAGCATCAATATAATGTATCCT
* * ** * **
21218 AATGACAAGAATGT-GTTGACAATGCTTATTCTTAAAA-AGAATGGGGATTATGATGAGAATCCA
257 AATGAAAAGAATGTAATT-ACAATGCCAAATCTTAAAAGA-AATAAGGATTATGATGAGAATCCA
* * * *
21281 TATTTGTCTCATTTAAGAGATGAACTTTGATTTTATGAAAAATGGTGGTAGAAAAGCTTTTCTTG
320 TATTTGTCTCATTTAAGAGATGAACTCTAATTCTATGAAAAATGATGGTAGAAAAGCTTTTCTTG
21346 CAAAGCCAAACCATCA
385 CAAAGCCAAACCATCA
21362 A
1 A
21363 AGTCATGTCT
Statistics
Matches: 334, Mismatches: 58, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
397 7 0.02
398 148 0.44
399 64 0.19
400 95 0.28
401 20 0.06
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.31
Consensus pattern (400 bp):
ATGTTTATCTCATTTGAGGCATAAACTTTGATTTTAAGGAAAATAAGTGAAAGAAAAGCTTTCCC
AGCAAAAGCAAATCATCAATAACATGTATCCTAATAAGGAGAACATGTTTATGGTGCCTAATCAT
GAAAAGAATAAAGATCACTACTAGAATCAATATTTGTCTCATTTGAGGAACAAACTTAAACATCA
CAAAAAATGGTGGGAAGAAAAGCCTTTTCTACAAAGCCAAAGCATCAATATAATGTATCCTAATG
AAAAGAATGTAATTACAATGCCAAATCTTAAAAGAAATAAGGATTATGATGAGAATCCATATTTG
TCTCATTTAAGAGATGAACTCTAATTCTATGAAAAATGATGGTAGAAAAGCTTTTCTTGCAAAGC
CAAACCATCA
Found at i:21509 original size:151 final size:151
Alignment explanation
Indices: 21272--21652 Score: 417
Period size: 151 Copynumber: 2.5 Consensus size: 151
21262 GGATTATGAT
* * * * * ***
21272 GAGAATCCATATTTGTCTCATTTAAGAGATGAACTTTGATTTTATGAAAAATGGTGGTAGAAAAG
1 GAGAATCTATGTTTGTCTCATTTAAGAGATAAACTTTGATTTTAAGGAAAATGGTCAAAGAAAAG
* * * ** * * *
21337 CTTTTCTTGCAAAGCCAAACCATCAAAGTCATGTCTCTCAAAGGGGCTTTTTGGTTCCCAATCTC
66 CTTTTCTTGCAAAGCCAAACCATCAAAGTCATGTATCCCAAAGAGAATTTTTAGTGCCCAATCAC
*
21402 AAAAAGAAT-GA-AACTATTAC
131 AAAAAGAATGGAGAACAATT-C
*
21422 GAGAATCTATGTTTGTCTCATTTAAGAGATAAACTTTTATTTTAAGGAAAATAGGTCAAAGAAAA
1 GAGAATCTATGTTTGTCTCATTTAAGAGATAAACTTTGATTTTAAGGAAAAT-GGTCAAAGAAAA
* ** *
21487 GCTTTTCTTACAAAGCCAAACCATCAATTTCATGTATCCCAATGAGAATTTTTAGTGCCCAATCA
65 GCTTTTCTTGCAAAGCCAAACCATCAAAGTCATGTATCCCAAAGAGAATTTTTAGTGCCCAATCA
* * *
21552 CGAAAGGAATGGAGACCAATTC
130 CAAAAAGAATGGAGAACAATTC
* * * * *
21574 TAGAATCCT-TGTTTATCTCATTTGAGAAATAAACTTTGATTTTAAGGAAAATGGGACAAAGAAA
1 GAGAAT-CTATGTTTGTCTCATTTAAGAGATAAACTTTGATTTTAAGGAAAAT-GGTCAAAGAAA
* *
21638 AACTTTCCTTGCAAA
64 AGCTTTTCTTGCAAA
21653 AGCAAATCAT
Statistics
Matches: 192, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
150 46 0.24
151 70 0.36
152 69 0.36
153 7 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (151 bp):
GAGAATCTATGTTTGTCTCATTTAAGAGATAAACTTTGATTTTAAGGAAAATGGTCAAAGAAAAG
CTTTTCTTGCAAAGCCAAACCATCAAAGTCATGTATCCCAAAGAGAATTTTTAGTGCCCAATCAC
AAAAAGAATGGAGAACAATTC
Found at i:22943 original size:24 final size:23
Alignment explanation
Indices: 22916--22994 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
22906 ATCCAACCAT
*
22916 TTTTTTTGTGA-TTCTTTCTTTTAA
1 TTTTTTTGTAACTT-TTT-TTTTAA
*
22940 TTTTTTTGCCAACTTTTTTTTTAA
1 TTTTTTTG-TAACTTTTTTTTTAA
* * *
22964 TTTTTTTGTCAACTTCTTCTTTGA
1 TTTTTTTGT-AACTTTTTTTTTAA
22988 TTTTTTT
1 TTTTTTT
22995 TTGGAATGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
24 40 0.87
25 4 0.09
26 2 0.04
ACGTcount: A:0.13, C:0.11, G:0.06, T:0.70
Consensus pattern (23 bp):
TTTTTTTGTAACTTTTTTTTTAA
Found at i:22968 original size:25 final size:24
Alignment explanation
Indices: 22934--22994 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
22924 TGATTCTTTC
*
22934 TTTTAATTTTTTTGCCAACTTTTT
1 TTTTAATTTTTTTGCCAACTTCTT
*
22958 TTTTAATTTTTTTGTCAACTTCTT
1 TTTTAATTTTTTTGCCAACTTCTT
* *
22982 CTTTGATTTTTTT
1 TTTTAATTTTTTT
22995 TTGGAATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.15, C:0.11, G:0.05, T:0.69
Consensus pattern (24 bp):
TTTTAATTTTTTTGCCAACTTCTT
Found at i:32405 original size:79 final size:78
Alignment explanation
Indices: 32272--32523 Score: 319
Period size: 79 Copynumber: 3.2 Consensus size: 78
32262 ACAATGGGGC
* * *
32272 TGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTT
1 TGGAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAA-ACGGGGTTGGAGTATCCCCTC
*
32337 GAAAATAACAGGGT
65 GGAAATAACAGGGT
* * * *
32351 TGGAGTATCCCCGGTTGTGAAAAATCGATGA-TTAGGAAATAAAATCGGGATTGGAGTATCCCCT
1 TGGAGTATCCCCGATTGTGAAAAATCAAT-ATTTTGGAAATAAAA-CGGGGTTGGAGTATCCCCT
*
32415 CGGAAATAACGGGGT
64 CGGAAATAACAGGGT
* * *
32430 TGGAGTATCCCCAATTATGAGAAAA-CAATATTTTGGGAATAAAGACGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTGTGA-AAAATCAATATTTTGGAAATAAA-ACGGGGTTGGAGTATCCCCT
**
32494 CGGAGGTAACAGGGT
64 CGGAAATAACAGGGT
32509 TGGAGTATCCCCGAT
1 TGGAGTATCCCCGAT
32524 GAAATAACGA
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 141 0.95
80 6 0.04
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (78 bp):
TGGAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAACGGGGTTGGAGTATCCCCTCG
GAAATAACAGGGT
Found at i:32531 original size:28 final size:27
Alignment explanation
Indices: 32477--32551 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 27
32467 AATAAAGACG
*** **
32477 GGGTTGGAGTATCCCCTCGGAGGTAAC
1 GGGTTGGAGTATCCCCGATGAAATAAC
32504 AGGGTTGGAGTATCCCCGATGAAATAAC
1 -GGGTTGGAGTATCCCCGATGAAATAAC
*
32532 GAGGTTGGAGTATCCTCGAT
1 G-GGTTGGAGTATCCCCGAT
32552 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGATGAAATAAC
Found at i:32604 original size:52 final size:52
Alignment explanation
Indices: 32535--32657 Score: 151
Period size: 52 Copynumber: 2.4 Consensus size: 52
32525 AAATAACGAG
* ** *
32535 GTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTAGAA-ATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTG-TTTT-GAATATAAAACCGGA
* * *
32587 GTTGCAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAATATAAAACCGGG
1 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAATATAAAACCGGA
32639 GTTGGAGTATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
32658 TGAGCAATTG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 3 0.05
52 47 0.77
53 11 0.18
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAATATAAAACCGGA
Found at i:34677 original size:13 final size:13
Alignment explanation
Indices: 34659--34684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34649 ACAAAGATCG
34659 ATGTATCGATACA
1 ATGTATCGATACA
34672 ATGTATCGATACA
1 ATGTATCGATACA
34685 CTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:34695 original size:21 final size:21
Alignment explanation
Indices: 34671--34712 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
34661 GTATCGATAC
34671 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
34692 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
34713 GGTAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:35656 original size:55 final size:55
Alignment explanation
Indices: 35575--35812 Score: 329
Period size: 55 Copynumber: 4.3 Consensus size: 55
35565 ATAAAGTGCA
* ** *
35575 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
35630 TCTTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
35685 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
35740 TCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
35795 TCCTACTTTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
35813 AAAGGGCGAA
Statistics
Matches: 164, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
53 1 0.01
54 4 0.02
55 152 0.93
56 7 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:35901 original size:94 final size:95
Alignment explanation
Indices: 35737--35912 Score: 309
Period size: 94 Copynumber: 1.9 Consensus size: 95
35727 GCTTTGAAAG
35737 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACT
*
35802 TTTTGAGGACT-AAAGGGCGAAATGAGGGA
66 CTTTGAGGACTGAAAGGGCGAAATGAGGGA
* * *
35831 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACT
35896 CTTTGAGGACTGAAAGG
66 CTTTGAGGACTGAAAGG
35913 TGCCACCAAC
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 72 0.94
95 5 0.06
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (95 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACT
CTTTGAGGACTGAAAGGGCGAAATGAGGGA
Found at i:35987 original size:61 final size:61
Alignment explanation
Indices: 35892--36271 Score: 499
Period size: 61 Copynumber: 6.3 Consensus size: 61
35882 AAAGGCGTCT
**
35892 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
* *
35953 TGCTCTTTGAGGACTGAAAAATGTCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCA
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
* *
36014 TGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTT-----G-AAAAGCATCC
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
* * *
36069 TGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCA
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
* * * * * *
36130 TGCTCTTTGAGGACTGGAAAATGACACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
* * *
36191 TGCTCTTTGAGGATTG-AAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGC-GCC
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA-GCATCC
*
36250 TTACTCTTTGAGGACTAGAAAA
1 -TGCTCTTTGAGGACT-GAAAA
36272 GTGGAAGGAG
Statistics
Matches: 282, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
55 51 0.18
56 1 0.00
59 9 0.03
60 41 0.15
61 177 0.63
62 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (61 bp):
TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
Found at i:36061 original size:28 final size:28
Alignment explanation
Indices: 36030--36117 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
36020 TTGAGGACTG
36030 GAAAATGCCACCCACTTGTGTGGGCTTT
1 GAAAATGCCACCCACTTGTGTGGGCTTT
* ** * *
36058 GAAAA-G-CATCCTGCTCTT-TAAGGAC-TG
1 GAAAATGCCA-CC--CACTTGTGTGGGCTTT
*
36085 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCCACTTGTGTGGGCTTT
36113 GAAAA
1 GAAAA
36118 GAAAAAGCAT
Statistics
Matches: 42, Mismatches: 11, Indels: 14
0.63 0.16 0.21
Matches are distributed among these distances:
26 5 0.12
27 13 0.31
28 18 0.43
29 6 0.14
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (28 bp):
GAAAATGCCACCCACTTGTGTGGGCTTT
Found at i:36063 original size:116 final size:116
Alignment explanation
Indices: 35834--36271 Score: 532
Period size: 116 Copynumber: 3.7 Consensus size: 116
35824 TGAGGGAGCG
* * * *
35834 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-----GCGTCTTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCATG
*
35894 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
66 CTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----GAAAAAGCA
* *
35950 TCCTGCTCTTTGAGGACTGAAAAATGTCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCAT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGCATCAT
*
36015 GCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTTG-AAAAGCA
65 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAGCA
*
36066 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCAT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGCATCAT
* *
36131 GCTCTTTGAGGACTGGAAAATGACACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
65 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AA--A-AA-GCA
* * ** *
36188 TCCTGCTCTTTGAGGA-TTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGCCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA-GCATCAT
* *
36252 ACTCTTTGAGGACTAGAAAA
65 GCTCTTTGAGGACTGGAAAA
36272 GTGGAAGGAG
Statistics
Matches: 286, Mismatches: 22, Indels: 23
0.86 0.07 0.07
Matches are distributed among these distances:
116 154 0.54
117 6 0.02
118 1 0.00
120 11 0.04
121 52 0.18
122 58 0.20
123 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCATG
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAGCA
Found at i:36136 original size:177 final size:176
Alignment explanation
Indices: 35837--36238 Score: 619
Period size: 177 Copynumber: 2.3 Consensus size: 176
35827 GGGAGCGTCC
* * * *
35837 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGA
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GCATCCTGCTCTTTAA
* *
35902 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGAC
65 GGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTGAGGAC
*
35967 TGAAAAATGTCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCA
130 TGAAAAATGACACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCA
* *
36014 TGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTAA
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGCATCCTGCTCTTTAA
36079 GGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTGAGGA
65 GGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTGAGGA
* * * * * *
36143 CTGGAAAATGACACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCC
129 CTGAAAAATGACACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCA
*
36191 TGCTCTTTGAGGA-TTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
36239 AAAAAGGCGC
Statistics
Matches: 205, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
175 5 0.02
176 27 0.13
177 165 0.80
178 8 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (176 bp):
TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGCATCCTGCTCTTTAAG
GACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTGAGGACT
GAAAAATGACACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCA
Found at i:37281 original size:25 final size:25
Alignment explanation
Indices: 37239--37287 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
37229 CTTTTCTCTC
37239 TTTTTTTCTTTGTGTTGTTTTTTTG
1 TTTTTTTCTTTGTGTTGTTTTTTTG
*
37264 TTTTTTT-TTTGCTTTTGTTTTTTT
1 TTTTTTTCTTTG-TGTTGTTTTTTT
37288 TTTAGAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (25 bp):
TTTTTTTCTTTGTGTTGTTTTTTTG
Found at i:56489 original size:79 final size:78
Alignment explanation
Indices: 56298--56554 Score: 302
Period size: 79 Copynumber: 3.3 Consensus size: 78
56288 TCTAGATAAC
* * *
56298 AACGGGGCTGGAATATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTGGAAATAAAGCC-GGGTTGGAGT
*
56363 ATCCCCT-TGAAAAT
65 ATCCCCTCCG-AAAT
* * * * * **
56377 AACGGGGTTTGAGTATCCCCAGTTGTGAAAAATCGATGA-TTAGGAAATAAAATCGGGATTGGAG
1 AACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAAT-ATTTTGGAAATAAAGCCGGG-TTGGAG
56441 TATCCCCTCCGAAAT
64 TATCCCCTCCGAAAT
* * *
56456 AACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCAAGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTGGAAATAAAGCC-GGGTTGGAGT
* **
56521 ATCCCCTCGGAGGT
65 ATCCCCTCCGAAAT
56535 AACGGGGTTGGAGTATCCCC
1 AACGGGGTTGGAGTATCCCC
56555 GATGAAATAA
Statistics
Matches: 149, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
78 4 0.03
79 141 0.95
80 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGTTGGAGTA
TCCCCTCCGAAAT
Found at i:56658 original size:52 final size:53
Alignment explanation
Indices: 56569--56691 Score: 151
Period size: 52 Copynumber: 2.4 Consensus size: 53
56559 AAATAACGAG
* ** * * *
56569 GTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTTGAAAATAAAACCAGA
* * *
56621 GTTGGAGTATCCCCTATTAAAGGAAAATTGGTG-TTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTTGAAAATAAAACCAGA
56673 GTTGGAGTATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
56692 TGAACAATTG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 49 0.82
53 11 0.18
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTTGAAAATAAAACCAGA
Found at i:59081 original size:13 final size:13
Alignment explanation
Indices: 59063--59088 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59053 ACAAAGATCG
59063 ATGTATCGATACA
1 ATGTATCGATACA
59076 ATGTATCGATACA
1 ATGTATCGATACA
59089 CTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:59099 original size:21 final size:21
Alignment explanation
Indices: 59075--59116 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59065 GTATCGATAC
59075 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
* *
59096 AATGTGTCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
59117 GGCAGTAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:60639 original size:34 final size:35
Alignment explanation
Indices: 60596--60667 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 35
60586 TCTAGATAAG
60596 CCCGAAATGATTTTTCAAAA-TTGGTTTATTTTTT
1 CCCGAAATGATTTTTCAAAATTTGGTTTATTTTTT
60630 CCCGAAATGATTTTTCAAAATTTGGTTTATTTTTT
1 CCCGAAATGATTTTTCAAAATTTGGTTTATTTTTT
60665 CCC
1 CCC
60668 TACATATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 20 0.54
35 17 0.46
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (35 bp):
CCCGAAATGATTTTTCAAAATTTGGTTTATTTTTT
Found at i:61236 original size:84 final size:83
Alignment explanation
Indices: 61024--61245 Score: 189
Period size: 84 Copynumber: 2.6 Consensus size: 83
61014 TACTTGGGGA
* * ** * * *
61024 AAACTCCAA-CCCACTACTCTGAAGGGGTACTTTAACCCCAATCTTCAAAAAAAAATTAAAACAT
1 AAACT-CAACCCCACTACTCTAAAGGGATACTCCAACCCTATTCTTC--ATAAAAATTAAAACAT
61088 CAAAAATTTTTAACTATAAGG
63 CAAAAATTTTTAACTATAAGG
* * * * * *
61109 CAAGTCAACCCCACTACTCTAAGGGGATATTCCAACCCTATTCTTTATAAAATTTAAAACATC-A
1 AAACTCAACCCCACTACTCTAAAGGGATACTCCAACCCTATTCTTCATAAAAATTAAAACATCAA
* * *
61173 AAATTTGTTTACTTTAGGG
66 AAATTT-TTAACTATAAGG
* * * *
61192 AAACTCTAACCTCACTACTCTAAATGGATGCTCTAA-CCTCATTCTTCATAAAAA
1 AAACTC-AACCCCACTACTCTAAAGGGATACTCCAACCCT-ATTCTTCATAAAAA
61246 ACTTAACTTT
Statistics
Matches: 107, Mismatches: 26, Indels: 9
0.75 0.18 0.06
Matches are distributed among these distances:
82 7 0.07
83 31 0.29
84 38 0.36
85 31 0.29
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (83 bp):
AAACTCAACCCCACTACTCTAAAGGGATACTCCAACCCTATTCTTCATAAAAATTAAAACATCAA
AAATTTTTAACTATAAGG
Done.